Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008208.1 Hibiscus syriacus cultivar Beakdansim tig00110830_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2533913
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:362132 original size:9 final size:9
Alignment explanation
Indices: 362080--362130 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
362070 AATTATATCC
362080 CTTTCATTT
1 CTTTCATTT
362089 CTTATCATTT
1 CTT-TCATTT
362099 CATTTC-TTT
1 C-TTTCATTT
362108 CTTTCATTT
1 CTTTCATTT
362117 CTTTC-TTT
1 CTTTCATTT
362125 CATTTC
1 C-TTTC
362131 TTATTTCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.21
9 19 0.50
10 9 0.24
11 2 0.05
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (9 bp):
CTTTCATTT
Found at i:362141 original size:26 final size:28
Alignment explanation
Indices: 362084--362142 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
362074 ATATCCCTTT
*
362084 CATTTCTTATCATTTCATTTCTTTCTTT
1 CATTTCTTATCATTTCATTTCTTTCTTC
362112 CATTTCTT-TC-TTTCATTTCTTAT-TTC
1 CATTTCTTATCATTTCATTTCTT-TCTTC
362138 CATTT
1 CATTT
362143 AATCATTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 18 0.62
27 3 0.10
28 8 0.28
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (28 bp):
CATTTCTTATCATTTCATTTCTTTCTTC
Found at i:362142 original size:13 final size:13
Alignment explanation
Indices: 362080--362132 Score: 88
Period size: 13 Copynumber: 3.9 Consensus size: 13
362070 AATTATATCC
362080 CTTTCATTTCTTAT
1 CTTTCATTTCTT-T
362094 CATTTCATTTCTTT
1 C-TTTCATTTCTTT
362108 CTTTCATTTCTTT
1 CTTTCATTTCTTT
362121 CTTTCATTTCTT
1 CTTTCATTTCTT
362133 ATTTCCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
13 24 0.63
14 3 0.08
15 11 0.29
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (13 bp):
CTTTCATTTCTTT
Found at i:362151 original size:26 final size:27
Alignment explanation
Indices: 362092--362151 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
362082 TTCATTTCTT
* *
362092 ATCATTTCATTTCTTTCTTTCATTTCT
1 ATCATTTCATTTCTTTCTTCCATTTCA
*
362119 TTC-TTTCATTTCTTAT-TTCCATTT-A
1 ATCATTTCATTTCTT-TCTTCCATTTCA
362144 ATCATTTC
1 ATCATTTC
362152 TTTATATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.07
26 22 0.81
27 3 0.11
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.62
Consensus pattern (27 bp):
ATCATTTCATTTCTTTCTTCCATTTCA
Found at i:363875 original size:23 final size:23
Alignment explanation
Indices: 363845--363900 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
363835 AATGACATTA
*
363845 GGGAAAAATCACTTTTCGATTTG
1 GGGAAAAATCACTTTTCGAATTG
363868 GGGAAAAATCACTTTTCGAATTG
1 GGGAAAAATCACTTTTCGAATTG
* *
363891 AGGACAAATC
1 GGGAAAAATC
363901 GCTCAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (23 bp):
GGGAAAAATCACTTTTCGAATTG
Found at i:367654 original size:2 final size:2
Alignment explanation
Indices: 367647--367671 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
367637 TGCGTGTATC
367647 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
367672 CCTTCCTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:372434 original size:35 final size:35
Alignment explanation
Indices: 372387--372462 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
372377 ATGCATCATT
372387 TCTATTAGGTAAGCATAATGTGAATGAATTATTAA
1 TCTATTAGGTAAGCATAATGTGAATGAATTATTAA
*
372422 TCTATTATGTAAGCATAATGTGAATGAATTATTAA
1 TCTATTAGGTAAGCATAATGTGAATGAATTATTAA
*
372457 ACTATT
1 TCTATT
372463 CTAATGTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (35 bp):
TCTATTAGGTAAGCATAATGTGAATGAATTATTAA
Found at i:381102 original size:20 final size:20
Alignment explanation
Indices: 381077--381124 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
381067 TGAATCATCT
381077 TGTCCTTTTGGAAACT-GGTG
1 TGTCCTTTTGGAAA-TAGGTG
381097 TGTCCTTTTGGAAATAGGTG
1 TGTCCTTTTGGAAATAGGTG
381117 TGTCCTTT
1 TGTCCTTT
381125 GTTCCAACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.44
Consensus pattern (20 bp):
TGTCCTTTTGGAAATAGGTG
Found at i:382953 original size:25 final size:25
Alignment explanation
Indices: 382925--382985 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
382915 TTCTTTTCTT
*
382925 TTTTCTTCCTTTT-GAGTGCTTGC-AA
1 TTTTCTT-ATTTTGGAGTGCTT-CAAA
382950 TTTTCTTATTTTGGAGTGCTTCAAA
1 TTTTCTTATTTTGGAGTGCTTCAAA
*
382975 TTTTTTTATTT
1 TTTTCTTATTT
382986 CTTTCACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (25 bp):
TTTTCTTATTTTGGAGTGCTTCAAA
Found at i:387668 original size:13 final size:13
Alignment explanation
Indices: 387646--387684 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
387636 ATAGGCATGA
387646 ATGGTGATGGAAG
1 ATGGTGATGGAAG
*
387659 ATGTTGATGGAAAG
1 ATGGTGATGG-AAG
387673 ATGGTGATGGAA
1 ATGGTGATGGAA
387685 AATAATGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.41, T:0.26
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:387675 original size:14 final size:14
Alignment explanation
Indices: 387650--387698 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
387640 GCATGAATGG
*
387650 TGATGG-AAGATGT
1 TGATGGAAAGATGA
*
387663 TGATGGAAAGATGG
1 TGATGGAAAGATGA
*
387677 TGATGGAAA-ATAA
1 TGATGGAAAGATGA
387690 TGATGGAAA
1 TGATGGAAA
387699 AATAATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (14 bp):
TGATGGAAAGATGA
Found at i:387676 original size:27 final size:27
Alignment explanation
Indices: 387646--387698 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
387636 ATAGGCATGA
* **
387646 ATGGTGATGGAAGATGTTGATGGAAAG
1 ATGGTGATGGAAAATAATGATGGAAAG
387673 ATGGTGATGGAAAATAATGATGGAAA
1 ATGGTGATGGAAAATAATGATGGAAA
387699 AATAATATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.25
Consensus pattern (27 bp):
ATGGTGATGGAAAATAATGATGGAAAG
Found at i:387700 original size:14 final size:14
Alignment explanation
Indices: 387663--387704 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
387653 TGGAAGATGT
* **
387663 TGATGGAAAGATGG
1 TGATGGAAAAATAA
387677 TGATGG-AAAATAA
1 TGATGGAAAAATAA
387690 TGATGGAAAAATAA
1 TGATGGAAAAATAA
387704 T
1 T
387705 ATCTTGTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.24
Consensus pattern (14 bp):
TGATGGAAAAATAA
Found at i:388073 original size:19 final size:19
Alignment explanation
Indices: 388051--388089 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
388041 ATACACATTT
*
388051 TTTATATGAAAATACATGA
1 TTTAAATGAAAATACATGA
* *
388070 TTTAAATGAAGATTCATGA
1 TTTAAATGAAAATACATGA
388089 T
1 T
388090 CTTGGCCGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTAAATGAAAATACATGA
Found at i:388287 original size:22 final size:22
Alignment explanation
Indices: 388256--388310 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
388246 TGCTTGAATG
388256 ATGCACATGGGAACCTACTTGA
1 ATGCACATGGGAACCTACTTGA
* * *
388278 ATGCAAATGGCAGCCTACTTGA
1 ATGCACATGGGAACCTACTTGA
388300 ATGCACATGGG
1 ATGCACATGGG
388311 TCTTCTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
ATGCACATGGGAACCTACTTGA
Found at i:391192 original size:17 final size:17
Alignment explanation
Indices: 391170--391202 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
391160 AAGCTTGAAA
391170 AGAAATGGTTAGGGTAT
1 AGAAATGGTTAGGGTAT
*
391187 AGAAATGGTTATGGTA
1 AGAAATGGTTAGGGTA
391203 AAGGTATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
AGAAATGGTTAGGGTAT
Found at i:391274 original size:16 final size:16
Alignment explanation
Indices: 391242--391289 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
391232 TAAGGTAGTA
391242 AATAAGAAAATATGAAAG
1 AATAAG-AAA-ATGAAAG
* *
391260 AATAAGGAAATGAAAT
1 AATAAGAAAATGAAAG
*
391276 AGTAAGAAAATGAA
1 AATAAGAAAATGAA
391290 TATAACTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 18 0.69
17 2 0.08
18 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.17
Consensus pattern (16 bp):
AATAAGAAAATGAAAG
Found at i:391922 original size:13 final size:14
Alignment explanation
Indices: 391904--391943 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
391894 ATAGGCGTGA
391904 ATGGTGAT-GAAAG
1 ATGGTGATAGAAAG
*
391917 ATGGTGATGGAAAG
1 ATGGTGATAGAAAG
391931 ATGGTGATAGAAA
1 ATGGTGATAGAAA
391944 TATAGTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (14 bp):
ATGGTGATAGAAAG
Found at i:395364 original size:13 final size:13
Alignment explanation
Indices: 395346--395387 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
395336 GTGTTGTAAC
395346 AAGAAGAAAAAGA
1 AAGAAGAAAAAGA
*
395359 AAGAAGAAAAAAA
1 AAGAAGAAAAAGA
*
395372 TAAAAAG-AAAAGA
1 -AAGAAGAAAAAGA
395385 AAG
1 AAG
395388 GAACTCCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAGAAGAAAAAGA
Found at i:403116 original size:11 final size:12
Alignment explanation
Indices: 403099--403131 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
403089 AAGATGGCTT
403099 TATGGTGATGGA
1 TATGGTGATGGA
403111 -ATGGTGATGGA
1 TATGGTGATGGA
*
403122 TATGATGATG
1 TATGGTGATG
403132 TTGTAAGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.33
Consensus pattern (12 bp):
TATGGTGATGGA
Found at i:406834 original size:24 final size:24
Alignment explanation
Indices: 406789--406834 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
406779 TGCAACTTTT
*
406789 TATTCTCTTTTCTTTTTCTTTGAA
1 TATTCTCTTTTCTTTCTCTTTGAA
406813 TATTCTTCTTTTCTTTCT-TTTG
1 TATTC-TCTTTTCTTTCTCTTTG
406835 CACTCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.09, C:0.17, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTCTCTTTTCTTTCTCTTTGAA
Found at i:410064 original size:15 final size:15
Alignment explanation
Indices: 410044--410072 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
410034 TCAAATGACT
410044 CGTGCTTGCAATGTA
1 CGTGCTTGCAATGTA
410059 CGTGCTTGCAATGT
1 CGTGCTTGCAATGT
410073 TTGTACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (15 bp):
CGTGCTTGCAATGTA
Found at i:410779 original size:20 final size:20
Alignment explanation
Indices: 410754--410797 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
410744 GAGTCTTTTC
*
410754 TTTTTCTT-TTTGTTTTTTGT
1 TTTTTCTTCTTT-CTTTTTGT
410774 TTTTTCTTCTTTCTTTTTGT
1 TTTTTCTTCTTTCTTTTTGT
410794 TTTT
1 TTTT
410798 GCTGGAGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTCTTCTTTCTTTTTGT
Found at i:411003 original size:19 final size:20
Alignment explanation
Indices: 410964--411014 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
410954 CAATTTAAAG
*
410964 AAAGAAATG-ATTAAATGGA
1 AAAGAAATGAATGAAATGGA
410983 AAAGAAATGAATGAAAT-GA
1 AAAGAAATGAATGAAATGGA
411002 AAATGAAAATGAA
1 AAA-G-AAATGAA
411015 GGATTAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.50
20 7 0.25
21 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.18
Consensus pattern (20 bp):
AAAGAAATGAATGAAATGGA
Found at i:418338 original size:16 final size:15
Alignment explanation
Indices: 418308--418343 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
418298 TGACCTTGTC
418308 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
418323 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
418339 TATAT
1 TATAT
418344 CTTAAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:418359 original size:14 final size:14
Alignment explanation
Indices: 418342--418370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
418332 ATCTAGATAT
418342 ATCTTAAATACAAA
1 ATCTTAAATACAAA
418356 ATCTTAAATACAAA
1 ATCTTAAATACAAA
418370 A
1 A
418371 ATAAAAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
ATCTTAAATACAAA
Found at i:420206 original size:19 final size:21
Alignment explanation
Indices: 420172--420210 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
420162 ATACCTTGAA
420172 TTCTTTCTTCTACCTTTCCAT
1 TTCTTTCTTCTACCTTTCCAT
420193 TTCTTT-TTCT-CCTTTCCA
1 TTCTTTCTTCTACCTTTCCA
420211 CCCTAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (21 bp):
TTCTTTCTTCTACCTTTCCAT
Found at i:423023 original size:82 final size:82
Alignment explanation
Indices: 422886--423061 Score: 307
Period size: 82 Copynumber: 2.1 Consensus size: 82
422876 GCTCAAATAG
* *
422886 ATGGTTTGGTGGTAGTTGTAAAGGTGAAATGGTAGGCTACTTAGGATATGAGAAATGGTAATGGA
1 ATGGTTTGGTGGTAGTTGTAAAGGTGAAATGGTAGGCTACTTAGGATATGAGAAATGGAAACGGA
422951 AGTATGTTGTTATGGAT
66 AGTATGTTGTTATGGAT
*
422968 ATGGTTTGGTGGTAGTTGTAAAGGTGAAATGGTAGGCTACTTATGATATGAGAAATGGAAACGGA
1 ATGGTTTGGTGGTAGTTGTAAAGGTGAAATGGTAGGCTACTTAGGATATGAGAAATGGAAACGGA
*
423033 AGTATGTTGTTATGGCT
66 AGTATGTTGTTATGGAT
423050 ATGGTTTAGGTG
1 ATGGTTT-GGTG
423062 ATGAAAAAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 85 0.96
83 4 0.04
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.34
Consensus pattern (82 bp):
ATGGTTTGGTGGTAGTTGTAAAGGTGAAATGGTAGGCTACTTAGGATATGAGAAATGGAAACGGA
AGTATGTTGTTATGGAT
Found at i:424676 original size:17 final size:17
Alignment explanation
Indices: 424654--424706 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
424644 TAAATAAGTG
*
424654 AGTTTATTGATTAAACT
1 AGTTTATTAATTAAACT
*
424671 AGTTTATTAATTTAACT
1 AGTTTATTAATTAAACT
* * *
424688 AGCTCATTAATCAAACT
1 AGTTTATTAATTAAACT
424705 AG
1 AG
424707 CTCTTAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (17 bp):
AGTTTATTAATTAAACT
Found at i:426137 original size:16 final size:16
Alignment explanation
Indices: 426110--426160 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
426100 CCAGGTTAGT
426110 GAAAAAAA--GAAAAA
1 GAAAAAAATCGAAAAA
*
426124 GAAAAAATTCGAAATAA
1 GAAAAAAATCGAAA-AA
426141 -AAAAAAATC-AAAAA
1 GAAAAAAATCGAAAAA
426155 GAAAAA
1 GAAAAA
426161 TGATAAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 9 0.29
15 8 0.26
16 12 0.39
17 2 0.06
ACGTcount: A:0.78, C:0.04, G:0.10, T:0.08
Consensus pattern (16 bp):
GAAAAAAATCGAAAAA
Found at i:428632 original size:59 final size:59
Alignment explanation
Indices: 428554--428826 Score: 420
Period size: 59 Copynumber: 4.6 Consensus size: 59
428544 ATAAAATCAA
* * *
428554 TATGATTTTCTTACAATTTTAGCACACAAAGTTCCCTATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* *
428613 TATGATTTCCGTACCATTTTAGCACACAAAGTGCCCTATCTGTAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* * * * * *
428672 TATGATTTCATTTCCATTTTAGCACACAAAGTGTCCTATCTGAAAATTCATATAGTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
*
428731 TATGAATTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* *
428790 TATGATTTTCTTACCATTTTAGCTCACAAAGTGCCCT
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCT
428827 TTGGTAATTT
Statistics
Matches: 192, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 192 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (59 bp):
TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
Found at i:429213 original size:53 final size:52
Alignment explanation
Indices: 429115--429266 Score: 189
Period size: 53 Copynumber: 2.9 Consensus size: 52
429105 CCTCAAGAGA
* ** * * *
429115 TATCGATACACTACTGGGTACCGGTACCTAAATTAAGTTCGATGTTTACAGG
1 TATCGATACACTACTGTGTATTGGAACCCAAATTAAATTCGATGTTTACAGG
*
429167 TATCGATACACTACTGTTGTATTGGAACCCAAATTAAATTCGATGTTTATAGG
1 TATCGATACACTACTG-TGTATTGGAACCCAAATTAAATTCGATGTTTACAGG
* *
429220 TATCGATACACTAATGGTGTATT-GATACCCAAATTAAATTAGATGTT
1 TATCGATACACTACT-GTGTATTGGA-ACCCAAATTAAATTCGATGTT
429267 CATCAAAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 18 0.20
53 69 0.78
54 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
TATCGATACACTACTGTGTATTGGAACCCAAATTAAATTCGATGTTTACAGG
Found at i:435022 original size:18 final size:20
Alignment explanation
Indices: 434999--435036 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
434989 CAAACATTAC
434999 TGGACTCT-ATA-AATCAAT
1 TGGACTCTCATACAATCAAT
*
435017 TGGACTTTCATACAATCAAT
1 TGGACTCTCATACAATCAAT
435037 ATGATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TGGACTCTCATACAATCAAT
Found at i:435115 original size:59 final size:59
Alignment explanation
Indices: 435036--435364 Score: 489
Period size: 59 Copynumber: 5.6 Consensus size: 59
435026 ATACAATCAA
* * * * *
435036 TATGATTTTCTTACCATTTTATCACACAAACTGCCCTATCTAGAAATTCATAAACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
*
435095 TATGATTTTCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
*
435154 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCGGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* * * * *
435213 AATGATTTCTTTTCCATTTTAGCACATAAAGTGCCCAATCTGGAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* * * *
435272 TATGATTTCCTTACTATTTTAGCACACATAGTGCCCTATATGAAAATTCATACACTTAG
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
* *
435331 TATTATTTCCTTACCCTTTTAGCACAC-AAGTGCC
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCC
435365 ATTTGGTAAT
Statistics
Matches: 245, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
58 6 0.02
59 239 0.98
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (59 bp):
TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAG
Found at i:435640 original size:19 final size:19
Alignment explanation
Indices: 435606--435678 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
435596 CATAACATCT
435606 ATACACTACT--GGTATCG
1 ATACACTACTAGGGTATCG
*
435623 ATACACTACTAAGGTATCG
1 ATACACTACTAGGGTATCG
*
435642 ATACACTACTAGGGTATTG
1 ATACACTACTAGGGTATCG
435661 ATACACTACTAGGGTATC
1 ATACACTACTAGGGTATC
435679 AGTACCCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
17 10 0.20
19 41 0.80
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (19 bp):
ATACACTACTAGGGTATCG
Found at i:435731 original size:53 final size:53
Alignment explanation
Indices: 435661--435808 Score: 183
Period size: 53 Copynumber: 2.8 Consensus size: 53
435651 TAGGGTATTG
* * *
435661 ATACACTACTAGG-GTATCAGTACCCAAATTAAGTTCGATGTTTACATGTATCA
1 ATACACTA-TTGGTGTATCAGTACCCAAATTAAATTCGATGTTTACAGGTATCA
* * *
435714 ATACACTATTGGTGTATCTA-TTCCTAAATTAAATTCGATGTTTACAGGTATCG
1 ATACACTATTGGTGTATC-AGTACCCAAATTAAATTCGATGTTTACAGGTATCA
* * *
435767 ATAGACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTT
1 ATACACTATTGGTGTATCAGTACCCAAATTAAATTCGATGTT
435809 CATGAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.04
53 77 0.95
54 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (53 bp):
ATACACTATTGGTGTATCAGTACCCAAATTAAATTCGATGTTTACAGGTATCA
Found at i:436732 original size:17 final size:17
Alignment explanation
Indices: 436697--436774 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
436687 ATGCATTTAT
* *
436697 TTCATTTAAATAAATTAG
1 TTCA-TTAATTAAACTAG
*
436715 TTCATTGATTAAACTAG
1 TTCATTAATTAAACTAG
* * *
436732 TTTATTTATTTAACTAG
1 TTCATTAATTAAACTAG
* *
436749 CTCATTAATCAAACTAG
1 TTCATTAATTAAACTAG
*
436766 CTC-TTAATT
1 TTCATTAATT
436775 GTTTCATACA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
16 5 0.10
17 39 0.81
18 4 0.08
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:438248 original size:40 final size:38
Alignment explanation
Indices: 438193--438275 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 38
438183 ACTGACAAAG
* *
438193 AAAGAAGATTAAAGACAATA-AAAATAAGGGTAATAAAATT
1 AAAGAAGAATAAAGACAAGAGAAAA-AAGGGTAAT--AATT
*
438233 AAAGAAGAATAAAGACAAGAGCAAAAAGGGTAATAATT
1 AAAGAAGAATAAAGACAAGAGAAAAAAGGGTAATAATT
438271 AAAGA
1 AAAGA
438276 CAAAGAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 9 0.23
40 27 0.69
41 3 0.08
ACGTcount: A:0.63, C:0.04, G:0.18, T:0.16
Consensus pattern (38 bp):
AAAGAAGAATAAAGACAAGAGAAAAAAGGGTAATAATT
Found at i:440120 original size:17 final size:17
Alignment explanation
Indices: 440098--440152 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
440088 ATTTAAGAGT
*
440098 TAGTTTAAGAAATGAAC
1 TAGTTTATGAAATGAAC
440115 TAGTTTTATG-AATGAAC
1 TAG-TTTATGAAATGAAC
* *
440132 TAAATTTATTAAATGAAC
1 T-AGTTTATGAAATGAAC
440150 TAG
1 TAG
440153 ATGCATGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (17 bp):
TAGTTTATGAAATGAAC
Found at i:447384 original size:8 final size:8
Alignment explanation
Indices: 447373--447401 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
447363 AAATTTTTTC
447373 TTTTTCAA
1 TTTTTCAA
447381 TTTTTCAA
1 TTTTTCAA
447389 TTTTTCAA
1 TTTTTCAA
447397 TTTTT
1 TTTTT
447402 GTGATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTTCAA
Found at i:447384 original size:15 final size:16
Alignment explanation
Indices: 447364--447401 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
447354 ATCAGCCCTA
447364 AATTTTTTC-TTTTTC
1 AATTTTTTCATTTTTC
447379 AA-TTTTTCAATTTTTC
1 AATTTTTTC-ATTTTTC
447395 AATTTTT
1 AATTTTT
447402 GTGATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
15 2 0.10
16 8 0.40
17 4 0.20
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTTTCATTTTTC
Found at i:449477 original size:20 final size:21
Alignment explanation
Indices: 449432--449480 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
449422 ATAACATTTA
* *
449432 TATCCATTTCATTTTTTCCAT
1 TATCCATTTCATTTCTTCAAT
*
449453 T-TCCATTTCCTTTCTT-AAT
1 TATCCATTTCATTTCTTCAAT
449472 TATCCATTT
1 TATCCATTT
449481 ACTTAATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 20 0.83
21 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.57
Consensus pattern (21 bp):
TATCCATTTCATTTCTTCAAT
Found at i:449841 original size:50 final size:50
Alignment explanation
Indices: 449784--449912 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 50
449774 TTTACTATCT
* *
449784 AACCCTACTACTCGCAATAAAAAGGCAAGCTCGATAATATAGCTCTAACC
1 AACCCTACTACTCACAATAAAAAGGCAAACTCGATAATATAGCTCTAACC
* *
449834 AACCCTACTACTCACAATAAAAAGGCAAACTTGATAATATGGCTCTAACC
1 AACCCTACTACTCACAATAAAAAGGCAAACTCGATAATATAGCTCTAACC
* * * * *
449884 AACCCTCCAAGTCACGATGAAAAGGCAAA
1 AACCCTACTACTCACAATAAAAAGGCAAA
449913 TTGATGTGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (50 bp):
AACCCTACTACTCACAATAAAAAGGCAAACTCGATAATATAGCTCTAACC
Found at i:450789 original size:50 final size:50
Alignment explanation
Indices: 450726--450824 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
450716 TGCTTAGCAC
*
450726 ATGAAGACTTTGGCACCAAGTTGAACCAA-TATAACACCATTCAGCCAAGG
1 ATGAAGACTTTGGCACCAAGATGAA-CAAGTATAACACCATTCAGCCAAGG
* * *
450776 ATGATGACTTTGGCACCAAGATGAACAAGTATATCACCATTCGGCCAAG
1 ATGAAGACTTTGGCACCAAGATGAACAAGTATAACACCATTCAGCCAAG
450825 TGAGATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 3 0.07
50 41 0.93
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (50 bp):
ATGAAGACTTTGGCACCAAGATGAACAAGTATAACACCATTCAGCCAAGG
Found at i:458570 original size:22 final size:21
Alignment explanation
Indices: 458544--458584 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
458534 GTTGCAGAAT
458544 TGATGGTATTGATAGATGAAGA
1 TGATGGTATTGAT-GATGAAGA
*
458566 TGATGGTGTTGATGATGAA
1 TGATGGTATTGATGATGAA
458585 ATGGAGGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (21 bp):
TGATGGTATTGATGATGAAGA
Found at i:463735 original size:25 final size:24
Alignment explanation
Indices: 463684--463742 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
463674 CTTGGCATAC
463684 TTTCTCTTTTTGAATTTCTTTTCT
1 TTTCTCTTTTTGAATTTCTTTTCT
* *
463708 TTTTTCTTTTATGAATTT-TTCTTTT
1 TTTCTCTTTT-TGAATTTCTT-TTCT
463733 TTTCTCTTTT
1 TTTCTCTTTT
463743 CTTTTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTCTCTTTTTGAATTTCTTTTCT
Found at i:467891 original size:18 final size:19
Alignment explanation
Indices: 467868--467909 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
467858 TATATAAAGC
467868 ATAAATTAGTAAATAAGT-
1 ATAAATTAGTAAATAAGTA
467886 ATAAATTAGTAAATAAGTA
1 ATAAATTAGTAAATAAGTA
467905 ATAAA
1 ATAAA
467910 ATATGGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (19 bp):
ATAAATTAGTAAATAAGTA
Found at i:472520 original size:16 final size:16
Alignment explanation
Indices: 472499--472530 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
472489 AGATGAAAAC
472499 AAAGAAAATAAAGTAA
1 AAAGAAAATAAAGTAA
*
472515 AAAGAAAATGAAGTAA
1 AAAGAAAATAAAGTAA
472531 TAACAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
AAAGAAAATAAAGTAA
Found at i:475698 original size:21 final size:21
Alignment explanation
Indices: 475673--475715 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
475663 CATGCATCAT
475673 AAGGATAACATCAAAGGAAGA
1 AAGGATAACATCAAAGGAAGA
*
475694 AAGGATAATATCAAAGGAAGA
1 AAGGATAACATCAAAGGAAGA
475715 A
1 A
475716 GTAATAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.07, G:0.23, T:0.12
Consensus pattern (21 bp):
AAGGATAACATCAAAGGAAGA
Found at i:475722 original size:21 final size:21
Alignment explanation
Indices: 475677--475723 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
475667 CATCATAAGG
*
475677 ATAACATCAAAGGAAGAAAGG
1 ATAACATCAAAGGAAGAAAGA
*
475698 ATAATATCAAAGGAAG-AAGTA
1 ATAACATCAAAGGAAGAAAG-A
475719 ATAAC
1 ATAAC
475724 TCTTCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.57, C:0.09, G:0.19, T:0.15
Consensus pattern (21 bp):
ATAACATCAAAGGAAGAAAGA
Found at i:485548 original size:30 final size:30
Alignment explanation
Indices: 485512--485594 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 30
485502 GTTCTTTGTG
485512 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* * *
485542 AGCTGTTTGTCT-TCCAAAATGCTCCACTA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* *
485571 AGTTGTTTGTGTCTTCCAAATGCT
1 AGCTGTTTGTGTCTCCCAAATGCT
485595 TTATCAAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.56
30 20 0.44
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (30 bp):
AGCTGTTTGTGTCTCCCAAATGCTCCACCA
Found at i:486002 original size:20 final size:20
Alignment explanation
Indices: 485966--486004 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
485956 TATAAATGTG
*
485966 ATGAATCATGCTTAGCTAAA
1 ATGAATCATGCTGAGCTAAA
485986 ATGAATGCATG-TGAGCTAA
1 ATGAAT-CATGCTGAGCTAA
486005 TGAATGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
ATGAATCATGCTGAGCTAAA
Found at i:493468 original size:20 final size:21
Alignment explanation
Indices: 493431--493484 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
493421 ATAACTTTTT
*
493431 TTTTCTTTTTTCATTTTT-GGA
1 TTTT-TTTTTTCATTTTTAGAA
493452 TTTTTTTTTT-ATTTTTTAGAA
1 TTTTTTTTTTCA-TTTTTAGAA
*
493473 TTCTTTTTTTCA
1 TTTTTTTTTTCA
493485 AAATGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 15 0.54
22 1 0.04
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTTTTTTTCATTTTTAGAA
Found at i:501606 original size:22 final size:23
Alignment explanation
Indices: 501578--501621 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
501568 AAATCTAGAA
501578 AAGAAA-TCAAAGCACCCAAAAG
1 AAGAAATTCAAAGCACCCAAAAG
* *
501600 AAGAAATTGAAAGCACTCAAAA
1 AAGAAATTCAAAGCACCCAAAA
501622 AGAATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (23 bp):
AAGAAATTCAAAGCACCCAAAAG
Found at i:501635 original size:24 final size:23
Alignment explanation
Indices: 501586--501635 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
501576 AAAAGAAATC
* **
501586 AAAGCACCCAAAAGAAGAAATTG
1 AAAGCACCAAAAAGAAGAAAAAG
*
501609 AAAGCACTCAAAAAGAATAAAAAG
1 AAAGCAC-CAAAAAGAAGAAAAAG
501633 AAA
1 AAA
501636 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAGCACCAAAAAGAAGAAAAAG
Found at i:503983 original size:16 final size:17
Alignment explanation
Indices: 503943--503983 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
503933 ATCTCACACG
*
503943 CTCAAG-TCTCTTTCCT
1 CTCAAGTTCTCTTTCAT
503959 CTCAA-TTCTCTTT-AT
1 CTCAAGTTCTCTTTCAT
503974 CTCAAGTTCT
1 CTCAAGTTCT
503984 AAATGACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.17, C:0.32, G:0.05, T:0.46
Consensus pattern (17 bp):
CTCAAGTTCTCTTTCAT
Found at i:504288 original size:22 final size:23
Alignment explanation
Indices: 504245--504288 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
504235 TTTTTCATCT
*
504245 TTTTGTGTGCTTTCAATTTCTTC
1 TTTTGGGTGCTTTCAATTTCTTC
*
504268 TTTTGGGTGCTTT-TATTTCTT
1 TTTTGGGTGCTTTCAATTTCTT
504289 TTCTGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.07, C:0.14, G:0.16, T:0.64
Consensus pattern (23 bp):
TTTTGGGTGCTTTCAATTTCTTC
Found at i:528582 original size:47 final size:47
Alignment explanation
Indices: 528521--528619 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
528511 ATAAGAAATA
*
528521 AAAG-AAATGAAAATTGATCAGGAATGAAATGGAAAGAAATGATATC
1 AAAGTAAATGAAAATTGATAAGGAATGAAATGGAAAGAAATGATATC
* * *
528567 GAAGTAAATGGAAATTGATAAGGAATGATATGGAAAGAAATGATATC
1 AAAGTAAATGAAAATTGATAAGGAATGAAATGGAAAGAAATGATATC
528614 AAAGTA
1 AAAGTA
528620 GGTTGCGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 3 0.06
47 44 0.94
ACGTcount: A:0.53, C:0.03, G:0.23, T:0.21
Consensus pattern (47 bp):
AAAGTAAATGAAAATTGATAAGGAATGAAATGGAAAGAAATGATATC
Found at i:528610 original size:15 final size:15
Alignment explanation
Indices: 528543--528612 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
528533 ATTGATCAGG
*
528543 AATGAAATGGAAAGA
1 AATGATATGGAAAGA
*
528558 AATGATATCG-AAGTA
1 AATGATATGGAAAG-A
* * *
528573 AATGGAAATTGATAAGG
1 AAT-GATATGGA-AAGA
528590 AATGATATGGAAAGA
1 AATGATATGGAAAGA
528605 AATGATAT
1 AATGATAT
528613 CAAAGTAGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 3 0.07
15 23 0.53
16 11 0.26
17 3 0.07
18 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.24, T:0.23
Consensus pattern (15 bp):
AATGATATGGAAAGA
Found at i:529499 original size:29 final size:30
Alignment explanation
Indices: 529435--529510 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
529425 AGCTTGATGA
* *
529435 AGCATTTGAAAGACACATACAGCTTAGTGG
1 AGCATTTGGAAGACACATACAACTTAGTGG
* *
529465 ACCATTTTGGAAGACA-A-ACAACTTGGTGG
1 AGCA-TTTGGAAGACACATACAACTTAGTGG
*
529494 AGCATTTGGGAGACACA
1 AGCATTTGGAAGACACA
529511 AATAGCTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 10 0.26
29 14 0.37
30 4 0.11
31 10 0.26
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (30 bp):
AGCATTTGGAAGACACATACAACTTAGTGG
Found at i:542912 original size:54 final size:54
Alignment explanation
Indices: 542842--543233 Score: 460
Period size: 54 Copynumber: 7.2 Consensus size: 54
542832 TTATGTATAC
* *
542842 TATCAGCACTAAGTGTGCAACCCACGAAATTCATAATATCTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * * * * *
542896 TATCGACACTAAGTGTGTAACCAACAAAATTCATAATATGTTTATGAATGACAG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * * * *
542950 TATTGGCACTAAGTGTGCAACCCACGGAATTCATAATGTATTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * * * *
543004 TATTGGCCCTAAGTGTACAACCCACGAAAATTCATAATATGTTAATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACG-AAATTCATAATATGTTTATGAACGACCG
* * * * * *
543059 TATCGACCCTAAGTGTGCAACGCATGAAATTCAGAATATGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
** *
543113 TATCGGCACTAATTGTGTAAAACCCACAAAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAA--GTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * * **
543169 TATCGGCACTAAGTGTGCAACCCACAAAATTCTTAATATGTTTTTGAACGATAG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
*
543223 TATCGACACTA
1 TATCGGCACTA
543234 TGTATGCACC
Statistics
Matches: 285, Mismatches: 50, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
54 195 0.68
55 43 0.15
56 47 0.16
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
Found at i:543123 original size:163 final size:164
Alignment explanation
Indices: 542842--543233 Score: 504
Period size: 163 Copynumber: 2.4 Consensus size: 164
542832 TTATGTATAC
* * *
542842 TATCAGCACTAAGTGTGCAACCCACG-AAATTCATAATATCTTTATGAACGACCGTATCGACACT
1 TATCGGCACTAAGTGTGCAACCCACGAAAATTCATAATATGTTAATGAACGACCGTATCGACACT
* * * **
542906 AAGTGTGTAACCAACAAAATTCATAATATGTTTATGAATGACAGTATTGGCACTAA-GTGTGCAA
66 AAGTGTGCAACCAACAAAATTCAGAATATGTTTATGAATGACAGTATCGGCACTAATGTGTAAAA
** * *
542970 CCCACGGAATTCATAATGTATTTATGAACGATCG
131 CCCACAAAATTCATAATATATTTATGAACGACCG
* * * * *
543004 TATTGGCCCTAAGTGTACAACCCACGAAAATTCATAATATGTTAATGAATGACCGTATCGACCCT
1 TATCGGCACTAAGTGTGCAACCCACGAAAATTCATAATATGTTAATGAACGACCGTATCGACACT
** *
543069 AAGTGTGCAACGC-ATGAAATTCAGAATATGTTTATGAATGACCGTATCGGCACTAATTGTGTAA
66 AAGTGTGCAAC-CAACAAAATTCAGAATATGTTTATGAATGACAGTATCGGCACTAA-TGTGTAA
*
543133 AACCCACAAAATTCATAATATGTTTATGAACGACCG
129 AACCCACAAAATTCATAATATATTTATGAACGACCG
* ** **
543169 TATCGGCACTAAGTGTGCAACCCAC-AAAATTCTTAATATGTTTTTGAACGATAGTATCGACACT
1 TATCGGCACTAAGTGTGCAACCCACGAAAATTCATAATATGTTAATGAACGACCGTATCGACACT
543233 A
66 A
543234 TGTATGCACC
Statistics
Matches: 195, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
162 22 0.11
163 82 0.42
164 34 0.17
165 57 0.29
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (164 bp):
TATCGGCACTAAGTGTGCAACCCACGAAAATTCATAATATGTTAATGAACGACCGTATCGACACT
AAGTGTGCAACCAACAAAATTCAGAATATGTTTATGAATGACAGTATCGGCACTAATGTGTAAAA
CCCACAAAATTCATAATATATTTATGAACGACCG
Found at i:544365 original size:25 final size:25
Alignment explanation
Indices: 544337--544412 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
544327 ATGCCTATAA
544337 TGCACCATTATGCATTTTCATTAGT
1 TGCACCATTATGCATTTTCATTAGT
* * *
544362 TGCACC-TT-T-TA-TGTCGA-TA-A
1 TGCACCATTATGCATTTTC-ATTAGT
544382 TGCACCATTATGCATTTTCATTAGT
1 TGCACCATTATGCATTTTCATTAGT
*
544407 GGCACC
1 TGCACC
544413 TTTTATGTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
20 6 0.16
21 7 0.19
22 3 0.08
23 3 0.08
24 7 0.19
25 11 0.30
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (25 bp):
TGCACCATTATGCATTTTCATTAGT
Found at i:544382 original size:45 final size:45
Alignment explanation
Indices: 544304--544586 Score: 338
Period size: 45 Copynumber: 6.1 Consensus size: 45
544294 CTTTCATGAT
* * *
544304 CATTATCATGAGTGGCACCTTTTATGCCTATAATGCACCATTATG
1 CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
* *
544349 CATTTTCATTAGTTGCACCTTTTATGTCGATAATGCACCATTATG
1 CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
*
544394 CATTTTCATTAGTGGCACCTTTTATGTCGATAATGCA-CAGTTATG
1 CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCA-TTATG
544439 CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
1 CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
** *
544484 CATTTAGCTTTCATTAGTGGCACCTTTTATGATGA-AATGCACCGTTATG
1 CA--T---TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
* * *
544533 CATTTAACTTTCATTAGTGACACCTTTTATGCCGA-CATGCACCATTGTG
1 CA--T---TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
544582 CATTT
1 CATTT
544587 ACTTTTATTC
Statistics
Matches: 214, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
44 4 0.02
45 124 0.58
46 2 0.01
47 2 0.01
49 57 0.27
50 25 0.12
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (45 bp):
CATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATG
Found at i:544419 original size:26 final size:26
Alignment explanation
Indices: 544389--544465 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
544379 TAATGCACCA
544389 TTATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAGTGGCACCTT
* **
544415 TTATG-----TCGA-TAAT-GCACAGT
1 TTATGCATTTTC-ATTAGTGGCACCTT
544435 T-ATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAGTGGCACCTT
544460 TTATGC
1 TTATGC
544466 CGATAATGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 18
0.60 0.10 0.30
Matches are distributed among these distances:
19 3 0.08
20 6 0.17
21 5 0.14
22 1 0.03
23 1 0.03
24 5 0.14
25 6 0.17
26 9 0.25
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (26 bp):
TTATGCATTTTCATTAGTGGCACCTT
Found at i:548190 original size:298 final size:293
Alignment explanation
Indices: 547586--548269 Score: 729
Period size: 298 Copynumber: 2.3 Consensus size: 293
547576 CATGGCCTGC
* * * * *
547586 GCCCTTAATTTATTTAAACACATCTGCATGTAACCATTTTTATTCGACTAATCCCTAAAACATTT
1 GCCCTTAATTTATTTAAACACTTCTCCATGTAACCATTTTT-TCCGACTAATCCTTAAAATATTT
* * * * *
547651 AACTTTTAGGATCCCTGACTCTTTTCCTGCTCATTCCACCCCTTCTCTTTTCAGAAAACAACACC
65 AA-TTTTATGATCCCCGACTCTTTTCCAGCTCATTCCACCCCTGCTCTTTTAAGAAAACAACACC
* * *
547716 AAAAACTAAGATAAAGTATAAAATTTGAAAATAGAGGGGTGCAACAAGAGGACATTTCCAGGAGT
129 AAAAACTAAGATAAAGTATAAAATTTGAAAAAAGAGGGGTACAACAAGAGGACA-TTCCAGAAGT
* * ** *
547781 TCACGCATCCTATCATACTATCGCCAACGCAAGCTTATCTACGAAGTTTTGATGGGATTAGGTGC
193 TCACACATCCTATCATAATATCGCCAAAACAAGCTTATCTACGAAGTTCTGATGGGATTAGGTGC
* *
547846 ACTGGTGCTGGTATGATCTCACCCATCATGTATTGT
258 ACTGGTGCTGGTATGATCGCACCCATAATGTATTGT
* * *
547882 GCCCTTAATTTATTTAAACACTTCTCCTTGTAGCCATTTTCTTCCGACTAATCCTTGAAATATTT
1 GCCCTTAATTTATTTAAACACTTCTCCATGTAACCATTTT-TTCCGACTAATCCTTAAAATATTT
* * *
547947 AATTTTATGATCCCCGACTCTTTTCCAGCTCGTTCCACCCCTGCTCTTTTAAATAAAACATCACC
65 AATTTTATGATCCCCGACTCTTTTCCAGCTCATTCCACCCCTGCTCTTTT-AAGAAAACAACACC
* * *
548012 AATAATTAAGATAAAGTATAAAATTTTGAAGAAAAGAGGGGTACAA-TAGTAGGAC-TTCCTAGA
129 AAAAACTAAGATAAAGTATAAAA-TTTGAA-AAAAGAGGGGTACAACAAG-AGGACATTCC-AGA
** * *
548075 AGGTT-ACACATTTTAAT-ATTAATCTCG-CAAAACAA-C-TATTCACTGCGAAGTTCT-ACTGG
190 A-GTTCACACATCCT-ATCA-TAATATCGCCAAAACAAGCTTA-T--CTACGAAGTTCTGA-TGG
* * * * *
548134 GATTCGTTGCATTTGTGCTGGTATGATCGCACCCATAATGTCTTGT
248 GATTAGGTGCACTGGTGCTGGTATGATCGCACCCATAATGTATTGT
*** * * ** *
548180 GCCCTTAATTTATTTACTTATTTTTCCATGTAACCATTTTATTCTAACTAATTCTTAAAATATTT
1 GCCCTTAATTTATTTAAACACTTCTCCATGTAACCATTTT-TTCCGACTAATCCTTAAAATATTT
548245 AATTTTATGATCCCC-AGCTCTTTTC
65 AATTTTATGATCCCCGA-CTCTTTTC
548270 TCGCTCTTTC
Statistics
Matches: 324, Mismatches: 50, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
295 45 0.14
296 95 0.29
297 27 0.08
298 157 0.48
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (293 bp):
GCCCTTAATTTATTTAAACACTTCTCCATGTAACCATTTTTTCCGACTAATCCTTAAAATATTTA
ATTTTATGATCCCCGACTCTTTTCCAGCTCATTCCACCCCTGCTCTTTTAAGAAAACAACACCAA
AAACTAAGATAAAGTATAAAATTTGAAAAAAGAGGGGTACAACAAGAGGACATTCCAGAAGTTCA
CACATCCTATCATAATATCGCCAAAACAAGCTTATCTACGAAGTTCTGATGGGATTAGGTGCACT
GGTGCTGGTATGATCGCACCCATAATGTATTGT
Found at i:551671 original size:41 final size:41
Alignment explanation
Indices: 551626--551709 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
551616 AGCTTCTCCA
*
551626 TGTAACCATTTTCTTCCGACTAATCCTTAAATATATAATTT
1 TGTAACCACTTTCTTCCGACTAATCCTTAAATATATAATTT
**
551667 TGTAACCACTTTCTTTTGACTAATCCTTAAATATATAATTT
1 TGTAACCACTTTCTTCCGACTAATCCTTAAATATATAATTT
551708 TG
1 TG
551710 CAATTCCCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (41 bp):
TGTAACCACTTTCTTCCGACTAATCCTTAAATATATAATTT
Found at i:552875 original size:289 final size:285
Alignment explanation
Indices: 552353--554668 Score: 1277
Period size: 289 Copynumber: 7.9 Consensus size: 285
552343 AAAAAACAAC
* * * * * *
552353 ACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAACAAATATGGG-TCCAATACGAGGACTTAC
1 ACCAAAAATTAAGATAAAGTATAAAATTTT-AAAAA-ATAGA-GGGATGCAACACGAGAACTTCC
* * * *** * *
552417 -AGGAGGTCACCCATCAC-AATACTATTCTCACCCAAGTGGGCTTGACTGTGGAGTTCTAATGGG
63 TAGGAGGTCACCCATC-CTACTACTACTCTCGCCCAAGCACGCTT-AATATGGAGTTCTAATGGG
* * * * * * *
552480 ATCCGGTGCATTAGT-ATTGTATGATCGTACCCTTCAGGTCTTGTGCCCATAATTTATTTAAATG
126 ATCCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCG-CCTTAATTTATTTAAATG
* * * * * * * *
552544 CTT-TGCCATGTTAGCATTTTGTTTCCAAATAATCTTTAAAATATTTAATTTTGTAATCACCAAT
190 CTTCT-CCATGTAACCATTTTCTTT-CGACTAATCCTTAAAATATTTAATTTTGT-ATC-CCGAC
*
552608 TCTTTTCCCACTCATTCCACCCTAACTCTTTTAAAAA
251 TCTTTTCCCACTCATTCCACCCT-GCT-TTTTAAAAA
* * *
552645 ACCAAAAATTAAGATTAAGTATAAAA-TTTAAAAAA-AGAGGGATGCAACACGATAACTTCCTGG
1 ACCAAAAATTAAGATAAAGTATAAAATTTTAAAAAATAGAGGGATGCAACACGAGAACTTCCTAG
*** *
552708 GAGGTCACCCATCCTTA-TACTACTCTCGCCCAAGCAAAATTAAGTATAGAGTTCTAATGGGATC
66 GAGGTCACCCATCC-TACTACTACTCTCGCCCAAGCACGCTTAA-TATGGAGTTCTAATGGGATC
* * *
552772 CAGTGCATTAGTGCTGGTATGATCACACCCTTCATGTCTTTCAGCATTAATTTATTTAAATGCTT
129 CAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGC-GCCTTAATTTATTTAAATGCTT
* ** *
552837 CTCCATGTAACCATTTTCTTTCTACTAATAATTAAAATACTTAATTTTCG-ATCCCTGACTCTTT
193 CTCCATGTAACCATTTTCTTTCGACTAATCCTTAAAATATTTAATTTT-GTATCCC-GACTCTTT
* *
552901 TCCCACTCGTTCCACCCCTGC-TCTTAAAAA
256 TCCCACTCATTCCA-CCCTGCTTTTTAAAAA
* * * * * * *
552931 ACACAAAAAATTAACATAAAGAATAAAA-TTAAAAAAATAGAGGGGTGCACCACGAGGACTTCCA
1 AC-C-AAAAATTAAGATAAAGTATAAAATTTTAAAAAATAGAGGGATGCAACACGAGAACTTCCT
* * * * * * * *
552995 AGGAGGTCACCCATCCTAGTACTAATATTGCCCAAGCATGCTTCAT-TGCGGAGTTCTGATGTGA
64 AGGAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTTAATAT--GGAGTTCTAATGGGA
* ** * * * * *
553059 TCCGGTGGTTTAGTGCTGGTATGATCGCATCCATGATGTCTTGCACCCTTAATTTATTTAAATAC
127 TCCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGC-GCCTTAATTTATTTAAATGC
* * *
553124 TTCTCTATATAACCATTTTATTTCGACTAATCCTTAAAATATTTAATTTTACG-ATCCCCGACTC
191 TTCTCCATGTAACCATTTTCTTTCGACTAATCCTTAAAATATTTAATTTT--GTAT-CCCGACTC
* * *
553188 TTTTCCC-CTCACTCCACCATGCTTTTAAAAAAA
253 TTTTCCCACTCATTCCACCCTGCTTTT-TAAAAA
* * ** * * * *
553221 ATCCAAGAATTAAGATATAGTATAAAATTTTGCAAAA-AGA-GCAGTGAAACACTAGCACTTCGC
1 A-CCAAAAATTAAGATAAAGTATAAAATTTTAAAAAATAGAGGGA-TGCAACACGAGAACTTC-C
** * * * * * * * * *
553284 -AAAAGGTTATCCATCCTACTAATACTCTTGTCCACGCACGCTTAAT-TGCGTAATTTTGATGGG
63 TAGGAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTTAATATG-G-AGTTCTAATGGG
* * * * *
553347 ATCCAATGCATTGGTGCTGGTATGATCGTA-CCATCATGTATTGCGCTCTTAATTTATTTAAATG
126 ATCCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCGC-CTTAATTTATTTAAATG
* * *
553411 CTTCTCCATGTAACCATTATGTTTCGACTAATCCTTAAAATATTTAA-TTT-T-TCCCGACTCAT
190 CTTCTCCATGTAACCATTTTCTTTCGACTAATCCTTAAAATATTTAATTTTGTATCCCGACTCTT
* * * **
553473 TTCCCGCTCGTTCTACATTGGCTTTTTGAAAAAACAA
255 TTCCCACTCATTCCACCCT-GCTTTTT----AAA-AA
* **
553510 CACCAAAAATTAAGATAAAGTATAAAATTTTAAAAACATA-AGGG-TGCAGCGTGAGAACTTCCT
1 -ACCAAAAATTAAGATAAAGTATAAAATTTTAAAAA-ATAGAGGGATGCAACACGAGAACTTCCT
* * ** * * *
553573 GGGAGGTCACCTATCCTTGTACTACTCTCGCCCAAGCACGCTTGACTATGGATTTCTAATGAGAT
64 AGGAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTT-AATATGGAGTTCTAATGGGAT
* * * * * *
553638 CCACTGCATTAGTGTTGGTATGATTGCACCCTTCATTTATTGCGCCCTTAATTAATTT-AATCGC
128 CCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCG-CCTTAATTTATTTAAAT-GC
* * * * * *
553702 TTATTCATGTAACCATTTTC-TTCTTAATAATCCTTAAAATATTTAATTTTGCGATCCACGACTA
191 TTCTCCATGTAACCATTTTCTTTC-GACTAATCCTTAAAATATTTAATTTTG-TATCC-CGACTC
*** ** *
553766 TTTTCTTGCTGGTTCCACCTTGGCTGTTTTAAAAAAAACA
253 TTTTCCCACTCATTCCACCCT-GCT-TTTT----AAAA-A
* * * *
553806 ACACTAAAAATTAAGACAAGGTATAAAATTTTGAGAAAAATA-AGTGG-TGCAACACAAGGAA-A
1 AC-C-AAAAATTAAGATAAAGTATAAAATTTT-A-AAAAATAGAG-GGATGCAACACGA-GAACT
* * * * * * * * * *
553868 TCCTTGGAGGTTACCCATCATAGTACTCCTCTCCCCCAAGCATGTTTCA-CTGCGAAGTTCTAAT
60 TCCTAGGAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTTAATATG-G-AGTTCTAAT
* * *
553932 GGGAT--ATGTTGCATTATTGCTGGTATGATCGCACTCTACATGTCTTGCGCCCTTAA-TTATTT
123 GGGATCCA-G-TGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCG-CCTTAATTTATTT
* * * * * ** *
553994 AAATTCTTCTCCATGTAACAATTTAC-TTCTGAATTATTATTGAAATATTTAATTTTACG-ATCC
185 AAATGCTTCTCCATGTAACCATTTTCTTTC-GACTAATCCTTAAAATATTTAATTTT--GTATCC
* * * * * **
554057 CCAGCTCTTTTCACGCTCGTTACGTCCTAGCACTTTTTAAAAAATAAAA
247 CGA-CTCTTTTCCCACTCATTCCACCCT-G--CTTTTT-----A-AAAA
* * ** ** * *
554106 ACAAAAAATTTTAAGATAAAGTATAAAAAATAAAAAAAATA-ATAG-TGCAAGACGAGGACTTCC
1 ACCAAAAA--TTAAGATAAAGTAT-AAAATTTTAAAAAATAGAGGGATGCAACACGAGAACTTCC
* * * ** * ** * *
554169 T-GAGAGGTCACCCAACCTAGTATTACTCTCATCTAATAAGGCTTAACTATGGAGTTTTAATGGG
63 TAG-GAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTTAA-TATGGAGTTCTAATGGG
* * * * * * * * *
554233 ATCCAGAGAATTAGTGTTGGTATGATCTCACCCATCATATCCTACGCCCTTAATTTATTTAGATG
126 ATCCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCG-CCTTAATTTATTTAAATG
* * * **
554298 CTTCTCCATGTAACCATTTTC-TTCTGACTAATCCTTAAACTATTTAATTTTTTGATCTCTGGTT
190 CTTCTCCATGTAACCATTTTCTTTC-GACTAATCCTTAAAATATTTAATTTTGT-ATC-CCGACT
* * * *** *
554362 ATTTTCCCGCTCCTTCCACCCCAATATTTAAAAAAA
252 CTTTTCCCACTCATTCCACCCTGCT-TTT-TAAAAA
* * * *
554398 ACAATACCGAGAATTTAA-ATAAATTATAAAATTTCCT-AAAAATAG-GGG-TGCAACATGAGGA
1 ACCA-A---A-AA-TTAAGATAAAGTATAAAATTT--TAAAAAATAGAGGGATGCAACACGAGAA
* * * * * **
554459 CTTCCTAGGAGGTCACCCATCATAGTATTACTCTCGCCCATGCAAGCTTGTGCTTGACTGCGGAG
58 CTTCCTAGGAGGTCACCCATCCTACTACTACTCTCGCCCAAGC-A-C----GCTT-AATATGGAG
* * * * **
554524 TTCTAATGGGATCTAATGCATTAGTACTGCTATGATAACACCCTTCATGTCTTG-GACCATTAAT
116 TTCTAATGGGATCCAGTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCG-CC-TTAAT
* * * *
554588 TTATTTAAACGCTTCTTCATGTAACCATTTT-TTCCGACTAATCCTT-AAATATTTAATTGTGTA
179 TTATTTAAATGCTTCTCCATGTAACCATTTTCTTTCGACTAATCCTTAAAATATTTAATTTTGT-
**
554651 ATTCCCGGTTCTTTTCCC
243 A-TCCCGACTCTTTTCCC
554669 CCTCGTTCAA
Statistics
Matches: 1576, Mismatches: 342, Indels: 205
0.74 0.16 0.10
Matches are distributed among these distances:
283 14 0.01
284 9 0.01
285 6 0.00
286 10 0.01
287 12 0.01
288 153 0.10
289 476 0.30
290 162 0.10
291 17 0.01
292 33 0.02
293 2 0.00
294 8 0.01
295 87 0.06
296 21 0.01
297 38 0.02
298 172 0.11
299 216 0.14
300 47 0.03
301 92 0.06
302 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (285 bp):
ACCAAAAATTAAGATAAAGTATAAAATTTTAAAAAATAGAGGGATGCAACACGAGAACTTCCTAG
GAGGTCACCCATCCTACTACTACTCTCGCCCAAGCACGCTTAATATGGAGTTCTAATGGGATCCA
GTGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTGCGCCTTAATTTATTTAAATGCTTCTC
CATGTAACCATTTTCTTTCGACTAATCCTTAAAATATTTAATTTTGTATCCCGACTCTTTTCCCA
CTCATTCCACCCTGCTTTTTAAAAA
Found at i:553982 original size:299 final size:291
Alignment explanation
Indices: 551667--554645 Score: 978
Period size: 289 Copynumber: 10.1 Consensus size: 291
551657 TATATAATTT
* * * * * * * *
551667 TGTAACCACTTTCTTTTGACTAATCCTT-AAATATATAATTTTGCAATTCCCAACACTTTTCCCG
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTT-CGA-TCCCGACTCATTTCCCG
* * * * * *
551731 TTCGTTCCAC-TCTGACTCTTTT-AAACAA-AA-ACCAAAATTTAAGATAAAGTATAAAATTTTG
64 CTCGTTCCACAT-TGGCT-TTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTTA
* * * ** * * * * * * ***
551792 ATAA-ATGAGGGGTACAACATGATAAC-TTCTCAGGAGGTCACCCATCCTTGTATTACTCTAGAC
127 AAAACAT-AAGGGTGCAACACAAGAACATCCT-GGGAGGTCACCCATCATAGTACTACTCTCCCC
* * * * * * * ** * * *
551855 CAAACATGCTTGACTACAAAGTTCTGATGGGATTCGTTGCATTAGTGATGGCATAATCGCACCCT
190 CAAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCA-CCT
* * * * * * * **
551920 TCAAGTCTTGCGCCCATAATTTTTTTAAACGATTCAACA
254 ACATGTATTGCGCCCTTAA-TTATTTAAATGCTTCTCCA
* * **
551959 TGCAACCATTTTCTTCTGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGGTTC-TTTCCC-
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTT-CGATCCC-GACTCATTTCCCG
* **** * * ** * *
552022 CTTGTTCCACCCAAGATGTTTT-AAAAAACAACACCAAAAATTATGATTAAGTATAAAAATTTGA
64 CTCGTTCCACATTGGCT-TTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTTAA
* * *** * * *
552086 AAACAGATA-GGTGCAACACGAGAGTTTCAC-GGGAGGTCACCCATCATTGTACTAATCTCCGCC
128 AAACATA-AGGGTGCAACACAAGAACATC-CTGGGAGGTCACCCATCATAGTACTACTCTCCCCC
* * * * * * * * * * *
552149 AAGCATGATTGACTACGGAGTTCTGATGGGAT-CA---AATTCACTGTTGGTATAATCACACCCT
191 AAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATT-AGTGCTGGTATGATCGCA-CCT
* * * * * * *
552210 TCGTTTCTTACGCCCTTAATTAATTATAACGCTTCTCCA
254 ACATGTATTGCGCCCTTAATTATTTA-AATGCTTCTCCA
** * * ** * *
552249 CATAACCATTTTCTTCTGAGTAATCCTTAAAATATTTAATTTTATGATACCTTA-TTATTTTCTC
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTT-CGAT-CCCGACTCA-TTTCCC
*** * * *
552313 GCTCGTTCCACCCCAGCACTTTTCACAAAAAAAAAACAACACCAAAAATTAAGATAAAGTATAAA
63 GCTCGTTCCA-CATTG-GCTTTT-----TAAAAAAACAACACCAAAAATTAAGACAAAGTATAAA
* * * * * * * * * * *
552378 ATTTTGAAAAACAAATATGGGTCCAATACGAGGACTTAC-AGGAGGTCACCCATCACAATACTAT
121 ATTTT-AAAAAC--ATAAGGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTAC
* *** * ** * * * ** * *
552442 TCTCACCCAAGTGGGCTTGACTGTGGAGTTCTAATGGGATCCGGTGCATTAGT-ATTGTATGATC
183 TCTCCCCCAAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATC
* * * * * *
552506 GTACCCTTCAGGTCTTGTGCCCATAATTTATTTAAATGCTT-TGCCA
248 GCA-CCTACATGTATTGCGCCCTTAA-TTATTTAAATGCTTCT-CCA
* * * ** * * * *
552552 TGTTAGCATTTTGTTTCCAAATAATCTTTAAAATATTTAATTTT-GTAATCACCAATTCTTTTCC
1 TGTAACCATTTT-CTTCTGAATAATCCTTAAAATATTTAATTTTCG--ATC-CCGACTCATTTCC
* * ** ** **
552616 CACTCATTCCACCCTAACTCTTTT----AAA-AA-ACCAAAAATTAAGATTAAGTATAAAA-TTT
62 CGCTCGTTCCACATTGGCT-TTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTT
* * * * *
552674 AAAAA-A-AGAGGGATGCAACACGATAACTTCCTGGGAGGTCACCCATCCTTA-TACTACTCTCG
126 AAAAACATA-AGGG-TGCAACACAAGAACATCCTGGGAGGTCACCCAT-CATAGTACTACTCTCC
*** * * * * * * *
552736 CCCAAGCAAAATTAAGTA-TAGAGTTCTAATGGGATCCAGTGCATTAGTGCTGGTATGATCACAC
188 CCCAAGCACGCTTCACTACGA-AGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCA-
* * * *
552800 CCTTCATGTCTTTCAG-CATTAATTTATTTAAATGCTTCTCCA
251 CCTACATGTATTGC-GCCCTTAA-TTATTTAAATGCTTCTCCA
* ** * * *
552842 TGTAACCATTTTCTTTCT-ACTAATAATTAAAATACTTAATTTTCGATCCCTGACTCTTTTCCCA
1 TGTAACCATTTTC-TTCTGAATAATCCTTAAAATATTTAATTTTCGATCCC-GACTCATTTCCCG
** * * * *
552906 CTCGTTCCACCCCT-GC-TCTT-AAAAAAC-ACA--AAAAATTAACATAAAGAATAAAA--TTAA
64 CTCGTTCCA-CATTGGCTTTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTTAA
* * * * * ** * * * **
552963 AAAAATAGAGGGGTGCACCACGAGGACTTCCAAGGAGGTCACCCATCCTAGTACTAATATTGCCC
128 AAACATA-A-GGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTACTCTCCCCC
* * * * * * * ** **
553028 AAGCATGCTTCATTGCGGAGTTCTGATGTGATCCGGTGGTTTAGTGCTGGTATGATCGCATCC-A
191 AAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCA-CCTA
* * * * *
553092 TGATGTCTTGCACCCTTAATTTATTTAAATACTTCTCTA
255 -CATGTATTGCGCCCTTAA-TTATTTAAATGCTTCTCCA
* * * *
553131 TATAACCATTTTATT-TCGACTAATCCTTAAAATATTTAATTTTACGATCCCCGACTCTTTTCCC
1 TGTAACCATTTTCTTCT-GAATAATCCTTAAAATATTTAATTTT-CGAT-CCCGACTCATTTCCC
** * * * *
553195 -CTCACTCCACCA-T-GC-TTTT-AAAAAA-AA-TCCAAGAATTAAGATATAGTATAAAATTTTG
63 GCTCGTTCCA-CATTGGCTTTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTT-
* * * * * * * *** * * * * * ***
553253 CAAAA-A-GAGCAGTGAAACACTAGCACTTCGC-AAAAGGTTATCCATCCTACTAATACTCTTGT
126 AAAAACATAAG-GGTGCAACACAAGAACATC-CTGGGAGGTCACCCATCATAGTACTACTCTCCC
* * * * * * * * * * *
553315 CCACGCACGCTTAATTGCGTAA-TTTTGATGGGATCCAATGCATTGGTGCTGGTATGATCGTACC
189 CCAAGCACGCTTCACTACG-AAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCACC
*
553379 -ATCATGTATTGCGCTCTTAATTTATTTAAATGCTTCTCCA
253 TA-CATGTATTGCGCCCTTAA-TTATTTAAATGCTTCTCCA
*
553419 TGTAACCATTATGT-TTC-GACTAATCCTTAAAATATTTAATTTT---TCCCGACTCATTTCCCG
1 TGTAACCATT-T-TCTTCTGAATAATCCTTAAAATATTTAATTTTCGATCCCGACTCATTTCCCG
* * *
553479 CTCGTTCTACATTGGCTTTTTGAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTAAA
64 CTCGTTCCACATTGGCTTTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTTAAA
* *** * * * * *
553544 AACATAAGGGTGCAGCGTGAGAACTTCCTGGGAGGTCACCTATCCTTGTACTACTCTCGCCCAAG
129 AACATAAGGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTACTCTCCCCCAAG
* * * * * * * *
553609 CACGCTTGACTATGGATTTCTAATGAGATCCACTGCATTAGTGTTGGTATGATTGCACCCTTCAT
194 CACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCA-CCTACAT
* * *
553674 TTATTGCGCCCTTAATTAATTT-AATCGCTTATTCA
258 GTATTGCGCCCTTAATT-ATTTAAAT-GCTTCTCCA
* **
553709 TGTAACCATTTTCTTCTTAATAATCCTTAAAATATTTAATTTTGCGATCCACGACT-ATTTTCTT
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTT-CGATCC-CGACTCA-TTTCCC
* * * *
553773 GCTGGTTCCACCTTGGCTGTTTTAAAAAAAACAACACTAAAAATTAAGACAAGGTATAAAATTTT
63 GCTCGTTCCACATTGGCT-TTTT-AAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTT
* * *
553838 GAGAAAA-ATAAGTGGTGCAACACAAGGAA-ATCCTTGGAGGTTACCCATCATAGTACTCCTCTC
126 -A-AAAACATAAG-GGTGCAACACAA-GAACATCCTGGGAGGTCACCCATCATAGTACTACTCTC
* * * * *** *
553901 CCCCAAGCATGTTTCACTGCGAAGTTCTAATGGGATATGTTGCATTATTGCTGGTATGATCGCAC
187 CCCCAAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCAC
* *
553966 TCTACATGTCTTGCGCCCTTAATTATTTAAATTCTTCTCCA
252 -CTACATGTATTGCGCCCTTAATTATTTAAATGCTTCTCCA
* * * ** * * * *
554007 TGTAACAATTTACTTCTGAATTATTATTGAAATATTTAATTTTACGATCCCCAGCTCTTTTCACG
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTT-CGATCCCGA-CTCATTTCCCG
** * * * * * * **
554072 CTCGTTACGTCCTAGCACTTTTTAAAAAATA-AAAACAAAAAATTTTAAGATAAAGTATAAAAAA
64 CTCGTT-CCACATTG-GCTTTTTAAAAAA-ACAACACCAAAAA--TTAAGACAAAGTATAAAATT
* * ** * * * * * * * * **
554136 TAAAAAAAATAATAGTGCAAGACGAGGACTTCCTGAGAGGTCACCCAACCTAGTATTACTCTCAT
124 TTAAAAACATAAGGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTACTCTCCC
* ** * * * * * * * ** * * * *
554201 CTAATAAGGCTTAACTATGGAGTTTTAATGGGATCCAGAGAATTAGTGTTGGTATGATCTCACCC
189 CCAAGCACGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCACCT
* ** * *
554266 ATCATATCCTACGCCCTTAATTTATTTAGATGCTTCTCCA
254 A-CATGTATTGCGCCCTTAA-TTATTTAAATGCTTCTCCA
* * * * * *
554306 TGTAACCATTTTCTTCTGACTAATCCTTAAACTATTTAATTTTTTGATCTCTG-GTTATTTTCCC
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAA-TTTTCGATC-CCGACTCA-TTTCCC
* ***** * * * * * *
554370 GCTCCTTCCAC-CCCAATATTTAAAAAAAACAATACCGAGAATTTAA-ATAAATTATAAAATTTC
63 GCTCGTTCCACATTGGCT-TTTTAAAAAAACAACACC-AAAAATTAAGACAAAGTATAAAATTT-
* ** * * * *
554433 CT-AAAA-ATAGGGGTGCAACATGAGGACTTCCTAGGAGGTCACCCATCATAGTATTACTCTCGC
125 -TAAAAACATAAGGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTACTCTC-C
** * * * * * * *
554496 CCATGCAAGCTTGTGCTTGACTGCGGAGTTCTAATGGGAT-CTAATGCATTAGTACTGCTATGAT
188 CC---CAAGC--ACGCTTCACTACGAAGTTCTAATGAGATAC-ACTGCATTAGTGCTGGTATGAT
** * * * * *
554560 AACACCCTTCATGTCTTG-GACCATTAATTTATTTAAACGCTTCTTCA
247 CGCA-CCTACATGTATTGCG-CCCTTAA-TTATTTAAATGCTTCTCCA
* *
554607 TGTAACCATTTT-TTCCGACTAATCCTT-AAATATTTAATT
1 TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATT
554646 GTGTAATTCC
Statistics
Matches: 2062, Mismatches: 487, Indels: 270
0.73 0.17 0.10
Matches are distributed among these distances:
283 16 0.01
284 8 0.00
285 2 0.00
286 8 0.00
287 20 0.01
288 156 0.08
289 480 0.23
290 236 0.11
291 36 0.02
292 75 0.04
293 122 0.06
294 10 0.00
295 84 0.04
296 16 0.01
297 56 0.03
298 192 0.09
299 236 0.11
300 48 0.02
301 133 0.06
302 23 0.01
303 50 0.02
304 51 0.02
305 4 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (291 bp):
TGTAACCATTTTCTTCTGAATAATCCTTAAAATATTTAATTTTCGATCCCGACTCATTTCCCGCT
CGTTCCACATTGGCTTTTTAAAAAAACAACACCAAAAATTAAGACAAAGTATAAAATTTTAAAAA
CATAAGGGTGCAACACAAGAACATCCTGGGAGGTCACCCATCATAGTACTACTCTCCCCCAAGCA
CGCTTCACTACGAAGTTCTAATGAGATACACTGCATTAGTGCTGGTATGATCGCACCTACATGTA
TTGCGCCCTTAATTATTTAAATGCTTCTCCA
Found at i:555401 original size:296 final size:289
Alignment explanation
Indices: 554786--556164 Score: 967
Period size: 287 Copynumber: 4.7 Consensus size: 289
554776 GAATAACCCT
*** * *
554786 TCATGTCTTGCACCCTTAATTTATTCCGACGCTTCTCCATGTAACCGTTTTCTT-TCGACTAATC
1 TCATGTCTTGCACCCTTAATTTATTTAAACTCTTCTCCATGTAACCATTTTCTTCT-GACTAATC
* * *
554850 CTTAAAATATTTAATTTTGTGGTCCCTGACTCTTTTCGCGCTCGTTCCACCCCGACTCTCTCTTA
65 CTTAAAATATTTAATTTTGT--TCCCCGACTATTTTCCCGCTCGTTCCACCCCGA-T-TCT-TTA
* * * * * *
554915 CAAAAATAATACACCAAAAATTAAGATAAAATATAAAATTTTGAAAACAGA-GGGGCAACACTAG
125 -AAAAA-AACACAAC-AAAATTAAGAT-AAATATAAAATTTCGAAAAAATAGGGGGCAACACGAG
* * * ** * * * * * * *
554979 TACTTCCCAAGAGGTTACTAATCCTAATAGTACTT-TCGCCCAAGCATGTTTCACTGCGAAGTTC
186 GACTTCCCAGGAGGTCACCCATCCTAGTACTA-TTCTCGCCCAAGCACGTTTAACTGTGGAGTTT
* ** * * * *
555043 TAATGGGATTCGTTGCATTAGTGCTGATATGATCGCACTG
250 TAATGGGATACGGGGAATTAGTGTTGGTATGATCGCACCG
* * *
555083 ATCATGTCTTTCGCCCTTAATTTATTTAAACTATTCTCCATGTAACCATTTTCTTCTGACTAATC
1 -TCATGTCTTGCACCCTTAATTTATTTAAACTCTTCTCCATGTAACCATTTTCTTCTGACTAATC
* * * *
555148 ATTAAAATATTAAAATTTTGTTCCCCGACTATTTTCCCTCTCGTTCCACCACGATTCTTTCAAAA
65 CTTAAAATATT-TAATTTTGTTCCCCGACTATTTTCCCGCTCGTTCCACCCCGATTCTTT-AAAA
*
555213 AAGAACATCAACAAATATTAAGATATAATAT-AAATATCGAAAAAATAGGGGAGCAACACGAGGA
128 AA-AACA-CAACAAA-ATTAAGATA-AATATAAAATTTCGAAAAAATAGGGG-GCAACACGAGGA
* * * * *
555277 ATTCCCAGGAGGTCACCCATCCTAGTATTATTCACGCCCAAGCACATTTAACTATGGAGTTTTAA
188 CTTCCCAGGAGGTCACCCATCCTAGTACTATTCTCGCCCAAGCACGTTTAACTGTGGAGTTTTAA
* *
555342 TGGGATCCGGGGAATTAGTGTTGGTATGATTGCACACG
253 TGGGATACGGGGAATTAGTGTTGGTATGATCGCAC-CG
* *
555380 TCATGTCTTGCACCCTTAATTTATTTAAA-TGCTTCTCCATGTAACCATTTTATTCTTACTAATC
1 TCATGTCTTGCACCCTTAATTTATTTAAACT-CTTCTCCATGTAACCATTTTCTTCTGACTAATC
* *
555444 CTTAAAATATTTAATTTTGCATTCCCC-AGTTTTTTTCCCGCTCGTTCCACCCCG--TCATTTAA
65 CTTAAAATATTTAATTTTG--TTCCCCGA-CTATTTTCCCGCTCGTTCCACCCCGATTC-TTTAA
** *
555506 AAAAATAC-CAAC--AATTGGGATAAAGTATAAAATTTCAAAATAAATAGGGGTGACATA-A-GA
126 AAAAA-ACACAACAAAATTAAGATAAA-TATAAAATTTCGAAA-AAATAGGGG-G-CA-ACACGA
* * * ** * *
555566 GGACTTCCCAGGAGGTCACCCATCATAGTACTACTCTCACCCAAGCGGGCTTGACTGTGGAGTTT
185 GGACTTCCCAGGAGGTCACCCATCCTAGTACTATTCTCGCCCAAGCACGTTTAACTGTGGAGTTT
* * *
555631 TAATGTGATACGGGGAATTAGTGTTGGTATGATCACACCCA
250 TAATGGGATACGGGGAATTAGTGTTGGTATGATCGCA-CCG
* * *
555672 TCATGTCATGTGC-CCC-TAATTTATTTAAATTCTTCTCCATGTAAACATTTTTTTC-GACTAAT
1 TCATGTC-T-TGCACCCTTAATTTATTTAAACTCTTCTCCATGTAACCATTTTCTTCTGACTAAT
* * * * * * *
555734 CCTTAAAATATTTAATTTTTTTATCCCGTCTCTTTTCCCGCTCGCTCTACCCCGA--CATTAAAA
64 CCTTAAAATATTTAATTTTGTT-CCCCGACTATTTTCCCGCTCGTTCCACCCCGATTCTTTAAAA
* * ** *
555797 AATAC-C-A-AAAATTCAAG-TAAAGTATAAAATTTCAAAAAAATAAGGGTCCAACACAAGGACT
128 AAAACACAACAAAATT-AAGATAAA-TATAAAATTTCGAAAAAAT-AGGGGGCAACACGAGGACT
** * * *** * ** *** *
555858 TCCCAATAGGT-ATCCCATCATAGTACTATTCTCACCCAAGTGGGCTTGTCTGCAAAGTTATAAT
190 TCCCAGGAGGTCA-CCCATCCTAGTACTATTCTCGCCCAAGCACGTTTAACTGTGGAGTTTTAAT
* * * * * *
555922 CGGAT-CTAGTGCATTAGTACTT-GTATGATCGCATCCT
254 GGGATAC-GGGGAATTAGT-GTTGGTATGATCGCA-CCG
* * *
555959 TCATGTCTTCTGC-CCC-TAATATATTTAAA-TGCTTCTCCATGTAGCCATTTTCTT-TCGCCT-
1 TCATGTC-T-TGCACCCTTAATTTATTTAAACT-CTTCTCCATGTAACCATTTTCTTCT-GACTA
* * * * * * * ** *
556019 ATGCC-TCAAGTATTTAATTTTGTTATCCCGATTCTTTTCCCGCTCATTCCAACTTGACTCTTT-
62 AT-CCTTAAAATATTTAATTTTGTT-CCCCGACTATTTTCCCGCTCGTTCCACCCCGATTCTTTA
* * * *
556082 --AAAAA-TCAACGAAAATGAAGATAAAGTATAAAATTTTGAAAAAA-ACTGGGTGCAACACGAG
125 AAAAAAACACAAC-AAAATTAAGATAAA-TATAAAATTTCGAAAAAATA--GGGGGCAACACGAG
* *
556143 AACTTCCCTGGAGGTCACCCAT
186 GACTTCCCAGGAGGTCACCCAT
556165 TATTGTAACC
Statistics
Matches: 886, Mismatches: 144, Indels: 111
0.78 0.13 0.10
Matches are distributed among these distances:
285 1 0.00
286 11 0.01
287 178 0.20
288 41 0.05
289 70 0.08
290 36 0.04
291 35 0.04
292 141 0.16
293 13 0.01
294 31 0.03
295 43 0.05
296 157 0.18
297 56 0.06
298 64 0.07
299 9 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (289 bp):
TCATGTCTTGCACCCTTAATTTATTTAAACTCTTCTCCATGTAACCATTTTCTTCTGACTAATCC
TTAAAATATTTAATTTTGTTCCCCGACTATTTTCCCGCTCGTTCCACCCCGATTCTTTAAAAAAA
ACACAACAAAATTAAGATAAATATAAAATTTCGAAAAAATAGGGGGCAACACGAGGACTTCCCAG
GAGGTCACCCATCCTAGTACTATTCTCGCCCAAGCACGTTTAACTGTGGAGTTTTAATGGGATAC
GGGGAATTAGTGTTGGTATGATCGCACCG
Found at i:562755 original size:288 final size:289
Alignment explanation
Indices: 562148--565895 Score: 1671
Period size: 296 Copynumber: 12.9 Consensus size: 289
562138 CACAGTCGTT
* * * * * * * *
562148 CACCCTTAATTTATTTAAACCCTTGTCCATGTAAACATTTTCTTCCGACTAATCCATAAAATAAT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATATT
** * * * * *
562213 TAATTTTGTGATCCCAATCTCTTTTCCTGCTCATTCCACCC-ATGCGCTTTAAAAATA-ACACAA
66 TAATTTTACGATCCCGA-CTCTTTTCCCGCTCGTTCCACCCGA--C-ATTTAAAAAAATAC-CAA
* * *
562276 AAAATTAAGATAAAGTATAAAATTTC-AAAACATGAGGCG-TGTAACACGAGAATTTCCTGGGAG
126 AAAATTAAGATAAAGTATAAAATTTCAAAAAAAT-AGG-GATGCAACACGAGAACTTCCT-GGAG
* * * * * * * * * *
562339 GTAAGCTATCCTTGTACTACTCTTGCCCAAGCACGCTTGACAAT-GAGTTCTGATAGGATCCGAT
188 GTCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGAT
* * * * * * * *
562403 GCATTTGTGCAGGAATGATCTCTCCTTTCGTGTCCTTA
253 GCATTAGTGCTGGTATGATCGCACCCTTCATGT-CTTG
* * * *
562441 CGA-CCTTAATTTA-TTATAATGCTTCTCCAAGTAACTATATTCTTTCGAATAATTCTTAAAATA
1 C-ACCCTTAATTTATTTA-AACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATA
* *
562504 TTTAATTTTACTATCCCTGACTCTTTTCCCTCTCGTTCCACCCGACATTTAAAAAAATACCAAAA
64 TTTAATTTTACGATCCC-GACTCTTTTCCCGCTCGTTCCACCCGACATTTAAAAAAATACCAAAA
* *
562569 AATT-AGATAAAGTATAAAA-TT-AAAGAAAATAGGGATGCAACACAAGGACTTCCTGGAGGTCA
128 AATTAAGATAAAGTATAAAATTTCAAA-AAAATAGGGATGCAACACGAGAACTTCCTGGAGGTCA
* * * * * * *
562631 CCTATCATAGTACTACTCTCACCCAAGCGGGCTTGACTGTGGAGTTATAATGGGATCTGGTGCAT
192 CCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGATGCAT
***
562696 TAGCATTGGTATGATCGCACCCTTCATGTCTTG
257 TAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * *
562729 CACTCTTAATTTATTTGAACGCTTCTCCATGTATCCATTTTCTCTT-GACTAATT-TTTAAGTAT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCT-TTCGACTAATTCTTAAAATAT
* ** * *
562792 TTACTTTTACGATCCCGACTCTTTTCCCGCTATTTCCACCTGACATTTAAAAAAATA--AAAATT
65 TTAATTTTACGATCCCGACTCTTTTCCCGCTCGTTCCACCCGACATTTAAAAAAATACCAAAA-A
** * * *
562855 ATTAAGATAGTGTATAAAATTTCAAAAAAATAGGGTTGCAACTCGAGGACTTCCTCGGAGGTCAC
129 ATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGATGCAACACGAGAACTTCCT-GGAGGTCAC
* * * * * * *
562920 CCATCATAGTACTACTCTCACTCAAGCGGGCTTGATTGTGGAGTTGC-AATGGGATCTGATGCTT
193 CCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTT-CTAATGGGATCTGATGCAT
* * * * *
562984 TAGTACTTGTATGATTC-CACTCTTCGTCTCTTG
257 TAGTGCTGGTATGA-TCGCACCCTTCATGTCTTG
* * * * * *
563017 TACCCTTAATTTATTTAAACGCTTATGCATA-TAACCATTTTCTTTCGACTGATCCTT-ATATAT
1 CACCCTTAATTTATTTAAACGCTTCTCCA-AGTAACCATTTTCTTTCGACTAATTCTTAAAATAT
*** * * * * * * *
563080 TTAATTTTGTAATCCC-ATGTTATTTTCCCACTCGTTTCGCCGTGAC-TCTT-TAAAAA-ACCAA
65 TTAATTTTACGATCCCGA--CTCTTTTCCCGCTCGTTCCACC-CGACAT-TTAAAAAAATACCAA
* * * * * * *
563141 AAAA-TAATATAAAGTATAAAA-TT-ATGAAAAA-AGGGGTACAACATGAGAAATTCCCTCGAGG
126 AAAATTAAGATAAAGTATAAAATTTCA-AAAAAATAGGGATGCAACACGAGAACTT-CCTGGAGG
* ** * * * *** * * *
563202 TTACGTATCCTTGTACTACTCTCGCACAAGCATGCTTGACTACCAAGTTCTGATGGGATCCGTTG
189 TCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGATG
* * *
563267 CTTTAGTGCTGGCATGATCTCACCCTTCATGTCTTG
254 CATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * * * * *
563303 TACCATTAATATATTTAAACGCTTCTACATA-TAACTATTTTC-TTCAAATTATTAGTTAAAATA
1 CACCCTTAATTTATTTAAACGCTTCTCCA-AGTAACCATTTTCTTTCGACTAATT-CTTAAAATA
* * * * * * *
563366 TTTAATTTTGCGATCCCCGACTCTTTTCCTGCTCTTTCTACCCAGGCTCTTTAAAAAAACAACAC
64 TTTAATTTTACGAT-CCCGACTCTTTTCCCGCTCGTTCCACCC-GAC-ATTTAAAAAAA-TAC-C
** * *
563431 CCAAAATTAAGATAAAGTATAAAATTTCAAAAAAATA-GGAGTGCAACAGGAGAATTTCCTGGGA
124 AAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGA-TGCAACACGAGAACTTCCT-GGA
* * * * * * * * *
563495 GGTCACCCATCCTTGTAATACTCTCGTCCAAGCATGCTTGAATACGCAGTTCTGATGGGATCCGA
187 GGTCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGA
* * * * * *
563560 TACATTAGTGCTAGTATGATCGCACCGTACGTGTCTTA
252 TGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * *
563598 CACGCTTAATTTA-TTATAATGCTTATCCAAGTAACCATATTCTTCCGACTAA-TCATTAAAATA
1 CACCCTTAATTTATTTA-AACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTC-TTAAAATA
* * * * * * * **
563661 TTTAATTATGCAATCCACAACCCTTTTCCCGCTCATTCCACCCCGACTCTTTTCACTAAAATA-C
64 TTTAATTTTACGATCC-CGACTCTTTTCCCGCTCGTTCCA-CCCGA--CATTT-AAAAAAATACC
* * * * * * **
563725 ATCGAAAATTAAGATGATGTATAAAATTTAAAAAAAAATAGGG-CGCAACACGAGTACTTCTCAC
124 A--AAAAATTAAGATAAAGTATAAAATTT-CAAAAAAATAGGGATGCAACACGAGAACTTC-CTG
* * * * * * ** * *
563789 GAGGTTACCGATCCTAATGCTACTATCGCCAAAGCACCCTTCACTATGGATTTCTAATGGGAT-T
185 GAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCT
* *
563853 CGTTGCATTAGTGCTGGTATGATCGCACCCATCATGTCTTG
250 -GATGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * *
563894 CACCCTTAATTTATTTAAACTGC-TCTCCATGTAACAATTTTGTTCCTACTAATCCTTAAAATAT
1 CACCCTTAATTTATTTAAAC-GCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATAT
** * * ** * * ** * * * *
563958 TTAATTTTGTGATCACTAGGACTTTTCTCGCTAGTTCTTCCTAGCTCTTTTAAAATAAAACAACC
65 TTAATTTTACGATCCCGA-CTCTTTTCCCGCTCGTTCCACC-CG-ACATTT-AAA-AAAA-TACC
* * * * * * *
564023 ATAAAAGTTAAAATAAAG--TAAAATATCGAAAAAAATAAGGG-TGAAACATGAGGACTTCCCAG
124 A-AAAAATTAAGATAAAGTATAAAATTTC-AAAAAAAT-AGGGATGCAACACGAGAACTT-CCTG
* * ** * * * * * *
564085 GAGCTCACCCATCCTAGTATTACTCTCGTTCAAGCACGCTTAACTATGGAGTTTTGATTGGATCC
185 GAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCT
* * * ** * ** *
564150 AAGGAATTAGTATTGGTATGATTGC-CTCAATCATATCTTG
250 GATGCATTAGTGCTGGTATGATCGCAC-CCTTCATGTCTTG
* * * * * *
564190 CACCCTTAATTTATTAAAATC-CTTCT-CAATGTAACGATTTTCTTCCGAATAATCCTTAAATTA
1 CACCCTTAATTTATTTAAA-CGCTTCTCCAA-GTAACCATTTTCTTTCGACTAATTCTTAAAATA
* ** * **
564253 TTTAATTTTGA-GTTCCCTGA-TCTTTTCCCAATCTTTCCACCCCGACATTTAAAGAGTATA--A
64 TTTAATTTT-ACGATCCC-GACTCTTTTCCCGCTCGTTCCA-CCCGACATTTAAA-AAAATACCA
***** ** * * * * *
564314 TTTTTTTTTGTTAAAGTAT---A---C-AAAAAATA-GGAGTGCAACACGAG-GCTTACAGAAGG
125 AAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGA-TGCAACACGAGAACTTCCTGGAGG
* * * * * * * * *
564370 TCTCCCATCATAATACTACTATCGCCCTAG-AGGGCTCT-ATTACGGAGTTCTAATGGAATCTGG
189 TCACCCATCCTAGTACTACTCTCGCCCAAGCA-GGCT-TGACTATGGAGTTCTAATGGGATCTGA
* *
564433 TGCATTAGAT-CTGGTATAATCGCAACCTTCATGTCTTG
252 TGCATTAG-TGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * *
564471 CACCC----TTTA--T---C-CCTCTCCATGAAACCATTTTCTTCCAACTAATCCTT-AAATATT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATATT
* * * ** ** * * *
564525 TAATTTTCCAATCCATGGTTCTTTTCCTACTCGTTCCACCAGAC-TCTT-TAAAAACACC-AAAA
66 TAATTTTACGATCC-CGACTCTTTTCCCGCTCGTTCCACCCGACAT-TTAAAAAAATACCAAAAA
* * * * ** *
564587 ATTAAGATAAAGTATTAAATTTCGTAATAAAAGAGGGGTGCAACATTATAACTTCCGTGGAGGTC
129 ATTAAGATAAAGTATAAAATTTC--AAAAAAATAGGGATGCAACACGAGAACTTCC-TGGAGGTC
* * * * * * * * * * *
564652 ATCCATCCTAGCACCACTCCCGCACAAGAATGCTTGACTACGGAGTTCTGATGGGATCCGTTGCA
191 ACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGATGCA
* * * ** * *
564717 TTAATACTGGCATGATCGCACTGTTCATGTATTT
256 TTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * * * * ** **
564751 CGCCTTTAATTTATTTAAACGCTTCTCCATGTAACTATGTTATTCCGAATAAAACAAAAAATATT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATATT
* *** * * * *
564816 TAATTTTGCGATACCCTG-CT-TTTGTCCATTTCATTCCACCCATGCTCTTTTGAAAAAAAAACC
66 TAATTTTACGAT-CCC-GACTCTTT-TCCCGCTCGTTCCACCC--G-ACATTT-AAAAAAATACC
* * * ** *
564879 -AAAAATTAAGATAAAGTATGAAATTTCAAAAAAA-AAGG-TGCAACA-GTTGATTTTCCCAGGA
124 AAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGATGCAACACG-AGAACTT-CCTGGA
* * * * *
564940 GGTCA-CCATCCTTGTACTACTAC-CGCCCAAGCATGCTTGACTACGAAGTTCTGATGGGATCTT
187 GGTCACCCATCCTAGTACTACT-CTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATC-T
* * *
565003 G-TGCATTAGTGCTGGTATGATCACATCCTTCGTGTCTTG
250 GATGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * ** * * * *
565042 CGCCCTTTATTTA-CTATAATTCTTCTCTAAGTAACCATTTTCTTCCAACTAATACTTAAAATAT
1 CACCCTTAATTTATTTA-AACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATAT
* * * * ***
565106 TTGATTTTGCGAACTCTGACTCTTTTCCCGGC-CGTT-CACCCAGGTTGTTTTTTTACCAAAAAA
65 TTAATTTTACGATC-CCGACTCTTTTCCC-GCTCGTTCCACCC-----G-ACATTTA--AAAAAA
* * ** * *
565169 TACACCAATAATTAAGATAAAGTATAAAATTT-TGAAAAA-AGGG-TGCAACACGAGTACTTCAT
120 TAC-CAAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGATGCAACACGAGAACTTCCT
* * * * ** * ** *
565231 AGGAAGTTACCCATCCTAATACTACTTTCGCCCAAGCACACTTCACTGCGAAGTTCTAATGGGAT
184 -GGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGAT
** ** * * * *
565296 CCAATGCATTAGTAATGTTATGATCACACCCATCTTGTCTTG
248 CTGATGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * ** * * * * *
565338 TACCCTTAATTTAGTTAAACTTTTATCCATGTAAACCATTTTCTTCCAACTAATCCTTAAAATAT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGT-AACCATTTTCTTTCGACTAATTCTTAAAATAT
** * * * * * * **
565403 TTAATTTTGTGATCCCAAACTATGTTCTCGCTCGTTCCACCTTGACTTTTTTAAAAATACC-AAA
65 TTAATTTTACGATCCC-GACTCTTTTCCCGCTCGTTCCACC-CGACATTTAAAAAAATACCAAAA
* * * * * * **
565467 AA-TATGAGTAAAGTATAAAATTTTAAAAAAAAATACGGCTGCAACACAAGGACTT-CTAGGAAA
128 AATTAAGA-TAAAGTATAAAA-TTT-CAAAAAAATAGGGATGCAACACGAGAACTTCCT-GGAGG
* * * * *
565530 TCACCCATCATAGTACTACTCTCACCCAAG-AGCTCTTGACTGCAT--AGTTCTGATCGGAT-TC
189 TCACCCATCCTAGTACTACTCTCGCCCAAGCAG-GCTTGACT--ATGGAGTTCTAATGGGATCT-
* * * * *
565591 GGTGCATTGGTACTGGTATGATTGCACCCTTCATGTCTTA
250 GATGCATTAGTGCTGGTATGATCGCACCCTTCATGTCTTG
* * * * * *** * * *
565631 CGCCCTTGATTTATTTAAACACTTATCCATGTATTTATTTTCTTCCAACTAA-TCCTAAAATATT
1 CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATATT
* * * ** *
565695 TAATTTTGCAATCCCTGGCTCTTTTCCCGCTAATTCCACCCGACACTT-AAAAAA-ACC-AAAAA
66 TAATTTTACGATCCC-GACTCTTTTCCCGCTCGTTCCACCCGACATTTAAAAAAATACCAAAAAA
* * ** * * * *
565757 TTAGGATAAAGTATAAATTTTTTTTAGAAAAGAGGGGTGCAACACGAGAACTTCCCGGGAGGTCA
130 TTAAGATAAAGTATAAA--ATTTCAAAAAAATAGGGATGCAACACGAGAACTT-CCTGGAGGTCA
* * * * * * * * * * *
565822 CCCATCCTTGTACCACACTCGCCCAAACACGCTTCACTACGAATTTCTTATGGGATC-CATTGCA
192 CCCATCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGA-TGCA
565886 TTAGTGCTGG
256 TTAGTGCTGG
565896 CTGTTAGGAC
Statistics
Matches: 2602, Mismatches: 672, Indels: 366
0.71 0.18 0.10
Matches are distributed among these distances:
268 3 0.00
269 13 0.00
270 24 0.01
271 44 0.02
272 3 0.00
275 1 0.00
277 4 0.00
278 14 0.01
279 8 0.00
280 79 0.03
281 80 0.03
282 6 0.00
283 16 0.01
284 8 0.00
285 14 0.01
286 183 0.07
287 96 0.04
288 296 0.11
289 189 0.07
290 78 0.03
291 241 0.09
292 62 0.02
293 225 0.09
294 59 0.02
295 235 0.09
296 520 0.20
297 93 0.04
298 8 0.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (289 bp):
CACCCTTAATTTATTTAAACGCTTCTCCAAGTAACCATTTTCTTTCGACTAATTCTTAAAATATT
TAATTTTACGATCCCGACTCTTTTCCCGCTCGTTCCACCCGACATTTAAAAAAATACCAAAAAAT
TAAGATAAAGTATAAAATTTCAAAAAAATAGGGATGCAACACGAGAACTTCCTGGAGGTCACCCA
TCCTAGTACTACTCTCGCCCAAGCAGGCTTGACTATGGAGTTCTAATGGGATCTGATGCATTAGT
GCTGGTATGATCGCACCCTTCATGTCTTG
Found at i:565105 original size:291 final size:289
Alignment explanation
Indices: 564484--565117 Score: 612
Period size: 291 Copynumber: 2.2 Consensus size: 289
564474 CCTTTATCCC
* * * * * *
564484 TCTCCATGAAACCATTTTCTTCCAACTAATCCTT-AAATATTTAATTTTCCAATCCATGGTTCTT
1 TCTCCAAGTAACCATTTTCTTCCAACTAATACTTAAAATATTTAATTTTGCGATCCATGCTTCTT
* * * *
564548 TTCCTACTCGTTCCACCAGACTCTTTAAAAACACCAAAAATTAAGATAAAGTATTAAATTTCGTA
66 GTCCTACTCATTCCACCAGACTCTTTAAAAAAACCAAAAATTAAGATAAAGTATGAAATTTCG-A
** ** *
564613 ATAAAAGAGGGGTGCAACATTATAACTTCCGTGGAGGTCATCCATCCTAGCACCACTCCCGCACA
130 ATAAAAGAAAGGTGCAACATTAT-ACTTCCCAGGAGGTCATCCATCCTAGCACCACTACCGCACA
* * *
564678 AGAATGCTTGACTACGGAGTTCTGATGGGATCCGTTGCATTAATACTGGCATGATCGCACTGTTC
194 AGAATGCTTGACTACGAAGTTCTGATGGGATCCGTTGCATTAATACTGGCATGATCACACTCTTC
* *
564743 ATGTATTTCGCCTTTAATTTATTTAAACGCT
259 ATGTATTGCGCCTTTAATTTATATAAACGCT
* * * * * ** *
564774 TCTCCATGTAACTATGTTATTCCGAA-TAAAACAAAAAATATTTAATTTTGCGATACCCTGCTT-
1 TCTCCAAGTAACCATTTTCTTCC-AACTAATACTTAAAATATTTAATTTTGCGAT-CCATGCTTC
*
564837 TTGTCC-ATTTCATTCCACCCATG-CTCTTTTGAAAAAAAAACCAAAAATTAAGATAAAGTATGA
64 TTGTCCTA-CTCATTCCA-CCA-GACTC-TTT---AAAAAAACCAAAAATTAAGATAAAGTATGA
* * * *
564900 AATTTC-AA-AAAA-AAAGGTGCAACAGTTGAT-TTTCCCAGGAGGTCA-CCATCCTTGTACTAC
122 AATTTCGAATAAAAGAAAGGTGCAACA-TT-ATACTTCCCAGGAGGTCATCCATCCTAGCACCAC
* * * * * *
564960 TACCGCCCAAGCATGCTTGACTACGAAGTTCTGATGGGAT-CTTGTGCATTAGTGCTGGTATGAT
185 TACCGCACAAGAATGCTTGACTACGAAGTTCTGATGGGATCCGT-TGCATTAATACTGGCATGAT
* * **
565024 CACA-TCCTTCGTGTCTTGCGCCCTTT-ATTTACTAT-AATTCT
249 CACACT-CTTCATGTATTGCG-CCTTTAATTTA-TATAAACGCT
* *
565065 TCTCTAAGTAACCATTTTCTTCCAACTAATACTTAAAATATTTGATTTTGCGA
1 TCTCCAAGTAACCATTTTCTTCCAACTAATACTTAAAATATTTAATTTTGCGA
565118 ACTCTGACTC
Statistics
Matches: 277, Mismatches: 50, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
290 29 0.10
291 159 0.57
292 41 0.15
293 10 0.04
294 4 0.01
296 34 0.12
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (289 bp):
TCTCCAAGTAACCATTTTCTTCCAACTAATACTTAAAATATTTAATTTTGCGATCCATGCTTCTT
GTCCTACTCATTCCACCAGACTCTTTAAAAAAACCAAAAATTAAGATAAAGTATGAAATTTCGAA
TAAAAGAAAGGTGCAACATTATACTTCCCAGGAGGTCATCCATCCTAGCACCACTACCGCACAAG
AATGCTTGACTACGAAGTTCTGATGGGATCCGTTGCATTAATACTGGCATGATCACACTCTTCAT
GTATTGCGCCTTTAATTTATATAAACGCT
Found at i:570955 original size:297 final size:293
Alignment explanation
Indices: 570288--570994 Score: 769
Period size: 294 Copynumber: 2.4 Consensus size: 293
570278 AGCTAGGCTG
* ** * *
570288 ATGGGATTTATTGCATTAGTTCTGGCATGATCGCA-ATATTCATGTCTTTCGCCCATAATTTAAT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCA-TCATGTCTTTCACCCTTAATTT-AT
* * ** * *
570352 TAAATACTTCTCCATGTAACCATTTTCTTCTAAATAATACAAAAAATATTTACTTTTGTGATACT
64 TAAATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTACTTTTATGATACC
** *
570417 TTGCTATTTTCCCGCTCGTTCCACACAAGCTATTTAAAAAAATACACAAAAAATTAAGATAAAGT
129 TAACTATTTTCCCGCTCGTTCCACACAAGCTATTTAAAAAAAAACACAAAAAATTAAGATAAAGT
** * * * * * * *
570482 ATGAAATTTCGAAAAAAAGATGGGTGCAACATGATATTTTTCCAGGAGGTTACCATCCTTGTACT
194 ATGAAATTTAAAAAAAAAGAGGGGTGCAACACGACATCTTCCCAGAAGGTTACCATCCTAGTACT
* * ** ** *
570547 ACGATCGCCCAAACACGTTTGGCTACGGAGTTCTG
259 ACGATCACCCAAACACGCTTCACTACAAAGTTCTA
* * * *
570582 ATGGGATTCATTGCATTAGTGCTAGCATGATCGCACCC-TCTGTGTCTTTCACCCTTTATTTATT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATC-ATGTCTTTCACCCTTAATTTATT
* * *
570646 ATAATGCTTCTCCAAGTAACCATTTTCTTCCAACTAATCCTTAAAATATTTGA-TTTTATGATAC
65 A-AATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTT-ACTTTTATGATAC
* * * * * * *
570710 CTAACTCTTTTCCCGCTCGTTCCACCCATGTTTTTTAAAAAAAAAACATAAAAAATTAAGATAAC
128 CTAACTATTTTCCCGCTCGTTCCACACAAGCTATTT-AAAAAAAAACACAAAAAATTAAGATAAA
570775 GTAT-AAATTTTAAAAAAAAAAGAGGGGTGCAACACGAGCA-CTTCCCAGAAGGTTACCCATCCT
192 GTATGAAA-TTT-AAAAAAAAAGAGGGGTGCAACACGA-CATCTTCCCAGAAGGTTA-CCATCCT
* ** ** *
570838 AGTATTACTCTCACCCATGCACGCTTCACTGCAAAGTTCTA
253 AGTACTACGATCACCCAAACACGCTTCACTACAAAGTTCTA
* * * *
570879 ATGGGATTTGTTGTATTAGTGCTGGTATGATCGCACCCATCATGTCTTGCACCCTTAATTTATTT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATCATGTCTTTCACCCTTAATTTA-TT
*
570944 AAACT-CTTCTCCATGTAACCATTTTCTTCTAACTTATCCTTAAAATATTTA
65 AAA-TACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTA
570995 ATATTGTGAC
Statistics
Matches: 340, Mismatches: 61, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
293 6 0.02
294 131 0.39
295 33 0.10
296 34 0.10
297 130 0.38
298 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (293 bp):
ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATCATGTCTTTCACCCTTAATTTATTA
AATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTACTTTTATGATACCTA
ACTATTTTCCCGCTCGTTCCACACAAGCTATTTAAAAAAAAACACAAAAAATTAAGATAAAGTAT
GAAATTTAAAAAAAAAGAGGGGTGCAACACGACATCTTCCCAGAAGGTTACCATCCTAGTACTAC
GATCACCCAAACACGCTTCACTACAAAGTTCTA
Found at i:571044 original size:297 final size:292
Alignment explanation
Indices: 570288--571047 Score: 753
Period size: 297 Copynumber: 2.6 Consensus size: 292
570278 AGCTAGGCTG
* ** * *
570288 ATGGGATTTATTGCATTAGTTCTGGCATGATCGCA-ATATTCATGTCTTTCGCCCATAATTTAAT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCA-TCATGTCTTTCACCCTTAATTT-AT
* * ** * *
570352 TAAATACTTCTCCATGTAACCATTTTCTTCTAAATAATACAAAAAATATTTACTTTTGTGATACT
64 TAAATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTAATTTTGTG--ACC
* * * * *
570417 TTG-CTATTTTCCCGCTCGTTCCACACAAGCTATTT-AAAAAAATACACAAAAAATTAAGATAAA
127 CTGACTACTTTCCCGCTCGTTCCAC-CATGCTTTTTAAAAAAAAAACACAAAAAATTAAGATAAA
** * * * * * * *
570480 GTATGAAATTTCGAAAAAAAGATGGGTGCAACATGATATTTTTCCAGGAGGTTACCATCCTTGTA
191 GTATGAAATTTAAAAAAAAAGAGGGGTGCAACACGACATCTTCCCAGAAGGTTACCATCCTAGTA
* * ** ** *
570545 CTACGATCGCCCAAACACGTTTGGCTACGGAGTTCTG
256 CTACGATCACCCAAACACGCTTCACTACAAAGTTCTA
* * * *
570582 ATGGGATTCATTGCATTAGTGCTAGCATGATCGCACCC-TCTGTGTCTTTCACCCTTTATTTATT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATC-ATGTCTTTCACCCTTAATTTATT
* * * * * *
570646 ATAATGCTTCTCCAAGTAACCATTTTCTTCCAACTAATCCTTAAAATATTTGATTTTATGATACC
65 A-AATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTAATTTTGTGA-CCC
* * * *
570711 TAACT-CTTTTCCCGCTCGTTCCACCCATGTTTTTTAAAAAAAAAACATAAAAAATTAAGATAAC
128 TGACTAC-TTTCCCGCTCGTTCCA-CCATGCTTTTTAAAAAAAAAACACAAAAAATTAAGATAAA
570775 GTAT-AAATTTTAAAAAAAAAAGAGGGGTGCAACACGAGCA-CTTCCCAGAAGGTTACCCATCCT
191 GTATGAAA-TTT-AAAAAAAAAGAGGGGTGCAACACGA-CATCTTCCCAGAAGGTTA-CCATCCT
* ** ** *
570838 AGTATTACTCTCACCCATGCACGCTTCACTGCAAAGTTCTA
252 AGTACTACGATCACCCAAACACGCTTCACTACAAAGTTCTA
* * * *
570879 ATGGGATTTGTTGTATTAGTGCTGGTATGATCGCACCCATCATGTCTTGCACCCTTAATTTATTT
1 ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATCATGTCTTTCACCCTTAATTTA-TT
* * *
570944 AAACT-CTTCTCCATGTAACCATTTTCTTCTAACTTATCCTTAAAATATTTAATATTGTGACCCC
65 AAA-TACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTAATTTTGTGACCCT
**
571008 GACTACTTTCCTACTCGTTCCACCATGACATTTTTAAAAA
129 GACTACTTTCCCGCTCGTTCCACCATG-C-TTTTTAAAAA
571048 TACCAAAAAT
Statistics
Matches: 376, Mismatches: 72, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
292 1 0.00
293 7 0.02
294 124 0.33
295 38 0.10
296 52 0.14
297 148 0.39
298 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (292 bp):
ATGGGATTTATTGCATTAGTGCTGGCATGATCGCACCCATCATGTCTTTCACCCTTAATTTATTA
AATACTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAAATATTTAATTTTGTGACCCTGA
CTACTTTCCCGCTCGTTCCACCATGCTTTTTAAAAAAAAAACACAAAAAATTAAGATAAAGTATG
AAATTTAAAAAAAAAGAGGGGTGCAACACGACATCTTCCCAGAAGGTTACCATCCTAGTACTACG
ATCACCCAAACACGCTTCACTACAAAGTTCTA
Found at i:571311 original size:21 final size:21
Alignment explanation
Indices: 571285--571329 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
571275 GACACGAGAA
*
571285 CTTCACGGGAGGTAACCCTTC
1 CTTCACGGGAGGTAACCCGTC
* *
571306 CTTCACGGGTGGTCACCCGTC
1 CTTCACGGGAGGTAACCCGTC
571327 CTT
1 CTT
571330 ATACAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.36, G:0.24, T:0.27
Consensus pattern (21 bp):
CTTCACGGGAGGTAACCCGTC
Found at i:581479 original size:293 final size:294
Alignment explanation
Indices: 580891--582620 Score: 971
Period size: 293 Copynumber: 5.9 Consensus size: 294
580881 CAAGTCATTT
* * * * ** * *
580891 GCCCTTAATTTATTTAAATGCTTCTCCATGTAAGCATTTTATTCCAACTAAACCATAAAATATTT
1 GCCCTTAATTTATTTAAAAGCTTCTCAATGTAACCA-TTTCTTCTGACTAATCCTTAAAATATTT
* * * * * * * *
580956 AAATTTGCGATCCCC-AA-CTAAT-TTCCCGCTCATTCCACCCATG-CTC-TTTAAAAAACAACA
65 AATTTTGTGATCCCCGAATCT--TGTT-CCTCACGTTCCGCCC-CGACTCTTTTAAAAAAGAACA
* * * * * * * * *
581016 CCA-AAAAATTAAGATAAAGTATAAAATTTTGGAAAAAGACGGGTTCAACACGATAATTTCCTAG
126 TCACAAAAATTAAAATAAAGTATAAAATTTTGAAAAAATA-GGGTGCAACAAGAGAACTTCCCAG
* * * * * * *
581080 GAGGTCACCCATCCTGGTACTACACTCCCCCAAGCATGCTTGACTACAGAGTTCTCATGGGATCC
190 GAGGTTACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGATCC
* * * * *
581145 GCTGCATTAGTACTGGTATGATCGCACTCTTCGTGTCTTGC
255 -ATGCATTAGTGCTGGTATGATCGCACCCATCATGTCTTGC
* * * *
581186 GCCCTTAATTTA-TTATAACGCTTCTCAAAGTAACCATTTCTTCTAACTCATCCTTAAAATATTT
1 GCCCTTAATTTATTTA-AAAGCTTCTCAATGTAACCATTTCTTCTGACTAATCCTTAAAATATTT
* * * * * *
581250 AATTTTGTGATCTCTGAATC-TGTTCTTGCACGTTCTTG-CCCGACTTTTTTTACAAAA-AA-A-
65 AATTTTGTGATCCCCGAATCTTGTTCCT-CACGTTC-CGCCCCGAC-TCTTTTAAAAAAGAACAT
*
581310 C-CAAAAATTAAAATAAAGTATAAAATTTTTGAAAAAATAGGGGTGCAACATGAGAACTTCCCAG
127 CACAAAAATTAAAATAAAGTATAAAA-TTTTGAAAAAATA-GGGTGCAACAAGAGAACTTCCCAG
* * * *
581374 GAGGTTACACATCATAGTACTACTCTCGCCCTAGCACGCTTTACTAC-GATGTTCTAATGGGATC
190 GAGGTTACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGA-GTTCTAATGGGATC
* * *
581438 TATTCATTAGTGCT-GTAATGATCACACCCATCATGTCTTGC
254 CATGCATTAGTGCTGGT-ATGATCGCACCCATCATGTCTTGC
** ** * * * *
581479 GCTATTAATTTATTTAAAATATTCTCCATGTAACCATTT-TTCGGACTAACCCTTTAAATATTTA
1 GCCCTTAATTTATTTAAAAGCTTCTCAATGTAACCATTTCTTCTGACTAATCCTTAAAATATTTA
** * *
581543 ATTTTGTGATCCCCGGCTCTTTTTCCTCTCGTTCCGCCCCGACTCTTTTAAAAAAGAACATCAAC
66 ATTTTGTGATCCCCGAATCTTGTTCCTCACGTTCCGCCCCGACTCTTTTAAAAAAGAACATC-AC
* * * * * ** ***
581608 AAAAATTAATATAAAGTAT-AAATATCGAAAAAATAGGGTGTAACAAGCGGGCTTCTGGGGAGGT
130 AAAAATTAAAATAAAGTATAAAATTTTGAAAAAATAGGGTGCAACAAGAGAACTTCCCAGGAGGT
* * * * *
581672 TACCCATCCTAGTATTACTCTCGCCCAAGCACGCTTAACTACAGAGTTTTAATTGGACCCATGGA
195 TACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGATCCAT-GC
* * *
581737 ATTAGTGTTGGTATGATCGTACCCATCATGGCTTGC
259 ATTAGTGCTGGTATGATCGCACCCATCATGTCTTGC
* *
581773 GCCCTTAATTTATTTAAATGCTTCTTAATGTAACCATTTTCTT-TCGACTAATCCTTAAAATATT
1 GCCCTTAATTTATTTAAAAGCTTCTCAATGTAACCA-TTTCTTCT-GACTAATCCTTAAAATATT
* *** * *
581837 TAA--TT-TGATCCCC-ATAT-TTTTTCC-CAC-TCGTCTAACCAG-CATCATTT--AAAA-AA-
64 TAATTTTGTGATCCCCGA-ATCTTGTTCCTCACGT--TCCGCCCCGAC-TCTTTTAAAAAAGAAC
* * * * * * * * *
581890 ATAACAGAAATTGAGATAAAGTATAAAA-ATAGAAAAAATAGGGGGTACAACATGAGGACTTCCC
125 ATCACAAAAATTAAAATAAAGTATAAAATTTTGAAAAAATA--GGGTGCAACAAGAGAACTTCCC
* * * ** * *** *
581954 AGGAGGTCACCCAT-C-A-T--TACTATCACCCAAGCGGGCTTGACTGTGGAGTTATAATGGGAT
188 AGGAGGTTACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGAT
* * * * * *
582014 CCGGTGCATTAGTACTTGTATGATCACACCCTTCATGTCTTAC
253 CC-ATGCATTAGTGCTGGTATGATCGCACCCATCATGTCTTGC
* * * * * *
582057 CCCCTTAATTTATTTCAACGCTTCTCCATGCAACCATTTTCTTTCT-ACTATTCCTT-AAATATT
1 GCCCTTAATTTATTTAAAAGCTTCTCAATGTAACCA-TTTC-TTCTGACTAATCCTTAAAATATT
* * * * *
582120 TAATTTTGTAATCCCAC-ATTATT-TTCCTGCTCGTTCCACCCCGACTC-TTT---AAA-AA-AT
64 TAATTTTGTGATCCC-CGAATCTTGTTCCT-CACGTTCCGCCCCGACTCTTTTAAAAAAGAACAT
* * * ** * * * *
582177 GC-CAAAAATTAAGATAAAGTAAAAAAATTCAAAAAAAGAGGGGTACAATATGAGAACTTCCCTA
127 -CACAAAAATTAAAATAAAGTATAAAATTTTGAAAAAATA-GGGTGCAACAAGAGAACTTCCC-A
* * ** * * * * ** *
582241 -GA-GTTCACCCATCCTTGTACTACACTTACCTAAGCATGCTTGACTACAGAATTCTGCTAGGAT
189 GGAGGTT-ACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGAT
*** * * ** * * * * *
582304 TTGTGGCATTACTGCTGGCATGATCATACTCTTCATGTATCGT
253 CCAT-GCATTAGTGCTGGTATGATCGCACCCATCATGTCTTGC
* * * **
582347 GCCCATAATTTAATTAAACAG-TTCTCCATGTAACCATTTTCTTCCAACTAATCCTTAAAATATT
1 GCCCTTAATTTATTTAAA-AGCTTCTCAATGTAACCA-TTTCTTCTGACTAATCCTTAAAATATT
* * * * * * * *
582411 TAATTTTGTGATCCCCGACTATT-ATCCTGCTCATTCCACCCAGACT-TTTT-AAAAA-AACAAC
64 TAATTTTGTGATCCCCGAATCTTGTTCCT-CACGTTCCGCCCCGACTCTTTTAAAAAAGAACATC
* * * * * *
582472 ACCAAAAATTAAGATAAAGTATACAATTTTGAAAAAA-ATGGTGCAACAGGAGAA-TTTCCTGGA
128 A-CAAAAATTAAAATAAAGTATAAAATTTTGAAAAAATAGGGTGCAACAAGAGAACTTCCCAGGA
* * * * * * * * *
582535 TGGTCACCCATCCTTGTACAACTCTCGTCCAAGCAAGTTTTACTACAGAGTCCTAATGGGATACG
192 -GGTTACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGAT-CC
* * *
582600 TTGAATTAGTGATGGTATGAT
255 ATGCATTAGTGCTGGTATGAT
582621 TGTACCTATT
Statistics
Matches: 1117, Mismatches: 248, Indels: 142
0.74 0.16 0.09
Matches are distributed among these distances:
283 10 0.01
284 109 0.10
285 62 0.06
286 26 0.02
287 42 0.04
288 10 0.01
289 35 0.03
290 105 0.09
291 64 0.06
292 74 0.07
293 248 0.22
294 211 0.19
295 71 0.06
296 50 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (294 bp):
GCCCTTAATTTATTTAAAAGCTTCTCAATGTAACCATTTCTTCTGACTAATCCTTAAAATATTTA
ATTTTGTGATCCCCGAATCTTGTTCCTCACGTTCCGCCCCGACTCTTTTAAAAAAGAACATCACA
AAAATTAAAATAAAGTATAAAATTTTGAAAAAATAGGGTGCAACAAGAGAACTTCCCAGGAGGTT
ACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAACTACAGAGTTCTAATGGGATCCATGCAT
TAGTGCTGGTATGATCGCACCCATCATGTCTTGC
Found at i:583221 original size:287 final size:286
Alignment explanation
Indices: 582735--585580 Score: 852
Period size: 289 Copynumber: 9.8 Consensus size: 286
582725 TGATAAAATT
* * ** * * *
582735 ATAAAATTTTGAAAAATAGGGGTGCAACACGAGGACTT-CTAGAAGGTCACCCATTATAGTACCA
1 ATAAAATTTTGAAAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACCA
** * * *
582799 CTCTCGCCCAAGCGA-GCTTGACTTTGGAGTTCTAATGGGTTCCGTT-ATATTAGTACTGGTATT
66 CTCTCGCCCAAGC-ATGCTTGAC-TAAGAGTTCTGATGGGATCCGTTGA-ATTAGTACTGGTATG
* * * * * * * *
582862 ATCGCACCCTTT-ATGTCGTGCGCCCTTAACTTATTTGAACGCTTCT-TAGTGTAAACATTTTCT
128 ATCGCA-CCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCA-TGTAACCATTTTCT
* * * *
582925 TCCGACTAATCCTTAAATATTTAATTTTGCAAAT-CTCAGTTTTTTCCCGCTCATTCCATCC-AG
191 TCAGACTAATCCTTAAATATTTAATTTTGC-AATCCTCACTCTTTTCCCGCTCATT-CAACCTAG
*
582988 A-T-CATAAAAAAACCCAAAAATTAAGATAAAGA
254 ACTCCATAAAAAAA-CCAAAAAATAAGATAAAGA
*
583020 ATAAAATTTTGAAAAAAATGGGGTGCAACATGAGAACTTCCCGGGAGGTCACCCATTCTTGTACC
1 ATAAAATTTTGAAAAAAA-GGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACC
** * *
583085 ACTCTCGCATAAGCATGCTTGACTACAGAGTTCTGTTGGGATCCGTTGAATTAGTACTGGCATGA
65 ACTCTCGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTGGTATGA
** * *
583150 TCGCACCTTTCATAACTTTCGCCCATAATTTATTTAAACAATTCTCCATGTAACCAGTTTCTTCA
129 TCGCACCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCTTCA
* * * * *
583215 GACTAATCCATAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCTGCTCATTCAACCTATACT
194 GACTAATCC-TTAAATATTTAATTTTGCAAT-CCTCACTCTTTTCCCGCTCATTCAACCTAGACT
* *
583280 CCTTAAAAAAACCAAAAAATAAGATAAAGT
257 CCATAAAAAAACCAAAAAATAAGATAAAGA
* * ** * * * *
583310 AT-AAATTTAAGAAAAAGACAGGTACAACACAAGAATTTCCCGGGAGGTCACCCA-TCATTATAC
1 ATAAAATTT-TGAAAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTC-TTGTAC
* * * * * * *
583373 TAATCTCGCCCAAGCATGATTGACTATGTAGTTCTGATGGGATCCGATGCATTAGTGCTGGTATG
64 CACTCTCGCCCAAGCATGCTTGACTAAG-AGTTCTGATGGGATCCGTTGAATTAGTACTGGTATG
* * *
583438 ATCACACCATTCATGTCTTGT-G-CCATTAATTTA-TTATAACACTTCTCCAAGTAACCATTTTC
128 ATCGCACCTTTCATGTCTT-TCGCCCA-TAATTTATTTA-AACACTTCTCCATGTAACCATTTTC
* * * * * * *
583500 TTCCA-ATTAATCCTTAAAATATTTAATTTTGTAATCCCCGATTCTTTTCCTGCTCGTTCTACCT
190 TT-CAGACTAATCCTT-AAATATTTAATTTTGCAATCCTC-ACTCTTTTCCCGCTCATTCAACCT
* * * * * * *
583564 TGGCTCTTTTTACAAAAAAATGCACTAAAATTAAGATAAAGT
252 AGACTC----CATAAAAAAA--C-CAAAAAATAAGATAAAGA
* ** * * * *** * ** * *
583606 ATAAACTTTCAAAAAAATAGGGGTACAACACGAGTACATCCAATGAGGTTA-CCACCCTAGTACT
1 ATAAAATTTTGAAAAAA-AGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACC
** * * * * * * * * **
583670 ACTCTCATCCAAACACGATTCACTACGAAGTTCTAATGGAATCCATTTCATTAATGT-C-GGTAT
65 ACTCTCGCCCAAGCATGCTTGACTAAG-AGTTCTGATGGGATCCGTTGAATT-A-GTACTGGTAT
* ** * * * * *
583733 GATTGCACCCATCATTTCTTGT-GCCCTTAATATATTTAAACTCTTCTCCATGTAACCATGTTCT
127 GATCGCACCTTTCATGTCTT-TCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCT
** * * ** * * ** *
583797 TCCCATTAATCATTAAAATATTTAATTTTGTGATCTCTGACTCTTTTCCCACTTTTTCCACCCTA
191 TCAGACTAATCCTT-AAATATTTAATTTTGCAATC-CTCACTCTTTTCCCGCTCATT-CAACCTA
** * *
583862 G-CTCTTTTTAAAACGAACAACAAGAAAATTAAGATAAAGT
253 GACTC--CATAAAA--AA-ACCAA-AAAA-TAAGATAAAGA
* * * ** * * * * *
583902 AT-AAAGTAT-CAAAAAAGAGGGTAAAACACGAGGAC-TACCGAGGAGGTCACCCATCCTAGTAT
1 ATAAAATTTTGAAAAAAAG-GGGTGCAACACGAGAACTTCCCG-GGAGGTCACCCATTCTTGTAC
* * * * * * * ** **
583964 TACTCTCACACAAGCATGATTAACTATAGAGTTTTAATGGGATCCGGGGAATTAGTGTTGGTATG
64 CACTCTCGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTGGTATG
* * * * * *
584029 ATCGCCCCTAAT-ATATCTTGCCCCCTTAATTTATTT-AA-A--T-TCCATGTAACCATTTTCTT
128 ATCGCACCT-TTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCTT
* * * * * * ** * * *
584088 CTGCCTAATCCTTAAA-ATATTAATATTACAATCCCCGAAC-CATTTAACTCTCGTTCTACCCTA
192 CAGACTAATCCTTAAATAT-TTAATTTTGCAATCCTC--ACTCTTTTCCCGCTCATTC-AACCTA
*** * * *
584151 -A-TATTTTAAAAAATA-CAAAAACTTTAGATAAAGT
253 GACT-CCATAAAAAA-ACCAAAAA-ATAAGATAAAGA
** * * *
584185 ATACATCTTTTGAAAAATATTA-GGGTGCAACACGAGGATTTCCAC--GAGGTCACCCA-TCATA
1 ATA-AAATTTTGAAAAA-A--AGGGGTGCAACACGAGAACTTCC-CGGGAGGTCACCCATTC-TT
* *** * * * * * * *
584246 GTACTACT-TCCGCCCAAGTGGGCTAGACTACGGAGTTCTAATGGTATCCGGTGCATTAGTACTA
60 GTACCACTCT-CGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTG
* * * * * * * * *** * ** *
584310 GTATGATCGCACCCTTCATCTCTTGCACCCTTCATGTCTGGCATC-CTTCGTTTATTTAAACACT
123 GTATGATCGCACCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTC-TCCATGT--A-AC-
* * * * ***
584374 AAACGATTTTCTTCCGACTAATGCTTAAATATTAAATTTTACGATAT-CTGGTTC-TTTCCCTGC
183 ---C-ATTTTCTTCAGACTAATCCTTAAATATTTAATTTTGC-A-ATCCTCACTCTTTTCCC-GC
* * * * * *
584437 TCGTTCCACCTA-A-TTCTTAAAAAAACACCAAAAACTAAGATAAAGT
241 TCATTCAACCTAGACTCCAT-AAAAAA-ACCAAAAAATAAGATAAAGA
* * * * **
584483 ATAAAA-TTTCAAAAAAAAGGGTGCCACA-G-GAACTTCTCAAGAGGTCACCCATTCTTGTACCA
1 ATAAAATTTTGAAAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACCA
* * * * * * * * * *
584545 CTATCGCACAAGCATGCATGATTACAGAGTTTTGATGGGATCCGTTGCATTTGTGCTGGCATTAT
66 CTCTCGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTGGTATGAT
* * * * *** *
584610 CACATCC-TTCATGTCTTTCACCCTTAATTTATTTAAACACTTTTATTTGTAACCATTTTCTTCC
130 CGCA-CCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCTTCA
*** ** * * * * ** ** *
584674 GACTAATCAAAAAATATTTAATTTTGTGATCCCCGAATATTTTCCAGCTTGTTCCGCCCATG-CT
194 GACTAATCCTTAAATATTTAATTTTGCAATCCTC-ACTCTTTTCCCGCTCATTCAACCTA-GACT
** * * *
584738 CTTTAAAAAACACCAAAAATTAAGATAATGT
257 CCATAAAAAA-ACCAAAAAATAAGATAAAGA
** * * ** * * ** *
584769 ATAAAATTTCAAAAAAAAAAAAAAGTGGTGTAACAAAATAATTTTTCGGGAGGTCACCCATCCTT
1 ATAAAATTT------TGAAAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTT
* * * * * * * *
584834 GTACTACTCTCACCCAAGCA-ACTTGACTATTGAGTTCTGAAGGGATCCGATGTATTAGTGCTGG
60 GTACCACTCTCGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTGG
* * * * * *
584898 TATGATTGCACCCTTCGTTTCTTGCGCCC-TAAATTTA-TTATAACACTTCTCCAAGTAACCATT
124 TATGATCGCACCTTTCATGTCTTTCGCCCAT-AATTTATTTA-AACACTTCTCCATGTAACCATT
* * * * * * * * * *
584961 TTCTTCCGACTAACCCATAAAATATTAAATTTTACGATCCCCGACACTTTTCCC-ATTATTGC-A
187 TTCTTCAGACTAATCC-TTAAATATTTAATTTTGCAATCCTC-ACTCTTTTCCCGCTCATT-CAA
* ** ** *
585024 CCAAGGGTCTTTAAAAAACAACACTAAAAATTAAGATAAAG-
249 CCTAGACTCCAT-AAAAA-AAC-C-AAAAAATAAGATAAAGA
* * * * * ** * * *
585065 -TGAAAATTTTCGACAAGAGAGGTGTACAACACAAGATTTTCCCAGGAGGTCACCCATCCTTCTA
1 AT-AAAATTTT-GA-AAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTA
* * ** ** * * * * *
585129 CTACTCTCGCCTAATAACACTTGACTATAGAATTTTGATAGGAT---TTGCATTAGTGCTGGTAT
63 CCACTCTCGCCCAAGCATGCTTGACTA-AGAGTTCTGATGGGATCCGTTGAATTAGTACTGGTAT
** * * * * * *
585191 GATCAAACCCTTCATGTCTTGCG-CCATTACTTTA-ATACAACGCTTC-CCAAGTAACCATTTTC
127 GATCGCACCTTTCATGTCTTTCGCCCA-TAATTTATTTA-AACACTTCTCCATGTAACCATTTTC
* * *** ** * * * * *
585253 TTCCGACTAATGCTTAAAATATTTAATTTTATGATGTATGACTCTTTTCCCACACGTTTCAGCC-
190 TTCAGACTAATCCTT-AAATATTTAATTTTGCAAT-CCTCACTCTTTTCCCGCTC-ATTCAACCT
* * * *
585317 -GACTTTTTTAAACAAAAAATAAACCAAAAATTAAGATAAAGT
252 AGAC-----T--CCATAAAA-AAACCAAAAAATAAGATAAAGA
* * * * * * * * *
585359 ATAAAAATTCGAAAAAAAGGGGGTCCAACACGAGTACTTCCCAGGAGGTTACCCATCCTAGTACT
1 ATAAAATTTTGAAAAAAA-GGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACC
* * * * * * * * * * * *
585424 ACTCTTGCCCAAGCACGCTTCACTATGAAGATCTAATGTGATCTGTTGCATTCGTTCTAGTATGA
65 ACTCTCGCCCAAGCATGCTTGACTAAG-AGTTCTGATGGGATCCGTTGAATTAGTACTGGTATGA
* ** * * * * * * *
585489 TCACACCCATCAAGTCTTTCACCCTTAATTTATTTAAACTCTTCTCCATGCAACCATTTTCATCC
129 TCGCACCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCTTCA
*
585554 GACAAATCCTTAAAATATTTAATTTTG
194 GACTAATCCTT-AAATATTTAATTTTG
585581 TGATCTCGGA
Statistics
Matches: 1931, Mismatches: 478, Indels: 292
0.71 0.18 0.11
Matches are distributed among these distances:
283 17 0.01
284 4 0.00
285 68 0.04
286 152 0.08
287 153 0.08
288 43 0.02
289 295 0.15
290 109 0.06
291 22 0.01
292 60 0.03
293 232 0.12
294 166 0.09
295 171 0.09
296 250 0.13
297 107 0.06
298 33 0.02
299 43 0.02
300 4 0.00
301 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (286 bp):
ATAAAATTTTGAAAAAAAGGGGTGCAACACGAGAACTTCCCGGGAGGTCACCCATTCTTGTACCA
CTCTCGCCCAAGCATGCTTGACTAAGAGTTCTGATGGGATCCGTTGAATTAGTACTGGTATGATC
GCACCTTTCATGTCTTTCGCCCATAATTTATTTAAACACTTCTCCATGTAACCATTTTCTTCAGA
CTAATCCTTAAATATTTAATTTTGCAATCCTCACTCTTTTCCCGCTCATTCAACCTAGACTCCAT
AAAAAAACCAAAAAATAAGATAAAGA
Found at i:584339 original size:16 final size:16
Alignment explanation
Indices: 584318--584358 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
584308 TAGTATGATC
*
584318 GCACCCTTCATCTCTT
1 GCACCCTTCATCTCTG
*
584334 GCACCCTTCATGTCTG
1 GCACCCTTCATCTCTG
*
584350 GCATCCTTC
1 GCACCCTTC
584359 GTTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.34
Consensus pattern (16 bp):
GCACCCTTCATCTCTG
Found at i:590985 original size:288 final size:285
Alignment explanation
Indices: 590612--591206 Score: 665
Period size: 288 Copynumber: 2.1 Consensus size: 285
590602 GCTTTTACTT
* * *
590612 GTAACCATTTTCTTCCGACTAATCAAAAAATATTTAATTTTATGATCCTCGACTAATTTTCTGCT
1 GTAACCATTTTCTTCCGACTAACCAAAAAATATTTAATTTTATGATCCCCGACTAATTTTCAGCT
* *
590677 CGTTCCTCCCATGCTCTTT-AAAAAACACCAAAAATTAAGATAATGAATAAAATTTTAAAAACAC
66 CGTTCCACCAATGCTCTTTAAAAAAACACCAAAAATTAAGATAA--AATAAAATTTTAAAAACA-
**
590741 TTGGTGTA-ACACAAGA-ATTTCCCG-GGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCA-
128 GAGGTGTACA-ACAAGAGATTTCCCGAGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCAC
* * * * * *
590802 ACTTGACTAT-TGAGTTCTGA-AGGGATCCGGTGTATTAGTGCTGGTATGATTGCACCCTTCGTG
192 ACTTGACTATAT-AGTTCTGATA-GGAT-C--TGCATTAGTGCCGGTATGATCGAACCCTACATG
** * *
590865 TCTTGTTCC-TTGAGTTTATTATAACACTTCTCCAA
252 TCTTGCGCCATT-AATTTATTACAACACTTC-CCAA
* *
590900 GTAACCATTTTCTTCCGACTAACCCATAAAATATTTAATTTTATGATCCCCGAC-ACTTTTCCCA
1 GTAACCATTTTCTTCCGACTAA-CCAAAAAATATTTAATTTTATGATCCCCGACTAATTTT--CA
* * * * ** *
590964 G-T-GTTGCACCAAGTG-TCTTTAAAAAAAAACACTAAAAATTAAGATAAAGTGATTTTTTTAAA
63 GCTCGTTCCACCAA-TGCTCTTT--AAAAAAACACCAAAAATTAAGATAAAATAAAATTTTAAAA
* * * *
591026 AGAGAGGTGTGCAACAAGAGATTTTCCGAGGAGGTCACCCATCCTTGTACTACTCTCGCCCAATC
125 ACAGAGGTGTACAACAAGAGATTTCCCGAGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGC
591091 ACACTTGACTATATAGTTCTGATAGGATCTGCATTAGTGCCGGTATGATCGAACCCTACATGTCT
190 ACACTTGACTATATAGTTCTGATAGGATCTGCATTAGTGCCGGTATGATCGAACCCTACATGTCT
* *
591156 TGCGCCATTAATTTATTCCAACGCTTCCCAA
255 TGCGCCATTAATTTATTACAACACTTCCCAA
591187 GTAACCATTTTCTTCCGACT
1 GTAACCATTTTCTTCCGACT
591207 GATGCTTAAA
Statistics
Matches: 261, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
287 24 0.09
288 98 0.38
289 53 0.20
290 39 0.15
291 45 0.17
292 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (285 bp):
GTAACCATTTTCTTCCGACTAACCAAAAAATATTTAATTTTATGATCCCCGACTAATTTTCAGCT
CGTTCCACCAATGCTCTTTAAAAAAACACCAAAAATTAAGATAAAATAAAATTTTAAAAACAGAG
GTGTACAACAAGAGATTTCCCGAGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCACACTT
GACTATATAGTTCTGATAGGATCTGCATTAGTGCCGGTATGATCGAACCCTACATGTCTTGCGCC
ATTAATTTATTACAACACTTCCCAA
Found at i:592857 original size:588 final size:583
Alignment explanation
Indices: 591939--596704 Score: 2652
Period size: 588 Copynumber: 8.2 Consensus size: 583
591929 CCCAAGCGGA
* * * * * * * *
591939 CTTGACTGCGGAGTTCTAATGGGATCCGTTGCATTTGTACTGGTATGTTCACACCCTTCATGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* *
592004 TGC-ACCCTTAATTTATTTAAATGCTTCTCCCTATAACCATTTTCTTTCAACTAATCCTT-AAAT
66 TGCTA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAAT
* * * *
592067 ATTTAATTTTTTAATCCCCAATTCTTTTCTCACTCGTTCTAACCCAGCTCTTTAAAATAATA-TG
130 ATTTAA--TTTTAATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTCTTTAAAATAA-ACT-
* * *
592131 CAAAAATTAAGATAAAGTAT-AAATTTCAAAAAAAAAAAGGGGTACAACACGAGAACTTCCCGGG
191 CAAAAATTAAGATAAAGTATAAAATTT--TAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGG
* * * * * * * *
592195 AGGTCACCCATCTTTCTAATAATATCGCTCAAGCATTCTTGACTACGAACTTATGATGGGATCCA
254 AGGTCACCCATCTTTGTAATCATATCGCCCAAGCATGCTTGAATACG-AGTTCTGATGGGATCCG
* *
592260 TTGCATTAGTGTAGCCATGATTGCTCCCTTCATGTATTTCACCCTTAGTTTATTTAAACTTTTCT
318 TTGCATTAGTGT-GCCATGATTGCTCCCTTCATGTATTTCACCCTTAATTTATTTAAACTCTTCT
* * * *
592325 CCATTATACCATTTTCATCTGACTAATCCTTAAAATATTTAATTTTGCGTTCTCATACTCTTTTC
382 CCATTATACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCATACTCTTTTC
* * *
592390 CCACTCGTTCCACCCAAACTCTTTTAAAAACAAACCAAAACCAAAATTAAAGATAAAGTATAAAA
447 ACGCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACCAAAATT-AAGATAAAGTATAAAA
** * *
592455 TTTTAAAAAATACAATGGAGTAGGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCGC
511 TTTTAAAAAATA-GGTGCAATAGGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCGC
*
592520 CCTAGAACG
575 CCAAGAACG
* * * * * *
592529 CTTTACTACGGAGTTCTGATTGGATTTGATGCATTAGTGTTGATATGATCGTACCCTTCATGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* *
592594 TGCTTCCTTAATTTATTATAAATGCTTCTCCTTGTAACCATTTTCTTTCAACTAATCCTT-AAAT
66 TGCTACCTTAATTTATT-TAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAAT
* *
592658 ATTTAATTTTAATCCCCAATTATTTTCCCACTCATTCCAACCCAGCTCTTTAAAATAAACTGCAA
130 ATTTAATTTTAATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTCTTTAAAATAAACT-CAA
592723 AAATTAAGATAAAGTATAAAATTTTAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGGAGGTC
194 AAATTAAGATAAAGTATAAAATTTTAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGGAGGTC
* * * ** *
592788 ACCCATCTTTCTAATCATATCGCTCAAGTATGCTTGAATACGATGTTCTGATGGGATTTGTTTCA
259 ACCCATCTTTGTAATCATATCGCCCAAGCATGCTTGAATACGA-GTTCTGATGGGATCCGTTGCA
* * * *
592853 TTAGTGTTGCCATGATTGCT-TCTATCATGTATTGCGCCATTAATTTATTTAAACTCTTCTCCAT
323 TTAGTG-TGCCATGATTGCTCCCT-TCATGTATTTCACCCTTAATTTATTTAAACTCTTCTCCAT
* * * * * *
592917 T-TAACCATTTTCGTATGACTAATCCTTAAAGTATTTAATTTTATGATCGC-TGACACTTTTCCC
386 TAT-ACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCAT-ACTCTTTTCAC
* * *
592980 GCTCGTTCCACCCAAACTCTTTTAAAAACAAACCAAAACCAAAAATTAATATAAAATATAAAATT
449 GCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACC-AAAATTAAGATAAAGTATAAAATT
* * * * *
593045 TCAAAAAA-ATGGTTCAATAGGAGAATTTCCCGGGAGGTCACCCATCGTTGTAATATTCTCGCCC
513 TTAAAAAATA-GGTGCAATAGGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCGCCC
*
593109 AAGCACG
577 AAGAACG
* * *
593116 CTTGATTATGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCGTGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* * * * *
593181 TG-TGACCTTAATTTATTATAACT-TTTCTCCATGTAACAACTTTCTTCCAACTAATCCTTAAAA
66 TGCT-ACCTTAATTTATT-TAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAA
* **** * * * *
593244 TATTTAATTTTGCGATCCCTGGCTCTTTT-CCGCTCGTTCCACCCCAACTCTTTTTACAATAAAA
129 TATTTAATTTT--AATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTC--TTT--AA-AATA
* * * * *
593308 AACACCAAGAATT-AGTATAAAGTATAAAATTTCAATAAAAAGTAGGGGTACAACACGAGGACTT
187 AAC-TCAAAAATTAAG-ATAAAGTATAAAATTTTAA-AAAAAG-AGGGGTGCAACACGAGAACTT
* * * * * * *
593372 -CCAGGAGGTCACCCATCATAGT-ATTACTCTCGCCCGAGCAGGCTTG---ACGA---C-----G
248 CCCGGGAGGTCACCCATCTTTGTAATCA-TATCGCCCAAGCATGCTTGAATACGAGTTCTGATGG
* * * * * * * *
593424 GA------G--TTA--GT---ATGATCG-TACCTTCTATGTCCTAT-GCTCTAAATTTATTTAAT
312 GATCCGTTGCATTAGTGTGCCATGATTGCTCCCTTC-ATGT-ATTTCACCCTTAATTTATTTAAA
** * ** * * *
593474 CGATTCTTCATGTAATA--ATTTTTTTCTTACTAGTCCTTAAAATATTTAATTTTATGATTCCCA
375 CTCTTCTCCAT-T-ATACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGA-TCCCA
* * * ** * *
593537 T-CTTTTTTCACGCCCATTCCACCCAGGCACATTT--AAA-AAA-CAAAA--AAAATTATGATAA
437 TACTCTTTTCACGCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACCAAAATTAAGATAA
* * * * * * *
593595 AGTATACAATTTTGAATAAAGAGGTGTGCAACATGAGAA-TTTCGTAGGAGGTCACCCTTCCTTG
502 AGTATAAAATTTT-AAAAAATA-G-GTGCAATAGGAGAATTTTC-CAGGAGGTCACCCATCCTTG
* * * *
593659 TACTACTATCGCCCAAGAACT
563 TAATATTCTCGCCCAAGAACG
* * ** * *
593680 CTTGACTACGGAGTTCTGATGGGATCTGGTGCATTAGTGCTAGTATGATCGCACCCTTGATGACT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
** * * ** * * * * *
593745 TGCGCCCTTAATTTATTTAAACGGTTCTCCATGTATTCATTTTGTTCTGAA-TGATACTTAAAAC
66 TGCTACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTT-TCAACTAATCCTTAAAAT
* * * *** * * *
593809 AATTAATTTGCAATCACCTGCTCTTGTCCCGCTC-GTCCAACCCCAACTCTTTTAAAA-AAAC-C
130 ATTTAATTT-TAATCCCCAATTCTTTTCCCACTCATTCCAA-CCCAACTC-TTTAAAATAAACTC
* * ** * * * *
593871 AAAATTTAAGATAAAGTATAAAATTTCGAGAAAAAAAGAAAGATGCGACACGAGGACTTCCCGAG
192 AAAAATTAAGATAAAGTATAAAATTT---TAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGG
* * ** *
593936 AGGTCACCCATCCTTGTGTGA-C-TCTCGCCCAAGCATATTTGACTATA-GAATTCTGATGGGAT
254 AGGTCACCCAT-CTT-TGTAATCATATCGCCCAAGCATGCTTGA--ATACGAGTTCTGATGGGAT
* * ** ** * ** * * ** *
593998 CCGTTTCACTAAAGCTGGTATAATCACACCCTTCATGTCTAGCGA-CCTTAACTTATTTAAA-TG
315 CCGTTGCATTAGTG-TGCCATGATTGCTCCCTTCATGTATTTC-ACCCTTAATTTATTTAAACT-
* * * *
594061 CTTCTTCATGTA-ACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCATA-T
377 CTTCTCCAT-TATACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCATACT
* * * * * * ** * * *
594124 TTTTTCATGTTTGTTGCACTCTTACA--TTT--AAA-AAA-TAATACCAAAACTTCAA-CTAAAG
441 CTTTTCACGCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACCAAAA-TT-AAGATAAAG
* ** * * * * * * * *
594182 TATACAATTTTGAAAATTTTGGGGTGCAACATGAGGA-CTTCCTAGGATGTCACCCATCATAGTA
504 TATAAAATTTT-AAAA-AAT-AGGTGCAATAGGAGAATTTTCC-AGGAGGTCACCCATCCTTGTA
* * * *
594246 CTACTCTC-ACCAAGCGA-G
565 ATATTCTCGCCCAAG-AACG
* * * * * * * * *
594264 CTTGACAACGGAGTTCTAATGAGATCCGTTGCATTTGTACTGGTATGATCACACCCTTAATGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* * * * *
594329 TG-TTCCATTAATTTATTTAAATGCTTCCCCATGTAGCCATTTTCTTTCAAATAAACCTT-AAAT
66 TGCTACC-TTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAAT
* *
594392 ATTTAATTTTTTAATCCCCGATTCTTTTCCCACTCATTCCAACCCAATTCTTTAAAATAAACTCA
130 ATTTAA--TTTTAATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTCTTTAAAATAAACTC-
* * * * ** *
594457 AAAAATTAAGATAAAGTATAGAA-TTTCAAAAAA-A-GTGTGCAACACGATAACTTCCTAGTAGG
192 AAAAATTAAGATAAAGTATAAAATTTTAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGGAGG
* * *
594519 TCACCCATCCTTGTAAT-ACTAT--CACAAGTATGCTTGAATACGAAGTTCTGATGGGATCCGTT
257 TCACCCATCTTTGTAATCA-TATCGCCCAAGCATGCTTGAATACG-AGTTCTGATGGGATCCGTT
** *
594581 GCATTAGTGTTGCCATGATTGCTTTCTTCATGT-TTTGCACCCTTAATTTATTTAAACTTTTCTC
320 GCATTAGTG-TGCCATGATTGCTCCCTTCATGTATTT-CACCCTTAATTTATTTAAACTCTTCTC
* * * *
594645 CATT-TAACCATTTTCGTATGACTAATCCTTAAAGTATTTAATTTTGTGATCGC-TGACACTTTT
383 CATTAT-ACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCAT-ACTCTTTT
**
594708 CTTGCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACCAAAAATTAAGATAAAGTATAAA
446 CACGCTCGTTCCACCCAAACACTTTTAAAAACAAACCAAAACC-AAAATTAAGATAAAGTATAAA
* * * *
594773 ATTTCGAAAAAATA-GTGCAATAGGAGAATTTCCCGGGAGGTCACCCATCGTTGTAATATTCTCG
510 ATTT-TAAAAAATAGGTGCAATAGGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCG
*
594837 CCCAAGCACG
574 CCCAAGAACG
* * * *
594847 CTTGATTACTGAGTTCTGATGGGATCTGATGCATTAGTGTTGGTATGATCATACCCTTCGTGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* * *
594912 TGCAACCTTAATTTATTATAACT-CTTCTCCATGTAACCATTTTCTTCCAACTAATCCTTAAAAT
66 TGCTACCTTAATTTATT-TAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAAT
* * * * * *
594976 ATTTAATTTTGCGATCCCTGACATT-TTTT--CGCTCGTTGCACCCCAACTCTTTTTACAATAAA
130 ATTTAATTTT--AATCCC-CA-ATTCTTTTCCCACTCATTCCAACCCAACTC--TTT---A-AAA
* * * ** *
595038 AAAACAACACCAAGAATT-AGTATAAAGTATAAAATTTCAATAAAAAGTAAAGGTGCAGCACGAG
185 TAAAC-TCA--AA-AATTAAG-ATAAAGTATAAAATTTTAA-AAAAAG-AGGGGTGCAACACGAG
* * * ** * * * *
595102 GACTT-CCAGGAGGTCACCCATCATACTACT-AGTCTC-CCCTGAGCAGGC-T---T--GA---C
243 AACTTCCCGGGAGGTCACCCATCTTTGTAATCA-TATCGCCC-AAGCATGCTTGAATACGAGTTC
* * * * * * * * *
595155 TG--CGGA------G--TTA--GT---ATGCTCGCACCCTTAATGTCA-TGCGCTCTAAATTTAT
306 TGATGGGATCCGTTGCATTAGTGTGCCATGATTGCTCCCTTCATGT-ATTTCACCCTTAATTTAT
* * ** **
595204 TTAAACGCTTCTTCATGTA-A-CATTTTTTTCTGACTAATCCTTAAAATATTTAATTTTACGATT
370 TTAAACTCTTCTCCAT-TATACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGA-T
* ** * * ** * * *
595267 CTC-GGCTCTTTCCACGCTCATTCCACCCAGGCTCATTTTAAAAAC--ACC---A--AAATTTGA
433 CCCATACTCTTTTCACGCTCGTTCCACCCAAACAC-TTTTAAAAACAAACCAAAACCAAAATTAA
* * * * * *
595324 GATAAAGTATAAAATTTTGAAAAAAATGGGGTACAACATGAGAA-TTTCGCAAGAGGTCACCCTT
497 GATAAAGTATAAAATTTT--AAAAAAT-AGGTGCAATAGGAGAATTTTC-CAGGAGGTCACCCAT
* ** * * *
595388 TCTTGTTCTACTATCGCCCAAGCACG
558 CCTTGTAATATTCTCGCCCAAGAACG
* * * * * ** * * *
595414 CTTGACTAAGGAGTTCTGATGGGATCTGGTGCATCAATGCTAGTATGATCGCACTCTTAATGACT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* ** * * * *
595479 TGC-ACCCTTAATTTATTTAAACGCTTCTCCATGTATTCATTTTTTTTTCTGAA-TGATACTAAA
66 TGCTA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCA-TTTTCTTTC--AACTAATCCTTAA
* * ** * * * * * *
595542 AATGA-TTAATTTTTCTATCACCAGCTCTTGTCCCATTCGTT-TAACCACAAATCTTTAAAAAAA
127 AAT-ATTTAA-TTTT-AATCCCCAATTCTTTTCCCACTCATTCCAACC-CAACTCTTTAAAATAA
* * * * ** * * ** *
595605 AC-CACAATTTAATATAGAGTATAAAATTAAAAAAAAAAAAAAAGAGGTGTGACACGAGGACTTC
188 ACTCAAAAATTAAGATAAAGTATAAAATT----TTAAAAAAAGAGGGGTGCAACACGAGAACTTC
** * ** * * ** * *
595669 TTGGGAGGTCACCCATCCTTGTGGCTC-TCTCGCCTAAGCATATTTGACTATGGAGTTCTGATGG
249 CCGGGAGGTCACCCATCTTTGT-AATCATATCGCCCAAGCATGCTTGAATA-CGAGTTCTGATGG
* ** ** * ** * * * * *
595733 GATCCATTGCATTAAAGCTGGTATAATCACACCCTTCATGTCTAGTGA-CGTTAATTTATTTAAA
312 GATCCGTTGCATTAGTG-TGCCATGATTGCTCCCTTCATGTAT-TTCACCCTTAATTTATTTAAA
* ** ** *
595797 -TGCATCTCCATGTA-ACCATTTTC-TCCCAACTAATCCTTAAAATATTTAATTTTGCAATTCCA
375 CT-CTTCTCCAT-TATACCATTTTCGT-CTGACTAATCCTTAAAATATTTAATTTTGTGATCCCA
* * * * * ** * * *
595859 -AATTTTTTC-CACTTGTTGCACTCTGAA-A--TTAAAAAATAATACCAAAA-C---ATCAA-AT
437 TACTCTTTTCACGCTCGTTCCAC-CCAAACACTTTTAAAAACAA-ACCAAAACCAAAATTAAGAT
* * * * *
595914 AAAGTATAAAATTTTGAAAAAATAGGGGTGCAATACGAGGA-CTTCCTAGGATGTCACCCATCAT
500 AAAGTATAAAATTTT-AAAAAATA--GGTGCAATAGGAGAATTTTCC-AGGAGGTCACCCATCCT
* * * * *
595978 AGTACTACTCTCACCCAA-ACAGG
561 TGTAATATTCTCGCCCAAGA-ACG
* * * * * * * * * * *
596001 CTTGACT-GGTGAGTT-TTACTGGGATATGTTGCATTTGTACTAGTATGATTAAACTCTTAATGT
1 CTTGACTACG-GAGTTCTGA-TGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGT
* * * *
596064 CTT--AACCCTTAATTTATTTAAATGCTTCTCCATGTAACTATTTTCTTTTAACTAATCCTT-TA
64 CTTGCTA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAA
* * * *
596126 ATATTTAATTTTTTTAATCCCCGATTCTTTTCCCACTCGTTCCAACCTAGCTCTTTAAAATAAAC
128 ATATTTAA---TTTTAATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTCTTTAAAATAAAC
*
596191 TCCAAAAATTAAGATAAAGTATAAAATTTCAAGAAAAA-AGGGGTGCAACACGAGAACTTCCCGG
190 T-CAAAAATTAAGATAAAGTATAAAATTTTAA-AAAAAGAGGGGTGCAACACGAGAACTTCCCGG
* * ** * * * *
596255 GAGGTCACTCATCCTTT-TAATAATATATCTCAAGCATGATTGACTACGAAGTTATGATGGGATC
253 GAGGTCACCCAT-CTTTGTAATCATATCGCCCAAGCATGCTTGAATACG-AGTTCTGATGGGATC
* * * *
596319 TGTTGCATTA----G---TG-TTG----C--CATG-ATTGCACCTTTAATTTATTTAAACGCTTC
316 CGTTGCATTAGTGTGCCATGATTGCTCCCTTCATGTATTTCACCCTTAATTTATTTAAACTCTTC
* * ** ** **
596369 TCCATT-TCACCATTTTTGTCTGACTAATCATTAAAATATTTAGCTTTACGATCGCCA-ACAATT
381 TCCATTAT-ACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATC-CCATACTCTT
* * *
596432 TTC-CTGCTCATTCCA-CCAAA-ACTTTTTTAAAACAAACCAACACCAAAAATTAAG----A-TA
444 TTCAC-GCTCGTTCCACCCAAACAC-TTTTAAAAACAAACCAAAACC-AAAATTAAGATAAAGTA
* * * * *
596489 TAAAATATATAAAAAAT-GGTGCAATAGGAGAA-TTTCTCGGGAGGTCACACATCCTTGCACTAT
506 TAAAAT-TTTAAAAAATAGGTGCAATAGGAGAATTTTC-CAGGAGGTCACCCATCCTTGTAATAT
* *
596552 TCTCGCCCAACAACA
569 TCTCGCCCAAGAACG
* * * *
596567 CTTGACTACAGAGTTCTGATGGGATCTGATGCATTAGTACTAGTATGATCGTA-CCTTCATGTCT
1 CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
* *
596631 TGCGT-CCTTAATTTA-TTATAACGCTTCTCCATGTAACCATTTTCTTCCAACTAATCCTTAAAA
66 TGC-TACCTTAATTTATTTA-AATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAA
596694 TATTTAATTTT
129 TATTTAATTTT
596705 TCTATCCCTG
Statistics
Matches: 3207, Mismatches: 705, Indels: 554
0.72 0.16 0.12
Matches are distributed among these distances:
557 22 0.01
558 18 0.01
559 56 0.02
560 8 0.00
561 42 0.01
562 37 0.01
563 36 0.01
564 203 0.06
565 28 0.01
566 204 0.06
567 156 0.05
568 118 0.04
569 54 0.02
570 26 0.01
571 61 0.02
572 55 0.02
573 7 0.00
574 7 0.00
575 1 0.00
576 4 0.00
577 6 0.00
578 121 0.04
579 23 0.01
580 30 0.01
581 7 0.00
582 137 0.04
583 160 0.05
584 231 0.07
585 188 0.06
586 135 0.04
587 266 0.08
588 329 0.10
589 129 0.04
590 77 0.02
591 59 0.02
592 21 0.01
593 37 0.01
594 44 0.01
595 19 0.01
596 23 0.01
597 17 0.01
598 5 0.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (583 bp):
CTTGACTACGGAGTTCTGATGGGATCTGATGCATTAGTGCTGGTATGATCATACCCTTCATGTCT
TGCTACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAATCCTTAAAATA
TTTAATTTTAATCCCCAATTCTTTTCCCACTCATTCCAACCCAACTCTTTAAAATAAACTCAAAA
ATTAAGATAAAGTATAAAATTTTAAAAAAAGAGGGGTGCAACACGAGAACTTCCCGGGAGGTCAC
CCATCTTTGTAATCATATCGCCCAAGCATGCTTGAATACGAGTTCTGATGGGATCCGTTGCATTA
GTGTGCCATGATTGCTCCCTTCATGTATTTCACCCTTAATTTATTTAAACTCTTCTCCATTATAC
CATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCATACTCTTTTCACGCTCGTT
CCACCCAAACACTTTTAAAAACAAACCAAAACCAAAATTAAGATAAAGTATAAAATTTTAAAAAA
TAGGTGCAATAGGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCGCCCAAGAACG
Found at i:593140 original size:296 final size:294
Alignment explanation
Indices: 591992--595082 Score: 1245
Period size: 296 Copynumber: 10.6 Consensus size: 294
591982 TATGTTCACA
* * * * *
591992 CCCTTCATGTCTTGCACCCTTAATTTATTTAAA-TGCTTCTCCCTATAACCATTTTCTTTCAACT
1 CCCTTCATGTATTGC-GCCTTAATTTATTTAAACT-CTTCTCCATTTAACCATTTTCTCT-AACT
*** ** ** * * *
592056 AATCCTT-AAATATTTAATTTTTTAATCCCCAATTCTTTTCTCACTCGTTCTAACCC-AGCTC-T
63 AATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTC-CACCCAAACTCTT
* * ** * * *
592118 TT--AAA-ATA-ATATGCAAAAATTAAGATAAAGTAT-AAATTTCAAAAAAAAAAAGGGGTACAA
127 TTAAAAACAAACAAAACCAAAAATTAAGATAAAGTATAAAATTTC---AAAAAAGA-CGGTGCAA
* * * * ** *
592178 CACGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATAATATCGCTCAAGCATTCTTGACTACGA
188 TAGGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGG
* * * *
592243 ACTTATGATGGGATC-CATTGCATTAGTGTAGCCATGATTGCT
253 AGTTCTGATGGGATCTGA-TGCATTAGTGTTGCCATGATTGCT
* * * * *
592285 CCCTTCATGTATTTCACCCTTAGTTTATTTAAACTTTTCTCCA-TTATACCATTTTCATCTGACT
1 CCCTTCATGTATTGC-GCCTTAATTTATTTAAACTCTTCTCCATTTA-ACCATTTTC-TCTAACT
* * * *
592349 AATCCTTAAAATATTTAATTTTGCGTTCTCAT-ACTCTTTTCCCACTCGTTCCACCCAAACTCTT
63 AATCCTTAAAATATTTAATTTTACGATC-CCTGACACTTTTCCCACTCGTTCCACCCAAACTCTT
* * ** * *
592413 TTAAAAACAAACCAAAACC-AAAATTAAAGATAAAGTATAAAATTTTAAAAAATACAATGGAGTA
127 TTAAAAACAAA-CAAAACCAAAAATT-AAGATAAAGTATAAAATTTCAAAAAAGACGGTGCAATA
* * * * * * * * *
592477 GGAGAATTTTCCAGGAGGTCACCCATCCTTGTAATATTCTCGCCCTAGAACGCTTTACTACGGAG
190 GGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAG
* * ** *
592542 TTCTGATTGGATTTGATGCATTAGTGTTGATATGATCG-T
255 TTCTGATGGGATCTGATGCATTAGTGTTGCCATGATTGCT
* * *
592581 ACCCTTCATGTCTTGCTTCCTTAATTTATTATAAA-TGCTTCTCC-TTGTAACCATTTTCTTTCA
1 -CCCTTCATGTATTGC-GCCTTAATTTATT-TAAACT-CTTCTCCATT-TAACCATTTTCTCT-A
** * * *
592644 ACTAATCCTT-AAATATTTAATTTTA--ATCCCCAATTA-TTTTCCCACTCATTCCAACCC-AGC
60 ACTAATCCTTAAAATATTTAATTTTACGATCCCTGA-CACTTTTCCCACTCGTTCC-ACCCAAAC
* ** * *
592704 TC-TTT-AAAATAAAC---TGCAAAAATTAAGATAAAGTATAAAATTTTAAAAAAAGAGGGGTGC
123 TCTTTTAAAAACAAACAAAACCAAAAATTAAGATAAAGTATAAAA-TTTCAAAAAAGA-CGGTGC
* * * * * *
592764 AACACGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATCA-TATCGCTCAAGTATGCTTGAATA
186 AATAGGAGAACTTCCCGGGAGGTCACCCATCTTTCTAAT-ATTATCGCCCAAGCACGCTTGACTA
* * *
592828 C-GATGTTCTGATGGGATTTGTTTCATTAGTGTTGCCATGATTGCT
250 CGGA-GTTCTGATGGGATCTGATGCATTAGTGTTGCCATGATTGCT
* * *
592873 -TCTATCATGTATTGCGCCATTAATTTATTTAAACTCTTCTCCATTTAACCATTTTCGTATGACT
1 CCCT-TCATGTATTGCGCC-TTAATTTATTTAAACTCTTCTCCATTTAACCATTTTC-TCTAACT
* * * *
592937 AATCCTTAAAGTATTTAATTTTATGATCGCTGACACTTTTCCCGCTCGTTCCACCCAAACTCTTT
63 AATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCCACCCAAACTCTTT
* * * *
593002 TAAAAACAAACCAAAACCAAAAATTAATATAAAATATAAAATTTCAAAAAA-ATGGTTCAATAGG
128 TAAAAACAAA-CAAAACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAGACGGTGCAATAGG
* * * * * *
593066 AGAATTTCCCGGGAGGTCACCCATCGTTGTAATATTCTCGCCCAAGCACGCTTGATTATGGAGTT
192 AGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAGTT
* **
593131 CTGATGGGATCTGATGCATTAGTGCTGGTATGA-T-CAT
257 CTGATGGGATCTGATGCATTAGTGTTGCCATGATTGC-T
* * * * * * * *
593168 ACCCTTCGTGTCTTGTGACCTTAATTTA-TTATAACTTTTCTCCATGTAACAACTTTCTTCCAAC
1 -CCCTTCATGTATTGCG-CCTTAATTTATTTA-AACTCTTCTCCATTTAACCATTTTC-TCTAAC
* * * * *
593232 TAATCCTTAAAATATTTAATTTTGCGATCCCTGGCTCTTTT-CCGCTCGTTCCACCCCAACTCTT
62 TAATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCCACCCAAACTCTT
* * * * * *
593296 TTTACAATAAA-AAACACCAAGAATT-AGTATAAAGTATAAAATTTCAATAAAAAGTAGGGGTAC
127 TTAAAAACAAACAAA-ACCAAAAATTAAG-ATAAAGTATAAAATTTC-A-AAAAAG-A-CGGTGC
* * * * * ** * * * * * *
593359 AACACGAGGACTT-CCAGGAGGTCACCCATCATAGTATTACTCTCGCCCGAGCAGGCTTGACGAC
186 AATAGGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTAC
* * *
593423 GGAGTT-AGTAT--GATC-G-TACCTTCTA-TG-T-CC-T-A-TGCT
251 GGAGTTCTG-ATGGGATCTGAT-GCAT-TAGTGTTGCCATGATTGCT
* * ** * ** * * * * *
593459 --C-T-A---AAT-----TT-ATTTA-ATCGATTCTTCATGTA-ATAA--TTTTTTTCTTACTAG
1 CCCTTCATGTATTGCGCCTTAATTTATTTAAACTCTTC-TCCATTTAACCATTTTCTCTAACTAA
* ** * * * * ** * *
593507 TCCTTAAAATATTTAATTTTATGATTCCC--ATCTTTTTTCACGCCCATTCCACCCAGGCACATT
65 TCCTTAAAATATTTAATTTTACGA-TCCCTGA-CACTTTTCCCACTCGTTCCACCCAAACTCTTT
* * * * * * *
593570 T--AAA-AAAC-AAA--AAAAATTATGATAAAGTATACAATTTTGAATAAAGAGGTGTGCAACAT
128 TAAAAACAAACAAAACCAAAAATTAAGATAAAGTATA-AAATTTCAAAAAAGACG-GTGCAATAG
* *** * * * * * * *
593629 GAGAATTTCGTAGGAGGTCACCCTTCCTTGTACTACTATCGCCCAAGAACTCTTGACTACGGAGT
191 GAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAGT
* * * * *
593694 TCTGATGGGATCTGGTGCATTAGTGCTAG-TATGATCGCA
256 TCTGATGGGATCTGATGCATTAGTG-TTGCCATGATTGCT
* ** * ** *
593733 CCCTTGATG-ACTTGCGCCCTTAATTTATTTAAACGGTTCTCCATGTATTCATTTTGTTCTGAA-
1 CCCTTCATGTA-TTGCG-CCTTAATTTATTTAAACTCTTCTCCATTTAACCATTTT-CTCT-AAC
* * * * * * * * * *
593796 TGATACTTAAAACAATTAA-TTTGCAATCACCTG-CTCTTGTCCCGCTCG-TCCAACCCCAACTC
62 TAATCCTTAAAATATTTAATTTTACGATC-CCTGACACTTTTCCCACTCGTTCC-ACCCAAACTC
* * *
593858 TTTT------AAA-AAAACCAAAATTTAAGATAAAGTATAAAATTTCGAGAAAAAAAGAAAGATG
125 TTTTAAAAACAAACAAAACCAAAAATTAAGATAAAGTATAAAATTTC----AAAAAAG-ACGGTG
* * * * * * * * * * ***
593916 CGACACGAGGACTTCCCGAGAGGTCACCCATCCTTGT-GTGACTCTCGCCCAAGCATATTTGACT
185 CAATAGGAGAACTTCCCGGGAGGTCACCCATCTTTCTAAT-ATTATCGCCCAAGCACGCTTGACT
** * * * * * ** * ** * ** *
593980 ATAGAATTCTGATGGGATCCGTTTCACTAAAGCTGGTATAATCACA
249 ACGGAGTTCTGATGGGATCTGATGCATTAGTGTTGCCATGATTGCT
* * * * * **
594026 CCCTTCATGTCTAGCGACCTTAACTTATTTAAA-TGCTTCTTCATGTAACCATTTTCTTCCGACT
1 CCCTTCATGTATTGCG-CCTTAATTTATTTAAACT-CTTCTCCATTTAACCATTTTC-TCTAACT
* * ** * * * * ** *
594090 AATCCTTAAAATATTTAATTTTGCGATCCC--ATA-TTTTTTCATGTTTGTTGCACTCTTA--CA
63 AATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCA--CTCGTTCCACCCAAACTCT
* * * * * * ** *
594150 TTT--AAA-AAATAATACCAAAACTTCAA-CTAAAGTATACAATTTTGAAAATTTTG-GGGTGCA
126 TTTAAAAACAAACAAAACCAAAAATT-AAGATAAAGTATA-AAATTTCAAAA--AAGACGGTGCA
* * * ** * * ** * * * * *
594210 ACATGAGGACTTCCTAGGATGTCACCCATCATAGTACTACTCTC-ACCAAGCGA-GCTTGACAAC
187 ATAGGAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGC-ACGCTTGACTAC
* * * * * ** ** ** *
594273 GGAGTTCTAATGAGATCCGTTGCATTTGTACTGGTATGATCACA
251 GGAGTTCTGATGGGATCTGATGCATTAGTGTTGCCATGATTGCT
* * ** * * * * *
594317 CCCTTAATGTCTTGTTCCATTAATTTATTTAAA-TGCTTCCCCATGTAGCCATTTTCTTTCAAAT
1 CCCTTCATGTATTGCGCC-TTAATTTATTTAAACT-CTTCTCCATTTAACCATTTTCTCT-AACT
* *** * ** * *
594381 AAACCTT-AAATATTTAATTTTTTAATCCCCGATTCTTTTCCCACTCATTCCAACCC-AATTC-T
63 AATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCC-ACCCAAACTCTT
* * * * * *
594443 TT-AAAATAAAC---TCAAAAAATTAAGATAAAGTATAGAATTTCAAAAAA-A-GTGTGCAACAC
127 TTAAAAACAAACAAAACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAGACG-GTGCAATAG
* ** * * * * * * * * *
594502 GATAACTTCCTAGTAGGTCACCCATCCTTGTAATACTAT--CACAAGTATGCTTGAATACGAAGT
191 GAGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAGT
* *
594565 TCTGATGGGATCCGTTGCATTAGTGTTGCCATGATTGCT
256 TCTGATGGGATCTGATGCATTAGTGTTGCCATGATTGCT
** * * * * *
594604 TTCTTCATGTTTTGCACCCTTAATTTATTTAAACTTTTCTCCATTTAACCATTTTCGTATGACTA
1 CCCTTCATGTATTGC-GCCTTAATTTATTTAAACTCTTCTCCATTTAACCATTTTC-TCTAACTA
* ** * *** *
594669 ATCCTTAAAGTATTTAATTTTGTGATCGCTGACACTTTTCTTGCTCGTTCCACCCAAACACTTTT
64 ATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCCACCCAAACTCTTTT
*
594734 AAAAACAAACCAAAACCAAAAATTAAGATAAAGTATAAAATTTCGAAAAAATA--GTGCAATAGG
129 AAAAACAAA-CAAAACCAAAAATTAAGATAAAGTATAAAATTTC-AAAAAAGACGGTGCAATAGG
* * * * * *
594797 AGAATTTCCCGGGAGGTCACCCATCGTTGTAATATTCTCGCCCAAGCACGCTTGATTACTGAGTT
192 AGAACTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAGTT
**
594862 CTGATGGGATCTGATGCATTAGTGTTGGTATGA-T-CAT
257 CTGATGGGATCTGATGCATTAGTGTTGCCATGATTGC-T
* * * * *
594899 ACCCTTCGTGTCTTGCAACCTTAATTTA-TTATAACTCTTCTCCATGTAACCATTTTCTTCCAAC
1 -CCCTTCATGTATTGC-GCCTTAATTTATTTA-AACTCTTCTCCATTTAACCATTTTC-TCTAAC
* ** * * *
594963 TAATCCTTAAAATATTTAATTTTGCGATCCCTGACA-TTTTTTCGCTCGTTGCACCCCAACTCTT
62 TAATCCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCCACCCAAACTC-T
* * *
595027 TTTACAATAAAAAAACAACACCAAGAATT-AGTATAAAGTATAAAATTTCAATAAAA
126 TTT--AA-AAACAAACAAAACCAAAAATTAAG-ATAAAGTATAAAATTTCAA-AAAA
595083 AGTAAAGGTG
Statistics
Matches: 2115, Mismatches: 507, Indels: 347
0.71 0.17 0.12
Matches are distributed among these distances:
264 2 0.00
265 14 0.01
266 52 0.02
267 18 0.01
268 12 0.01
269 6 0.00
270 6 0.00
271 2 0.00
272 35 0.02
273 25 0.01
274 2 0.00
275 8 0.00
276 9 0.00
277 3 0.00
278 1 0.00
280 1 0.00
281 1 0.00
283 1 0.00
286 1 0.00
287 102 0.05
288 94 0.04
289 32 0.02
290 116 0.05
291 282 0.13
292 84 0.04
293 259 0.12
294 160 0.08
295 127 0.06
296 320 0.15
297 136 0.06
298 134 0.06
299 49 0.02
300 15 0.01
301 6 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (294 bp):
CCCTTCATGTATTGCGCCTTAATTTATTTAAACTCTTCTCCATTTAACCATTTTCTCTAACTAAT
CCTTAAAATATTTAATTTTACGATCCCTGACACTTTTCCCACTCGTTCCACCCAAACTCTTTTAA
AAACAAACAAAACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAGACGGTGCAATAGGAGAA
CTTCCCGGGAGGTCACCCATCTTTCTAATATTATCGCCCAAGCACGCTTGACTACGGAGTTCTGA
TGGGATCTGATGCATTAGTGTTGCCATGATTGCT
Found at i:599042 original size:291 final size:283
Alignment explanation
Indices: 598301--599846 Score: 842
Period size: 291 Copynumber: 5.4 Consensus size: 283
598291 TATGATCGCA
* * *
598301 CCTTCATGTCTTGTG-CTCTAAATTTATTTAAATGCTTCTTCATGTAACCA-TTTTTTGACTAAT
1 CCTTCATGTCTTGCGAC-CTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTTTTGACTAAT
** **
598364 CCTTAAAATATTTAATTTTTG-GATCCCCAGCTCTTTTCCCTCTCATTCCGCCTAGGCAAATTTA
65 CCTTAAAATATTTAA-TTTTGCGATCCCC-GCTCTTTTCCCTCTTGTT-CAACTA---AAATTTA
* *
598428 AAAAAACCAAAAATTAAGATAAAGTATAAAATTTTG-AAAAAAGAGGGGTGCAACATGA-GAATT
124 AAAAAACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAAGA-GGGTGCAACACGATG-ACT
* * ** ** *
598491 TCCCGGGAGGTCACCCTTACTTGTACTACTAACGCCCAAGCACGCTTGACTAAGGAGTTCTGATG
187 TCCCGGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCACATTTGACTATGGAGTTCTGATG
*
598556 GGATCCGTTGTATTAGTACTGGTAT-GATCACAC
252 GGATCCGTTGCATTAG-ACTGGTATAG-TCACAC
* * * * ** * *
598589 CATTCATGACTTGC-ACCCTTAATTTATTTAAAAGTTTCTCCATGTATTCATTTTCTTTTGAATT
1 CCTTCATGTCTTGCGA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCA-TTT-TTTTGACTA
* * * * * * **
598653 ATGCTTATAATATTTAGTCTTT-CGATCCCTGGCTCTTATCCCGCTTGTTCAACTCCAACTCTTT
63 ATCCTTAAAATATTTAAT-TTTGCGATCCC-CGCTCTTTTCCCTCTTGTTCAACT--AA-AATTT
* * * * *
598717 CAAAAAAGCAAAATTTTAGATAAAGTAT-AAATTTTCGAAAAAAAGAGAGGTGCGACACGATGAC
123 AAAAAAACCAAAAATTAAGATAAAGTATAAAATTTT-GAAAAAAAGAG-GGTGCAACACGATGAC
* *
598781 TTCCCGGGAGGTCACCCATCCTTGTACCACTCTCGCCCAAGCATATTTGACTATGGAGTTCTGAT
186 TTCCCGGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCACATTTGACTATGGAGTTCTGAT
* *
598846 GGTATCCGTTGCATTAGAGCTTGTATAGTCACAC
251 GGGATCCGTTGCATTAGA-CTGGTATAGTCACAC
* *
598880 CCTTCATGTCTAGCGACCTTAATTTATTTAAATGCTTCTCCATGT-ACCATTTATTCTGACTAAT
1 CCTTCATGTCTTGCGACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTT-TTTTGACTAAT
* * *
598944 CCTTAAAATATTTAATTTTGCGATCCCCGATTTTTTCCCTCTTGTTGCATTCTAAAATTTAAAAA
65 CCTTAAAATATTTAATTTTGCGATCCCCGCTCTTTTCCCTCTTGTT-CA-ACTAAAATTT--AAA
* * *
599009 ATAATACCAAAACTTCATATAAA-TATAAAATTTTGAAAAAATAG-GGGTG-AACCACGATGACT
126 A-AA-ACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAA-AGAGGGTGCAA-CACGATGACT
** ** * * * * ** *
599071 TCCTAGGTTGTCAACCATCATAT-TACTACTCTCACCCAAGC-CGATTTGACTGTAAAGTTCTAA
187 TCCCGGGAGGTCACCCATCCT-TGTACTACTCTCGCCCAAGCAC-ATTTGACTATGGAGTTCTGA
* *
599134 TGGGATTCC-TTGCATTTGTTA-TGGTATTA-TCATAC
250 TGGGA-TCCGTTGCATTAG--ACTGGTA-TAGTCACAC
* * *
599169 CCTTCATGTCTTGCGCCCTTAATATATTTAAATGCTTCTCCATGTAACCATTTTCTTTCAACTAA
1 CCTTCATGTCTTGCGACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTT-TTT-GACTAA
* *** *** * * ** * ***
599234 TCCTT-TAATATTTAATTTTTTAATCCTCAATTCGTTT-CCTAATCATTCTAACCCATCTCTTTA
64 TCCTTAAAATATTTAATTTTGCGATCC-CCGCTCTTTTCCCT-CTTGTTC-AA-CTA-AAATTTA
* *
599297 AAATAAACTCCAAAAATTAAGATAAAGTATAAAA-TTTCAAAACAAGAGGGATGCAACACGA-GA
124 AAA-AAA--CCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAAGAGGG-TGCAACACGATG-
*** * * * * * * *** * *
599360 ACTTCCCTAAAGGTCACTCATCCTTATAATACTATTGCTCAAGCATGCTTGACTACGAAGTTCTG
184 ACTTCCCGGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCACATTTGACTATGGAGTTCTG
*
599425 ATGGGATCCCTTGCATT--A---GTAT--T-----
249 ATGGGATCCGTTGCATTAGACTGGTATAGTCACAC
* * * * * *
599448 GC--CATG-ATTGC-ACCCTTAATTTATTTAAACGCTTCTCCATTTAACCATTTTCTTCAGAATA
1 CCTTCATGTCTTGCGA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTT-TT-TGACTA
* ** * * * * *
599509 ATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTTACGCTCGTTCCACCGAAACTCTTTG
63 ATCCTTAAAATATTTAATTTTGCGATCCCCG-CTCTTTTCCCTCTTGTT-CAACTAAA--ATTT-
* * * * ***
599574 AAAAACAAACCAACACCAAAAATTAAGATAAGGTATAAAA-TTTCAAAAAAAAATGGTGCAATTG
123 ----A-AAA--AA-ACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAAGAGGGTGCAACAC
* *** * * * * **
599638 GA-GAATTTCCATAGAGGTCACCTATCCTTGTACTATTCTCCCCCAAACACGCTTGACTACT-GA
180 GATG-ACTTCCCGGGAGGTCACCCATCCTTGTACTACTCTCGCCCAAGCACATTTGACTA-TGGA
* * * **
599701 GTTCTGATGGGATCTGATACATTAGTACTGGTAT-GATCGTAC
243 GTTCTGATGGGATCCGTTGCATTAG-ACTGGTATAG-TCACAC
* * *
599743 CCTTCATGTCCTGC-ATCATTAATTTATTATAACA-G-TTCTCCATGTAACCATTTTCTTCGGAC
1 CCTTCATGTCTTGCGA-CCTTAATTTATT-TAA-ATGCTTCTCCATGTAACCATTTT-TT-TGAC
* * *
599805 TAATCCTTAAAATATTTATTTTTACGATCCCTGGCTCTTTTC
61 TAATCCTTAAAATATTTAATTTTGCGATCCC-CGCTCTTTTC
599847 TCGCTCGTTA
Statistics
Matches: 970, Mismatches: 200, Indels: 166
0.73 0.15 0.12
Matches are distributed among these distances:
276 54 0.06
277 35 0.04
278 2 0.00
279 1 0.00
282 71 0.07
283 40 0.04
284 3 0.00
285 3 0.00
286 3 0.00
287 3 0.00
288 63 0.06
289 171 0.18
290 99 0.10
291 259 0.27
292 75 0.08
293 2 0.00
295 1 0.00
297 4 0.00
298 75 0.08
299 5 0.01
300 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (283 bp):
CCTTCATGTCTTGCGACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTTTTGACTAATC
CTTAAAATATTTAATTTTGCGATCCCCGCTCTTTTCCCTCTTGTTCAACTAAAATTTAAAAAAAC
CAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAAGAGGGTGCAACACGATGACTTCCCGGGAG
GTCACCCATCCTTGTACTACTCTCGCCCAAGCACATTTGACTATGGAGTTCTGATGGGATCCGTT
GCATTAGACTGGTATAGTCACAC
Found at i:601687 original size:294 final size:293
Alignment explanation
Indices: 601221--601757 Score: 659
Period size: 294 Copynumber: 1.8 Consensus size: 293
601211 AACCAACATC
* * *
601221 AAAAATTAAGATAATGTATAAATTTTTTAAAAAAAAGGGTGCAATAGGAGAATTTCCCTAGAGGT
1 AAAAATTAAGATAAGGTATAAATTTTTTAAAAAAAAGGGTGCAACACGAGAATTTCCCTAGAGGT
* * **
601286 CACCCATCCTTGTACTACTCTCGCCCAAGCACACTTGAATACTGAGTTCTGAAGTGATCCTGTGC
66 CACCCATCCTTGTACTACTCTCGCCCAAGAACACTTGAATACGGAGTTCTGAAGTGATCCAATGC
* ** * *** * * * *
601351 ATTAGTGCTTGTATGATTTCACTCTTGGTGTCTTGCGCCCTTAATTTATTATAACACTT-CTCCA
131 ATTAGTGCTGGTATGATCACACCCTTCAAGTATTACGCCCTTAATTTATTACAACACTTACACCA
** *
601415 TGTAACCATTTTCTTCCTACTAATCCAAAAAATATTTAATTTTGCGATCACCGACACTTTTCCTC
196 -GTAAAAATTTTCTTCCGACTAATCCAAAAAATATTTAATTTTGCGATCACCGACACTTTTCCTC
601480 CTGTTGCACCAAGGGTCTTTAAAAAATCAACACT
260 CTGTTGCACCAAGGGTCTTTAAAAAATCAACACT
* * * * * *
601514 AAAAATTAAGATAAGGTGT-ACTTTTTTGAAAATAGAGGTGTGCAACACGATATTTTCCC-AGCA
1 AAAAATTAAGATAAGGTATAAATTTTTT-AAAAAAAAGG-GTGCAACACGAGAATTTCCCTAG-A
* * *
601577 GGTCACCCATCCTTGTACTACTCTCGCCCAAGAACACTTGACTACGGATTTCTGTTAG-GATCCA
63 GGTCACCCATCCTTGTACTACTCTCGCCCAAGAACACTTGAATACGGAGTTCTG-AAGTGATCCA
* * *
601641 ATGCTTTAGTGCTGGTATGATCACACCCTTCAAGTATTATGCCCTTAATTTATTACAACGCTTAC
127 ATGCATTAGTGCTGGTATGATCACACCCTTCAAGTATTACGCCCTTAATTTATTACAACACTTAC
* * ** *
601706 ACGAGTAAAAATTTTCTTCCGACTAATGCTTAAAATATTTAATTTTGTGATC
192 ACCAGTAAAAATTTTCTTCCGACTAATCCAAAAAATATTTAATTTTGCGATC
601758 TTTAACTGTT
Statistics
Matches: 201, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
292 7 0.03
293 27 0.13
294 162 0.81
295 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (293 bp):
AAAAATTAAGATAAGGTATAAATTTTTTAAAAAAAAGGGTGCAACACGAGAATTTCCCTAGAGGT
CACCCATCCTTGTACTACTCTCGCCCAAGAACACTTGAATACGGAGTTCTGAAGTGATCCAATGC
ATTAGTGCTGGTATGATCACACCCTTCAAGTATTACGCCCTTAATTTATTACAACACTTACACCA
GTAAAAATTTTCTTCCGACTAATCCAAAAAATATTTAATTTTGCGATCACCGACACTTTTCCTCC
TGTTGCACCAAGGGTCTTTAAAAAATCAACACT
Found at i:603182 original size:296 final size:301
Alignment explanation
Indices: 602646--603287 Score: 707
Period size: 296 Copynumber: 2.2 Consensus size: 301
602636 CCAATTCTTT
* * *
602646 AAAATAAACTCCAAATATTAAGATAAAGTA-AAAATTTCAAGAAAAGAGGGGTGCAACACGAGAA
1 AAAATCAACACCAAAAATTAAGATAAAGTATAAAATTTCAAGAAAAGAGGGGTGCAACACGAGAA
* * * * *
602710 CTTCCCGGGAGGTCACGCATCCTAGTAATACTATCGCTCAAGCATGTTTGACTACGAAGTTCTGA
66 CTTCCCAGGAGGTCACCCATCCTAGTAATACTATCGCCCAAGAATGTTTGACTACAAAGTTCTGA
* * * **
602775 TGGGATCCGTTGCATTAGTGTTGCCATGATTGCACCATTCATGTATTGCACCCCTAATTTATTTA
131 TGGGATCCGATGCATTACTGCTGCCATGATAACACCATTCATGTATTGCACCCCTAATTTATTTA
* * * *
602840 AACACTTCTCCATTTAACCATTTTCGTCTGACTAATCCTTAAAATATTTAATTTTACGAT-CATC
196 AACACTTATCCATGTAACCATTTTCGTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCT-
*
602904 GATTCTTTTCCCGCTCATTCCACCCAAACTCATTTA-AA-AA
260 GACTCTTTTCCCGCTCATTCCACCCAAACTCATTTACAATAA
* * * *
602944 CAAATCAACACCAAAAATTAAGATAAAGTATAAAATTTCGAAG-AAA-A-TGGTGCAATAGGAGA
1 AAAATCAACACCAAAAATTAAGATAAAGTATAAAATTTC-AAGAAAAGAGGGGTGCAACACGAGA
* * * * * * *
603006 ATTTCCCAGGAGGTCACCCATCCTTGTACTATTCTCTCCCAAGAACT-TTTGACTACAAATTTCT
65 ACTTCCCAGGAGGTCACCCATCCTAGTAATACTATCGCCCAAGAA-TGTTTGACTACAAAGTTCT
* * * * * * *
603070 GATGGGATCTGATGCATTACTGCTG-GATGATAATACCCTTCGTGTCTTGCACCCTTAATTTA-T
129 GATGGGATCCGATGCATTACTGCTGCCATGATAACACCATTCATGTATTGCACCCCTAATTTATT
* * *
603133 T-ATCACGATTATCCATGTAACCATTTTC-TACCGACTAATCTTTAAAATATTTAATTTTATGAT
194 TAAACAC--TTATCCATGTAACCATTTTCGT-CCGACTAATCCTTAAAATATTTAATTTTACGAT
* * * *
603196 CCCTGGCTCTTTTCCCGCTCGTTCCACCCCAACTCTTTTACAATAA
256 CCCTGACTCTTTTCCCGCTCATTCCACCCAAACTCATTTACAATAA
* * * *
603242 AAAAACAACACCAAGAATT-AGTATAAAGTATAAATTTTCAACAAAA
1 AAAATCAACACCAAAAATTAAG-ATAAAGTATAAAATTTCAAGAAAA
603288 AAAAGTAGAT
Statistics
Matches: 285, Mismatches: 48, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
294 4 0.01
295 3 0.01
296 108 0.38
297 91 0.32
298 65 0.23
299 11 0.04
300 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (301 bp):
AAAATCAACACCAAAAATTAAGATAAAGTATAAAATTTCAAGAAAAGAGGGGTGCAACACGAGAA
CTTCCCAGGAGGTCACCCATCCTAGTAATACTATCGCCCAAGAATGTTTGACTACAAAGTTCTGA
TGGGATCCGATGCATTACTGCTGCCATGATAACACCATTCATGTATTGCACCCCTAATTTATTTA
AACACTTATCCATGTAACCATTTTCGTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCTG
ACTCTTTTCCCGCTCATTCCACCCAAACTCATTTACAATAA
Found at i:604410 original size:291 final size:289
Alignment explanation
Indices: 603816--606596 Score: 1329
Period size: 291 Copynumber: 9.5 Consensus size: 289
603806 AAAAAAGAGA
** * * * * * *
603816 TATAATCATACCCTTCTTGTCTAGTGA-CCTTAATTTATTTAAATGTTTCTCCATATAACCAATT
1 TATAATCGCACCCTTCATGTCTTGT-ACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTT
* * ** * * *
603880 TCTTCTGACTTATCCTT-AAATATTTAATTTTTTGATTCCC-AGTTCTTTCCCGCTCATTCCACC
65 TCTTCTGAATGATCCTTAAAATATTTAATTTTACGA-TCCCTA-CTCTTTTCCGCTCATTCAACC
* * ** **
603943 CAT-GAT-TTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTCAAATAAAATAGGG
128 CATAG-TCTTT-TAAAAA-AA-ACCAAAATTTAAGATAAAGTATAAAATTTTGAA-AAAATAAAG
** * * * * * * *
604006 GCACAACAAGAGAATTTCC-CAAGTGGTCACCCATCCTTGTTA-TACTCTTGCCCAATCATGCTT
188 GTGCGACACGAGAACTTCCGGAA--GGTCACACATCCTTG-TACTACTCTTGCCCAAGCATACTT
* * * * * * ** *
604069 AACAACAGAGTTCTTATGGGATTCAG-TGTATTTCTA-CTGA
250 GACTACAGAGTTCTGATGGGATT-TGTTGCA-ATAGAGCTGG
** * *
604109 TATAATCGCACCCTTCATAACTTGTGCACTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* * * * * *
604174 CTTCTGAGTGATCCCTAAATTATTTAATTTTGCGATCCCTGCTCTTGTTCCGCTTATTCAACCCA
66 CTTCTGAATGATCCTTAAAATATTTAATTTTACGATCCCTACTCTT-TTCCGCTCATTCAACCCA
* * *
604239 TGGTCTTTTAAAAAAAACCAAAATTTAAGATATAGTATAAAATTTTGAAAAAATAAAGGTACGAC
130 TAGTCTTTTAAAAAAAACCAAAATTTAAGATAAAGTATAAAATTTTGAAAAAATAAAGGTGCGAC
* * **
604304 ACGAGGACTTCCTGGAAAGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTGACTATGGA
195 ACGAGAACTTCC-GGAAGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTGACTACAGA
* * *
604369 GTTCTGATGTGATATGTGGCAATAGAGCTGG
259 GTTCTGATGGGATTTGTTGCAATAGAGCTGG
* * * *
604400 TATAATCGCACCC-TAATGTCTTGCACCCTTAATTTATTTAAATGCTTCTCCATGTCACCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* ** * * * *
604464 CTTCTGACT-ACTTGTTAAAGTATTTAATTTTATGATTCCCTTCTCTTTTCCCGCTCATTC--CA
66 CTTCTGAATGA-TCCTTAAAATATTTAATTTTACGA-TCCCTACTCTTTT-CCGCTCATTCAACC
* * * * * *
604526 TATAGTATTTAAAAAAACAACACCATAAA-TTAAGATAAAGTATAAAA-TTTCAAAAACGT--TG
128 CATAGTCTTT-TAAAAA-AA-ACCA-AAATTTAAGATAAAGTATAAAATTTTGAAAAA-ATAAAG
* * ** * * ** * *
604587 GTTGCAACACGAGAATTTCCCAAGAGGTCTCACATCCTTCTTGTACTCTTTCCCAAGCATGCTT-
188 G-TGCGACACGAGAACTTCCGGA-AGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTG
* * * * * *
604651 AGCTACGGAGTTCTGATGTGATTTGGTGC-ATTGTTGTTGG
251 A-CTACAGAGTTCTGATGGGATTTGTTGCAATAG-AGCTGG
* * * * * *
604691 TATGATTGCAACCTTCATGCCTTGT-GCCTTAATTTATTTGAACGCTTCTCCATGTAACCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* * * * * * *
604755 CTTCTAAATGATCCTTAAAAGATTTAATTTTATGATCCTTGGCTCTTGTCCCGCTCGTTCAACCC
66 CTTCTGAATGATCCTTAAAATATTTAATTTTACGATCCCT-ACTCTT-TTCCGCTCATTCAA-CC
** * * * * *
604820 CA-AGAATTTT-AAAAAAACCAAAAGTTT-AGGTAAAGTATAAAATTTCGAAAAAGTAGATGTGC
128 CATAGTCTTTTAAAAAAAACCAAAA-TTTAAGATAAAGTATAAAATTTTGAAAAAATAAAGGTGC
* * * * * * ** * * *
604882 GACACGAGGACTTCCCGAGAGGTCAC-CGGTCCCTGTACCACACTCACCCGAGCATATTTGACCA
192 GACACGAGAACTTCCGGA-AGGTCACAC-ATCCTTGTACTACTCTTGCCCAAGCATACTTGACTA
* * *
604946 CAGAGTT-TCGATGGGATCTGTTGCATTAAAGCTGG
255 CAGAGTTCT-GATGGGATTTGTTGCAATAGAGCTGG
* * * * *
604981 TATAATCGCAACCTTCTTGTCTAGCTA-CCATAATTTATTTAAATGCTTCTCCATGTAACCATTT
1 TATAATCGCACCCTTCATGTCTTG-TACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTT
* * * * * * * *
605045 TCTTCT-AACTAATCCTT-AAATATTTAATTTTGCTATTCCCAATTATTTTCCCACTCATTCCAC
65 TCTTCTGAA-TGATCCTTAAAATATTTAATTTTACGA-TCCCTACTCTTTT-CCGCTCATTCAAC
* **
605108 CCAT-GCTCTTTTTTTCTTAAAAAATGACACC-AAATATTAAGATAAAGTATAAAAGTTCAAATA
127 CCATAG-TC-----TT-TTAAAAAA--A-ACCAAAAT-TTAAGATAAAGTATAAAATTTTGAA-A
* * ** * * * * ***
605171 AAAT-AGGCGTGCAACATAAGAATTTCCCAGTAGGTCACCCATCCTTGTTA-TACTCTTTTGCAA
180 AAATAAAG-GTGCGACACGAGAACTT-CCGGAAGGTCACACATCCTTG-TACTACTCTTGCCCAA
* * * * * * * * *
605234 TCATGA-TTAACAATAGAGTTTTTATGGGATTTGTTACATTAGTGCTGG
242 GCAT-ACTTGACTACAGAGTTCTGATGGGATTTGTTGCAATAGAGCTGG
* *
605282 TATAATCGCACCCTTTATGAT-TTGTACCCTTAATTTATTTAAACGCTTCTCCATATAACCATTT
1 TATAATCGCACCCTTCATG-TCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTT
* *
605346 TCTT-TCGAATGATCCCTAAAATATTTAATTTTTCGATCCCTACTCTTATTCCGCTCATTCAACC
65 TCTTCT-GAATGATCCTTAAAATATTTAATTTTACGATCCCTACTCTT-TTCCGCTCATTCAACC
* * * * * * *
605410 AAAACTCTTTT--AAAAAGCCAAAATTTAATAAAAAGTATAAAATTTTGAAAAAA-AGAGAGGTA
128 CATAGTCTTTTAAAAAAAACCAAAATTTAAGATAAAGTATAAAATTTTGAAAAAATA-A-AGGTG
* * * * *
605472 CGACACGAGAACTTCCCGGGAGGCCATACATCCTTGTACTACTCTCGCCCAAGCATACTGGACTA
191 CGACACGAGAACTT-CCGGAAGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTGACTA
*
605537 CAGAGTTCTGATGGGATTTGTTACAATAGAGCTGG
255 CAGAGTTCTGATGGGATTTGTTGCAATAGAGCTGG
* ** *
605572 TATAATCGCACCC-TCATATCTTGCGCCCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* * * * * * ** * * * *
605636 CTTCTCATTAATCCTTAAAATATTTACTTTTTCAATTCCCTGTTGTTTCCCCGCTCATTCCACAC
66 CTTCTGAATGATCCTTAAAATATTTAATTTTACGA-TCCCTACTCTTT-TCCGCTCATTCAACCC
* * *
605701 AGT-CTCTTTTTTTTACAAAAATAAACAACACCAAAAATTAAGATAAAGTATAAAATTTCGAAAA
129 A-TAGTC----TTTT-----AA-AAA-AA-ACCAAAATTTAAGATAAAGTATAAAATTTTGAAAA
* *** * * * * ** * * *
605765 AGTTGGGGTGCAACACTAAAATTTCCCAAGAGGTCACCCATCATTGTTA-TACTCTTTCCCAAGC
181 AATAAAGGTGCGACACGAGAACTTCCGGA-AGGTCACACATCCTTG-TACTACTCTTGCCCAAGC
* * * * * * ***
605829 ACACTT-AGCTACGGAGTTCTGATGTGATTCGGTGCATTAGTTATGG
244 ATACTTGA-CTACAGAGTTCTGATGGGATTTGTTGCAATAGAGCTGG
* * * * ** * * *
605875 TATGATTGTACCTTTCATGTCTTGCGCCCTTAATTTATTCAAACGCTTCTCCATCTAGCCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* ** * * * * * ** *
605940 CTTCCGAAAAATACTTGAAATCTTTAATTTTACGATCTCTA-TCTATTGTCCTACTTGTTCCA-C
66 CTTCTGAATGATCCTTAAAATATTTAATTTTACGATCCCTACTCT-TT-TCC-GCTCATTCAACC
* * * * * *
606003 C-TAGGCCCTTTAAAAAAAATCAAAAATTAAGATAAAGTATAAAA-TTTGAAAAAA-AAAGGAGT
128 CATA-GTCTTTTAAAAAAAACCAAAATTTAAGATAAAGTATAAAATTTTGAAAAAATAAAGGTGC
* * * *
606065 AACAC--G-ACTTCCAGTG-AGGTCGCCCATCCTTGTACTACTCTTGCCCAAGCATGCTTGACTA
192 GACACGAGAACTTCC-G-GAAGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTGACTA
** * * ** ** * *
606126 TGGAGTTTTTATGGGATCCGTTATATTACTA-CTGG
255 CAGAGTTCTGATGGGATTTGTTGCAATA-GAGCTGG
* ** * * * *
606161 TATGATTACATCCTTCATGTCTTGCACCGTTAATTTATTTAAATGCTTCTCCATGTAACCATTTT
1 TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
* ** * * * * * * *
606226 CTTCCGTCTAATCCTTAAAATATTTAATTTTTC-ATCCTCGACACTTTTCCAGCTCGTTCCACAC
66 CTTCTGAATGATCCTTAAAATATTTAATTTTACGATCC-CTACTCTTTTCC-GCTCATTCAACCC
* * ** * **
606290 AT-GCTCTTTAAAAGAATGCAACACCAGAAA-TTAAGATAAAGTATAACATTTAAAAAAAAGATC
129 ATAG-TCTTTTAAA-AA---AA-ACCA-AAATTTAAGATAAAGTATAAAATTTTGAAAAAATAAA
* ** * * * * * * * * ** *
606353 GGCGTAACACAAGGACTT-CGAGGAGGTCACCCATTCTAGTACTACACTTACCCAAGCACGCTTC
187 GGTGCGACACGAGAACTTCCG-GAAGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTG
* * * * * * *
606417 ATTGCAGAGTTCTAATGGG---CGTTGCATTAGTGATGG
251 ACTACAGAGTTCTGATGGGATTTGTTGCAATAGAGCTGG
* * ** *
606453 TATGATCTCACCGATCATGTCTTGCT-CCATTAATTTATTTAAA-GTCTTCTCCATGTAACCATA
1 TATAATCGCACCCTTCATGTCTTG-TACCCTTAATTTATTTAAACG-CTTCTCCATGTAACCAT-
* * * * * *
606516 TTTCGTACT--A--ATCCTTAAAATATTTAATTTTAAGATCCCCATCTCTTTTCTCACTCGTTCC
63 TTTC-TTCTGAATGATCCTTAAAATATTTAATTTTACGATCCCTA-CTCTTTTC-CGCTCATTCA
* *
606577 AGCCATACT-TTTTAAAAAAA
125 ACCCATAGTCTTTTAAAAAAA
606597 TTTAAGATAA
Statistics
Matches: 1905, Mismatches: 446, Indels: 281
0.72 0.17 0.11
Matches are distributed among these distances:
285 17 0.01
286 157 0.08
287 6 0.00
288 4 0.00
289 125 0.07
290 392 0.21
291 410 0.22
292 138 0.07
293 107 0.06
294 49 0.03
295 57 0.03
296 8 0.00
297 5 0.00
298 1 0.00
299 9 0.00
300 25 0.01
301 155 0.08
302 37 0.02
303 92 0.05
304 111 0.06
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (289 bp):
TATAATCGCACCCTTCATGTCTTGTACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTT
CTTCTGAATGATCCTTAAAATATTTAATTTTACGATCCCTACTCTTTTCCGCTCATTCAACCCAT
AGTCTTTTAAAAAAAACCAAAATTTAAGATAAAGTATAAAATTTTGAAAAAATAAAGGTGCGACA
CGAGAACTTCCGGAAGGTCACACATCCTTGTACTACTCTTGCCCAAGCATACTTGACTACAGAGT
TCTGATGGGATTTGTTGCAATAGAGCTGG
Found at i:605318 original size:301 final size:294
Alignment explanation
Indices: 603843--605970 Score: 963
Period size: 290 Copynumber: 7.2 Consensus size: 294
603833 TGTCTAGTGA
* * * * * *
603843 CCTTAATTTATTTAAATGTTTCTCCATATAACCAATTTCTTCTGACTTATCCTTAAATATTTAAT
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCT-AATAATCCTTAAATATTTAAT
** * ** * *
603908 TTTTTGATTCCC-AGTT-CTTTCCCGCTCATTCCACCCA-----TGATTT-TAAAAAAACAACAC
65 TTTTCAATTCCCTA-TTATTTTCCCGCTCATTCCACCCAGCTCTTTTTTTCTTAAAAAA-GACAC
*
603965 CAAAAATTAAGATAAAGTATAAAATTTCAAATAAAATAGGG-GCACAACA-AGAGAATTTCCCAA
128 CAAATATTAAGATAAAGTATAAAATTTCAAA-AAAATAGGGTG--CAACATA-AGAATTTCCC-A
* * * * * *
604028 GTGGTCACCCATCCTTGTTATACTCTTGCCCAATCATGCTTAACAACAGAGTTCTTATGGGATTC
188 GAGGTCACCCATCCTTGTTATACTCTTTCCCAAGCATACTGAACAACAGAGTTCTGATGGGATT-
* ** ** * * **
604093 AGTGTA-TTTCTA-CTGATATAATCGCACCCTTCATAACTTGTGC
252 TGT-TACAATAGAGCTGGTATAATCGCACCC-TCATATCTTGCAC
* * * * *
604136 ACTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCTGAGTGATCCCTAAATTATTTAA
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCT-AATAATCCTTAAA-TATTTAA
* * ** * * * *
604201 TTTTGCGA-TCCCTGCTCTTGTT-CCGCTTATTCAACCCATGGTC-----TT-TTAAAAAA-A-A
64 TTTTTCAATTCCCTATTATT-TTCCCGCTCATTCCACCCA-GCTCTTTTTTTCTTAAAAAAGACA
* ** * * * ** * * **
604256 CCAAA-ATTTAAGATATAGTATAAAATTTTGAAAAAATAAAGGTACGACACGAGGACTTCCTGGA
127 CCAAATA-TTAAGATAAAGTATAAAATTTCAAAAAAAT-AGGGTGCAACATAAGAATTTCCCAG-
* * * * ** * *
604320 AAGTCACACATCCTTG-TACTACTCTTGCCCAAGCATACTTG-ACTATGGAGTTCTGATGTGATA
189 AGGTCACCCATCCTTGTTA-TACTCTTTCCCAAGCATAC-TGAACAACAGAGTTCTGATGGGATT
** * *
604383 TGTGGCAATAGAGCTGGTATAATCGCACCCTAATGTCTTGCAC
252 TGTTACAATAGAGCTGGTATAATCGCACCCTCATATCTTGCAC
* * * * **
604426 CCTTAATTTATTTAAATGCTTCTCCATGTCACCATTTTCTTCTGACTACTTGTTAAAGTATTTAA
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCT-AATAATCCTTAAA-TATTTAA
* * * ** * * *
604491 TTTTAT-GATTCCCT-TCTCTTTTCCCGCTCATT----CCA--TATAGTATT-TAAAAAAACAAC
64 TTTT-TCAATTCCCTAT-TATTTTCCCGCTCATTCCACCCAGCTCTTTTTTTCTTAAAAAA-GAC
** * * **
604547 ACCATAA-ATTAAGATAAAGTATAAAATTTCAAAAACGTTGGTTGCAACACGAGAATTTCCCAAG
126 ACCA-AATATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGTGCAACATAAGAATTTCCC-AG
* * * * * * * * * *
604611 AGGTCTCACATCCTTCTTGTACTCTTTCCCAAGCATGCTTAGCTACGGAGTTCTGATGTGATTTG
189 AGGTCACCCATCCTTGTTATACTCTTTCCCAAGCATACTGAACAACAGAGTTCTGATGGGATTTG
* * * * * * * * ** **
604676 GTGC-ATTGTTGTTGGTATGATTGCAACCTTCATGCCTTG-TG
254 TTACAATAG-AGCTGGTATAATCGC-ACCCTCATATCTTGCAC
* * * *
604717 CCTTAATTTATTTGAACGCTTCTCCATGTAACCATTTTCTTCTAAATGATCCTTAAAAGATTTAA
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCT-AATAATCCTT-AAATATTTAA
* * ** * * * * *****
604782 TTTTAT-GA-TCCTTGGCTCTTGTCCCGCTCGTT-CAACC--C-CAAGAATT-TT-AAAAA-A-A
64 TTTT-TCAATTCCCT-ATTATTTTCCCGCTCATTCCACCCAGCTCTTTTTTTCTTAAAAAAGACA
* * * * * * ** * *
604837 CCAAA-AGTTTAGGTAAAGTATAAAATTTCGAAAAAGTAGATGTGCGACACGAGGACTTCCCGAG
127 CCAAATA-TTAAGATAAAGTATAAAATTTCAAAAAAATAG-GGTGCAACATAAGAATTTCCC-AG
** * * * ** * * *
604901 AGGTCACCGGTCCCTG-TACCACACTCACCCGAGCATATTTG-ACCACAGAGTT-TCGATGGGAT
189 AGGTCACCCATCCTTGTTA-TACTCTTTCCCAAGCATA-CTGAACAACAGAGTTCT-GATGGGAT
* * * * * * * *
604963 CTGTTGCATTAAAGCTGGTATAATCGCAACCTTCTTGTCTAGCTA-
251 TTGTTACAATAGAGCTGGTATAATCGC-ACCCTCATATCTTGC-AC
* *
605008 CCATAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTAAATATTTAAT
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCTAA-TAATCCTTAAATATTTAAT
* * * *
605073 TTTGCTATTCCCAATTATTTTCCCACTCATTCCACCCATGCTCTTTTTTTCTTAAAAAATGACAC
65 TTTTCAATTCCCTATTATTTTCCCGCTCATTCCACCCA-GCTCTTTTTTTCTTAAAAAA-GACAC
*
605138 CAAATATTAAGATAAAGTATAAAAGTTCAAATAAAATAGGCGTGCAACATAAGAATTTCCCAGTA
128 CAAATATTAAGATAAAGTATAAAATTTCAAA-AAAATAGG-GTGCAACATAAGAATTTCCCAG-A
** * * * * *
605203 GGTCACCCATCCTTGTTATACTCTTTTGCAATCATGA-TTAACAATAGAGTTTTTATGGGATTTG
190 GGTCACCCATCCTTGTTATACTCTTTCCCAAGCAT-ACTGAACAACAGAGTTCTGATGGGATTTG
* * * *
605267 TTACATTAGTGCTGGTATAATCGCACCCTTTATGAT-TTGTAC
254 TTACAATAGAGCTGGTATAATCGCACCC-TCAT-ATCTTGCAC
* * * * *
605309 CCTTAATTTATTTAAACGCTTCTCCATATAACCATTTTCTTTCGAATGATCCCTAAAATATTTAA
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTC-TTCTAATAAT-CCTTAAATATTTAA
* * * * * *
605374 TTTTTCGA-TCCCTACTCTTATT-CCGCTCATTCAACCAAAACTC-----TT-TT-AAAAAG-C-
64 TTTTTCAATTCCCTATTATT-TTCCCGCTCATTCCACC-CAGCTCTTTTTTTCTTAAAAAAGACA
* * * * * * * ** * *
605428 CAAAAT-TTAATAAAAAGTATAAAATTTTGAAAAAAAGAGAGGTACGACACGAGAACTTCCCGGG
127 CCAAATATTAAGATAAAGTATAAAA-TTTCAAAAAAATAG-GGTGCAACATAAGAATTTCCC-AG
* ** ** * *
605492 AGGCCATACATCCTTG-TACTACTCTCGCCCAAGCATACTGGACTACAGAGTTCTGATGGGATTT
189 AGGTCACCCATCCTTGTTA-TACTCTTTCCCAAGCATACTGAACAACAGAGTTCTGATGGGATTT
*
605556 GTTACAATAGAGCTGGTATAATCGCACCCTCATATCTTGCGC
253 GTTACAATAGAGCTGGTATAATCGCACCCTCATATCTTGCAC
* *
605598 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCTCATTAATCCTTAAAATATTTAC
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCT-AATAATCCTT-AAATATTTAA
* * * * ** *
605663 TTTTTCAATTCCCTGTTGTTTCCCCGCTCATTCCACACAGTCTCTTTTTTTTACAAAAATAAACA
64 TTTTTCAATTCCCTATTATTTTCCCGCTCATTCCACCCAG-CTC-TTTTTTT-CTTAAA-AAA-G
* ** *
605728 ACACCAAAAATTAAGATAAAGTATAAAATTTCGAAAAAGTTGGGGTGCAACACTAA-AATTTCCC
124 ACACCAAATATTAAGATAAAGTATAAAATTTC-AAAAAAATAGGGTGCAACA-TAAGAATTTCCC
* * * * * * *
605792 AAGAGGTCACCCATCATTGTTATACTCTTTCCCAAGCACACTTAGCTACGGAGTTCTGATGTGAT
187 -AGAGGTCACCCATCCTTGTTATACTCTTTCCCAAGCATACTGAACAACAGAGTTCTGATGGGAT
* * * * *** * * * * * *
605857 TCGGTGCATTAGTTATGGTATGATTGTACCTTTCATGTCTTGCGC
251 TTGTTACAATAGAGCTGGTATAATCGCACC-CTCATATCTTGCAC
* * * * * * * *
605902 CCTTAATTTATTCAAACGCTTCTCCATCTAGCCATTTTCTTCCGAAAAATACTTGAAATCTTTAA
1 CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTT-CTAATAATCCTT-AAATATTTAA
605967 TTTT
64 TTTT
605971 ACGATCTCTA
Statistics
Matches: 1389, Mismatches: 337, Indels: 207
0.72 0.17 0.11
Matches are distributed among these distances:
284 1 0.00
287 3 0.00
288 11 0.01
289 111 0.08
290 330 0.24
291 317 0.23
292 83 0.06
293 65 0.05
294 36 0.03
295 16 0.01
296 6 0.00
297 5 0.00
299 3 0.00
300 37 0.03
301 149 0.11
302 33 0.02
303 89 0.06
304 93 0.07
305 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (294 bp):
CCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCTAATAATCCTTAAATATTTAATT
TTTCAATTCCCTATTATTTTCCCGCTCATTCCACCCAGCTCTTTTTTTCTTAAAAAAGACACCAA
ATATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGTGCAACATAAGAATTTCCCAGAGGTCAC
CCATCCTTGTTATACTCTTTCCCAAGCATACTGAACAACAGAGTTCTGATGGGATTTGTTACAAT
AGAGCTGGTATAATCGCACCCTCATATCTTGCAC
Found at i:605542 original size:591 final size:575
Alignment explanation
Indices: 603833--606348 Score: 2101
Period size: 591 Copynumber: 4.3 Consensus size: 575
603823 ATACCCTTCT
* * * *
603833 TGTCTAG-TGACCTTAATTTATTTAAATGTTTCTCCATATAACCAATTTCTTCTGACTTATCCTT
1 TGTCTAGCT-ACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTT
* * *
603897 AAATATTTAATTTTTTGATTCCCAGTTCTTTCCCGCTCATTCCACCCATGATTTTAAAAAAACAA
65 AAATATTTAATTTTCTGATTCCCAGTTTTTTCCCGCTCATTCCACCCATGTTTTTAAAAAAACAA
**
603962 CACCAAAAATTAAGATAAAGTATAAAATTTCAAATAAAATAGGGGCACAACA-AGAGAATTTCCC
130 CACCAAAAATTAAGATAAAGTATAAAATTTCAAA-AAAATAGGGGTGCAACATA-AGAATTTCCC
* *
604026 AAGTGGTCACCCATCCTTGTTATACTCTTGCCCAATCATGCTTAACAACAGAGTTCTTATGGGAT
193 AAGAGGTCACCCATCCTTGTTATACTCTTTCCCAATCATGCTTAACAACAGAGTTCTTATGGGAT
* * * * * *
604091 TCAGTGT-ATTTCTACTGATATAATCGCACCCTTCATAACTTGTGCACTTAATTTATTTAAACGC
258 T-TGT-TCA-TTGTGCTGGTATAATCGCACCCTTCATGACTTGT-CCCTTAATTTATTTAAACGC
* * *
604155 TTCTCCATGTAACCATTTTCTTCTGAGTGATCCCTAAATTATTTAATTTTGCGATCCCTGCTCTT
319 TTCTCCATGTAACCATTTTCTTCTGAATGATCCCTAAAATATTTAATTTTTCGATCCCTGCTCTT
* *** * *
604220 GTTCCGCTTATTCAACCCATGGTCTTTTAAAAAAAACCAAAATTTAAGATATAGTATAAAATTTT
384 GTTCCGCTCATTCAA-CCAAAATCTTTT--AAAAAACCAAAATTTAATA-AAAGTATAAAATTTT
* * * *
604285 GAAAAAATA-A-AGGTACGACACGAGGACTTCCTGGAAAGTCACACATCCTTGTACTACTCTTGC
445 GAAAAAA-AGAGAGGTACGACACGAGGACTTCCCGGGAGGTCA-ACATCCTTGTACTACTCTCGC
** * *
604348 CCAAGCATACTTGACTATGGAGTTCTGATGTGATATGTGGCAATAGAGCTGGTATAATCGCACCC
508 CCAAGCATACTTGACTACAGAGTTCTGATGGGATATGTTGCAATAGAGCTGGTATAATCGCACCC
*
604413 TAA
573 TCA
* * * **
604416 TGTCTTGC-ACCCTTAATTTATTTAAATGCTTCTCCATGTCACCATTTTCTTCTGACTACTTGTT
1 TGTCTAGCTA-CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTT
* * * *
604480 AAAGTATTTAATTTTATGATTCCC-TTCTCTTTTCCCGCTCATTCCA--TATAGTATTTAAAAAA
65 AAA-TATTTAATTTTCTGATTCCCAGT-T-TTTTCCCGCTCATTCCACCCAT-GTTTTTAAAAAA
* ** * * **
604542 ACAACACCATAAATTAAGATAAAGTATAAAATTTCAAAAACGT-TGGTTGCAACACGAGAATTTC
126 ACAACACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGGTGCAACATAAGAATTTC
* * * * * * * * * *
604606 CCAAGAGGTCTCACATCCTTCTTGTACTCTTTCCCAAGCATGCTTAGCTACGGAGTTCTGATGTG
191 CCAAGAGGTCACCCATCCTTGTTATACTCTTTCCCAATCATGCTTAACAACAGAGTTCTTATGGG
* * * * * * * *
604671 ATTTGGTGCATTGTTGTTGGTATGATTGCAACCTTCATGCCTTGTGCCTTAATTTATTTGAACGC
256 ATTT-GTTCATTG-TGCTGGTATAATCGCACCCTTCATGACTTGTCCCTTAATTTATTTAAACGC
* * * *
604736 TTCTCCATGTAACCATTTTCTTCTAAATGATCCTTAAAAGATTTAATTTTAT-GATCCTTGGCTC
319 TTCTCCATGTAACCATTTTCTTCTGAATGATCCCTAAAATATTTAATTTT-TCGATCCCT-GCTC
* * * *
604800 TTGTCCCGCTCGTTCAACCCCAAGAAT-TTTAAAAAAACCAAAAGTTTAGGT-AAAGTATAAAAT
382 TTGTTCCGCTCATTCAA--CCAA-AATCTTTTAAAAAACCAAAA-TTTA-ATAAAAGTATAAAAT
* * * * * * * * *
604863 TTCG--AAAAAGTAGATGTGCGACACGAGGACTTCCCGAGAGGTCACCGGTCCCTGTACCACACT
442 TTTGAAAAAAAG-AGAGGTACGACACGAGGACTTCCCGGGAGGTCAAC-ATCCTTGTACTACTCT
* * * * * * *
604926 CACCCGAGCATATTTGACCACAGAGTT-TCGATGGGATCTGTTGCATTAAAGCTGGTATAATCGC
505 CGCCCAAGCATACTTGACTACAGAGTTCT-GATGGGATATGTTGCAATAGAGCTGGTATAATCGC
* *
604990 AACCTTCT
569 -ACCCTCA
* *
604998 TGTCTAGCTACCATAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTAACTAATCCTTA
1 TGTCTAGCTACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTTA
* * *
605063 AATATTTAATTTTGCT-ATTCCCAATTATTTTCCCACTCATTCCACCCATGCTCTTTTTTTCTTA
66 AATATTTAATTTT-CTGATTCCCAGTT-TTTTCCCGCTCATTCCACCCATG------TTTT-TAA
** * * *
605127 AAAAATGACACCAAATATTAAGATAAAGTATAAAAGTTCAAATAAAATAGGCGTGCAACATAAGA
122 AAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTCAAA-AAAATAGGGGTGCAACATAAGA
** * * *
605192 ATTTCCC-AGTAGGTCACCCATCCTTGTTATACTCTTTTGCAATCATGATTAACAATAGAGTTTT
186 ATTTCCCAAG-AGGTCACCCATCCTTGTTATACTCTTTCCCAATCATGCTTAACAACAGAGTTCT
* *
605256 TATGGGATTTGTTACATTAGTGCTGGTATAATCGCACCCTTTATGATTTGTACCCTTAATTTATT
250 TATGGGATTTGTT-CATT-GTGCTGGTATAATCGCACCCTTCATGACTTGT-CCCTTAATTTATT
*
605321 TAAACGCTTCTCCATATAACCATTTTCTT-TCGAATGATCCCTAAAATATTTAATTTTTCGATCC
312 TAAACGCTTCTCCATGTAACCATTTTCTTCT-GAATGATCCCTAAAATATTTAATTTTTCGATCC
* * *
605385 CTACTCTTATTCCGCTCATTCAACCAAAACTCTTTTAAAAAGCCAAAATTTAATAAAAAGTATAA
376 CTGCTCTTGTTCCGCTCATTCAACCAAAA-TCTTTTAAAAAACCAAAATTTAAT-AAAAGTATAA
* *
605450 AATTTTGAAAAAAAGAGAGGTACGACACGAGAACTTCCCGGGAGGCCATACATCCTTGTACTACT
439 AATTTTGAAAAAAAGAGAGGTACGACACGAGGACTTCCCGGGAGGTCA-ACATCCTTGTACTACT
* * *
605515 CTCGCCCAAGCATACTGGACTACAGAGTTCTGATGGGATTTGTTACAATAGAGCTGGTATAATCG
503 CTCGCCCAAGCATACTTGACTACAGAGTTCTGATGGGATATGTTGCAATAGAGCTGGTATAATCG
605580 CACCCTCA
568 CACCCTCA
* * ** * * *
605588 TATCTTGCGCCCTTAATTTATTTAAAAGCTTCTCCATGTAACCATTTTCTTCTCATTAATCCTTA
1 TGTCTAGCTACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTT-
* * * * * *
605653 AAATATTTACTTTT-TCAATTCCCTGTTGTTTCCCCGCTCATTCCACACAGTCTCTTTTTTTTAC
65 AAATATTTAATTTTCT-GATTCCCAGTT-TTTTCCCGCTCATT-C-CAC---C-CATGTTTTT--
* * *
605717 AAAAATAAACAACACCAAAAATTAAGATAAAGTATAAAATTTCGAAAAAGTTGGGGTGCAACACT
120 -AAAA-AAACAACACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGGTGCAACA-T
* * ** * * *
605782 AA-AATTTCCCAAGAGGTCACCCATCATTGTTATACTCTTTCCCAAGCACACTTAGCTACGGAGT
182 AAGAATTTCCCAAGAGGTCACCCATCCTTGTTATACTCTTTCCCAATCATGCTTAACAACAGAGT
* * * * ** * * * * * *
605846 TCTGATGTGATTCGGTGCATTAGTTATGGTATGATTGTACCTTTCATGTCTTGCGCCCTTAATTT
247 TCTTATGGGATT-TGTTCATT-GTGCTGGTATAATCGCACCCTTCATGACTTG-TCCCTTAATTT
* * * * ** * * * * *
605911 ATTCAAACGCTTCTCCATCTAGCCATTTTCTTCCGAAAAATACTTGAAATCTTTAATTTTACGAT
309 ATTTAAACGCTTCTCCATGTAACCATTTTCTTCTGAATGATCCCTAAAATATTTAATTTTTCGAT
* * * * ** * **** * * * *
605976 CTCTATCTATTG-TCCTACTTGTTCCACCTAGGCCCTTTAAAAAAAATCAAAAATTAAGATAAAG
374 CCCT-GCTCTTGTTCC-GCTCATTCAACC-AAAATCTTT-TAAAAAACCAAAATTTAATA-AAAG
* * * **
606040 TATAAAA-TTTGAAAAAAA-A-AGG-A-GTA-AC-ACGACTTCCAGTGAGGTCGCCCATCCTTGT
434 TATAAAATTTTGAAAAAAAGAGAGGTACG-ACACGAGGACTTCCCGGGAGGTC-AACATCCTTGT
* * ** * * ** ** * *
606098 ACTACTCTTGCCCAAGCATGCTTGACTATGGAGTTTTTATGGGATCCGTTATATTACTA-CTGGT
497 ACTACTCTCGCCCAAGCATACTTGACTACAGAGTTCTGATGGGATATGTTGCAATA-GAGCTGGT
* ** *
606162 ATGATTACATCCTTCA
561 ATAATCGCA-CCCTCA
* * *
606178 TGTCTTGC-ACCGTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCCGTCTAATCCTT
1 TGTCTAGCTACC-TTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTT
* *** * * * *
606242 AAAATATTTAATTTT-TCA-TCCTCGACACTTTTCCAGCTCGTTCCACACATGCTCTTTAAAAGA
65 -AAATATTTAATTTTCTGATTCC-C-AGTTTTTTCCCGCTCATTCCACCCATG-TTTTTAAAA-A
* * * *
606305 ATGCAACACCAGAAATTAAGATAAAGTATAACATTTAAAAAAAA
125 A-ACAACACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAA
606349 GATCGGCGTA
Statistics
Matches: 1544, Mismatches: 307, Indels: 165
0.77 0.15 0.08
Matches are distributed among these distances:
578 1 0.00
579 4 0.00
580 3 0.00
581 223 0.14
582 221 0.14
583 73 0.05
584 72 0.05
585 16 0.01
587 3 0.00
588 10 0.01
589 142 0.09
590 176 0.11
591 246 0.16
592 81 0.05
593 174 0.11
594 70 0.05
595 26 0.02
596 1 0.00
597 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (575 bp):
TGTCTAGCTACCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCTGACTAATCCTTA
AATATTTAATTTTCTGATTCCCAGTTTTTTCCCGCTCATTCCACCCATGTTTTTAAAAAAACAAC
ACCAAAAATTAAGATAAAGTATAAAATTTCAAAAAAATAGGGGTGCAACATAAGAATTTCCCAAG
AGGTCACCCATCCTTGTTATACTCTTTCCCAATCATGCTTAACAACAGAGTTCTTATGGGATTTG
TTCATTGTGCTGGTATAATCGCACCCTTCATGACTTGTCCCTTAATTTATTTAAACGCTTCTCCA
TGTAACCATTTTCTTCTGAATGATCCCTAAAATATTTAATTTTTCGATCCCTGCTCTTGTTCCGC
TCATTCAACCAAAATCTTTTAAAAAACCAAAATTTAATAAAAGTATAAAATTTTGAAAAAAAGAG
AGGTACGACACGAGGACTTCCCGGGAGGTCAACATCCTTGTACTACTCTCGCCCAAGCATACTTG
ACTACAGAGTTCTGATGGGATATGTTGCAATAGAGCTGGTATAATCGCACCCTCA
Found at i:608326 original size:294 final size:291
Alignment explanation
Indices: 607842--608388 Score: 697
Period size: 294 Copynumber: 1.9 Consensus size: 291
607832 ACCCCGACTC
* *
607842 TTTTAAAAAAGAACAACATCAAAAATTAAGATAAAGTATAAAATATAGAAAAGGATGCAACACGA
1 TTTTAAAAAACAACAACA-CAAAAATTAAGATAAAGTATAAAATATAGAAAAGGATACAACACGA
* ** * * *
607907 GGACTTCCCAGAAGGTCACCGTTCCTAGTGCTACTCCCGCCCAAGCACGCTTCACTGTGGAGTTT
65 GGACTTACCAGAAGGTCACCCATCCTAGTACTACTCCCGCCCAAGCACGCTTCACTGAGGAGTTC
* *
607972 TGATGGGATCCGATCCATTAGTGCTGGTATAATCGCACTCACAATGTATTGCACCCTTAATTTAT
130 TGATGGGATCCGATCCATTAGTGCTGGTATAATAGCACTCACAA-GTATTACACCCTTAATTTAT
* * *
608037 TTAAACGCTTCTCCATTTAACCATTTTCTTCCAACGAATCCTTAAAATATTTAATTTTGTGATCC
194 TTAAACGATTCCCCATTTAACCATTTTCTTCCAACGAATCATTAAAATATTTAATTTTGTGATCC
608102 CTAGTTCTTTTCTCGATAATTCCACCCCAGTTT
259 CTAGTTCTTTTCTCGATAATTCCACCCCAGTTT
*
608135 TTTTAAAAAACAAC-ACA-AAAAATTAAGATAAATTATAAAATATCCAGAAAAAGGAATACAACA
1 TTTTAAAAAACAACAACACAAAAATTAAGATAAAGTATAAAATAT--AG-AAAAGG-ATACAACA
* * * ***
608198 CGAGGACTTACTAGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTGGTTGAGGAG
62 CGAGGACTTACCAGAAGGTCACCCATCCTAGTACTACTCCCGCCCAAGCACGCTTCACTGAGGAG
* ** * * * * * *
608263 TTCTGATTGGATTTGGTGCATTAGTGTTGGTATGATAGCA-TCCATCACA-TCTTACGCCCTTAA
127 TTCTGATGGGATCCGATCCATTAGTGCTGGTATAATAGCACT-CA-CA-AGTATTACACCCTTAA
* * *
608326 TTTATTTAAATGATTCCCCATTTAACCATTTTCTTTCAACTAATCATTAAAATATTTAATTTT
189 TTTATTTAAACGATTCCCCATTTAACCATTTTCTTCCAACGAATCATTAAAATATTTAATTTT
608389 ACAATCCCCG
Statistics
Matches: 215, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
290 25 0.12
292 5 0.02
293 20 0.09
294 162 0.75
295 2 0.01
296 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (291 bp):
TTTTAAAAAACAACAACACAAAAATTAAGATAAAGTATAAAATATAGAAAAGGATACAACACGAG
GACTTACCAGAAGGTCACCCATCCTAGTACTACTCCCGCCCAAGCACGCTTCACTGAGGAGTTCT
GATGGGATCCGATCCATTAGTGCTGGTATAATAGCACTCACAAGTATTACACCCTTAATTTATTT
AAACGATTCCCCATTTAACCATTTTCTTCCAACGAATCATTAAAATATTTAATTTTGTGATCCCT
AGTTCTTTTCTCGATAATTCCACCCCAGTTT
Found at i:611411 original size:706 final size:706
Alignment explanation
Indices: 609720--611840 Score: 3974
Period size: 706 Copynumber: 3.0 Consensus size: 706
609710 TCGAAAAACG
* * *
609720 TTTTACGTGAAACAAACAGACCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
1 TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
*
609785 GAGGACTTCCCAGGTAGTTACCCGTCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
66 GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
609850 TTGATGGGATCCAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
131 TTGATGGGATCCAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
609915 TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
196 TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
609980 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
261 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
* *
610045 AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCTCAGAAGGTCACCCATACTAGTA
326 AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCCCAGAAGGTCACCCATCCTAGTA
*
610110 TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGATGCATTACTGCTAGTAT
391 TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
610175 GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
456 GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
*
610240 TCGACTAATCCTTAAAATATTTAATTTTATGATCACTTACTTTTTTCCCGCTCCTTGATTCTTT-
521 TCGACTAATCCTTAAAATATTTAATTTTGTGATCACTTACTTTTTTCCCGCTCCTTGATTCTTTA
610304 AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
586 AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
610369 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAAGCACGCTTGATTGCAGTT
651 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAAGCACGCTTGATTGCAGTT
610425 TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
1 TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
610490 GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
66 GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
*
610555 TTGATGGGATCTAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
131 TTGATGGGATCCAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
610620 TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
196 TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
610685 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
261 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
610750 AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCCCAGAAGGTCACCCATCCTAGTA
326 AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCCCAGAAGGTCACCCATCCTAGTA
610815 TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
391 TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
*
610880 GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTCCTT
456 GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
610945 TCGACTAATCCTTAAAATATTTAATTTTGTGATCACTTACTTTTTTCCCGCTCCTTGATTCTTTA
521 TCGACTAATCCTTAAAATATTTAATTTTGTGATCACTTACTTTTTTCCCGCTCCTTGATTCTTTA
*
611010 AAAAAATACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
586 AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
*
611075 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCGAAGCACGCTTGATTGCAGTT
651 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAAGCACGCTTGATTGCAGTT
611131 TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
1 TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
611196 GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
66 GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
* *
611261 TTGATGGGATCCAATGCATTAGTGCTTGTATGATCGCACCCATCATATCTTTCACCATTAATTTA
131 TTGATGGGATCCAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
* *
611326 TTTACAAGCTTCTTCATGTAACCATTTACTTCCAACTAATTCTTAAAACATTTAATCTTACGATC
196 TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
611391 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
261 CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
* * *
611456 AAATTATATAATTTTGAAAAAAAGATACAACACAGGGACTTCCCAGGAGGTCACCCATCCTAGTA
326 AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCCCAGAAGGTCACCCATCCTAGTA
* * *
611521 TTACTTTCGCCCAAGCACGCTTAATTGTAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
391 TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
*
611586 GATAGCAACCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
456 GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
* *
611651 TCGACTAATCCTTAAAATATTTAATTTTGTTATCACTTACTTTTTTCTCGCTCCTTGATTCTTTA
521 TCGACTAATCCTTAAAATATTTAATTTTGTGATCACTTACTTTTTTCCCGCTCCTTGATTCTTTA
* *
611716 AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAATGAAGGGGCAACACTAGAAATT
586 AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
* *
611781 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAGGCACGCTTGATTGCAGTG
651 CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAAGCACGCTTGATTGCAGTT
611837 TTTT
1 TTTT
611841 GATGGGATCC
Statistics
Matches: 1382, Mismatches: 33, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
705 574 0.42
706 808 0.58
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (706 bp):
TTTTACATGAAACAAACGGGCCCTTAGATAAAGTATAAAATTTTGAAAAGAGTAGGGTACAACAC
GAGGACTTCCCAGGTAGTTACCCATCATAGTACTGCTCTCGTCCAAACATGCTTAACTGCGGAGT
TTGATGGGATCCAATGAATTAGTGCTTGTATGATCGCACCCATCATATCTTGCACCATTAATTTA
TTTACAATCTTCTTCATGTAACCATTTACTTGCAACTAATTCTTAAAACATTTAATCTTACGATC
CCTGGCTCTTTTCCCACTTGTTCCATCACGATTCTATTAAAAAAAGCAACACCAAAAATAAAGAT
AAATTATATAATTTTAAAAAAAAGATACAACATAGGGACTTCCCAGAAGGTCACCCATCCTAGTA
TTACTCTCGCCCAAGCACACTTAATTATAGAGTTTTGATGGGATCCGGTGCATTACTGCTAGTAT
GATAGCAGCCATCATGTCTTACTCCCTTAATTTATTTAAATGCTTCTGCATTATACCATTTTCTT
TCGACTAATCCTTAAAATATTTAATTTTGTGATCACTTACTTTTTTCCCGCTCCTTGATTCTTTA
AAAAAACACCAAAAATTAAGATAAAGTATAAAGTTTCGAAAAAGGAAGGGGGAACACTAGAAATT
CCCAATAGTTCACCCATCCTAGTACTACTCTAGCCCAAGCACGCTTGATTGCAGTT
Found at i:612479 original size:125 final size:118
Alignment explanation
Indices: 612244--612480 Score: 282
Period size: 125 Copynumber: 1.9 Consensus size: 118
612234 GTGATCCCTG
612244 ACTCTTTTCCCACTCATTCCACCCCCGACTCTTTAAAAAACCAAAAATTAAGATAAAGTATGAAA
1 ACTCTTTTCCCACTCATTCCACCCCCGACTCTTTAAAAAACCAAAAATTAAGATAAAGTATGAAA
* * * * *
612309 TTTTGATAAAAAAGGGTGCAACACAATGACTTCCAAGGAGTTCACCCATTGGA
66 ATATAAAAAAAAAGGGTGCAACACAATGACTTCCAAGGAGGTCACCCATTGGA
*
612362 ACTCTTTTCCTACTCATTCCA-CCCCGACTCCTTTAAAAATAACAACATCAAAAATTAAGATAAA
1 ACTCTTTTCCCACTCATTCCACCCCCGACT-CTTT---AA-AA-AAC--CAAAAATTAAGATAAA
* * *
612426 GTAT-AAAATATAAAAAAAGAAGGGTGCAACACGA-GAGCTTCCCAGTAGGTCACCC
58 GTATGAAAATATAAAAAAA-AAGGGTGCAACACAATGA-CTTCCAAGGAGGTCACCC
612481 TTCCTAGTAC
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
117 8 0.08
118 24 0.24
121 2 0.02
122 2 0.02
123 3 0.03
124 12 0.12
125 49 0.49
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (118 bp):
ACTCTTTTCCCACTCATTCCACCCCCGACTCTTTAAAAAACCAAAAATTAAGATAAAGTATGAAA
ATATAAAAAAAAAGGGTGCAACACAATGACTTCCAAGGAGGTCACCCATTGGA
Found at i:613569 original size:289 final size:290
Alignment explanation
Indices: 613216--613785 Score: 611
Period size: 290 Copynumber: 2.0 Consensus size: 290
613206 TCTAACTAAT
* ** ** * **
613216 CCTTAAAATACTTAATTTTGTGATCCCCTTCTCTTTCTCCGTTCGTTCCACCCAGGCTCTTTAAA
1 CCTTAAAATACTTAATTTTATGATCCCCAACTCTTTCTCCACTCGTTCAACCCAGAATCTTTAAA
*
613281 ATAA-A-C-ACAAAATATTAAGATAAAGAATAAAATTTTGAAAATAA-A-GGGTGCAACACT-AG
66 A-AACACCTACAAAA-ATTAACATAAAGAATAAAATTTTGAAAA-AAGAGGGGTGCAACA-TGAG
* ** * ** * * **
613340 GACTTCCCAAGAGGTCATCCATCCTAGTATTACTCCCACCGAGGCACACTTAACTGCATTGTTCT
127 GACCTCCCAAGACATCACCCATCCTAGTACAACTCCCACCCAAGCACACTTAACTGCAGAGTT-T
* *
613405 GAAGGAATCAAATGCATTACTATAGGTATGATCACATCTAT-AATATCTTGTGCCCTTAATTTAT
191 GAAGGAATCAAATGCATTACTATAGGTATGATCACACCT-TGAATATATTGTGCCCTTAATTTAT
*
613469 GTAAA-TGCTTCTCCATGTAACCATTTTTGGATTAAC
255 GTAAACT-CTTATCCATGTAACCATTTTTGGATTAAC
*
613505 CCTTAAAATATTTAATTTTATGATCCCCAACTCTTT-TCCCACTCGTTCAACTCC-GAATCTTTA
1 CCTTAAAATACTTAATTTTATGATCCCCAACTCTTTCT-CCACTCGTTCAAC-CCAGAATCTTTA
* * *
613568 AAAAACACCTCCAAAAATTGACATAAAGTATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGA
64 AAAAACACCTACAAAAATTAACATAAAGAATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGA
* * * * *
613633 CCTCCCAGGTCATCACCCATCCTAGTACAACTCTCACCCAAGCACACTTGACTGCAGAGTTTGAT
129 CCTCCCAAGACATCACCCATCCTAGTACAACTCCCACCCAAGCACACTTAACTGCAGAGTTTGAA
* *** * * * * * * *
613698 GGGATCCGGTGCATTACTGTTGTTATGATCGCACCTTGAATGTATTGTGCCCTTAGTTTATTTAA
194 GGAATCAAATGCATTACTATAGGTATGATCACACCTTGAATATATTGTGCCCTTAATTTATGTAA
613763 ACTCTTATCCATGTAACCATTTT
259 ACTCTTATCCATGTAACCATTTT
613786 CATCTGACTA
Statistics
Matches: 229, Mismatches: 42, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
288 3 0.01
289 56 0.24
290 103 0.45
291 67 0.29
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (290 bp):
CCTTAAAATACTTAATTTTATGATCCCCAACTCTTTCTCCACTCGTTCAACCCAGAATCTTTAAA
AAACACCTACAAAAATTAACATAAAGAATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGACC
TCCCAAGACATCACCCATCCTAGTACAACTCCCACCCAAGCACACTTAACTGCAGAGTTTGAAGG
AATCAAATGCATTACTATAGGTATGATCACACCTTGAATATATTGTGCCCTTAATTTATGTAAAC
TCTTATCCATGTAACCATTTTTGGATTAAC
Found at i:615870 original size:81 final size:81
Alignment explanation
Indices: 615771--616508 Score: 1023
Period size: 81 Copynumber: 9.1 Consensus size: 81
615761 ATTCCTTTAG
* *
615771 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
615836 ACAAATAGGCTATTAG
66 ACAACTAGGCTATTAA
* * * **
615852 TCTTTTGCTCAAATGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
615917 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* **
615933 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTAACAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
615998 ACATA-TAGGCTATTAA
66 ACA-ACTAGGCTATTAA
* * * *
616014 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTACCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
616079 ACAACTAGGCTATTAG
66 ACAACTAGGCTATTAA
* * * *
616095 TTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAGAT-ACACATTTTTGCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA-TTGACACCTTTCTGCCAAATG
**
616159 CACAGTTAGGCTATTAA
65 CACAACTAGGCTATTAA
* * * * * *
616176 TATTTTACTCAAAGGTATCTAACCTTTCATCGAACTAGCATAATTGACATCTTTCTGGCAAACT-
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAA-TG
*
616240 CACAACTAGGCTATTAG
65 CACAACTAGGCTATTAA
* * *
616257 TCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCACAGTTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
616322 ACAACTAGGCTTTTAA
66 ACAACTAGGCTATTAA
* * * * * *
616338 TCTTTTACTCAGAGGTATTTAACCTTTCATCTAACTGGAATACTTGTCACATTTCTGCCAGATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
616403 ACAGCTAGGCTATTAA
66 ACAACTAGGCTATTAA
* * *
616419 TCTTTTACTTAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
616484 ACAACTAGGCTATTAG
66 ACAACTAGGCTATTAA
616500 TCTTTTACT
1 TCTTTTACT
616509 TTGGAATAGT
Statistics
Matches: 577, Mismatches: 74, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
80 3 0.01
81 571 0.99
82 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAACTAGGCTATTAA
Found at i:616931 original size:55 final size:55
Alignment explanation
Indices: 616826--616971 Score: 204
Period size: 55 Copynumber: 2.7 Consensus size: 55
616816 TATACGATAG
* * * * *** *
616826 TTCACCAACTAATGATGATTTCCATGG-GTTGCACACATCGTGCTTGTACGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCGTGCCCCTACGGTCA
616880 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCGTGCCCCTACGGTCA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCGTGCCCCTACGGTCA
*
616935 TTCATCAACTAATGATGAATTTCGTGGATTTGCACAC
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACAC
616972 TTAGTGTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 24 0.29
55 58 0.71
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (55 bp):
TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCGTGCCCCTACGGTCA
Found at i:621296 original size:81 final size:81
Alignment explanation
Indices: 621211--622030 Score: 1195
Period size: 81 Copynumber: 10.2 Consensus size: 81
621201 TATAATTCCT
* * * * * *
621211 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTGACATAATTAACACATTTATGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
621276 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCTA
* *
621292 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTACCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
621357 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCTA
* * * *
621373 TTATTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATTCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
621438 ATGAACAACTAGGCTA
66 ATGCACAACTAGGCTA
* * * * *
621454 TTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAATTGTCATAA-TGACACCTTTCTTCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
621518 ATGCACAGA-TATGAC-A
66 ATGCACA-ACTA-GGCTA
* * *
621534 TTCA-TCTTTTACTCAAAGGCATTTAAACTTTCATCTAACTGGCATAATTGACACCTTTCTACCA
1 TT-AGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
621598 AATGTACAATTAGGCTA
65 AATGCACAACTAGGCTA
* *
621615 TTTGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAACTTTCTGCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
621680 ATGCACAGCTAGGCTA
66 ATGCACAACTAGGCTA
* * *
621696 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACACATTTCTGCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
621761 ATGCACAACTA-ACTA
66 ATGCACAACTAGGCTA
* *
621776 TTAGTCTTTTACAC-AAGGTTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTATGCCA
1 TTAGTCTTTTACTCAAAGG-TATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
621839 AATGCAGAACTAGGATA
65 AATGCACAACTAGGCTA
* * *
621856 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTAACACCTTTCTGCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
621921 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCTA
* *
621937 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
622002 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCTA
622018 TTAGTCTTTTACT
1 TTAGTCTTTTACT
622031 TTGGAATAGT
Statistics
Matches: 666, Mismatches: 62, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
79 36 0.05
80 138 0.21
81 492 0.74
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (81 bp):
TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAACTAGGCTA
Found at i:621641 original size:242 final size:242
Alignment explanation
Indices: 621215--622030 Score: 1241
Period size: 242 Copynumber: 3.4 Consensus size: 242
621205 ATTCCTTTAG
* * * * *
621215 TCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTGACATAATTAACACATTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
621280 ACAACTAGGCTATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAACTAGACTATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
*
621345 CTTTTCTACCAAATGCACAACTAGGCTATTATTCTTTTACTCAAAGGTATTTAACCTTTCATCTA
131 CCTTTCTACCAAATGCACAACTAGGCTATT-TTCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * *
621410 ACTAGCATAATTGACACCTTTATTCCAAATGAACAACTAGGCTATTAA
195 ACTAGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCTATTAA
* * * * *
621458 TCTTTTACTCAAAGGTATTTAACATTTCATCTAATTGTCATAA-TGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
* *
621522 ACAGA-TATGAC-ATTCA-TCTTTTACTCAAAGGCATTTAAACTTTCATCTAACTGGCATAATTG
66 ACA-ACTA-GACTATT-AGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTG
* *
621584 ACACCTTTCTACCAAATGTACAATTAGGCTATTTGTCTTTTACTCAAAGGTATTTAACCTTTCAT
128 ACACCTTTCTACCAAATGCACAACTAGGCTATTT-TCTTTTACTCAAAGGTATTTAACCTTTCAT
* * *
621649 CTAACTGGCATAATTGACAACTTTCTGCCAAATGCACAGCTAGGCTATTAA
192 CTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCTATTAA
*
621700 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
621765 ACAACTA-ACTATTAGTCTTTTACAC-AAGGTTATTTAACCTTTCATCTAACT-GCATAATTGAC
66 ACAACTAGACTATTAGTCTTTTACTCAAAGG-TATTTAACCTTTCATCTAACTGGCATAATTGAC
* * * * *
621827 ACCTTTATGCCAAATGCAGAACTAGGATATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
130 ACCTTTCTACCAAATGCACAACTAGGCTATT-TTCTTTTACTCAAAGGTATTTAACCTTTCATCT
*
621892 AACTAGCATAATTAACACCTTTCTGCCAAATGCACAACTAGGCTATTAA
194 AACTAGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCTATTAA
621941 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
622006 ACAACTAGGCTATTAGTCTTTTACT
66 ACAACTAGACTATTAGTCTTTTACT
622031 TTGGAATAGT
Statistics
Matches: 518, Mismatches: 44, Indels: 23
0.89 0.08 0.04
Matches are distributed among these distances:
241 192 0.37
242 259 0.50
243 67 0.13
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (242 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
ACAACTAGACTATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
CCTTTCTACCAAATGCACAACTAGGCTATTTTCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
CTAGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCTATTAA
Found at i:622405 original size:54 final size:55
Alignment explanation
Indices: 622340--622505 Score: 219
Period size: 55 Copynumber: 3.0 Consensus size: 55
622330 ATAGTGCCTA
* * * * *
622340 TACGGTAATTCACCAACTCATGATGAATTCTGTGG-GTTGCACACATCGTGCATT
1 TACGGTTATTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATG
* * *
622394 TACGGTTATTCATTAACTAATGATGAATTCCGTGGATTTGCACACATCATGCATG
1 TACGGTTATTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATG
* *
622449 TACGATTATTCATCAACTAATGATGAATT-TCGTGGATTTGCACACATAGTGCATG
1 TACGGTTATTCATCAACTAATGATGAATTCT-GTGGATTTGCACACATCGTGCATG
622504 TA
1 TA
622506 GTACACATAG
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
54 30 0.31
55 67 0.69
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TACGGTTATTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATG
Found at i:630477 original size:295 final size:294
Alignment explanation
Indices: 629866--630864 Score: 840
Period size: 295 Copynumber: 3.4 Consensus size: 294
629856 GTATTACTAT
* * * * * * *
629866 CGCCCTTATTTTATTTAAATGCTTCTCCATGTAACCACTTTATTCCGACTAATCCCTAAAATATT
1 CGCCCTTAATTTATTTAAATGATTCTCCATATAACCATTTTCTTCCAACTAATCCATAAAATATT
* * * * *
629931 TAATTTTGTGATCTCTATCTATTTTCTTGATCGTTCCACCCTTACTCTTTTTAAAAAAAAGAACA
66 TAATTTTGTGATCTCTAGCTCTTTTCCTGCTCGTTCCACCCTAACTC-TTTT----AAAA-AACA
* * *
629996 ACATAAAAAATTAAGATAAAGTATAAAATATAAAAAAAGAGGCGTGCAACATGAGGACTTCCCAG
125 ACACAAAAAATTAAGATAAAGTATAAAATATAAAAAAAGAGGCGTGAAACATGAGAACTTCCCAG
* * * * * * *
630061 TACGTCACCCATCCTAGTTCTACTCTCGCCCAAGAATGCTTACCTGCGGAATCTTGATGTGATTC
190 GACGTCACCCATCCTAATTCTACACCCGCCCAAGAATGCTTAACTGCGGAATCTTGATGGGATCC
**
630126 GGTGCATTAGTGTTGGTATTATCACACCAATAATGTCTTG
255 GACGCATTAGTGTTGGTATTATCACACCAATAATGTCTTG
* * * * *
630166 CGTCTTTAATTTATTTAAATGATTCTCCATATAACTATTTTCTTCCAACTAATCCTTAAAATTTT
1 CGCCCTTAATTTATTTAAATGATTCTCCATATAACCATTTTCTTCCAACTAATCCATAAAATATT
* * *
630231 TAATTTTGTGATCCCCAGCTCTTTTCCTGCTCGTTCCACCCCAACTCTTTTAAAAAACAACACAA
66 TAATTTTGTGATCTCTAGCTCTTTTCCTGCTCGTTCCACCCTAACTCTTTTAAAAAACAACACAA
* * * * * * *
630296 AAAATTAAGATAAAGTGTACAATTTTGAGAAAAGAGGTGTGAAACATGAGAACTTCTCC-GGAGG
131 AAAATTAAGATAAAGTATA-AAATATAAAAAAAGAGGCGTGAAACATGAGAACTTC-CCAGGACG
* * * * *
630360 TCATCCTTCCTAATAT-TACACCCGCCCAAGCATGCTTAACTGTGGAATTTTGATGGGATCCGAC
194 TCACCCATCCTAAT-TCTACACCCGCCCAAGAATGCTTAACTGCGGAATCTTGATGGGATCCGAC
* * * *
630424 GCATTTGT-TCTGTTATTATCGCACCAATAATGTTTTG
258 GCATTAGTGT-TGGTATTATCACACCAATAATGTCTTG
* * * * * * *
630461 TGCCCTTAATTTATTTAAATGTTTCTCCATTTAACCATTTTCTTCGAACTAATCAAAAAAATATA
1 CGCCCTTAATTTATTTAAATGATTCTCCATATAACCATTTTCTTCCAACTAATCCATAAAATATT
* * * *
630526 TAATTTTGTGATCTTTGGTTCTTTTCCTGCTCGTTCCACCCTAACTCTTGTTAAAAAACAACACC
66 TAATTTTGTGATCTCTAGCTCTTTTCCTGCTCGTTCCACCCTAACTCTT-TTAAAAAACAACACA
* * * ** * ** * * **
630591 AAGAGTAAAGATAAAGTATAATTTTTTTAAAAAAAAAGAGTAGTGAATCA-GAAGGACTTCTGAG
130 AAAAATTAAGATAAAGTATAA----AATATAAAAAAAGAGGCGTGAAACATG-AGAACTTCCCAG
* * * * ** * * ** * * * *
630655 GAGGTCACCCATCCTAGTACAACATTCGCCGAAGCATTTTTGACTGCGAAATTTTGATGGGATTC
190 GACGTCACCCATCCTAATTCTACACCCGCCCAAGAATGCTTAACTGCGGAATCTTGATGGGATCC
* * * *** * *
630720 GATGTAGTAGTGCCAGTATGATCACACCCAA-CATGTCTTG
255 GACGCATTAGTGTTGGTATTATCACA-CCAATAATGTCTTG
* * * * * * * * *
630760 CACTCTTAATTTATTTAAACGCTTCCCCGTGTAACTATTTTCTTCCAACTAATCCTTAAAATATT
1 CGCCCTTAATTTATTTAAATGATTCTCCATATAACCATTTTCTTCCAACTAATCCATAAAATATT
* * * **
630825 TATTTTTATGATC-CTTGCTCTTTTCCCACTCGTTCCACCC
66 TAATTTTGTGATCTCTAGCTCTTTTCCTGCTCGTTCCACCC
630865 AGGATCTTTT
Statistics
Matches: 557, Mismatches: 128, Indels: 30
0.78 0.18 0.04
Matches are distributed among these distances:
294 28 0.05
295 213 0.38
296 33 0.06
298 23 0.04
299 163 0.29
300 97 0.17
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (294 bp):
CGCCCTTAATTTATTTAAATGATTCTCCATATAACCATTTTCTTCCAACTAATCCATAAAATATT
TAATTTTGTGATCTCTAGCTCTTTTCCTGCTCGTTCCACCCTAACTCTTTTAAAAAACAACACAA
AAAATTAAGATAAAGTATAAAATATAAAAAAAGAGGCGTGAAACATGAGAACTTCCCAGGACGTC
ACCCATCCTAATTCTACACCCGCCCAAGAATGCTTAACTGCGGAATCTTGATGGGATCCGACGCA
TTAGTGTTGGTATTATCACACCAATAATGTCTTG
Found at i:633013 original size:114 final size:114
Alignment explanation
Indices: 632813--633019 Score: 258
Period size: 114 Copynumber: 1.8 Consensus size: 114
632803 ATGAGGTCAC
*** * *
632813 CCATCCTAGTACTACTCTCACCCAAGCACGCTTGCCTGTGGAATTCTGATGGGATTCTGTGCATT
1 CCATCCTAGTACTACTCTCACCCAAGCACGCTTGCCTACAGAATTCTAATGGGATTCTGTACATT
**
632878 AGTGTTGATATGATGACACCCATAATGTCTAGCACCTTTAGGGAGGTCG
66 AGTACTGATATGATGACACCCATAATGTCTAGCACCTTTAGGGAGGTCG
* * *
632927 CCATCCTAGTACTACTCTCACCCGAGCACGCTT-CACTACAGAGTTCTAATTGGA-TCTAGTACA
1 CCATCCTAGTACTACTCTCACCCAAGCACGCTTGC-CTACAGAATTCTAATGGGATTCT-GTACA
* *
632990 TTAGTACTGGTATGATCG-CACCCATTATGT
64 TTAGTACTGATATGAT-GACACCCATAATGT
633020 TTTGCAACCT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
113 4 0.05
114 73 0.94
115 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (114 bp):
CCATCCTAGTACTACTCTCACCCAAGCACGCTTGCCTACAGAATTCTAATGGGATTCTGTACATT
AGTACTGATATGATGACACCCATAATGTCTAGCACCTTTAGGGAGGTCG
Found at i:633559 original size:293 final size:292
Alignment explanation
Indices: 632996--634208 Score: 703
Period size: 293 Copynumber: 4.2 Consensus size: 292
632986 TACATTAGTA
* ** ** * * *
632996 CTGGTATGATCGCACCCATTATGTTTTGCAACCTTAATTTATTTAAACACTTTTCCA-CGTAACC
1 CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTTAAACAATTCTCCATC-TAACC
* * * * * * * * *
633060 ATTTTCTTCCGACTAATCCTTCAAGTATTTAATTTTGTGAT-CCATGGCACTCTTCTCACCCGTA
65 ATTTTCTTCCTACTAAT-CTTAAAATATTTAATTTTGAGATACC-TGACTCTTTTCCCACTC-T-
* * * ** * * **
633124 CCA-ACCGGACTCTTTAAAAAAA-ATGATACCAAAAATTAAGATTAAGTATAAAATTTTGATAAA
126 CCACCCCGG-TTCCTTAAAAAAACA--ACGCCCAAAATTAAGATAAAGTATAAAATTTAAATAAA
* *
633187 AGAAGGGTGCAACACGAGGACTTCCCAGAAGGTCACCCATCGTAGTACTACGCTCGTCCAAGCAC
188 AGAAGGGTGCAACACGAGGAATTCCCAGAAGGTCACCCATCATAGTACTACGCTCGTCCAAGCAC
** * * * *
633252 TTTTAACAATGAAGTTC-GTATGGGATCTGGTGCATTAATT
253 GCTTAACAATGAAGTTCTG-ATGAGATCCGATGCATTAATG
** * *** * *
633292 CTGGTATGATCGTACCCATCATGCCTTGCTTTCTTAATTTATTTAAATAATTCTCCATCTAAGCA
1 CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTTAAACAATTCTCCATCTAACCA
633357 TTTTCTT-CTGACTAATTCTTAAAATATTTAATTTTGAGATACCTGACTCTTTTCCCACTCTCCA
66 TTTTCTTCCT-ACTAA-TCTTAAAATATTTAATTTTGAGATACCTGACTCTTTTCCCACTCTCCA
* *
633421 CCCCGGTTCCTTAAAAAAACAACGCCCAAAATTAAGATAAAGTGTAAAATTTCAAATAATA-AAG
129 CCCCGGTTCCTTAAAAAAACAACGCCCAAAATTAAGATAAAGTATAAAATTT-AAATAAAAGAAG
* * * *
633485 GGTGCAATAGGTGGAATTCCCA-AGAGGTCACCCATCATTGTACTACGCTCGTCCAAGCACGCTT
193 GGTGCAACACGAGGAATTCCCAGA-AGGTCACCCATCATAGTACTACGCTCGTCCAAGCACGCTT
* * * **
633549 ACCTATGAAGTTCTGATGAGATCCGATTCATTCGTG
257 AACAATGAAGTTCTGATGAGATCCGATGCATTAATG
* * ** *
633585 GTGGTATGATCACACCCACCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCA
1 CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTTAAACAATTCTCCATCTAACCA
* * * * * * * * *
633650 TTTTCTTCCTCCTAATCTTTAAATGTTTAATTTTGCGAT-CATCGGCTCATTTCCTACTCTTTCT
66 TTTTCTTCCTACTAATCTTAAAATATTTAATTTTGAGATACCT-GACTCTTTTCCCACTC--TCC
* * * * * * * * *
633714 ACCCCAGCTCTTCTAAAAAAACAACACCAAAAAGTAAGATGAAGTAAAAAATTTTAAA-AAATGA
128 ACCCCGGTTCCT-TAAAAAAACAACGCCCAAAATTAAGATAAAGTATAAAA-TTTAAATAAAAGA
* * * * * ** * * * * * *
633778 GGGGTACAACACGAGTACTTCCTAGGTGGTC-CCCACTC-TAATATTACTCTCATCGAAGCAAGC
191 AGGGTGCAACACGAGGAATTCCCAGAAGGTCACCCA-TCATAGTACTACGCTCGTCCAAGCACGC
* * * *
633841 TTGAC--TGCAAAGTT-TAGCTAAGATCC-AGTGCATTAGTG
255 TTAACAATG--AAGTTCT-GATGAGATCCGA-TGCATTAATG
* * * ** * * * *
633879 CTGGTATGATCGCTCCTATAATGCCTTGCGCCCTTAATTTATTTAAACACTTCTCCTTGTAACCA
1 CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTTAAACAATTCTCCATCTAACCA
* * * *
633944 TTTTCTT--TAGGCTAATCCTTAAAATATTTAATTTTGTGAT-CCTTGACTCTTTTCTCGCTGGT
66 TTTTCTTCCTA--CTAAT-CTTAAAATATTTAATTTTGAGATACC-TGACTCTTTTCCCACT--C
* * * *
634006 TCCACCCAGCTT--TT---AAAATAA---CCAAAATTTAAGATAAACTATAAAATTCTTAAAT--
125 TCCACCCCGGTTCCTTAAAAAAACAACGCCCAAAA-TTAAGATAAAGTATAAAA-T-TTAAATAA
* * * * * * * * * * *
634061 AAGAGGGGTGTAACACGAGGACTTTCGAGGAGTTCACTCATCCTACTACTACGCTC-ACCTAAGC
187 AAGAAGGGTGCAACACGAGGAATTCCCAGAAGGTCACCCATCATAGTACTACGCTCGTCC-AAGC
* * * * *
634125 ACGCTTAACTATGAAATTTTGATG-GAAT-CAAGTGCATTAGTG
251 ACGCTTAACAATGAAGTTCTGATGAG-ATCCGA-TGCATTAATG
* * * *
634167 CTGGTATGATCGCACCCATCATGTCTTGCGCCC--AATTTATTT
1 CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTT
634209 CAATGCTTAA
Statistics
Matches: 719, Mismatches: 159, Indels: 88
0.74 0.16 0.09
Matches are distributed among these distances:
286 14 0.02
287 48 0.07
288 78 0.11
289 7 0.01
290 2 0.00
291 2 0.00
292 39 0.05
293 174 0.24
294 148 0.21
295 103 0.14
296 100 0.14
297 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (292 bp):
CTGGTATGATCACACCCACCATGCCTTGCACCCTTAATTTATTTAAACAATTCTCCATCTAACCA
TTTTCTTCCTACTAATCTTAAAATATTTAATTTTGAGATACCTGACTCTTTTCCCACTCTCCACC
CCGGTTCCTTAAAAAAACAACGCCCAAAATTAAGATAAAGTATAAAATTTAAATAAAAGAAGGGT
GCAACACGAGGAATTCCCAGAAGGTCACCCATCATAGTACTACGCTCGTCCAAGCACGCTTAACA
ATGAAGTTCTGATGAGATCCGATGCATTAATG
Found at i:635380 original size:286 final size:286
Alignment explanation
Indices: 635000--635631 Score: 711
Period size: 289 Copynumber: 2.2 Consensus size: 286
634990 AAAAAACAAT
*
635000 ACCAAAAATTAAGATAAAAATATAAAATTTCAAAAAA-AAGGGTACAACACGAGGACTTCCTACG
1 ACCAAAAATTAAGAT-AAAGTATAAAATTT-AAAAAAGAAGGGTACAACACGAGGACTTCCTACG
* *
635064 AGGTCACCCATCCTAGTAATACTCTCACCCAATAACGCTTAAT-TCCGGAGTTCTAATGGGATCA
64 AGGTCACCCATCCTAGTAATACTCTCACCCAAGAACGCTTAATAT-CGGAGTTATAATGGGATCA
* * * ** * * * * *
635128 TGTGCACTAGTGTTGATATGATCGTAGACAACATGT-TTT-TCCTGAATTTATTTAAACGCTTCT
128 GGTCCACTACTAATGATATGATCGCACACAACATGTCTTTACCCTAAATTTATTTAAACGCTTAT
* * * *
635191 ACATGTAACTATTTTATTCCAACTAAGCCTTAAAATATTTAA-TTTTACAATCCTCGTCTCTTTT
193 ACATGTAACCATTTTATTCCAACTAAGCCCTAAAATATTTAAGTTTT-CAACCCTCGACTCTTTT
* * * *
635255 CCCGTTCGTTTCACCCTG-CTCTTTTAAAAA
257 CCCGCTCATTCCACCCTGACT-GTTTAAAAA
* * * *
635285 ACCAAAAATTAAGATAAAGTATAAAATTTTGGAAAATGAGGGGTACAACACGAGGACTTCC-CCT
1 ACCAAAAATTAAGATAAAGTATAAAA-TTT-AAAAAAGAAGGGTACAACACGAGGACTTCCTAC-
* * * *
635349 GAGGTCACCTATCCTAGTATTACTCTCACCCAAGCACGCTTAATATCGGAGTTATAATGGGATCC
63 GAGGTCACCCATCCTAGTAATACTCTCACCCAAGAACGCTTAATATCGGAGTTATAATGGGATCA
* * * * * *
635414 GGTCCATTACTAATGGTATGATCGCACCCACCATGTCTTTCACCCTAAATTTATTTGAACGGTTA
128 GGTCCACTACTAATGATATGATCGCACACAACATGTCTTT-ACCCTAAATTTATTTAAACGCTTA
* * *** * * *
635479 TCCATGTAACCATTTTCTTTTGAGTAATCCCTAAAATATTTAAGTTTTCGACCCTCGACTCTTTT
192 TACATGTAACCATTTTATTCCAACTAAGCCCTAAAATATTTAAGTTTTCAACCCTCGACTCTTTT
635544 CCCGCTCATTCCACCCTGACTGTTTAAAAA
257 CCCGCTCATTCCACCCTGACTGTTTAAAAA
* * *
635574 AACAAAAATCAAGATAAAGTATCAAAATTTAAAAAAGAAGGGTACATCACGAGGACTT
1 ACCAAAAATTAAGATAAAGTAT-AAAATTTAAAAAAGAAGGGTACAACACGAGGACTT
635632 TCCAAGACGG
Statistics
Matches: 287, Mismatches: 50, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
284 10 0.03
285 23 0.08
286 104 0.36
287 4 0.01
288 24 0.08
289 112 0.39
290 10 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (286 bp):
ACCAAAAATTAAGATAAAGTATAAAATTTAAAAAAGAAGGGTACAACACGAGGACTTCCTACGAG
GTCACCCATCCTAGTAATACTCTCACCCAAGAACGCTTAATATCGGAGTTATAATGGGATCAGGT
CCACTACTAATGATATGATCGCACACAACATGTCTTTACCCTAAATTTATTTAAACGCTTATACA
TGTAACCATTTTATTCCAACTAAGCCCTAAAATATTTAAGTTTTCAACCCTCGACTCTTTTCCCG
CTCATTCCACCCTGACTGTTTAAAAA
Found at i:637554 original size:294 final size:289
Alignment explanation
Indices: 636781--637616 Score: 833
Period size: 293 Copynumber: 2.8 Consensus size: 289
636771 TGACTCTTTT
* ** * **
636781 AAAAA-ACCAAAAATTAAGATAAAGTATAATTTTTTTTAAAAAAAAAGAGGGGTGCAACACAAGG
1 AAAAACACCAAAAATGAAGATAAAGTATAA--AATTTT--GAAAAAAGAGGGGTGCAACATGAGG
* * * * * * * *
636845 ACTTCCTCGAAGGTCACCTATCCTAGTACTACTCTCGTCCACGCACGCTTAATATCGGAGTTCTA
62 AATTCC-CGAAGGTCACCTATCCTAGTACTAGTCTCGTCCAAGCACACTTACT-TCAGATTTCTG
* * * * * * * *
636910 ATGGGAAACGATCCATTACTACTAGTATGATCGTATCAACCATGTCTTGCGCCCTTAATTTATTT
125 ATGGG-ATCCATGCATTAGTGCTAGTATGATCGCACCAATCATGTCTTGCGCCCTTAATTTATTT
* * * * *
636975 AAACGCTTCTCCGTGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTTCAATCCTC
189 AAACGATTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAA-TTTACAATCCCC
** *
637040 GCCTCTTTCCCCACTCTTTCCACCCCGGTTCTTTAAG
253 AACTCTTTCCCCACTCGTTCCACCCCGGTTCTTTAAG
* * * * * *
637077 AAAAACACCAAAAATTAAGATAAAGTATCAAATTTTGGAAAAATAGGGGTACAACATGAGGACTT
1 AAAAACACCAAAAATGAAGATAAAGTATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGA-AT
* * * * * * *
637142 TACAGGAGGTCACAC-ATCCTAGTACTACG-AT-GACCCAAGCACACTTAACTACGAAATTT-TG
65 TCCCGAAGGTCAC-CTATCCTAGTACTA-GTCTCG-TCCAAGCACACTT-ACTTC-AGATTTCTG
* * * *
637203 ATGGGATCCAGTGGATTAGTGTTGGTATGATTGCACCAATCATGTCTTGCGCCCTTAATTTATTT
125 ATGGGATCCA-TGCATTAGTGCTAGTATGATCGCACCAATCATGTCTTGCGCCCTTAATTTATTT
* * *
637268 AAACGATTGTCCATGT-ACCATTTTCTTCAGATTAATCCTTAAAATATTTAATTTACGATCCCCA
189 AAACGATTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTACAATCCCCA
* * *
637332 ACTCTTTTCCCACTCGTTCCACCCCGATTTGTTTAAG
254 ACTCTTTCCCCACTCGTTCCACCCCG-GTTCTTTAAG
* *
637369 AAAAACAACACTAAAAATGAAGATAATGTATAAAATTTTGAAAAAAGAGGTGTGCAACATGAGGA
1 AAAAAC-AC-C-AAAAATGAAGATAAAGTATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGA
* *
637434 ATTCCCGAAGGTCACCTATCCTAGTACTAGTCTCGTCCAAGTACTCTTAGCTTCAGATTTCTGAT
63 ATTCCCGAAGGTCACCTATCCTAGTACTAGTCTCGTCCAAGCACACTTA-CTTCAGATTTCTGAT
* * * * *
637499 GGGATCCTATGCATTAGTGCTATTATGATCGCGCCGATCATGTTTTGCACCCTTAATTTATTTAA
127 GGGATCC-ATGCATTAGTGCTAGTATGATCGCACCAATCATGTCTTGCGCCCTTAATTTATTTAA
* *
637564 AC-ACTTCTCCATGTAACCATTTTCTTCCA-ACTAGTCCTTGAAATATTTAATTT
191 ACGA-TTCTCCATGTAACCATTTTCTT-CAGACTAATCCTTAAAATATTTAATTT
637617 TGTGATATCC
Statistics
Matches: 439, Mismatches: 80, Indels: 43
0.78 0.14 0.08
Matches are distributed among these distances:
291 32 0.07
292 51 0.12
293 126 0.29
294 116 0.26
295 84 0.19
296 7 0.02
297 23 0.05
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (289 bp):
AAAAACACCAAAAATGAAGATAAAGTATAAAATTTTGAAAAAAGAGGGGTGCAACATGAGGAATT
CCCGAAGGTCACCTATCCTAGTACTAGTCTCGTCCAAGCACACTTACTTCAGATTTCTGATGGGA
TCCATGCATTAGTGCTAGTATGATCGCACCAATCATGTCTTGCGCCCTTAATTTATTTAAACGAT
TCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTACAATCCCCAACTCTTT
CCCCACTCGTTCCACCCCGGTTCTTTAAG
Found at i:640185 original size:295 final size:291
Alignment explanation
Indices: 638899--640250 Score: 1083
Period size: 295 Copynumber: 4.6 Consensus size: 291
638889 TTCCCTTAAG
* * * **
638899 GTCACCCATCATATTACTACTCTCGCCCAGGCACGCTTAATTGCGGAGTTCTGATGGGAT-TTGA
1 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCCAG-
* ** * * * *
638963 TGCTTTACTATTGGTATGATTTCATCCACCATGACTTG-TCCCTTAATTTATTTAAATGCTTCTT
65 TGCATTACTATTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGCTTC--
* ** * *
639027 CATGTAACAATTTTCTTCATACTAATCCTTAAAATATTTAATTTTACGATCCCGACTCTTTTCGC
128 CATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCGACTATTTTCCC
* * * * *
639092 GCACGTTCCACCTCGACTCTTTTAGAAAAAC-CACACAAAAAATTAAGATAAA-ATATAATATTT
193 GCTCATTCCACC-CGACTCTTTTAAAAAAACACACAC-TAAAATTAAGATAAAGA-ATAAAATTT
* * * * * *
639155 CG-TAAAAGGGGGGTGCAACACGAGGACTTTCCC-GAAA
255 TGAAAAAAGAGGGATGCAACAAGAGGAC-TTCCCAG-GA
* * * * * * * *
639192 GCCACCCATACTAATATTACTCTCCCCCAAGCACGCTTAATTACGGAGTTTTGATGGGATCCTGT
1 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCCAGT
* * * * * *
639257 GTATTATTATTGGTATGATTGCACCCATAATATCTTGCACCCTTAATTTATTTAAATGCTTCTCC
66 GCATTACTATTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGC-T-TCC
* ** * *
639322 ATGTAACCATTTTCTTCCGACTAATCCTTAAAATTTTTAATTTTGTGATCCCCACAATTTTTCCC
129 ATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCGACTA-TTTTCCC
* * * *
639387 GCTCGTTCCACCCGACTCTTTTTAAAAAACAGCAC-CTAAAATTAAGATAAAGTATAAAA-TTTC
193 GCTCATTCCACCCGACTCTTTTAAAAAAACA-CACACTAAAATTAAGATAAAGAATAAAATTTTG
* * * * *
639450 AAAAAACA-AG-TGAAACATGAGGACTTCCCCA-TA
257 AAAAAAGAGGGATGCAACAAGAGGACTT-CCCAGGA
* * * * * * * * * * *
639483 GGTCACCTATTCTAGTAC-AGCGT-TTGCCCTATCACACTTCACTGTGGATTTCTAATGGGATCC
1 -GTCACCCATCCTAGTACTA-C-TCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCC
* * * * ** * * * *
639546 AATGTATTAGTGA-TGGTATGATCCCACAAATCATGTCCTACGCCCTTAATTTAATTAAAGGCTT
63 AGTGCATTACT-ATTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGCTT
*
639610 CTACATGTAACCATTATCTTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCCGACTATTA
127 C--CATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTACGAT-CCCGACTATT-
* * *** * * *
639675 TTTCCGCTCATTTCATTTGGCTTTTTTTTCCAAAAAAACA-ACAAC-AAAATTAAGATAAAGTAT
188 TTCCCGCTCATTCCACCCGAC--TCTTTT--AAAAAAACACAC-ACTAAAATTAAGATAAAGAAT
* * *
639738 AAAATTTTGAAAAAAGAGGAATGCAACAGGAGGACTTCCCCGGAA
248 AAAATTTTGAAAAAAGAGGGATGCAACAAGAGGACTTCCCAGG-A
* * * * * * * * * *
639783 GTCACACATCCAATTATTATTCTGGCTCAAGCACACTTAATTGCGTAGTTCTGATGGGATCCAAT
1 GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCCAGT
* * * *
639848 GCATTACTACTT-GTATGATAGCATCCATCATGTCTCGCGCCCTTAATTTATTTAAATGCTCCCA
66 GCATTACTA-TTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGCTTCC-
** * * **
639912 AATGTAACCATTTTCTTTAGACTAATCCTTAAAATATTTAATTTTATGATGCATACCT-TTTTCC
129 -ATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCGA-CTATTTTCC
* *
639976 CGCTCATTCCACCAGTCTC-TTTAAAAAAACACAACACTAAAACTTACA-ATAAAGAATAAAATT
192 CGCTCATTCCACCCGACTCTTTTAAAAAAACAC-ACACTAAAA-TTA-AGATAAAGAATAAAATT
* * * *
640039 TTGAAAAAAGAGGGATGCGACAAGAGAAATTCTCAGGA
254 TTGAAAAAAGAGGGATGCAACAAGAGGACTTCCCAGGA
* * * * * *
640077 GTTCACCCATCCTAGTACTACTCTCTCCCAAGCACGCTTAATTACAGAGTTCTCAAGGGATACAG
1 G-TCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCCAG
*
640142 TGCATTACTATTGGTATAATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGCTTATC
65 TGCATTACTATTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGC-T-TC
* * *
640207 CATGTAACCATTTTATTTCGAATAATCC-TAAAA-ATTTAAATTTT
128 CATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTT-AATTTT
640251 CAAAAGGAGT
Statistics
Matches: 837, Mismatches: 175, Indels: 93
0.76 0.16 0.08
Matches are distributed among these distances:
290 2 0.00
291 5 0.01
292 159 0.19
293 111 0.13
294 134 0.16
295 198 0.24
296 29 0.03
297 37 0.04
298 9 0.01
299 150 0.18
300 3 0.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (291 bp):
GTCACCCATCCTAGTACTACTCTCGCCCAAGCACGCTTAATTGCGGAGTTCTGATGGGATCCAGT
GCATTACTATTGGTATGATCGCACCCATCATGTCTTGCGCCCTTAATTTATTTAAATGCTTCCAT
GTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAATTTTACGATCCCGACTATTTTCCCGCT
CATTCCACCCGACTCTTTTAAAAAAACACACACTAAAATTAAGATAAAGAATAAAATTTTGAAAA
AAGAGGGATGCAACAAGAGGACTTCCCAGGA
Found at i:640993 original size:45 final size:45
Alignment explanation
Indices: 640942--641211 Score: 445
Period size: 45 Copynumber: 6.0 Consensus size: 45
640932 ATAAAATTTC
*
640942 TTACCAATATACTTACCATTTATTCCCTAAGCTCATAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
640987 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
641032 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
* * *
641077 TTACCAATATACTTACCATTTATTCCATAATCTCGTAACCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
*
641122 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
* * *
641167 TTACCAATATACTTGCCA-TTATTCCATTAG-TACGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCT-CATAAGCTTATT
641211 T
1 T
641212 GCATACTTAC
Statistics
Matches: 216, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
43 1 0.00
44 24 0.11
45 191 0.88
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCTTATT
Found at i:644078 original size:293 final size:291
Alignment explanation
Indices: 643428--644148 Score: 755
Period size: 293 Copynumber: 2.5 Consensus size: 291
643418 ACTTCACTAC
* * ** * * *
643428 AGAGTTCTGATGGGATCTAATGAATTACTACGGGTATAATCGCACCCATCATGTCATGCGCCCTT
1 AGAGTTCTGATGGGATCCAATGCATTACTATTGGTATAATTGCACCCATCATGTCTTGCACCCTT
* * * *
643493 AATTTATTTAAATACTTCTCCAAGTAACCATTTTCTTCCGATCAATCCTTAAAATATTTAATTTT
66 AATTTATTTAAATGCTTATCCATGTAACCATTTTCTTCCGATTAATCCTTAAAATATTTAATTTT
* **** * *
643558 GCGATCCTCAACTATTATTTTTTCTCATTTCACATGGCTCTTTAAAAAAAACGAAAATTTAAGAT
131 GCGATCCTCAACCATTATTCCCGCTCATTTCACACGGCTCTTTAAAAAAAACGAAAAATTAAGAT
* * *
643623 AAAGTATAAAATTTTGAAAAAAATAGGAGTGCAACACGAGCACTTTCCCAGAGGTCATCCATCCT
196 AAAGTATAAAATCTTCAAAAAAATAGGAGTGCAACACGAGCACTTTCCCAAAGGTCA-CCATCCT
* *
643688 AGTACTACTCTCGCTCAAGGACACTTAATTGT
260 AGTACTACTCTCGCCCAAGCACACTTAATTGT
* *
643720 AGAGTTCTGATGGGATCCAATGCATTACTACTT-GTATGA-TGACACCCATCATGTCTTTCACCC
1 AGAGTTCTGATGGGATCCAATGCATTACTA-TTGGTATAATTG-CACCCATCATGTCTTGCACCC
* *
643783 TTAATTTATTTAAATGCTTATACATGTAACCATTTTCTTCAGATTAATCCTTAAAATATTTAATT
64 TTAATTTATTTAAATGCTTATCCATGTAACCATTTTCTTCCGATTAATCCTTAAAATATTTAATT
* * * * * *
643848 TTTCGAT-TTCGACCCTT-TTCCCGCTCA-TTCTACCCCGTCTCTTTTAAAAAAACAAAAC-AAA
129 TTGCGATCCTCAACCATTATTCCCGCTCATTTC-A-CACGGCTC-TTT---AAAA-AAAACGAAA
* * * * * *
643909 AATTAAGATAAAGTATAAGA-CTTCAAAAAAA-AGGTGTGTAACATGAGGACTTTCCTAAAGG-C
187 AATTAAGATAAAGTATAAAATCTTCAAAAAAATAGGAGTGCAACACGAGCACTTTCCCAAAGGTC
* * *
643971 TACACATCCTAGTAGTACTCTCGCCCAATCA-AGCTTAATTATT
252 -AC-CATCCTAGTACTACTCTCGCCCAAGCACA-CTTAATT-GT
** * * *
644014 A-AGTTCTGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCAATCACGTCTTGCACCCTT
1 AGAGTTCTGATGGGATCCAATGCATTACTATTGGTATAATTGCACCCATCATGTCTTGCACCCTT
* * * *
644078 AATTTATTTAAACGGTTATCCATGTAACCATTTTCTTCCGAATAAT-CTTAAAAATATTTAATCT
66 AATTTATTTAAATGCTTATCCATGTAACCATTTTCTTCCGATTAATCCTT-AAAATATTTAATTT
*
644142 TGTGATC
130 TGCGATC
644149 AGAGACATTT
Statistics
Matches: 356, Mismatches: 56, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
289 3 0.01
290 7 0.02
291 12 0.03
292 127 0.36
293 164 0.46
294 13 0.04
295 25 0.07
296 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (291 bp):
AGAGTTCTGATGGGATCCAATGCATTACTATTGGTATAATTGCACCCATCATGTCTTGCACCCTT
AATTTATTTAAATGCTTATCCATGTAACCATTTTCTTCCGATTAATCCTTAAAATATTTAATTTT
GCGATCCTCAACCATTATTCCCGCTCATTTCACACGGCTCTTTAAAAAAAACGAAAAATTAAGAT
AAAGTATAAAATCTTCAAAAAAATAGGAGTGCAACACGAGCACTTTCCCAAAGGTCACCATCCTA
GTACTACTCTCGCCCAAGCACACTTAATTGT
Found at i:644193 original size:293 final size:292
Alignment explanation
Indices: 643601--644267 Score: 715
Period size: 293 Copynumber: 2.3 Consensus size: 292
643591 ATGGCTCTTT
* * *
643601 AAAA-AAAACGAAAATTTAAGATAAAGTATAAAATTTTGAAAAAAATAGGAGTGCAACACGAGCA
1 AAAACAAAAC-AAAAATTAAGATAAAGTATAAAA-TTT-AAAAAAAAAGGTGTGCAACACGAGCA
* * *
643665 CTTTCCCAGAGGTCATCCATCCTAGTACTACTCTCGCTCAAGGACACTTAATTGTAGAGTTCTGA
63 CTTTCCCAAAGGTCA-CCATCCTAGTACTACTCTCGCCCAAGCACACTTAATTGTAGAGTTCTGA
* * *
643730 TGGGATCCAATGCATTACTACTTGTATGATGACACCCATCATGTCTTTCACCCTTAATTTATTTA
127 TGGGATCCAATGCATTACTACTTGTATGATGACACCAATCACGTCTTGCACCCTTAATTTATTTA
* * * ***
643795 AATGCTTATACATGTAACCATTTTCTTCAGATTAATCCTTAAAATATTTAATTTTTCGATTTCGA
192 AACGCTTATACATGTAACCATTTTCTTCAGAATAATCCTTAAAATATTTAATTTGTCGATAGAGA
* * ***
643860 CCCTTTTCCCGCTCATTCTACCCCGTCTCTTTTAAA
257 CACTTTTCCCGCTCATTCCACCCAAACTCTTTTAAA
* * * * * *
643896 AAAACAAAACAAAAATTAAGATAAAGTATAAGACTTCAAAAAAAAGGTGTGTAACATGAGGACTT
1 AAAACAAAACAAAAATTAAGATAAAGTATAAAATTTAAAAAAAAAGGTGTGCAACACGAGCACTT
* * * *
643961 TCCTAAAGG-CTACACATCCTAGTAGTACTCTCGCCCAATCA-AGCTTAATTATTA-AGTTCTGA
66 TCCCAAAGGTC-AC-CATCCTAGTACTACTCTCGCCCAAGCACA-CTTAATT-GTAGAGTTCTGA
** *
644023 TGGGATCCAATGCATTGTTA-TTGGTATTATTG-CACCAATCACGTCTTGCACCCTTAATTTATT
127 TGGGATCCAATGCATTACTACTT-GTATGA-TGACACCAATCACGTCTTGCACCCTTAATTTATT
* * *
644086 TAAACGGTTATCCATGTAACCATTTTCTTCCGAATAAT-CTTAAAAATATTTAATCTTGT-GATC
190 TAAACGCTTATACATGTAACCATTTTCTTCAGAATAATCCTT-AAAATATTTAAT-TTGTCGAT-
* * * *
644149 AGAGACATTTTTCCCGCTCGTTCCA-CCAAACTTTTTTTAA
252 AGAGACACTTTTCCCGCTCATTCCACCCAAACTCTTTTAAA
* ** * * *
644189 AAAACAACACCACTAATTAAGAAAAAGTATAAAATTTAAAAAAAAAAG-GTGCAACACGAGTACT
1 AAAACAA-AACAAAAATTAAGATAAAGTATAAAATTTAAAAAAAAAGGTGTGCAACACGAGCACT
*
644253 TCCCCAAAGGTCACC
65 TTCCCAAAGGTCACC
644268 CATGCTTATT
Statistics
Matches: 307, Mismatches: 53, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
292 9 0.03
293 208 0.68
294 60 0.20
295 25 0.08
296 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (292 bp):
AAAACAAAACAAAAATTAAGATAAAGTATAAAATTTAAAAAAAAAGGTGTGCAACACGAGCACTT
TCCCAAAGGTCACCATCCTAGTACTACTCTCGCCCAAGCACACTTAATTGTAGAGTTCTGATGGG
ATCCAATGCATTACTACTTGTATGATGACACCAATCACGTCTTGCACCCTTAATTTATTTAAACG
CTTATACATGTAACCATTTTCTTCAGAATAATCCTTAAAATATTTAATTTGTCGATAGAGACACT
TTTCCCGCTCATTCCACCCAAACTCTTTTAAA
Found at i:645432 original size:587 final size:582
Alignment explanation
Indices: 644297--646426 Score: 1458
Period size: 580 Copynumber: 3.6 Consensus size: 582
644287 ATTCCACCCC
* * * *
644297 GGCTCTTTAAAAAAAACAACACCAAAAATTAAGACAAAGTATAAGATTTCGAAAAAAGGGGTGTG
1 GGCTCTTT-AAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAGAGG-GTG
* * * * *
644362 CAACACGACGACTTTCCTGAAGGCCACCCATGCTATTACTACTCTCGACCAAGCACGCTTAATTA
64 CAACACGACGAC-TTCCCGAAGGTCA-CCATCCTATTACTACTCTC-ACCAAGCACACTTAATTG
** * * *
644427 CAAAGTTCTGATGGGATCCAGTGCATTACTA-TTGGTATGATCGCACCCATCATGTGTTGCGCCC
126 CGGAGTTCTGATGGGATCCAATGCATTACTACCT-GTATG-TCGCACCCATCATGTCTTGCGCCC
* * * * * *
644491 TTAATTTATTTACATGCATTTCCATGTAACCATATTCTTCCAATTAATACTAAAAATATTTAATT
189 TTAATTTATTTAAATGCTTTTCCATGTAACCATTTTCTT-CAACTAATCCTTAAAATATTTAATT
** * ** * * *
644556 TTGCAAACGAAACAATTTTTCTAGCTCGTTCCACC-CGACTCTTTTTAAAAAGAACAACACCAAA
253 TTGTGATCCCAACAATTTTTC-AGCTCATTCCACCTCGGCTC-TTTTAAAAA-AACAACAACAAA
* ** * *
644620 AATTAAGATAAAGTATAAAAATATTTTTAAAAAAAGGGTGCAAAACGAGGACTTCCCTAGAGGTC
315 AATTAAGATAAAGTAT--AAAGATTTCAAAAAAAAGGGTGCAAAACGAGGACTTCCCGAGAGGCC
* ** ** * *
644685 ACATATCCTAGTATTACGTTCGCTTAAGCACACTTCACTATGGAGTTGTGATGGGATTCCATGCA
378 ACACATCCTAGTATTACGTTAACCCAAGCACACTTAACTATGGAGTTATGATGGGATTCCATGCA
* * * * *
644750 TTAATATTGGTATAGTCACACCCATCTTTTCTTGCGCCCTTAATTTATTTAAACACTTCTCCATG
443 TTAATATTGGTATAGTCACACCCATCATGTCTTGCGACCTGAATTTATTTAAACACTTATCCATG
* * * * ** *
644815 TAGCCATTTTCTTCTGACTAATCCTTAAAATATTTAATTTTGTGATCCCCAACTC-TTATTT-TC
508 TAACCATTTTCTTCCGAATAATCCTTAAAATATTTAATTTTGCGA-CAACAAC-CATT-TTTCCC
* *
644878 GCTCATTTCACCT-
570 ACTCATTCCA-CTA
** * *
644891 GGCTCTTTAAAAAAATGACACCAAAATTTGAGATAAAGTATAAAATTTTGAAAAAAGAGGAGTGC
1 GGCTCTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAGAGG-GTGC
644956 AACACGA-GACTTCCCGAAGGTCATCCATCCTATTACTACTCTCACGCAAGCACACTTAATTGCG
65 AACACGACGACTTCCCGAAGGTCA-CCATCCTATTACTACTCTCAC-CAAGCACACTTAATTGCG
* * **
645020 GAGTTCTGATGGG-TGCAAT-AATTTACTACCTGTATGTTCGCACCCATCATGTCTTGTTCCCTT
128 GAGTTCTGATGGGATCCAATGCA-TTACTACCTGTATG-TCGCACCCATCATGTCTTGCGCCCTT
*
645083 AATTTATTTAAATGCTTTTACATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTT
191 AATTTATTTAAATGCTTTTCCATGTAACCATTTTCTTCA-ACTAATCCTTAAAATATTTAATTTT
** * *
645148 GTGATCCCAACCCTTTTTCCGCTCATTCCACCTCGGCTCTTTTAAAAAAACAATAACAAAAATTA
255 GTGATCCCAACAATTTTTCAGCTCATTCCACCTCGGCTCTTTTAAAAAAACAACAACAAAAATTA
* * *
645213 AGATAAAGTAT-AAGATTTCAAAAAAAATGGTGTGTAAAACGTGGACTTTCCCGA-ATGCCACAC
320 AGATAAAGTATAAAGATTTCAAAAAAAA-GG-GTGCAAAACGAGGAC-TTCCCGAGAGGCCACAC
* *
645276 ATCCTAGT-TGTAC-TATAACCCATGCACGA-TTAATTATGGAGTTATGATGGGA-TCCAATGCA
382 ATCCTAGTAT-TACGT-TAACCCAAGCAC-ACTTAACTATGGAGTTATGATGGGATTCC-ATGCA
** ** * *
645337 TTGTTATTGGTATTA-TTGCACCCATCATGTCTTGTGACCTGAATTTATTTGAACTA-TTATCCA
443 TTAATATTGGTA-TAGTCACACCCATCATGTCTTGCGACCTGAATTTATTTAAAC-ACTTATCCA
* * * *
645400 TGTAACCATTTTCTTCCGAATAATCTTTAAAATATTTAATTTTGCGAGAAGAGCCATTTTTCCCA
506 TGTAACCATTTTCTTCCGAATAATCCTTAAAATATTTAATTTTGCGACAACAACCATTTTTCCCA
* *
645465 CTCGTTCCATTA
571 CTCATTCCACTA
*
645477 GACTCTTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAA-TTT-AAAAAA-A-GGTG
1 GGCTC--TTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAGAGGGTG
* * * * * *
645538 CAACAC-ATGGACTTCCCCAGAGGTCACCAATCCTAGTACTACGT-TCGCCTAAGAACATTTCAA
64 CAACACGA-CGACTTCCCGA-AGGTCACC-ATCCTATTACTAC-TCTCACC-AAGCACACTT-AA
* * * * * * *
645601 -TGTGGACTTCTGATGGGATTCC-ATGCATTAATACCGGTATAGTCGCAACCATCATATTTTGCG
123 TTGCGGAGTTCTGATGGGA-TCCAATGCATTACTACCTGTAT-GTCGCACCCATCATGTCTTGCG
* * *
645664 CCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCCACTAATCCTTAAAATATTTA
186 CCCTTAATTTATTTAAATGCTTTTCCATGTAACCATTTTCTT-CAACTAATCCTTAAAATATTTA
* * *
645729 ATTTTGTGATCCCCAACTATTATTTTAGCTCATTTCACCT-GGCTC--TT--AAAAA-AAC--CA
250 ATTTTGTGAT-CCCAACAATT-TTTCAGCTCATTCCACCTCGGCTCTTTTAAAAAAACAACAACA
* * * * * * * * *
645786 AAATTTAATATAAAGTATAAA-ATTTTGAAAAAAGAGGAGTTCAACACAAGCACTTTCCTG-GAG
313 AAAATTAAGATAAAGTATAAAGA-TTTCAAAAAAAAGG-GTGCAAAACGAGGAC-TTCCCGAGAG
* * * * *
645849 GTCATC-CATCCTAGTACTAATC-TT-TCTCAAGGACACTTAA-T-TGCAGAGTTATGATGGGA-
375 GCCA-CACATCCTAGTA-TTA-CGTTAACCCAAGCACACTTAACTATG--GAGTTATGATGGGAT
* * * * * * * *
645908 TCTGATACATTACTACTT-GTAT-GATCGCACCCATCATGTCTTGTGCCCTTAATTTTTTTAAAT
435 TC-CATGCATTAATA-TTGGTATAG-TCACACCCATCATGTCTTGCGACCTGAATTTATTTAAA-
* * * * * * * *
645971 GATTCTAT--TTGTAACCATTTTCTTCAGACTAATCCTTAAATTATTTAATTTTGAGATC-CCAA
496 CACT-TATCCATGTAACCATTTTCTTCCGAATAATCCTTAAAATATTTAATTTTGCGA-CAACAA
* * *
646033 CCCTTTTT-CCGCTCATTCCACCA
559 CCATTTTTCCCACTCATTCCACTA
* * * * * *
646056 CGGATATTT-----TAGAA-A--AAAAATTAAGATAAAGTATAATATTTT--AAAAA-ATGGTGT
1 -GGCTCTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAGAGGGTG-
* * * ** * * * **
646110 CTAACATGAGGACTTTACTAAAGG-CTACACACCCTAGTAGTACTCTCACCCAAGCATGCTTAAT
64 C-AACACGACGAC-TTCCCGAAGGTC-AC-CATCCTATTACTACTCTCA-CCAAGCACACTTAAT
** * ** * ** * * *
646174 TATGGTGTTCAAATGTGATCCAATGCATTGTTA-TTGATATTATTGCACCCATCATGTCTTGCG-
124 TGCGGAGTTCTGATGGGATCCAATGCATTACTACCTG-TA-TGTCGCACCCATCATGTCTTGCGC
* * * * * *
646237 CCTATAATTTATTTAAACGGTTATCCATGTAACCATTTTATTTTGAA-TGAT-CTTCAAAATATT
187 CCT-TAATTTATTTAAATGCTTTTCCATGTAACCA-TTT-TCTTCAACTAATCCTT-AAAATATT
* * ** * * * * * * *
646300 TAATTTTGCGAGCAGATCCATTTTTCCCGCCCGTTCCACC-AGACTCTTTTAAAAAAACAACATA
248 TAATTTTGTGATCCCAACAATTTTT-CAGCTCATTCCACCTCGGCTCTTTTAAAAAAACAACA-A
* * * *
646364 -AAAAATTAAGATAAAGTATAAA-ATTT-ATAGAAAAAGGGTGCAACATGAGGACTTCCCCAGAG
311 CAAAAATTAAGATAAAGTATAAAGATTTCA-AAAAAAAGGGTGCAAAACGAGGACTTCCCGAGAG
646426 G
375 G
646427 TCACCCATGC
Statistics
Matches: 1230, Mismatches: 224, Indels: 181
0.75 0.14 0.11
Matches are distributed among these distances:
570 28 0.02
571 10 0.01
572 35 0.03
573 123 0.10
574 15 0.01
575 3 0.00
576 9 0.01
577 19 0.02
578 15 0.01
579 35 0.03
580 172 0.14
581 18 0.01
582 9 0.01
583 14 0.01
584 13 0.01
585 65 0.05
586 130 0.11
587 172 0.14
588 87 0.07
589 23 0.02
590 112 0.09
591 57 0.05
592 3 0.00
593 55 0.04
594 8 0.01
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (582 bp):
GGCTCTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTGAAAAAAGAGGGTGCA
ACACGACGACTTCCCGAAGGTCACCATCCTATTACTACTCTCACCAAGCACACTTAATTGCGGAG
TTCTGATGGGATCCAATGCATTACTACCTGTATGTCGCACCCATCATGTCTTGCGCCCTTAATTT
ATTTAAATGCTTTTCCATGTAACCATTTTCTTCAACTAATCCTTAAAATATTTAATTTTGTGATC
CCAACAATTTTTCAGCTCATTCCACCTCGGCTCTTTTAAAAAAACAACAACAAAAATTAAGATAA
AGTATAAAGATTTCAAAAAAAAGGGTGCAAAACGAGGACTTCCCGAGAGGCCACACATCCTAGTA
TTACGTTAACCCAAGCACACTTAACTATGGAGTTATGATGGGATTCCATGCATTAATATTGGTAT
AGTCACACCCATCATGTCTTGCGACCTGAATTTATTTAAACACTTATCCATGTAACCATTTTCTT
CCGAATAATCCTTAAAATATTTAATTTTGCGACAACAACCATTTTTCCCACTCATTCCACTA
Found at i:645696 original size:291 final size:292
Alignment explanation
Indices: 644286--646430 Score: 1280
Period size: 284 Copynumber: 7.3 Consensus size: 292
644276 TTCCACCCCA
* * * * * *
644286 CATTCCACCCCGGCTCTTTAAAAAAAACAACACCAAAAATTAAGACAAAGTATAAGATTTCGAAA
1 CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTT-TAAA
** * * * * * * * * * *
644351 AAAGGGGTGTGCAACACGACGACTT-TCCTGAAGGCCACCCATGCTATTACTACTCTCGACC-AA
65 AAAAAGGAGTGCAAAAC-AGGACTTCCCCAG-AGGTCACACATCCTAGTACTACTATC-ACCTAA
* *** *
644414 GCACGCTTAATTACAAAGTTCTGATGGGA-TCCAGTGCATTACTATTGGTAT-GATCGCACCCAT
127 GCACACTTAATTATGGAGTTCTGATGGGATTCCA-TGCATTAATATTGGTATAG-TCGCACCCAT
* * * * * * *
644477 CATGTGTTGCGCCCTTAATTTATTTACATGCATT-TCCATGTAACCATATTCTTCCAATTAATAC
190 CATGTCTTGCGCCCTTAATTTATTTAAATAC-TTCTCCATGTAACCATTTTCTTCCGACTAATCC
* * *
644541 TAAAAATATTTAATTTTGC-AAACGAAACAATTTTTCTAGCT
254 TTAAAATATTTAATTTTGCGAAAC--AACCATTTTTCCA-CT
*
644582 CGTTCCACC-CGACTCTTTTTAAAAAGAACAACACCAAAAATTAAGATAAAGTATAAAAATATTT
1 CATTCCACCTCGACTC-TTTTAAAAA-AACAACACCAAAAATTAAGATAAAGTAT--AAA-ATTT
* * * * * *
644646 TTAAAAAAAGG-GTGCAAAACGAGGACTTCCCTAGAGGTCACATATCCTAGTATTACGT-TCGCT
61 TAAAAAAAAGGAGTGCAAAAC-AGGACTTCCCCAGAGGTCACACATCCTAGTACTAC-TATCACC
* * * *
644709 TAAGCACACTTCACTATGGAGTTGTGATGGGATTCCATGCATTAATATTGGTATAGTCACACCCA
124 TAAGCACACTTAATTATGGAGTTCTGATGGGATTCCATGCATTAATATTGGTATAGTCGCACCCA
* * * * *
644774 TCTTTTCTTGCGCCCTTAATTTATTTAAACACTTCTCCATGTAGCCATTTTCTTCTGACTAATCC
189 TCATGTCTTGCGCCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCC
* ** * *
644839 TTAAAATATTTAATTTTGTGATCCCCAACTC-TTATTTTCGCT
254 TTAAAATATTTAATTTTGCGA--AACAAC-CATT-TTTCCACT
* * ** * *
644881 CATTTCACCT-GGCTC-TTTAAAAAAATGACACCAAAATTTGAGATAAAGTATAAAATTTTGAAA
1 CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTT-AAA
* * * * *
644944 AAAGAGGAGTGCAACAC-GAGACTTCCCGA-AGGTCATC-CATCCTATTACTACTCTCACGC-AA
65 AAAAAGGAGTGCAAAACAG-GACTTCCCCAGAGGTCA-CACATCCTAGTACTACTATCAC-CTAA
** * * * * *
645005 GCACACTTAATTGCGGAGTTCTGATGGG-TGCAAT-AATTTACTACCT-GTAT-GTTCGCACCCA
127 GCACACTTAATTATGGAGTTCTGATGGGATTCCATGCA-TTAATA-TTGGTATAG-TCGCACCCA
** * * * *
645066 TCATGTCTTGTTCCCTTAATTTATTTAAATGCTTTTACATGTAACCATTTTCTTCAGACTAATCC
189 TCATGTCTTGCGCCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCC
* ** * *
645131 TTAAAATATTTAATTTTGTGATCCCAACCCTTTTTCCGCT
254 TTAAAATATTTAATTTTGCGA-AACAACCATTTTTCCACT
* * * * *
645171 CATTCCACCTCGGCTCTTTTAAAAAAACAATAACAAAAATTAAGATAAAGTATAAGATTTCAAAA
1 CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTAAAA
* * * * * * ** * * *
645236 AAAATGGTGTGTAAAACGTGGACTTTCCC-GAATGCCACACATCCTAGTTGTACTATAACCCATG
66 AAAA-GGAGTGCAAAAC-AGGACTTCCCCAG-AGGTCACACATCCTAGTACTACTATCACCTAAG
* ** *
645300 CACGA-TTAATTATGGAGTTATGATGGGA-TCCAATGCATTGTTATTGGTATTA-TTGCACCCAT
128 CAC-ACTTAATTATGGAGTTCTGATGGGATTCC-ATGCATTAATATTGGTA-TAGTCGCACCCAT
* * * * * * *
645362 CATGTCTTGTGACCTGAATTTATTTGAACTA-TTATCCATGTAACCATTTTCTTCCGAATAATCT
190 CATGTCTTGCGCCCTTAATTTATTT-AAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCC
* *
645426 TTAAAATATTTAATTTTGCGAGAAGAGCCATTTTTCCCACT
254 TTAAAATATTTAATTTTGCGA-AACAACCATTTTT-CCACT
* * *
645467 CGTTCCA-TTAGACTCTTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAA-TTT-AA
1 CATTCCACCTCGACTC-TTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTAAA
* *
645529 AAAAA-G-GTGCAACACATGGACTTCCCCAGAGGTCAC-CAATCCTAGTACTACGT-TCGCCTAA
65 AAAAAGGAGTGCAAAACA-GGACTTCCCCAGAGGTCACAC-ATCCTAGTACTAC-TATCACCTAA
* * * * ** *
645590 GAACATTTCAA-TGTGGACTTCTGATGGGATTCCATGCATTAATACCGGTATAGTCGCAACCATC
127 GCACACTT-AATTATGGAGTTCTGATGGGATTCCATGCATTAATATTGGTATAGTCGCACCCATC
* * *
645654 ATATTTTGCGCCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCCACTAATCCTT
191 ATGTCTTGCGCCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCCTT
* ** * *
645719 AAAATATTTAATTTTGTGATCCCCAACTATTATTT-TAGCT
256 AAAATATTTAATTTTGCGA--AACAACCATT-TTTCCA-CT
* * * *
645759 CATTTCACCT-GGCTC--TT---AAAA-AA-ACCAAAATTTAATATAAAGTATAAAATTTTGAAA
1 CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTT-AAA
* * * * * ** **
645816 AAAGAGGAGTTCAACACAAGCACTTTCCTGGAGGTCATC-CATCCTAGTACTA--ATCTTTCTCA
65 AAAAAGGAGTGCAAAAC-AGGACTTCCCCAGAGGTCA-CACATCCTAGTACTACTATC-ACCT-A
* *** * * * *
645878 AGGACACTTAATTGCAGAGTTATGATGGGA-TCTGATACATTACTACTT-GTAT-GATCGCACCC
126 AGCACACTTAATTATGGAGTTCTGATGGGATTC-CATGCATTAATA-TTGGTATAG-TCGCACCC
* * *** *
645940 ATCATGTCTTGTGCCCTTAATTTTTTTAAATGA-TTCTATTTGTAACCATTTTCTTCAGACTAAT
188 ATCATGTCTTGCGCCCTTAATTTATTTAAAT-ACTTCTCCATGTAACCATTTTCTTCCGACTAAT
* * ** * *
646004 CCTTAAATTATTTAATTTTGAGATCCCAACCCTTTTTCCGCT
252 CCTTAAAATATTTAATTTTGCGA-AACAACCATTTTTCCACT
* * * *
646046 CATTCCACCACGGA-TATTTT------AGAA-A--AAAAATTAAGATAAAGTATAATATTTT-AA
1 CATTCCACCTC-GACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTAAA
* * ** ** * * * * * *
646100 AAAATGGTGT-CTAACATGAGGACTTTACTAAAGG-CTACACACCCTAGTAGTACTCTCACCCAA
65 AAAAAGGAGTGC-AA-AACAGGACTTCCCCAGAGGTC-ACACATCCTAGTACTACTATCACCTAA
** * ** * ** * *
646163 GCATGCTTAATTATGGTGTTCAAATGTGA-TCCAATGCATTGTTATTGATATTA-TTGCACCCAT
127 GCACACTTAATTATGGAGTTCTGATGGGATTCC-ATGCATTAATATTGGTA-TAGTCGCACCCAT
*** * * ** * *
646226 CATGTCTTGCG-CCTATAATTTATTTAAACGGTTATCCATGTAACCATTTTATTTTGAATGAT-C
190 CATGTCTTGCGCCCT-TAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCC
* * *
646289 TTCAAAATATTTAATTTTGCG-AGCAGATCCATTTTTCCCGCC
254 TT-AAAATATTTAATTTTGCGAAACA-A-CCATTTTT-CCACT
* * ** *
646331 CGTTCCACC-AGACTCTTTTAAAAAAACAACATAAAAAATTAAGATAAAGTATAAAA-TTTATAG
1 CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTA-AA
**
646394 AAAAAGG-GTGCAACATGAGGACTTCCCCAGAGGTCAC
65 AAAAAGGAGTGCAA-AACAGGACTTCCCCAGAGGTCAC
646431 CCATGCTTAT
Statistics
Matches: 1438, Mismatches: 301, Indels: 223
0.73 0.15 0.11
Matches are distributed among these distances:
282 2 0.00
283 14 0.01
284 172 0.12
285 19 0.01
286 30 0.02
287 22 0.02
288 20 0.01
289 153 0.11
290 34 0.02
291 170 0.12
292 170 0.12
293 109 0.08
294 83 0.06
295 117 0.08
296 93 0.06
297 38 0.03
298 148 0.10
299 36 0.03
300 7 0.00
301 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (292 bp):
CATTCCACCTCGACTCTTTTAAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTTTAAAA
AAAAGGAGTGCAAAACAGGACTTCCCCAGAGGTCACACATCCTAGTACTACTATCACCTAAGCAC
ACTTAATTATGGAGTTCTGATGGGATTCCATGCATTAATATTGGTATAGTCGCACCCATCATGTC
TTGCGCCCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCCTTAAAAT
ATTTAATTTTGCGAAACAACCATTTTTCCACT
Found at i:645958 original size:289 final size:290
Alignment explanation
Indices: 644308--646054 Score: 1156
Period size: 291 Copynumber: 6.0 Consensus size: 290
644298 GCTCTTTAAA
* * * * * *
644308 AAAAACAACACCAAAAATTAAGACAAAGTATAAGATTTCGAAAAAAGGGGTGTGCAACACGACGA
1 AAAAA-AACACCAAAAATTAAGATAAAGTATAAAATTT-GAAAAAAGAGGAGTGCAACACAAGGA
* * * * * * * * ** *
644373 CTTTCCTGAAGGCCACCCATGCTATTACTACTCTCGA-CCAAGCACGCTTAATTACAAAGTTCTG
64 CTTTCCCGAAGGTCA-CCATCCTAGTACTAATCT-TACCCAAGCACACTTAATTGCGGAGTTATG
* * * * * *
644437 ATGGGATCCAGTGCATTACTA-TTGGTATGATCGCACCCATCATGTGTTGCGCCCTTAATTTATT
127 ATGGGATCTAATACATTACTACCT-GTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTATT
* * * * * * * **
644501 TACATGCATT-TCCATGTAACCATATTCTTCCA-ATTAATACTAAAAATATTTAATTTTG-CAAA
191 TAAATAC-TTCTCCATGTAACCATTTTCTT-CAGACTAATCCTTAAAATATTTAATTTTGTGATC
** * * * *
644563 CGAAACAATTTTTCTAGCTCGTTCCACC-CGACTCTTTTT
254 CCCAACCATTTTTC-AGCTCATTCCACCTAGGCTC--TTT
* *
644602 AAAAAGAACAACACCAAAAATTAAGATAAAGTATAAAAATATTTTTAAAAAA-AGG-GTGCAAAA
1 --AAA-AA-AACACCAAAAATTAAGATAAAGTAT--AAA-A-TTTGAAAAAAGAGGAGTGCAACA
* * * * * * * **
644665 CGAGGAC-TTCCCTAGAGGTCACATATCCTAGTA-TTA-CGTT-CGCTTAAGCACACTTCACTAT
58 CAAGGACTTTCCCGA-AGGTCAC-CATCCTAGTACTAATC-TTAC-C-CAAGCACACTTAATTGC
* * * * * * * * *
644726 GGAGTTGTGATGGGAT-TCCATGCATTAATA-TTGGTAT-AGTCACACCCATCTTTTCTTGCGCC
118 GGAGTTATGATGGGATCT-AATACATTACTACCT-GTATGA-TCGCACCCATCATGTCTTGTGCC
* * *
644788 CTTAATTTATTTAAACACTTCTCCATGTAGCCATTTTCTTCTGACTAATCCTTAAAATATTTAAT
180 CTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAAT
* *
644853 TTTGTGATCCCCAACTCTTATTTTC-GCTCATTTCACCT-GGCTCTTT
245 TTTGTGATCCCCAAC-CAT-TTTTCAGCTCATTCCACCTAGGCTCTTT
* * *
644899 AAAAAAATGACACCAAAATTTGAGATAAAGTATAAAATTTTGAAAAAAGAGGAGTGCAACACGA-
1 -AAAAAA--ACACCAAAAATTAAGATAAAGTATAAAA-TTTGAAAAAAGAGGAGTGCAACACAAG
* * * * *
644963 GAC-TTCCCGAAGGTCATCCATCCTATTACTACTCTCACGCAAGCACACTTAATTGCGGAGTTCT
62 GACTTTCCCGAAGGTCA-CCATCCTAGTACTAATCTTACCCAAGCACACTTAATTGCGGAGTTAT
* *
645027 GATGGG-TGC-AATA-ATTTACTACCTGTATGTTCGCACCCATCATGTCTTGTTCCCTTAATTTA
126 GATGGGAT-CTAATACA-TTACTACCTGTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTA
* * *
645089 TTTAAATGCTTTTACATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGTGAT-
189 TTTAAATACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGTGATC
* * *
645153 CCCAACCCTTTTTCCGCTCATTCCACCTCGGCTCTTTT
254 CCCAACCATTTTTCAGCTCATTCCACCTAGGCTC-TTT
* * * * * * * **
645191 AAAAAAACAATAACAAAAATTAAGATAAAGTATAAGATTTCAAAAAAAATGGTGTGTAAAACGTG
1 AAAAAAAC---ACCAAAAATTAAGATAAAGTATAAAATTTGAAAAAAGA-GGAGTGCAACACAAG
* * ** * * * * **
645256 GACTTTCCCGAATGCCACACATCCTAGTTGTACTATAACCCATGCACGA-TTAATTATGGAGTTA
62 GACTTTCCCGAAGGTCAC-CATCCTAGTACTAATCTTACCCAAGCAC-ACTTAATTGCGGAGTTA
* * ** * * * * *
645320 TGATGGGATCCAATGCATTGTTA-TTGGTATTATTGCACCCATCATGTCTTGTGACCTGAATTTA
125 TGATGGGATCTAATACATTACTACCT-GTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTA
* * * * * *
645384 TTTGAACTA-TTATCCATGTAACCATTTTCTTCCGAATAATCTTTAAAATATTTAATTTTGCGA-
189 TTT-AAATACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGTGAT
**** * * * *
645447 GAAGAGCCATTTTTCCCA-CTCGTTCCA-TTAGACTCTTTTT
253 CCCCAACCATTTTT--CAGCTCATTCCACCTAGGCTC--TTT
*
645487 AAAAAAACAACACCAAAAATTAAGATAAAGTATAAAATTT-AAAAAA-A-G-GTGCAACACATGG
1 --AAAAA-AACACCAAAAATTAAGATAAAGTATAAAATTTGAAAAAAGAGGAGTGCAACACAAGG
* * * * *
645548 AC-TTCCCCAGAGGTCACCAATCCTAGTACT-A-CGTT-CGCCTAAGAACATTTCAA-TGTGGAC
63 ACTTTCCCGA-AGGTCACC-ATCCTAGTACTAATC-TTAC-CC-AAGCACACTT-AATTGCGGAG
* * * * * * * * *
645608 TTCTGATGGGAT-TCCATGCATTAATACCGGTAT-AGTCGCAACCATCATATTTTGCGCCCTTAA
122 TTATGATGGGATCT-AATACATTACTACCTGTATGA-TCGCACCCATCATGTCTTGTGCCCTTAA
**
645671 TTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCCACTAATCCTTAAAATATTTAATTTTGT
185 TTTATTTAAATACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGT
* * *
645736 GATCCCCAACTATTATTTTAGCTCATTTCACCT-GGCTC-TT
250 GATCCCCAACCATT-TTTCAGCTCATTCCACCTAGGCTCTTT
* * * *
645776 -AAAAAA-ACCAAAATTTAATATAAAGTATAAAATTTTGAAAAAAGAGGAGTTCAACACAAGCAC
1 AAAAAAACACCAAAAATTAAGATAAAGTATAAAA-TTTGAAAAAAGAGGAGTGCAACACAAGGAC
* * * * * *
645839 TTTCCTGGAGGTCATCCATCCTAGTACTAATCTTTCTCAAGGACACTTAATTGCAGAGTTATGAT
65 TTTCCCGAAGGTCA-CCATCCTAGTACTAATCTTACCCAAGCACACTTAATTGCGGAGTTATGAT
* * *
645904 GGGATCTGATACATTACTACTTGTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTTTTTAA
129 GGGATCTAATACATTACTACCTGTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTATTTAA
*** * *
645969 ATGA-TTCTATTTGTAACCATTTTCTTCAGACTAATCCTTAAATTATTTAATTTTGAGAT-CCCA
194 AT-ACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGTGATCCCCA
* *
646032 ACCCTTTTTCCGCTCATTCCACC
258 ACCATTTTTCAGCTCATTCCACC
646055 ACGGATATTT
Statistics
Matches: 1147, Mismatches: 220, Indels: 177
0.74 0.14 0.11
Matches are distributed among these distances:
284 24 0.02
285 5 0.00
286 10 0.01
287 15 0.01
288 11 0.01
289 158 0.14
290 43 0.04
291 169 0.15
292 151 0.13
293 59 0.05
294 73 0.06
295 125 0.11
296 73 0.06
297 44 0.04
298 145 0.13
299 26 0.02
300 8 0.01
301 8 0.01
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (290 bp):
AAAAAAACACCAAAAATTAAGATAAAGTATAAAATTTGAAAAAAGAGGAGTGCAACACAAGGACT
TTCCCGAAGGTCACCATCCTAGTACTAATCTTACCCAAGCACACTTAATTGCGGAGTTATGATGG
GATCTAATACATTACTACCTGTATGATCGCACCCATCATGTCTTGTGCCCTTAATTTATTTAAAT
ACTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAATTTTGTGATCCCCAACC
ATTTTTCAGCTCATTCCACCTAGGCTCTTT
Found at i:646075 original size:878 final size:873
Alignment explanation
Indices: 644286--646431 Score: 2651
Period size: 885 Copynumber: 2.4 Consensus size: 873
644276 TTCCACCCCA
* * * * * *
644286 CATTCCACCCCGGCTCTTTAAAAAAAACAACACCAAAAATTAAGACAAAGTATAAGATTTCGAAA
1 CATTCCACCACGGATATTTTAAAAAAACAA-AACAAAAATTAAGATAAAGTATAAGATTTC-AAA
** * * * * * *
644351 AAAGGGGTGTGCAACACGACGACTTTCCTGAAGGCCACCCATGCTA-TTACTACTCTCGA-CCAA
64 AAAATGGTGTGTAACACGAGGACTTTCCTGAAGGCCACACATCCTAGTT-GTACTCT-AACCCAA
*** * * ** * *
644414 GCACGCTTAATTACAAAGTTCTGATGGGATCCAGTGCATTACTATTGGTATGATCGCACCCATCA
127 GCACGCTTAATTATGGAGTTATGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCCATCA
* *
644479 TGTGTTGCGCCCTTAATTTATTT-ACATGCATT-TCCATGTAACCATATTCTTCC-AATTAATAC
192 TGTCTTGCG-CCTTAATTTATTTAAC-T--ATTATCCATGTAACCATTTTCTTCCGAA-TAAT-C
* * *
644541 -TAAAAATATTTAATTTTGC-A-AACGAAACAATTTTT-CTAGCTCGTTCCACCCGACTCTTTTT
251 TTAAAAATATTTAATTTTGCGAGAA-G-AACCATTTTTCCCA-CTCGTTCCACCAGACTCTTTTT
*
644602 AAAAAGAACAACACCAAAAATTAAGATAAAGTATAAAAATATTTTTAAAAAAAGGGTGCAAAACG
313 AAAAA-AACAACACCAAAAATTAAGATAAAGTAT--AAA-A--TTTAAAAAAAGGGTGCAACAC-
* * * * * *
644667 AGGACTTCCCTAGAGGTCA-CATATCCTAGTATTACGTTCGCTTAAGCACACTTCACTATGGAGT
371 AGGACTTCCCCAGAGGTCACCATATCCTAGTACTACGTTCGCCTAAGAACACTTCAATATGGACT
* ** * *
644731 TGTGATGGGATTCCATGCATTAATATTGGTATAGTCACACCCATCTTTTCTTGCGCCCTTAATTT
436 TCTGATGGGATTCCATGCATTAATACCGGTATAGTCACAACCATCTATTCTTGCGCCCTTAATTT
* **
644796 ATTTAAACACTTCTCCATGTAGCCATTTTCTTCTGACTAATCCTTAAAATATTTAATTTTGTGAT
501 ATTTAAACACTTCTCCATGTAACCATTTTCTTCCCACTAATCCTTAAAATATTTAATTTTGTGAT
* * *
644861 CCCCAACTCTTATTTTCGCTCATTTCACCTGGCTCTTTAAAAAAATGACACCAAAATTTGAGATA
566 CCCCAACTATTATTTTAGCTCATTTCACCTGGCTCTTT-AAAAAA-GACACCAAAATTTAAGATA
* *
644926 AAGTATAAAATTTTGAAAAAAGAGGAGTGCAACACGAGACTTCCCGAAGGTCATCCATCCTATTA
629 AAGTATAAAATTTTGAAAAAAGAGGAGTGCAACACAAGACTTCCCGAAGGTCATCCATCCTAGTA
* * *
644991 CTACTCTCACGCAAGCACACTTAATTGCGGAGTTCTGATGGGTGCAATAATTTACTACCTGTATG
694 CTAATCTCACGCAAGCACACTTAATTGCAGAGTTATGATGGGTGCAATAATTTACTACCTGTATG
* * * *
645056 TTCGCACCCATCATGTCTTGTTCCCTTAATTTATTTAAATGCTTTTACATGTAACCATTTTCTTC
759 ATCGCACCCATCATGTCTTGTGCCCTTAATTTATTTAAATGATTCTACATGTAACCATTTTCTTC
*
645121 AGACTAATCCTTAAAATATTTAATTTTGTGATCCCAACCCTTTTTCCGCT
824 AGACTAATCCTTAAAATATTTAATTTTGAGATCCCAACCCTTTTTCCGCT
* * *
645171 CATTCCACCTCGGCTCTTTTAAAAAAACAATAACAAAAATTAAGATAAAGTATAAGATTTCAAAA
1 CATTCCACCACGGATATTTTAAAAAAACAA-AACAAAAATTAAGATAAAGTATAAGATTTC-AAA
* * * * * *
645236 AAAATGGTGTGTAAAACGTGGACTTTCCCGAATGCCACACATCCTAGTTGTACTATAACCCATGC
64 AAAATGGTGTGTAACACGAGGACTTTCCTGAAGGCCACACATCCTAGTTGTACTCTAACCCAAGC
*
645301 ACGATTAATTATGGAGTTATGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCCATCATG
129 ACGCTTAATTATGGAGTTATGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCCATCATG
* * *
645366 TCTTGTGACCTGAATTTATTTGAACTATTATCCATGTAACCATTTTCTTCCGAATAATCTTTAAA
194 TCTTGCG-CCTTAATTTATTT-AACTATTATCCATGTAACCATTTTCTTCCGAATAATCTTAAAA
* **
645431 ATATTTAATTTTGCGAGAAGAGCCATTTTTCCCACTCGTTCCATTAGACTCTTTTTAAAAAAACA
257 ATATTTAATTTTGCGAGAAGAACCATTTTTCCCACTCGTTCCACCAGACTCTTTTTAAAAAAACA
645496 ACACCAAAAATTAAGATAAAGTATAAAATTTAAAAAAA-GGTGCAACACATGGACTTCCCCAGAG
322 ACACCAAAAATTAAGATAAAGTATAAAATTTAAAAAAAGGGTGCAACACA-GGACTTCCCCAGAG
* *
645560 GTCACCA-ATCCTAGTACTACGTTCGCCTAAGAACATTTCAATGTGGACTTCTGATGGGATTCCA
386 GTCACCATATCCTAGTACTACGTTCGCCTAAGAACACTTCAATATGGACTTCTGATGGGATTCCA
* *
645624 TGCATTAATACCGGTATAGTCGCAACCATCATATT-TTGCGCCCTTAATTTATTTAAATACTTCT
451 TGCATTAATACCGGTATAGTCACAACCATC-TATTCTTGCGCCCTTAATTTATTTAAACACTTCT
645688 CCATGTAACCATTTTCTTCCCACTAATCCTTAAAATATTTAATTTTGTGATCCCCAACTATTATT
515 CCATGTAACCATTTTCTTCCCACTAATCCTTAAAATATTTAATTTTGTGATCCCCAACTATTATT
*
645753 TTAGCTCATTTCACCTGGCTC-TT-AAAAA-A-ACCAAAATTTAATATAAAGTATAAAATTTTGA
580 TTAGCTCATTTCACCTGGCTCTTTAAAAAAGACACCAAAATTTAAGATAAAGTATAAAATTTTGA
* * * ** *
645814 AAAAAGAGGAGTTCAACACAAGCACTTTCCTGGAGGTCATCCATCCTAGTACTAATCTTTCTCAA
645 AAAAAGAGGAGTGCAACACAAG-AC-TTCCCGAAGGTCATCCATCCTAGTACTAATCTCACGCAA
* * *
645879 GGACACTTAATTGCAGAGTTATGATGGGAT-CTGATACA-TTACTACTTGTATGATCGCACCCAT
708 GCACACTTAATTGCAGAGTTATGATGGG-TGC-AATA-ATTTACTACCTGTATGATCGCACCCAT
* **
645942 CATGTCTTGTGCCCTTAATTTTTTTAAATGATTCTATTTGTAACCATTTTCTTCAGACTAATCCT
770 CATGTCTTGTGCCCTTAATTTATTTAAATGATTCTACATGTAACCATTTTCTTCAGACTAATCCT
*
646007 TAAATTATTTAATTTTGAGATCCCAACCCTTTTTCCGCT
835 TAAAATATTTAATTTTGAGATCCCAACCCTTTTTCCGCT
* * *
646046 CATTCCACCACGGATATTTT------A-GAAA-AAAAATTAAGATAAAGTATAATATTT-TAAAA
1 CATTCCACCACGGATATTTTAAAAAAACAAAACAAAAATTAAGATAAAGTATAAGATTTCAAAAA
* * * * * * * * *
646102 AATGGTGTCTAACATGAGGACTTTACTAAAGGCTACACACCCTAGTAGTACTCTCACCCAAGCAT
66 AATGGTGTGTAACACGAGGACTTTCCTGAAGGCCACACATCCTAGTTGTACTCTAACCCAAGCAC
* * * *
646167 GCTTAATTATGGTGTTCA-AATGTGATCCAATGCATTGTTATTGATATTATTGCACCCATCATGT
131 GCTTAATTATGGAGTT-ATGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCCATCATGT
** * ** * *
646231 CTTGCGCCTATAATTTATTTAAACGGTTATCCATGTAACCATTTTATTTTGAATGATCTTCAAAA
195 CTTGCGCCT-TAATTTATTT-AACTATTATCCATGTAACCATTTTCTTCCGAATAATCTTAAAAA
* * * *
646296 TATTTAATTTTGCGAGCAGATCCATTTTTCCCGCCCGTTCCACCAGACTC-TTTTAAAAAAACAA
258 TATTTAATTTTGCGAGAAGAACCATTTTTCCCACTCGTTCCACCAGACTCTTTTTAAAAAAACAA
** *
646360 CATAAAAAATTAAGATAAAGTATAAAATTTATAGAAAAAGGGTGCAACATGAGGACTTCCCCAGA
323 CACCAAAAATTAAGATAAAGTATAAAATTTA-A-AAAAAGGGTGCAACA-CAGGACTTCCCCAGA
646425 GGTCACC
385 GGTCACC
646432 CATGCTTATT
Statistics
Matches: 1104, Mismatches: 133, Indels: 67
0.85 0.10 0.05
Matches are distributed among these distances:
863 46 0.04
864 207 0.19
865 6 0.01
866 54 0.05
867 3 0.00
868 1 0.00
869 1 0.00
872 50 0.05
873 3 0.00
874 58 0.05
875 145 0.13
876 1 0.00
877 3 0.00
878 210 0.19
879 15 0.01
881 1 0.00
882 3 0.00
884 33 0.03
885 251 0.23
886 9 0.01
887 4 0.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (873 bp):
CATTCCACCACGGATATTTTAAAAAAACAAAACAAAAATTAAGATAAAGTATAAGATTTCAAAAA
AATGGTGTGTAACACGAGGACTTTCCTGAAGGCCACACATCCTAGTTGTACTCTAACCCAAGCAC
GCTTAATTATGGAGTTATGATGGGATCCAATGCATTGTTATTGGTATTATTGCACCCATCATGTC
TTGCGCCTTAATTTATTTAACTATTATCCATGTAACCATTTTCTTCCGAATAATCTTAAAAATAT
TTAATTTTGCGAGAAGAACCATTTTTCCCACTCGTTCCACCAGACTCTTTTTAAAAAAACAACAC
CAAAAATTAAGATAAAGTATAAAATTTAAAAAAAGGGTGCAACACAGGACTTCCCCAGAGGTCAC
CATATCCTAGTACTACGTTCGCCTAAGAACACTTCAATATGGACTTCTGATGGGATTCCATGCAT
TAATACCGGTATAGTCACAACCATCTATTCTTGCGCCCTTAATTTATTTAAACACTTCTCCATGT
AACCATTTTCTTCCCACTAATCCTTAAAATATTTAATTTTGTGATCCCCAACTATTATTTTAGCT
CATTTCACCTGGCTCTTTAAAAAAGACACCAAAATTTAAGATAAAGTATAAAATTTTGAAAAAAG
AGGAGTGCAACACAAGACTTCCCGAAGGTCATCCATCCTAGTACTAATCTCACGCAAGCACACTT
AATTGCAGAGTTATGATGGGTGCAATAATTTACTACCTGTATGATCGCACCCATCATGTCTTGTG
CCCTTAATTTATTTAAATGATTCTACATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTA
ATTTTGAGATCCCAACCCTTTTTCCGCT
Found at i:647002 original size:296 final size:291
Alignment explanation
Indices: 646590--647483 Score: 773
Period size: 286 Copynumber: 3.1 Consensus size: 291
646580 CACGCTTAAT
* * * * **
646590 TACAAAGTTCTGATGTGA-TCCAGTGCATTACTATTGGTATGATTGCACCCATCATGTGTTGTGC
1 TACAGAGTTCTGATGGGATTCCA-TGCATTACTATTGGTATGATAGCACCCATCATGTCTTACGC
* * * * * *
646654 CCTTAATTGATTTAAATGCAAT-TCCATGTAACCATATTCTTCTGATTAATCCTAAAAATATTTA
65 CCTTAATTTATTTAAATGC-TTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTA
*
646718 ATATATTGAACCGAGCCCATTTTCCCGCTTGTTCCACCCGACTATTTTTAAAAAGAAAATCACCA
129 AT-T-TTG-ACCGA-CCCATTTTCCCGCTTATTCCACCCGACTATTTTTAAAAA-AAAA-CACCA
* * **
646783 AAAATTAAGATAAAATATAAAATTTAAAAAAAATATG-GTGCAACATGAGGACTTCCCCA-GAAG
188 AAAATTAAGATAAAGTATAAAATTTAAAAAAAATAGGAGTGCAACACAAGGACTT-CCCAGGAAG
*
646846 TCA-CCTATCCTAGTACTACGT-TCGCCT-AAGCACA-ATTCAC
252 TCATCC-ATCCTAGTACTAC-TCTC-CCTCAAGCACACA-TAAC
* * *
646886 TATAGAGTTCTGATGGGATTCCATGCATTAATATTGGTAT-AGTAACACCCATCATGTCTTACGC
1 TACAGAGTTCTGATGGGATTCCATGCATTACTATTGGTATGA-TAGCACCCATCATGTCTTACGC
* *
646950 CCTTAATTTATTTAAATACTTCTCCATGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAA
65 CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAA
* * *** * * *
647015 TTTTG--C-A---A--TCCCCGAC-TATTACTTTCG-CTATTTTCAACAACAAAAA-ACTAAAAT
130 TTTTGACCGACCCATTTTCCCG-CTTATTCCACCCGACTATTTTTAA-AA-AAAAACACCAAAAA
* * *
647069 TTAAGATAAAGTGTAAAATTTTGAAAAATAAAGAGGAGTGCAACACAAGGACTTCCCAGGAGGTC
192 TTAAGATAAAGTATAAAA-TTT-AAAAA-AAATAGGAGTGCAACACAAGGACTTCCCAGGAAGTC
* * *
647134 ATCCATCTTAGTACTACTCTCTCTCAAGCACACATAAT
254 ATCCATCCTAGTACTACTCTCCCTCAAGCACACATAAC
* * * *
647172 TGCAGAGTTCTGATGGGATACGATGCATTACTACTT-GTATGATCGCACCCATCATGTCTTACGC
1 TACAGAGTTCTGATGGGATTCCATGCATTACTA-TTGGTATGATAGCACCCATCATGTCTTACGC
* *
647236 CCTTAATTTATTTAAATGCTTCTACATGTAACCATTTTCTTTAGACTAATCCTTAAAATATTTAA
65 CCTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAA
* * * * *
647301 TTTTGCGATCCTGACCC-TTTTCTCGCTCATTCCACCATGACT-CTTTTAAAAAAACAACAACAA
130 TTTT--GA-CC-GACCCATTTTCCCGCTTATTCCACC-CGACTATTTTTAAAAAAA-AACACCAA
* * * * * * *
647364 AAATTAAGATAAAGTATAAGATTTAAAAAAAAT-GGTGTGTAACACGATGATTTCCC--GAAGGA
189 AAATTAAGATAAAGTATAAAATTTAAAAAAAATAGGAGTGCAACACAAGGACTTCCCAGGAA-GT
* * * *
647426 CA-CACATCCTAGTAGTACTCTCGCC-CAAGCACGCTTAAT
253 CATC-CATCCTAGTACTACTCTC-CCTCAAGCACACATAAC
**
647465 TATGGAGTTCTGATGGGAT
1 TACAGAGTTCTGATGGGAT
647484 CCAAAGTTCA
Statistics
Matches: 483, Mismatches: 78, Indels: 77
0.76 0.12 0.12
Matches are distributed among these distances:
282 22 0.05
283 12 0.02
284 22 0.05
285 14 0.03
286 162 0.34
287 6 0.01
288 1 0.00
290 1 0.00
291 2 0.00
292 3 0.01
293 48 0.10
294 22 0.05
295 6 0.01
296 114 0.24
297 19 0.04
298 27 0.06
299 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (291 bp):
TACAGAGTTCTGATGGGATTCCATGCATTACTATTGGTATGATAGCACCCATCATGTCTTACGCC
CTTAATTTATTTAAATGCTTCTCCATGTAACCATTTTCTTCAGACTAATCCTTAAAATATTTAAT
TTTGACCGACCCATTTTCCCGCTTATTCCACCCGACTATTTTTAAAAAAAAACACCAAAAATTAA
GATAAAGTATAAAATTTAAAAAAAATAGGAGTGCAACACAAGGACTTCCCAGGAAGTCATCCATC
CTAGTACTACTCTCCCTCAAGCACACATAAC
Found at i:648398 original size:43 final size:43
Alignment explanation
Indices: 648350--648450 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
648340 GTAAGTATGC
648350 AAATAAGCTTACGAGTTTATAAATAATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGTTTATAAATAATGGCAAGTATATTGATA
* *
648393 AAATAAGCTTACGAGTTTATGAATAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGTTTATAAATAATGGCAAGTATATTGATA
*
648436 AAATTAGCTTACGAG
1 AAATAAGCTTACGAG
648451 CGTATGGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.33
Consensus pattern (43 bp):
AAATAAGCTTACGAGTTTATAAATAATGGCAAGTATATTGATA
Found at i:652124 original size:293 final size:289
Alignment explanation
Indices: 651603--652573 Score: 744
Period size: 293 Copynumber: 3.3 Consensus size: 289
651593 TGATTGCTAT
* ** * * * * *
651603 CATCATATCTTGTGCCCTTAATTTATTTAAACGCTTTTCCATGTAATCATGTTCATCCAACTAAT
1 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCTAACTAAT
* * * * *
651668 -ACTTAAAATACTTAATTTTGTGATCCATGTCTCTTTTACCGCTCGTTCTACCCCGACTCTTTAA
66 CA-TTAAAATATTTAATTTTATGATTCATG-ATCTTTTACCGCTCGTTCCA-CCCGACTCTTTAA
* * * * * *
651732 AAAACAACAACAAAAGTTAAGATAGAGTATAAAATTTCAAAAAAAGAGGGGTTCAACATGAGGAC
128 AAAACAACAATAAAAATTAAGATAAAGTAT-AAATTTGAAAAAAA-A-GGGTGCAACACGAGGAC
* * * ** * * **
651797 TTCCTAGAAGGTCACCAATCCTAGTACTACTCTCGGCC-AATCACGCTTAACTGTTCAGTTCTGA
190 TTCCTAGGAGGTCACCCATCCAAGTAAAACTCTC-GCCTAAGCACGCTTAACTATGAAGTTCTGA
** * * * *
651861 TGGGATTTGATGCACTGCTGCTGGAATGATAGCACC
254 TACGATCTGATGCACTACTACTGGAATGATACCACC
* *
651897 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCTTATTAAT
1 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCTAACTAAT
** * *
651962 CATTAAAATATTTAATTTT-TCGATTTCATGATCTTTT-CTTCTCGTTCCACCGGACTATTGTAA
66 CATTAAAATATTTAATTTTAT-GA-TTCATGATCTTTTACCGCTCGTTCCACCCGACTCTT-TAA
652025 AAAACAACAATAAAAATTAAGATAAAGTATAACATTCTGAAAAATAAAGGGTGCAACACGAGGAC
128 AAAACAACAATAAAAATTAAGATAAAGTATAA-ATT-TGAAAAA-AAAGGGTGCAACACGAGGAC
* * * *
652090 TTCCTCGGAGGTCACCCATCCAATTAAAACTCTCGCCTAAGCATGCTTAACTATGAAGTTGTGAT
190 TTCCTAGGAGGTCACCCATCCAAGTAAAACTCTCGCCTAAGCACGCTTAACTATGAAGTTCTGAT
* * * * * * *
652155 ACGATCTGGTGCATTACTATTTGTATGATCCCGCC
255 ACGATCTGATGCACTACTACTGGAATGATACCACC
* * * * * * * *
652190 CAACATGTCTTGCACCCTCAATTTATCTAATCACATCTCTATGTAACCATTTTCTT-TCGACTAA
1 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCT-AACTAA
* * * *
652254 TCGTTAAAATATTTAATTTTATGA-TCCTCGACTTTTTTCCCGCTCGTTCCACCTC-ATCTCTTA
65 TCATTAAAATATTTAATTTTATGATTCAT-GA-TCTTTTACCGCTCGTTCCACC-CGA-CTCTT-
* * *
652317 CAAACAAACAACACTAAAAATTAAGATAAAGTATAAACTTTTGAAAAAGAAGGGTGCAACACGAG
125 TAAA-AAACAACAATAAAAATTAAGATAAAGTATAAA--TTTGAAAAAAAAGGGTGCAACACGAG
* * * * *** * * * * *
652382 AACTTCCAAGGAGGTTACCCAACCTAA-TTCTATTGTCACCTAAGCACAC-TAATCT-GGAGAGT
187 GACTTCCTAGGAGGTCACCCATCC-AAGTAAAACTCTCGCCTAAGCACGCTTAA-CTATGA-AGT
** ** * * * *
652444 TCTGATGGGATGCACAT-CATTACTGCTGGTATGAT-CACATC
249 TCTGATACGAT-CTGATGCACTACTACTGGAATGATAC-CACC
* * * * * * *
652485 TATCATGTCTTGCACGCTTAATTTATTTAATCACTTCTCCATATAGCCATTTTCTT-TCAACTTA
1 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCT-AACTAA
* *
652549 TCCTTAAAATATTTAACTTTATGAT
65 TCATTAAAATATTTAATTTTATGAT
652574 CCCCAAACCT
Statistics
Matches: 545, Mismatches: 108, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
291 3 0.01
292 16 0.03
293 207 0.38
294 106 0.19
295 170 0.31
296 41 0.08
297 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (289 bp):
CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACCATTTTCTTCTAACTAAT
CATTAAAATATTTAATTTTATGATTCATGATCTTTTACCGCTCGTTCCACCCGACTCTTTAAAAA
ACAACAATAAAAATTAAGATAAAGTATAAATTTGAAAAAAAAGGGTGCAACACGAGGACTTCCTA
GGAGGTCACCCATCCAAGTAAAACTCTCGCCTAAGCACGCTTAACTATGAAGTTCTGATACGATC
TGATGCACTACTACTGGAATGATACCACC
Found at i:653248 original size:293 final size:292
Alignment explanation
Indices: 652903--653448 Score: 674
Period size: 293 Copynumber: 1.9 Consensus size: 292
652893 AAAATATCAC
* ** * *
652903 CAAAAAATAAGATAAAGTATATTTTTTTGAAAACGAGTGGTGCAACACAAGGACTTCCCAAGAGG
1 CAAAAAATAAGATAAAGTATAATTTCATGAAAAAGAGGGGTGCAACACAAGGACTTCCCAAGAGG
* * *
652968 TCACCTATACTAAAACTACACTCGCCCAAGCATGCTTAACTATG-A-AGTTCTGATGTGGTCT-A
66 TCACCTATACTAAAACTACACTCGCCCAAGCACGCTT-AC-ATGCAGAGTTCTGATGAGATCTGA
* * * *
653030 GTGCATTAGTGTTGGTATGATCGCACCAATCATGTCTTGTACCCTTAATTT-ATTTAAACGCTTC
129 -TGCATTAGTGTGGGAATGATCCCACCAATCACGTCTTGTACCCTTAATTTGA-TTAAACGCTTC
* * *
653094 TCCAG-GTAACTATTTTCTTCCGACTAATTCATAAAATGTT-TAATTTTGCGATCCCCAGCTCAT
192 TCC-GTGTAACAATTTTCTTCCGACTAATCCATAAAATGTTGTAATTTTGCAATCCCCAGCTCAT
653157 TCCCCTCTCGTTCTACCCCGGTTCTTAAAAAAAGAAA
256 TCCCCTCTCGTTCTACCCCGGTTCTTAAAAAAAGAAA
* *
653194 CAAAAAATTAAGATAAAGTATAAAATTTCAT-AAAAAGAGGGGTGCAATACAAGGACTTCCCGAG
1 CAAAAAA-TAAGATAAAGTAT--AATTTCATGAAAAAGAGGGGTGCAACACAAGGACTTCCCAAG
* ** * * * * *
653258 AGGTCACCTATCCTAGTACTGCTCTCGCCCAAGCACGCTTACCTGCAGAGTTTTGTTGAGATCTG
63 AGGTCACCTATACTAAAACTACACTCGCCCAAGCACGCTTACATGCAGAGTTCTGATGAGATCTG
* * * *
653323 ATGTATTAGTGTGGGAATGATCCCACCAATCACGTTTTGTGCCTTTAATTTGATTAAACGCTTCT
128 ATGCATTAGTGTGGGAATGATCCCACCAATCACGTCTTGTACCCTTAATTTGATTAAACGCTTCT
* * * *
653388 CCGTGTAACAATTTTCTTCCGACTAATCCTTAAAATTTTGTAGTTTTGCAATCCCTAGCTC
193 CCGTGTAACAATTTTCTTCCGACTAATCCATAAAATGTTGTAATTTTGCAATCCCCAGCTC
653449 TGTACACGCT
Statistics
Matches: 213, Mismatches: 33, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
291 9 0.04
292 17 0.08
293 162 0.76
294 25 0.12
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (292 bp):
CAAAAAATAAGATAAAGTATAATTTCATGAAAAAGAGGGGTGCAACACAAGGACTTCCCAAGAGG
TCACCTATACTAAAACTACACTCGCCCAAGCACGCTTACATGCAGAGTTCTGATGAGATCTGATG
CATTAGTGTGGGAATGATCCCACCAATCACGTCTTGTACCCTTAATTTGATTAAACGCTTCTCCG
TGTAACAATTTTCTTCCGACTAATCCATAAAATGTTGTAATTTTGCAATCCCCAGCTCATTCCCC
TCTCGTTCTACCCCGGTTCTTAAAAAAAGAAA
Found at i:657684 original size:291 final size:288
Alignment explanation
Indices: 655862--661631 Score: 2727
Period size: 291 Copynumber: 19.9 Consensus size: 288
655852 CCACCCAAAC
* ** * * * * * ** ** *
655862 TAGTACTATTCTTACCCAAGCAAGCTTAATTGTGTAGTTTTGATGAGATCCAATGCTTTAGTGGT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * *
655927 GGTATGATCGCATCCATCATGTATTGCACCCTGAATTTATTTAAACGCTTCTCCACAG-AAGCAT
66 GGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CA-TGTAACCAT
* * * ** * * * *
655991 TTTCTTCCGACTAATCCTCAAAGTATTTAACTTTGTAATCCCCAGA-TCTTTTCCCGCTGGC-TC
128 TTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGAT-CCCTGACTCTTTT-CCTCT-CCTTT
* * * * * *
656054 CATCCC-GACTCTTTCAAAAGAACAACACCAAAAACTAATATAAAGTATAAAATTTCGAAAAAGA
190 CA-CCCTGACTCTTTTAAAA-AACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAAA
** * * * *
656118 GGGCTTTAACACGAAGACTTTCC-GTGAGGCCACCCATCT
252 GGG-TGCAACACGAGGA-ATTCCAG-GAGGTCACCCATCA
* * * * * * * * * * *
656157 TAGAACTACTCTCTCCCAAACACACTTAATTGCGTAGTTCTGATGAGATTCGATGCACTAGTGTT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* ** * * * * * *
656222 GGTATGATTGCTTCCATCTTGTCTTGCATCCTTAATTTATTTCAACACTTCTCCATATAACAATT
66 GGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCATT
* * * * ** * * * ** * *
656287 GTCTTCCGACTAGTCGTTAAAGTATTTAATTTTTTGATCCCCGACTCTTTCCCACTTATTCCACT
129 TTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCTCTCCTTTCACC
* * * * *
656352 CTGACTC-TTTAAAAAA-AAC-C-AAAAATTAGGATATACTATAAAATTTCAAATAAAGAGTGGT
194 CTGACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTTGAAA-AAA-AG-GGT
* * * ** *
656413 GCAGCACGAGTACTTCTC-GAGAGGTCACTTATCC
256 GCAACACGAGGAATTC-CAG-GAGGTCACCCATCA
* * ** * * * ** * ** * *
656447 TAGTACTAATCTAGCAGAAACACGTTTACCTGTAGAGTTCTGATGAGATTCATTGCACTAGTGCT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * * ** *
656512 AGTATTATCGCACTCATCAAGTCATGTGCCCTTAATTTATTTAAACACTTCTCTATGTAACCATT
66 GGTATGATCGAAC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCATT
** * * ** ** * * *
656577 TTCTTCTTAATAATCCTTAAAGTATTTAATTTTTTGATTACTG-GTCTTTTCC-CACTTGTTCCA
129 TTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCTCTCCT-TT-CA
** * ** * * * * *
656640 CCCCAAATC-TAAAAAAAACAACGCACAAAA-TAGGATAAA-TAATAATTTTTTTAAAGAAAGAG
192 CCCTGACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGT-ATAA-ATTTTGAAA-AAA-AG
* * * * * * * **
656702 TGGTGCTAGACGA-GAACATCCCGAGAGATCATCTATTG
253 -GGTGCAACACGAGGAA-TTCCAG-GAGGTCACCCATCA
* * * ** * ** * *
656740 TAGTACTACTCTTGCCCAAGAACGCTTAATTGCCTACTTCTGATGAGATCCAATGCATTAGTTCT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * * * *
656805 GGTATGATCGCACCCATCATGTCATGTACCCTTAATTTATTTAAGA-GGTTCCCCACGCAACCAT
66 GGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAA-ACGCTT-CTCATGTAACCAT
* * * * * * *
656869 TTGT-TTTCAACTAATCCTTAGAATATTTAATTTTACGATCCCTGGCTCTTTTTTCCAC-CCGTT
128 TT-TCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTC--TTTTCCTCTCCTTT
* * * * **
656932 CAAGCAC-AACTCTTTAAAAAAAACAACACAAAAAATTAAGATAAAGTATAAAATATCCATAAAA
190 C-A-CCCTGACTCTTT-TAAAAAACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGA-AAAA
* * ** * * * *
656996 GAGGGGTACATTACGAAGACTTTCC-GGAAGATCACCCATCC
250 -AAGGGTGCAACACGAGGA-ATTCCAGG-AGGTCACCCATCA
* * *
657037 TAGTACTACTCTCGCCCAAGCACACTTAACTAC-GATGTTCTAATGAGATCCGGTGAATTAGT-C
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGA-GTTCTGATGAGATCCGGTGAATTAGTGC
* * *
657100 TTGGTATGATCGCACCCATCATGTCTTGCACCCATAATTTATTTAAACGTTTCTCCATGTAACCA
65 -TGGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCA
* *** * * *
657165 TTTTCTTCTGACTAATCCTTAAAATATTTAATTTTATTATCCCCGACTCCTTTCC-CTCTTGTTC
127 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCTCTCCT-TTC
** * * *
657229 ATCCAAGA--CTATT--AAAA-AAC-C-AAAAATTAAGATAAAGTATAAATTTTCAAGTAAAAGG
191 A-CCCTGACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTTGAA--AAAAAG
* * * *
657287 GGTGCAACATGAGGACTTCCCAGGAGGTCACCAATCC
253 GGTGCAACACGAGGAATT-CCAGGAGGTCACCCATCA
* * * * * * * * * ** *
657324 TATTACTACTCTCACCCAATCACACTTCACTGTGGACTTCTGATGGGATCCGTTCCATTAGTACT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* ** * * *
657389 GGTATGATCTAACCATCATGTCTTGGGCCCTTACTTTATTTAAAC-ATTCTCATGTGACCATTTT
66 GGTATGATCGAACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCATGTAACCATTTT
* * *
657453 CTTCCGACTAAACCTTAAAATATTTAATTTTACGATCCCTGATTCTTTTCCTGCTCCTTTCACCC
131 CTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCT-CTCCTTTCACCC
* * * * * *
657518 TGGCTCTTTTAAAAAAATAACACAAAAAATTAAGATAAACTATAAAAATATGAAAAAAAGGGTAC
195 TGACTCTTTT-AAAAAACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAAAGGGTGC
* *
657583 AACACGAGGAATTCCTAGGAGATAACCCATCA
258 AACACGAGGAATTCC-AGGAGGTCACCCATCA
* * * * *
657615 TAGTACTACTCACACCCAAGCATGCTTAACTGTGGAGTTCTGATGAGATCTGGTGAATTAGTGCT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* *
657680 GGTATGATC-ACACACATCATGTCTTGCGCCCATAATTTATTTAAACGCTTCTCCATGT-A--AT
66 GGTATGATCGA-AC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCAT
* * * * *
657741 TAT-TT-C-ATCTAATCTTTAAAATATTTCATTTTGCGATCCC-GAGCTCTTTT-CTCACTCGTT
128 TTTCTTCCGA-CTAATCCTTAAAATATTTAATTTTGCGATCCCTGA-CTCTTTTCCTCTC-CTTT
* * **
657801 CAACCTCGACTCTTTTAAAAATACCA-AC-AAAAATTAAGATAAAGTATAAAATTTCAAAAAAAT
190 CACCCT-GACTCTTTTAAAAA-ACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAA-
* * ** *
657864 AGGGGTGCAACACGAGAACATCCCTA-GTTGTAACCCAT-A
251 A-GGGTGCAACACGAGGA-ATTCC-AGGAGGTCACCCATCA
* * * * * * ** * *
657903 CTAGTACTACTCTCGCCCAATCACGCTTAATTGCGAAGATCTAATGAGAACCATTGCATTAGTGA
1 -TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGC
** * * * * *
657968 TAATATGATCGAACCAATCATATATTGCACCCTTAATTTATTTAAACACTTTTCTATATAACCAT
65 TGGTATGATCGAACC-ATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCAT
* * * * * * * ** * *
658033 TTTCTTCCGACTAATCCATAAAGTATTTAATTTTGAGATTCCTGGCTATTTTCCAACTAGTTCCG
128 TTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCC-TCTCCTTTCA
* * * *
658098 CCCCGACTC-TTT-AAAAACAACACAAAAAATTAAGTTTAAA-AATAAATTTTCAAAAAAAAGGG
192 CCCTGACTCTTTTAAAAAACAACACAAAAAATTAAG-ATAAAGTATAAATTTT-GAAAAAAAGGG
** * ** *
658160 TGCAATGC-AAGAACTTCCCAAAAGGTCACTCATACA
255 TGCAACACGAGGAA-TT-CCAGGAGGTCACCCAT-CA
* * * * * * * * *
658196 -AGTACCACTCTCACCCAAGCATGCTTCACTGCGAAGTTCTGATGGGATCCGAT-ACCTCAGTGC
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGA-ATTAGTGC
* * * * * * *
658259 TGGTATGATTAC-ACCCATCCTATCATGCACCCTTAATTCATTTAAACGCTTCCCTAAGTAACCA
65 TGGTATGA-T-CGAACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCA
* * ** *
658323 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCTTGACACTTTTCCTACTTGTTCC
127 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCT-CTCCTTTC
* * * * * *
658388 AGCCC--A-TCTCCTTAAAAAACAACACAAAAAATGAAGATAAAGTATATAGTATCAAAAAAAGT
191 A-CCCTGACTCT-TTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTTGAAAAAAA--
** * *
658450 GGGGTGCATTACGAGGACTTTCC-GGAAGGTCACCCATCT
252 -GGGTGCAACACGAGGA-ATTCCAGG-AGGTCACCCATCA
* * * * * * *
658489 TAATACTACTCTCGCCCAAGCACCCTTAACTACGGAGTTCTAATGAGATCTGGTGATTTAGTACT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * *
658554 GGTATGATCGCACGCATCATGTCTTGCACCCTTAA-TTATTTAAACGCTTCTCTATTTAAACATT
66 GGTATGATCGAAC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCATT
* *
658618 TTCTTTC-ATATAATCCTTAAAATATTTAATTTTGCGAT-CCTCGACTCTTTTCCTCTCCTTAT-
129 TTCTTCCGA-CTAATCCTTAAAATATTTAATTTTGCGATCCCT-GACTCTTTTCCTCTCCTT-TC
*
658680 ACCCTGACT-TTTTAAATAAAACAACACAAAAAATTAAGATAAAGCATAAAATTTTG----AAA-
191 ACCCTGACTCTTTT-AA-AAAACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAAAG
*
658739 -----AA-A-GA-G-------GGAGGTCACCCATCT
253 GGTGCAACACGAGGAATTCCAGGAGGTCACCCATCA
* * * * * * * * * * * * *
658760 TAGTATTTCTATTGGCCAAGCAAGCTTCACTACGTAGTTCTGATAAAATCCGGTGTATTAGTGTT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * * * *
658825 GTTATGATCGCACCCATAATGTTTTACATCCTTAATTTATTTAAACGCTTCTCCATGTAAACATT
66 GGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCATT
* * * *
658890 TTCTTCCAAATAATCCTTAAAATATTTAATTTTACGATCCCTGATTCTTTTCCTGCTCCTTTCAC
129 TTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCT-CTCCTTTCAC
* * * * * * *
658955 CCTGGCTTTTTTAAAATAATAACACCAAAAATTAAGATAAACTATAAAATTATG--AAGAAGGGT
193 CCTGACTCTTTTAAAA-AACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAAAGGGT
* * *
659018 ACAACACGAGGAATTCCTAGGAGATAACCCATCA
256 GCAACACGAGGAATTCC-AGGAGGTCACCCATCA
* * * * *
659052 TAGTACTACGCCCACCCAAGCACGCTTAACTGTGGAGTTCTGATGAGATCTGGTGAATTAGTGCT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* *
659117 GGTATGATC-ACACACATCATGTCTTGCGCCCATAATTTATTTAAACGCTTCTCCATGT-A--AT
66 GGTATGATCGA-AC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCAT
* * * * *
659178 TAT-TT-C-ATCTAATCTTTAAAATATTTCATTTTGCGATCCC-GAGCTCTTTT-CTCACTCGTT
128 TTTCTTCCGA-CTAATCCTTAAAATATTTAATTTTGCGATCCCTGA-CTCTTTTCCTCTC-CTTT
* *
659238 CAACCTCGACACTTTTAAAAATAC--CA-ATAAAAATTAAGATAAAGTATAAAATTTTGAAAAAA
190 CACCCT-GACTCTTTTAAAAA-ACAACACA-AAAAATTAAGATAAAGTAT-AAATTTTGAAAAAA
* * ** *
659300 TAGGGGTGCAACACGAGAACATCCCTA-GTTGTAACCCAT-A
251 -A-GGGTGCAACACGAGGA-ATTCC-AGGAGGTCACCCATCA
* * * * * ** * *
659340 CTAGTACTACTCTCGCCCAATCACGCTTAATTGCGAAGATCTGATGAGAACCATTGCATTAGTGA
1 -TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGC
** * * * *
659405 TAATATGATCGAACCAATCATATATTGCACCCTTAATTTATTTAAACACTTTTCTC-TATAACCA
65 TGGTATGATCGAACC-ATCATGTCTTGCACCCTTAATTTATTTAAACGC--TTCTCATGTAACCA
* * * * * * * ** *
659469 TTTTCTTCCGACTAATCCATAAAGTATTTAATTTTGAGATTCCTGGCTATTTTCCAGCTAGTTCC
127 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCC-TCTCCTTTC
* * * * * * *
659534 GCCCCGATTC-TTT-AAAAACAACACAAAAAATTAAGTTTAAA-AATAAATTTTCAAAAAAAATG
191 ACCCTGACTCTTTTAAAAAACAACACAAAAAATTAAG-ATAAAGTATAAATTTT-GAAAAAAAGG
** * ** *
659596 GTGCAATGC-AAGAACTTCCCAAAAGGTCACTCATACA
254 GTGCAACACGAGGAA-TT-CCAGGAGGTCACCCAT-CA
* * * * * * *
659633 -AGTACCACTCTCACCCAAGCACGCTTCACTGCGAAGTTCTGATGGGATCCGAT-ACCTTAGTGC
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGA-ATTAGTGC
* * * * * * *
659696 TGGTATGATTAC-ACCCATCCTATCATGCACCCTTAATTCATTTAAACGCTTCCCAAAGTAACCA
65 TGGTATGA-T-CGAACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCA
* * * ** *
659760 TTTTCTTCTGACTAATCCTTAAAATATTTAATTTTGCGATCCTTGACACTTTTCCTACTTGTTCC
127 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCT-CTCCTTTC
* * * * * *
659825 AGCCC--A-TCTCCTTAAAAAACAACACAAAAAATGAAGATAAAGTATATAGTATCAAAAAAAGT
191 A-CCCTGACTCT-TTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTTGAAAAAAA--
** * *
659887 GGGGTGCATTACGAGGACTTTCC-GGAAGGTCACCCATCT
252 -GGGTGCAACACGAGGA-ATTCCAGG-AGGTCACCCATCA
* * * * * * *
659926 TAATACTACTCTCGCCTAAGCACCCTTAACTGCGGAGTTCTAATGAGATCTGGTGATTTAGTACT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * *
659991 GGTATGATCGCACGCATCATGTCTTGCACCCTTAA-TTATTTAAACGCTTCTCTATTTAACTATT
66 GGTATGATCGAAC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCATT
*
660055 TTCTTTC-AGCTAATCCTTAAAATATTTAATTTTGCGAT-CCTCGACTCTTTTCCTCTCC-TTCT
129 TTCTTCCGA-CTAATCCTTAAAATATTTAATTTTGCGATCCCT-GACTCTTTTCCTCTCCTTTC-
*
660117 ACCCTGACT-TTTTAAATAAAACAACACAAAAAATTAAGATAAAGCATAAAATTTTG----AAA-
191 ACCCTGACTCTTTT-AA-AAAACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAAAAAAG
*
660176 -----AA-A-GA-G-------GGAGGTCACCCATCT
253 GGTGCAACACGAGGAATTCCAGGAGGTCACCCATCA
* * * * * * * * * * * * * *
660197 TAGTATTTCTATTGGCCAAGCAAGCTTCACTACGTAGTTTTGATAAAATCCGGTGTATTAGTGTT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * * * *
660262 GTTATGATCGCACCCATAATGTTTTACATCCTTAATTTATTTAAACGCTTCTCCATGTAAACATT
66 GGTATGATCG-AACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCATT
* * * * * *
660327 TTCTTCCAAATAATCCTTAAAATATTTAATTTTGCGAT-CCTCGACTCATTTCCCGCTCGTTCCA
129 TTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCT-GACTC-TTTTCCTCTCCTTTCA
* * * * ** **
660391 GTCC-AACTCTTTT-AAAAAC--CGCAAAAAATTAAGATCAAGTATAAAATTTCAAAAGAAAATT
192 -CCCTGACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGTAT-AAATTTTGAAA-AAAAGG
* ** * * * * *
660452 GTACATTACGATGACTTCACGGGA-G--A-ACATCC
254 GTGCAACACGAGGAATTC-CAGGAGGTCACCCATCA
* * * * * ** **
660484 TAGTAGTACTCTAGCCTAAGAACGCTTAACTACGGAGTTCTGATGAGATCCGGTTCATTAGTTTT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
** * *
660549 GGTATGATC-ACACCCATCATGTCTTGCACCCTTAATTTATTTAAGTGCTTCCCCATGTAAACAT
66 GGTATGATCGA-A-CCATCATGTCTTGCACCCTTAATTTATTTAAACGCTT-CTCATGTAACCAT
* * * * * *
660613 TTTCTTCTGACAAATCCTTAAAGTATTTAATTTTGCGATACACATCACTCTTTATGCTCGATCC-
128 TTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGAT-C-CCTGACTCTTT-TCCTC--TCCT
* * * * *
660677 --AACCAT-ACTCTTTTTAAAAAAAAACACCAAAAATTAAGATAAAATATAAATTTTCGAAAAAA
188 TTCACCCTGACTC-TTTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTT-GAAAAAA
* * * * * *
660739 GAGGGGTGCAATATGAGGACTTCCCGAATGGTCACTCC-TCC
251 -A-GGGTGCAACACGAGGAATTCCAGGA-GGTCAC-CCATCA
* * * * * * **
660780 TAGTACTACTCTTGCCCAAGCACGCTTTACTGCGAAGTTCTGATGGGATCTGATGCCTTAGTGCT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * * * *
660845 -ATATAATC-ATACACATCATGTCATGCGCCTTTAATTTATTTAAACACTTCCCTATGTAACCAT
66 GGTATGATCGA-AC-CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-ATGTAACCAT
*
660908 TTTCTTCCGACTAATCCATT-AAATATTTAATTTTGCAATCCCT-ACCTCTTTT-CTAGCTCCTT
128 TTTCTTCCGACTAATCC-TTAAAATATTTAATTTTGCGATCCCTGA-CTCTTTTCCT--CTCCTT
* * * * ** **
660970 CCA-TC-GAACTC-TTTAAAAAA-ACCACAAAATAATAAAGATAATTTAT-AATGTATCAAAAAA
189 TCACCCTG-ACTCTTTTAAAAAACAACACAAAA-AATTAAGATAAAGTATAAAT-T-TTGAAAAA
* ** ** * * * * * *
661030 AGAGGGGAGCATTAC-AAAAACTTTCTGAAAGGTTAACCATCC
250 A-A-GGGTGCAACACGAGGAA-TTCCAG-GAGGTCACCCATCA
* * * * * * * * ** * * * * * **
661072 TAGAATTGCTATCGCCCAACCATGCTTCACTACAAATTTTTGATGGGATCCGAT-ACATTACTTT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGA-ATTAGTGC
* * *
661136 TAGTATGATC-ATACCAACCATGTCTTGCGCCCTTAATTTATTTAAACGCTTCTCCATGTAACCA
65 TGGTATGATCGA-ACC-ATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCA
* * * * ** * * *
661200 TTTTCTTCCAACTAATACTTAAAATATTTAAGTTTGCAATCCCCT-AAACTTTTACTGCTCGTTC
127 TTTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGAT-CCCTGACTCTTTTCCT-CTCCTTT
* * * * **
661264 CACCCTGGCTCTTTTAATTAAAACAATAC-CAAAATTAAGATAAAGCATAAATTTTTGTGGAAAA
190 CACCCTGACTCTTTTAA--AAAACAACACAAAAAATTAAGATAAAGTATAAA-TTTTG-AAAAAA
* * * * * * *
661328 AGGTGTGCAACACGAAGACTTCAATAGAGATCACCAATCC
251 AGG-GTGCAACACGAGGAATTCCA-GGAGGTCACCCATCA
* * * * * * * * *
661368 TAGTACTACCCTCTCCCAAGCACGCTTCACTACGGAGTTCTGATGGGATTCGGTGCATTACTACT
1 TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
* * * * ***
661433 GGTATTATTAC-ACCCATCATATCTTGCACCCTTAATTTATTTAAACGCTACTCCACAAAACCAT
66 GGTATGA-T-CGAACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCT-CATGTAACCAT
** ** * * * * *
661497 TTTCTTCATACTAATCCTTAAAATATTTAATTTTATGATCCTTGACTTTTTTCCCGCTCGTTCCA
128 TTTCTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTT-CCTCTCCTTTCA
* * * *
661562 CCGCAG-TTC-TTTATAAAA-AA-AC-AAAAATTAAGATAAATTATAAATTTTTGAAAAAAGAGG
192 CC-CTGACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAA-TTTTGAAAAAA-A-G
661622 GGTGCAACAC
253 GGTGCAACAC
661632 ATTTGGCTAA
Statistics
Matches: 4193, Mismatches: 963, Indels: 642
0.72 0.17 0.11
Matches are distributed among these distances:
269 27 0.01
271 174 0.04
272 148 0.04
273 67 0.02
274 15 0.00
275 2 0.00
279 2 0.00
280 5 0.00
281 5 0.00
282 5 0.00
283 3 0.00
284 61 0.01
285 39 0.01
286 55 0.01
287 312 0.07
288 76 0.02
289 333 0.08
290 222 0.05
291 573 0.14
292 410 0.10
293 505 0.12
294 385 0.09
295 283 0.07
296 253 0.06
297 200 0.05
298 27 0.01
299 6 0.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (288 bp):
TAGTACTACTCTCGCCCAAGCACGCTTAACTGCGGAGTTCTGATGAGATCCGGTGAATTAGTGCT
GGTATGATCGAACCATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCATGTAACCATTTT
CTTCCGACTAATCCTTAAAATATTTAATTTTGCGATCCCTGACTCTTTTCCTCTCCTTTCACCCT
GACTCTTTTAAAAAACAACACAAAAAATTAAGATAAAGTATAAATTTTGAAAAAAAGGGTGCAAC
ACGAGGAATTCCAGGAGGTCACCCATCA
Found at i:658214 original size:580 final size:575
Alignment explanation
Indices: 656940--658730 Score: 1320
Period size: 580 Copynumber: 3.1 Consensus size: 575
656930 TTCAAGCACA
* ** * *
656940 ACTCTTTAAAAAAAACAACACAAAAAATTAAGATAAAGTAT-AAAATATCCATAAAAGAGGGGTA
1 ACTCTTT-TAAAAAACAACACAAAAAATTAAGATAAACAATAAAAATAT--A-AAAAAAAGGGTA
** * * ** * * * **
657004 CATTACGAAGACTTTCCGGAAGATCACCCATCCTAGTACTACTCTCGCCCAAGCACACTTAACT-
62 CAACACGAAGAATTCCCAAAAGATAACCCATCATAGTACTACTCTCACCCAAGCATGCTTAACTG
* * *
657068 ACGATGTTCTAATGAGATCCGGTGAATTAGT-CTTGGTATGATCGCACCCATCATGTCTTGCACC
127 AGGA-GTTCTGATGAGATCCGGTGAATTAGTGC-TGGTATGATCACACCCATCATGTCTTGCACC
* *
657132 CATAATTTATTTAAACGTTTCTCCATGTAACCATTTTCTTCTGACTAATCCTTAAAATATTTAAT
190 CATAATTTATTTAAACGCTTCTCCATGTAA-CATTATCTTCT-ACTAATCCTTAAAATATTTAAT
** * * *
657197 TTTATTATCCCCGACTCCTTTCCCTCTTGTTCATCCAAGACTATTAAAAAACCAAAAATTAAGAT
253 TTTACGATCCCCGACTCCTTTCCCACTCGTTCAACCAAGACTATTAAAAAACCAAAAATTAAGAT
* ** * * * * * *
657262 AAAGTATAAATTTTCAAGTAAAAGGGGTGCAACATGAGGACTTCCCAGGAGGTCACCAATCCTAT
318 AAAGTATAAAATTTCAAAAAAAAGGGGTGCAACACGAGAACATCCCAGGAGGTAACCAATACTAG
* * * * * * * * **
657327 TACTACTCTCACCCAATCACACTTCACTGTGGACTTCTGATGGGATCCGTTCCATTAGTACTGGT
383 TACTACTCTCACCCAATCACACTTAACTGCGAACATCTAATGAGAACCATTCCATTAGTACTAAT
* * * ** * * *
657392 ATGATCTAACCATCATGTCTTGGGCCCTTACTTTATTTAAACATTCTCATGTGACCATTTTCTTC
448 ATGATCGAACCATCATATATTGCACCCTTAATTTATTTAAACATTCTCATATAACCATTTTCTTC
* * * ** * * *
657457 CGACTAAACCTTAAAATATTTAATTTTACGATCCCTGATTCTTTTCCTGCTCCTTTCACCCTG
513 CGACTAAACCATAAAATATTTAATTTTACGATCCCTGACTATTTTCCAACTACTTCCACCCCG
* * * *
657520 GCTCTTTTAAAAAAATAACACAAAAAATTAAGATAAACTATAAAAATATGAAAAAAAGGGTACAA
1 ACTCTTTT-AAAAAACAACACAAAAAATTAAGATAAACAATAAAAATATAAAAAAAAGGGTACAA
* * ** * *
657585 CACGAGGAATTCCTAGGAGATAACCCATCATAGTACTACTCACACCCAAGCATGCTTAACTGTGG
65 CACGAAGAATTCCCAAAAGATAACCCATCATAGTACTACTCTCACCCAAGCATGCTTAACTGAGG
* * *
657650 AGTTCTGATGAGATCTGGTGAATTAGTGCTGGTATGATCACACACATCATGTCTTGCGCCCATAA
130 AGTTCTGATGAGATCCGGTGAATTAGTGCTGGTATGATCACACCCATCATGTCTTGCACCCATAA
* * *
657715 TTTATTTAAACGCTTCTCCATGT-A-ATTAT-TTC-ATCTAATCTTTAAAATATTTCATTTTGCG
195 TTTATTTAAACGCTTCTCCATGTAACATTATCTTCTA-CTAATCCTTAAAATATTTAATTTTACG
* * ** *
657776 AT-CCCGAGCTCTTTTCTCACTCGTTCAACCTCGACTCTTTTAAAAATACCAACAAAAATTAAGA
259 ATCCCCGA-CTCCTTTCCCACTCGTTCAACCAAGA--CTATTAAAAA-A-C--CAAAAATTAAGA
** *
657840 TAAAGTATAAAATTTCAAAAAAATAGGGGTGCAACACGAGAACATCCCTA-GTTGTAACCCATAC
317 TAAAGTATAAAATTTCAAAAAAA-AGGGGTGCAACACGAGAACATCCC-AGGAGGTAACCAATAC
* * * * *
657904 TAGTACTACTCTCGCCCAATCACGCTTAATTGCGAAGATCTAATGAGAACCATTGCATTAGTGA-
380 TAGTACTACTCTCACCCAATCACACTTAACTGCGAACATCTAATGAGAACCATTCCATTAGT-AC
*
657968 TAATATGATCGAACCAATCATATATTGCACCCTTAATTTATTTAAACACTTTTCTATATAACCAT
444 TAATATGATCGAACC-ATCATATATTGCACCCTTAATTTATTTAAACA-TTCTC-ATATAACCAT
* * * * *
658033 TTTCTTCCGACTAATCCATAAAGTATTTAATTTTGA-GATTCCTGGCTATTTTCCAACTAGTTCC
506 TTTCTTCCGACTAAACCATAAAATATTTAATTTT-ACGATCCCTGACTATTTTCCAACTACTTCC
*
658097 GCCCCG
570 ACCCCG
* * * *
658103 ACTC-TTT-AAAAACAACACAAAAAATTAAGTTTAAA-AAT-AAATTTTCAAAAAAAAGGGTGCA
1 ACTCTTTTAAAAAACAACACAAAAAATTAAG-ATAAACAATAAAAATAT-AAAAAAAAGGGTACA
** * * * * *
658164 ATGC-AAGAACTTCCCAAAAGGTCACTCATACA-AGTACCACTCTCACCCAAGCATGCTTCACTG
64 ACACGAAGAA-TTCCCAAAAGATAACCCAT-CATAGTACTACTCTCACCCAAGCATGCTTAACTG
* * * * * * * * * *
658227 CGAAGTTCTGATGGGATCCGAT-ACCTCAGTGCTGGTATGATTACACCCATCCTATCATGCACCC
127 AGGAGTTCTGATGAGATCCGGTGA-ATTAGTGCTGGTATGATCACACCCATCATGTCTTGCACCC
* * * * *
658291 TTAATTCATTTAAACGCTTC-CCTAAGTAACCATTTTCTTCCGACTAATCCTTAAAATATTTAAT
191 ATAATTTATTTAAACGCTTCTCC-ATGTAA-CATTATCTT-CTACTAATCCTTAAAATATTTAAT
* ** * * * * * * * *
658355 TTTGCGATCCTTGACACTTTTCCTACTTGTTCCAGCCCA-TCTCCTTAAAAAACAACACAAAAAA
253 TTTACGATCCCCGACTCCTTTCCCACTCGTT-CAACCAAGACT-ATT--AAAA-AAC-C-AAAAA
* * * * * ** * * * *
658419 TGAAGATAAAGTATATAGTATCAAAAAAAGTGGGGTGCATTACGAGGACTTTCC-GGAAGGTCAC
311 TTAAGATAAAGTATAAAATTTCAAAAAAA-AGGGGTGCAACACGAGAACATCCCAGG-AGGTAAC
* * * * * * * ** * *** *
658483 CCAT-CTTAATACTACTCTCGCCCAAGCACCCTTAACTACGGAGTTCTAATGAGATCTGGT-GAT
374 CAATAC-TAGTACTACTCTCACCCAATCACACTTAACTGCGAACATCTAATGAGAACCATTCCA-
** * * * * *
658546 TTAGTACTGGTATGATCGCACGCATCATGTCTTGCACCCTTAA-TTATTTAAACGCTTCTCTATT
437 TTAGTACTAATATGATCGAAC-CATCATATATTGCACCCTTAATTTATTTAAAC-ATTCTC-ATA
* * * * *
658610 TAAACATTTTCTTTC-A-TATAATCCTTAAAATATTTAATTTTGCGAT-CCTCGACTCTTTTCC-
499 TAACCATTTTCTTCCGACTA-AA-CCATAAAATATTTAATTTTACGATCCCT-GACTATTTTCCA
* * ** *
658671 TCTCCTTATACCCTG
561 ACTACTTCCACCCCG
658686 ACT-TTTTAAATAAAACAACACAAAAAATTAAGATAAAGC-ATAAAA
1 ACTCTTTT-AA-AAAACAACACAAAAAATTAAGATAAA-CAATAAAA
658731 TTTTGAAAAA
Statistics
Matches: 962, Mismatches: 193, Indels: 105
0.76 0.15 0.08
Matches are distributed among these distances:
572 6 0.01
573 43 0.04
574 3 0.00
575 13 0.01
576 1 0.00
577 2 0.00
578 139 0.14
579 47 0.05
580 275 0.29
581 43 0.04
582 9 0.01
583 90 0.09
584 70 0.07
585 180 0.19
586 37 0.04
587 4 0.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (575 bp):
ACTCTTTTAAAAAACAACACAAAAAATTAAGATAAACAATAAAAATATAAAAAAAAGGGTACAAC
ACGAAGAATTCCCAAAAGATAACCCATCATAGTACTACTCTCACCCAAGCATGCTTAACTGAGGA
GTTCTGATGAGATCCGGTGAATTAGTGCTGGTATGATCACACCCATCATGTCTTGCACCCATAAT
TTATTTAAACGCTTCTCCATGTAACATTATCTTCTACTAATCCTTAAAATATTTAATTTTACGAT
CCCCGACTCCTTTCCCACTCGTTCAACCAAGACTATTAAAAAACCAAAAATTAAGATAAAGTATA
AAATTTCAAAAAAAAGGGGTGCAACACGAGAACATCCCAGGAGGTAACCAATACTAGTACTACTC
TCACCCAATCACACTTAACTGCGAACATCTAATGAGAACCATTCCATTAGTACTAATATGATCGA
ACCATCATATATTGCACCCTTAATTTATTTAAACATTCTCATATAACCATTTTCTTCCGACTAAA
CCATAAAATATTTAATTTTACGATCCCTGACTATTTTCCAACTACTTCCACCCCG
Found at i:660179 original size:294 final size:290
Alignment explanation
Indices: 658775--660178 Score: 967
Period size: 294 Copynumber: 4.8 Consensus size: 290
658765 TTTCTATTGG
* * * * * * ** *
658775 CCAAGCAAGCTTCACTACGTAGTTCTGATAAAATCCGGTGTATTAGTGTTGTTATGATCGCACCC
1 CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTG-ATTAGTACTGGTATGATCGCACCC
* * * * * **
658840 ATAATGTTTTACATCCTTAATTTATTTAAACGCTTCTCCATGTAAACATTTTCTTCCAAATAATC
65 ATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGT-AACATTTTCTTTCAGCTAATC
* * * * *
658905 CTTAAAATATTTAATTTTACGATCC-CTGATTCTTTTCCTGCTCCTTTCACCCTGGCTTTTTTAA
129 CTTAAAATATTTAATTTTGCGATCCTC-GACTCTTTTCCT-CTCGTTCCACCCTGAC-TTTTTAA
* * * * * *
658969 AATAATAACACCAAAAATTAAGATAAA-CTATAAAATTATG-AAGAA-GGGTACAACACGAGGAA
191 AAAAACAACACAAAAAATTAAGATAAAGC-ATAAAATTTTGAAAAAATGGGTGCAACACGA-GAA
* * * *
659031 --TTCCTAGG-AGATAACCCAT-CATAGTACTACGCCCAC
254 CTTTCC--GGAAGGTAACCCATAC-TAATACTACTCTCAC
* * * * * *
659067 CCAAGCACGCTTAACTGTGGAGTTCTGATGAGATCTGGTGAATTAGTGCTGGTATGATCACACAC
1 CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTG-ATTAGTACTGGTATGATCGCACCC
* * * * *
659132 ATCATGTCTTGCGCCCATAATTTATTTAAACGCTTCTCCATGT-A-A--TTATTTCATCTAATCT
65 ATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACATTTTCTTTCAGCTAATCC
* * * *
659193 TTAAAATATTTCATTTTGCGATCC-CGAGCTCTTTTCTCACTCGTT-CAACCTCGACACTTTTAA
130 TTAAAATATTTAATTTTGCGATCCTCGA-CTCTTTTC-CTCTCGTTCCACCCT-GAC-TTTTTAA
* *
659256 AAATAC--CA-ATAAAAATTAAGATAAAGTATAAAATTTTGAAAAAATAGGGGTGCAACACGAGA
191 AAAAACAACACA-AAAAATTAAGATAAAGCATAAAATTTTGAAAAAAT--GGGTGCAACACGAGA
* ** * *
659318 AC-ATCC-CTAGTTGTAACCCATACTAGTACTACTCTCGC
253 ACTTTCCGGAAG--GTAACCCATACTAATACTACTCTCAC
* * * * ** ** *
659356 CCAATCACGCTTAATTGCGAAGATCTGATGAGAACCATTGCATTAGTGA-TAATATGATCGAACC
1 CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTG-ATTAGT-ACTGGTATGATCGCACC
* * * * * * *
659420 AATCATATATTGCACCCTTAATTTATTTAAACACTTTTCTC-TATAACCATTTTC-TTCCGACTA
64 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTC-CATGTAA-CATTTTCTTTCAG-CTA
* * * * * * * * *
659483 ATCCATAAAGTATTTAATTTTGAGATTCCT-GGCTATTTTCCAGCTAGTTCCGCCCCGA-TTCTT
126 ATCCTTAAAATATTTAATTTTGCGA-TCCTCGACTCTTTTCC-TCTCGTTCCACCCTGACTT-TT
* * * ** *
659546 T--AAAAACAACACAAAAAATTAAGTTTAAA-AAT-AAATTTTCAAAAAAAAT-GGTGCAATGCA
188 TAAAAAAACAACACAAAAAATTAAG-ATAAAGCATAAAATTTT--GAAAAAATGGGTGCAACACG
* ** * * *
659606 AGAACTTCCCAAAAGGTCACTCATAC-AAGTACCACTCTCAC
250 AGAACTTTCCGGAAGGTAACCCATACTAA-TACTACTCTCAC
* * * * **
659647 CCAAGCACGCTTCACTGCGAAGTTCTGATGGGATCCGAT-ACCTTAGTGCTGGTATGATTACACC
1 CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTGA--TTAGTACTGGTATGATCGCACC
* * * * * *
659711 CATCCTATCATGCACCCTTAATTCATTTAAACGCTTC-CCAAAGTAACCATTTTC-TTCTGACTA
64 CATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCC-ATGTAA-CATTTTCTTTCAG-CTA
* * * **
659774 ATCCTTAAAATATTTAATTTTGCGATCCTTGACACTTTTCCTACTTGTTCCAGCCC--ATCTCCT
126 ATCCTTAAAATATTTAATTTTGCGATCCTCGACTCTTTTCCT-CTCGTTCCA-CCCTGA-CTTTT
* * * * * ** **
659837 T-AAAAAACAACACAAAAAATGAAGATAAAGTATATAGTATCAAAAAAAGTGGGGTGCATTACGA
188 TAAAAAAACAACACAAAAAATTAAGATAAAGCATAAAATTTTGAAAAAA-T-GGGTGCAACACGA
* * *
659901 GGACTTTCCGGAAGGTCACCCAT-CTTAATACTACTCTCGC
251 GAACTTTCCGGAAGGTAACCCATAC-TAATACTACTCTCAC
* * * * * *
659941 CTAAGCACCCTTAACTGCGGAGTTCTAATGAGATCTGGTGATTTAGTACTGGTATGATCGCACGC
1 CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTGA-TTAGTACTGGTATGATCGCACCC
* *
660006 ATCATGTCTTGCACCCTTAA-TTATTTAAACGCTTCTCTATTTAACTATTTTCTTTCAGCTAATC
65 ATCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAAC-ATTTTCTTTCAGCTAATC
* *
660070 CTTAAAATATTTAATTTTGCGATCCTCGACTCTTTTCCTCTCCTTCTACCCTGACTTTTTAAATA
129 CTTAAAATATTTAATTTTGCGATCCTCGACTCTTTTCCTCTCGTTCCACCCTGACTTTTTAAA-A
660135 AAACAACACAAAAAATTAAGATAAAGCATAAAATTTTGAAAAAA
193 AAACAACACAAAAAATTAAGATAAAGCATAAAATTTTGAAAAAA
660179 GAGGGAGGTC
Statistics
Matches: 860, Mismatches: 190, Indels: 122
0.73 0.16 0.10
Matches are distributed among these distances:
285 27 0.03
286 11 0.01
287 59 0.07
288 4 0.00
289 119 0.14
290 11 0.01
291 185 0.22
292 139 0.16
293 97 0.11
294 198 0.23
295 10 0.01
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (290 bp):
CCAAGCACGCTTAACTGCGAAGTTCTGATGAGATCCGGTGATTAGTACTGGTATGATCGCACCCA
TCATGTCTTGCACCCTTAATTTATTTAAACGCTTCTCCATGTAACATTTTCTTTCAGCTAATCCT
TAAAATATTTAATTTTGCGATCCTCGACTCTTTTCCTCTCGTTCCACCCTGACTTTTTAAAAAAA
CAACACAAAAAATTAAGATAAAGCATAAAATTTTGAAAAAATGGGTGCAACACGAGAACTTTCCG
GAAGGTAACCCATACTAATACTACTCTCAC
Found at i:671057 original size:21 final size:22
Alignment explanation
Indices: 671033--671077 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
671023 TGATTTTTGC
671033 ATATGATGTTATCATGAAT-AT
1 ATATGATGTTATCATGAATGAT
*
671054 ATATGATTTTATCATGAATGAT
1 ATATGATGTTATCATGAATGAT
671076 AT
1 AT
671078 TGTAGATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (22 bp):
ATATGATGTTATCATGAATGAT
Found at i:671553 original size:45 final size:44
Alignment explanation
Indices: 671465--671597 Score: 178
Period size: 45 Copynumber: 3.0 Consensus size: 44
671455 GTAAGTATGA
* *
671465 AAAATAGGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGCATATTGGT
* *
671509 AAAATAAGCTTACGAGCTTATGGTAATAATGGTAAGCATGTTGGT
1 AAAATAAGCTTACGAGCTTATGG-AATAATGGCAAGCATATTGGT
* *
671554 AAAATAAGCTTACGAGCTTACGGAAATAAATGGCAA-AATATTGG
1 AAAATAAGCTTACGAGCTTATGG-AAT-AATGGCAAGCATATTGG
671598 ATATGCAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
44 22 0.28
45 49 0.63
46 7 0.09
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (44 bp):
AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGCATATTGGT
Found at i:677224 original size:46 final size:46
Alignment explanation
Indices: 677171--677263 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
677161 AAAAGTTGGT
677171 TCCAATGTTAAAATGAGTTGTTAAGTACTGAGTATTTGGTAGAAAA
1 TCCAATGTTAAAATGAGTTGTTAAGTACTGAGTATTTGGTAGAAAA
677217 TCCAATGTTAAAATGAGTTGTTAAGTACTGAGTATTTGGTAGAAAA
1 TCCAATGTTAAAATGAGTTGTTAAGTACTGAGTATTTGGTAGAAAA
677263 T
1 T
677264 GAGTTCCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (46 bp):
TCCAATGTTAAAATGAGTTGTTAAGTACTGAGTATTTGGTAGAAAA
Found at i:677644 original size:21 final size:22
Alignment explanation
Indices: 677619--677663 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
677609 TGATTTTTGC
677619 ATATGATGTTATCATGAAT-AT
1 ATATGATGTTATCATGAATGAT
* *
677640 ATATGATTTTATCATTAATGAT
1 ATATGATGTTATCATGAATGAT
677662 AT
1 AT
677664 TGCGGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (22 bp):
ATATGATGTTATCATGAATGAT
Done.