Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008785.1 Hibiscus syriacus cultivar Beakdansim tig00111917_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: 1341157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:7630 original size:16 final size:17
Alignment explanation
Indices: 7590--7630 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7580 TCCTTTCTTC
7590 TCTCCTTTTTCTGTTTTT
1 TCTCC-TTTTCTGTTTTT
*
7608 T-TTCTTTTC-GTTTTT
1 TCTCCTTTTCTGTTTTT
7623 TCTCCTTT
1 TCTCCTTT
7631 GCTTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 10 0.50
17 2 0.10
18 1 0.05
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (17 bp):
TCTCCTTTTCTGTTTTT
Found at i:8086 original size:3 final size:3
Alignment explanation
Indices: 8065--8106 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
8055 TAATTAATTT
* **
8065 ATA ATA AAA ATA ACG ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8107 CGGAAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:10173 original size:104 final size:102
Alignment explanation
Indices: 9992--10184 Score: 273
Period size: 104 Copynumber: 1.9 Consensus size: 102
9982 TCTGTTGACG
* *
9992 TTCAATCTAAAGTTTGATCTTGAGTGGATTTTTTTGCTGTTTTTACTCTGGTTTGAGCTTAGAGA
1 TTCAATCTAAAGTTTGATCTTGAGT-GATTTTTTTGCTGTTTTTACTCTGGTTTGAGCTTAAAAA
10057 TCGATTCTTTGATTCAGTTTGTGAATGCCCATTTGAACA
65 TCGATTCTTTGA-TCAGTTTGTGAATGCCCATTTGAACA
*
10096 TTCAATCTAAAGTTTTGATCTTGAGT-ATATTTTTTGCTGTTTTTAGTCTGGTTTGAGCTTAAAA
1 TTCAATCTAAAG-TTTGATCTTGAGTGAT-TTTTTTGCTGTTTTTACTCTGGTTTGAGCTTAAAA
* * *
10160 ATTGGTT-TGTTGATCATTTTGTGAA
64 ATCGATTCT-TTGATCAGTTTGTGAA
10185 CACCCTACTA
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
103 14 0.17
104 53 0.66
105 13 0.16
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.48
Consensus pattern (102 bp):
TTCAATCTAAAGTTTGATCTTGAGTGATTTTTTTGCTGTTTTTACTCTGGTTTGAGCTTAAAAAT
CGATTCTTTGATCAGTTTGTGAATGCCCATTTGAACA
Found at i:13715 original size:56 final size:56
Alignment explanation
Indices: 13629--13743 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
13619 CCACGCTTGA
13629 AACCGAGAGCGGCAAGAACTAGTGCGGCTTCTTCGGGTGTCAATGGGCATCTTCCC
1 AACCGAGAGCGGCAAGAACTAGTGCGGCTTCTTCGGGTGTCAATGGGCATCTTCCC
13685 AACCGAGAGCGGCAAGAACTAGTGCGGCTTCTTCGGGTGTCAATGGGCATCTTCCC
1 AACCGAGAGCGGCAAGAACTAGTGCGGCTTCTTCGGGTGTCAATGGGCATCTTCCC
13741 AAC
1 AAC
13744 TTCCGCAACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.21
Consensus pattern (56 bp):
AACCGAGAGCGGCAAGAACTAGTGCGGCTTCTTCGGGTGTCAATGGGCATCTTCCC
Found at i:13867 original size:26 final size:26
Alignment explanation
Indices: 13828--13890 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
13818 TTCGACTCAA
13828 ACTCGAAAACTTTCAAAGCCAGCTCG
1 ACTCGAAAACTTTCAAAGCCAGCTCG
* *
13854 ACTCGAAAATTTTCAAAGCCAGCTTG
1 ACTCGAAAACTTTCAAAGCCAGCTCG
*
13880 AGTCGAAAACT
1 ACTCGAAAACT
13891 CGCGAGCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (26 bp):
ACTCGAAAACTTTCAAAGCCAGCTCG
Found at i:14049 original size:23 final size:23
Alignment explanation
Indices: 14022--14148 Score: 182
Period size: 23 Copynumber: 5.5 Consensus size: 23
14012 GATTGAAACT
* **
14022 ATTGAAGCTCTATTCCGAGAGCG
1 ATTGAAGCTCGATTCCGAGCTCG
14045 ATTGAAGCTCGATTCCGAGCTCG
1 ATTGAAGCTCGATTCCGAGCTCG
*
14068 ATTGAAGCTCAATTCCGAGCTCG
1 ATTGAAGCTCGATTCCGAGCTCG
* *
14091 ATTGAAGCTCGATTCCAAACTCG
1 ATTGAAGCTCGATTCCGAGCTCG
* *
14114 ATTAAAGCTCGATTCCGAGCTCA
1 ATTGAAGCTCGATTCCGAGCTCG
14137 ATTGAAGCTCGA
1 ATTGAAGCTCGA
14149 CATTGCCCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
ATTGAAGCTCGATTCCGAGCTCG
Found at i:14067 original size:12 final size:12
Alignment explanation
Indices: 14050--14135 Score: 74
Period size: 12 Copynumber: 7.4 Consensus size: 12
14040 GAGCGATTGA
14050 AGCTCGATTCCG
1 AGCTCGATTCCG
14062 AGCTCGATT--G
1 AGCTCGATTCCG
*
14072 AAGCTCAATTCCG
1 -AGCTCGATTCCG
14085 AGCTCGATT--G
1 AGCTCGATTCCG
*
14095 AAGCTCGATTCCA
1 -AGCTCGATTCCG
* **
14108 AACTCGATT-AA
1 AGCTCGATTCCG
14119 AGCTCGATTCCG
1 AGCTCGATTCCG
14131 AGCTC
1 AGCTC
14136 AATTGAAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 2 0.03
11 26 0.44
12 30 0.51
13 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (12 bp):
AGCTCGATTCCG
Found at i:15311 original size:14 final size:14
Alignment explanation
Indices: 15292--15380 Score: 74
Period size: 14 Copynumber: 6.4 Consensus size: 14
15282 CAATTTGAGA
15292 GTTTAGAGTTTAGG
1 GTTTAGAGTTTAGG
*
15306 GTTTAGAATTTAGG
1 GTTTAGAGTTTAGG
*
15320 GTTTA-AGGTTTAAG
1 GTTTAGA-GTTTAGG
* *
15334 GTTTATG-CTTTAAG
1 GTTTA-GAGTTTAGG
* *
15348 GTTTATAGTTGAGG
1 GTTTAGAGTTTAGG
* *
15362 GTTTATAGATTAGG
1 GTTTAGAGTTTAGG
15376 GTTTA
1 GTTTA
15381 TAGATTAAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
13 1 0.02
14 60 0.98
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (14 bp):
GTTTAGAGTTTAGG
Found at i:15329 original size:7 final size:7
Alignment explanation
Indices: 15314--15352 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
15304 GGGTTTAGAA
*
15314 TTTAGGG
1 TTTAAGG
15321 TTTAAGG
1 TTTAAGG
15328 TTTAAGG
1 TTTAAGG
* *
15335 TTTATGC
1 TTTAAGG
15342 TTTAAGG
1 TTTAAGG
15349 TTTA
1 TTTA
15353 TAGTTGAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:15338 original size:21 final size:21
Alignment explanation
Indices: 15289--15366 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
15279 CCTCAATTTG
* *
15289 AGAGTTTAGAGTTTAGGGTTT
1 AGAGTTTAGGGTTTAAGGTTT
*
15310 AGAATTTAGGGTTTAAGGTTT
1 AGAGTTTAGGGTTTAAGGTTT
* *
15331 A-AGGTTTATGCTTTAAGGTTT
1 AGA-GTTTAGGGTTTAAGGTTT
* *
15352 ATAGTTGAGGGTTTA
1 AGAGTTTAGGGTTTA
15367 TAGATTAGGG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
AGAGTTTAGGGTTTAAGGTTT
Found at i:15381 original size:14 final size:14
Alignment explanation
Indices: 15347--15387 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
15337 TATGCTTTAA
15347 GGTTTATAG-TTGAG
1 GGTTTATAGATT-AG
15361 GGTTTATAGATTAG
1 GGTTTATAGATTAG
15375 GGTTTATAGATTA
1 GGTTTATAGATTA
15388 AGATTTAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (14 bp):
GGTTTATAGATTAG
Found at i:18404 original size:20 final size:20
Alignment explanation
Indices: 18381--18435 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
18371 AGATTCGCAA
*
18381 TGCGATTTTGAAAAATGTGT
1 TGCGATATTGAAAAATGTGT
18401 TGCGATAGTT--AAAATGTGT
1 TGCGATA-TTGAAAAATGTGT
*
18420 TGCGATAGTGAAAAAT
1 TGCGATATTGAAAAAT
18436 CCAAAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 11 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (20 bp):
TGCGATATTGAAAAATGTGT
Found at i:18416 original size:19 final size:19
Alignment explanation
Indices: 18392--18433 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
18382 GCGATTTTGA
*
18392 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
18411 AAAATGTGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTG
18430 AAAA
1 AAAA
18434 ATCCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:18778 original size:24 final size:24
Alignment explanation
Indices: 18750--18806 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
18740 GAGTCGGGGT
* *
18750 GGGGTCGTGATCGTAGTCGTGGCC
1 GGGGTCGTGACCGTAGCCGTGGCC
* *
18774 GGGGTCATGACCGTGGCCGTGGCC
1 GGGGTCGTGACCGTAGCCGTGGCC
18798 GGGGTCGTG
1 GGGGTCGTG
18807 GCTTTTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.07, C:0.23, G:0.49, T:0.21
Consensus pattern (24 bp):
GGGGTCGTGACCGTAGCCGTGGCC
Found at i:18808 original size:12 final size:12
Alignment explanation
Indices: 18765--18808 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
18755 CGTGATCGTA
18765 GTCGTGGCCGGG
1 GTCGTGGCCGGG
* * *
18777 GTCATGACCGTG
1 GTCGTGGCCGGG
*
18789 GCCGTGGCCGGG
1 GTCGTGGCCGGG
18801 GTCGTGGC
1 GTCGTGGC
18809 TTTTTTTAGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.27, G:0.50, T:0.18
Consensus pattern (12 bp):
GTCGTGGCCGGG
Found at i:24085 original size:20 final size:20
Alignment explanation
Indices: 24057--24095 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24047 TTTAAAATTT
24057 TATAAATTCATATTCTAATG
1 TATAAATTCATATTCTAATG
* * *
24077 TATACATTCCTATTGTAAT
1 TATAAATTCATATTCTAAT
24096 AGGACTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TATAAATTCATATTCTAATG
Found at i:25887 original size:24 final size:23
Alignment explanation
Indices: 25830--25935 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 23
25820 CGGAGATATT
* *
25830 AGAAATCAAAACAGAATTCAGATC
1 AGAAATCAGAACAGAATT-AAATC
* * *
25854 AGACACCAGAATAGAATCTAAATC
1 AGAAATCAGAACAGAAT-TAAATC
* * *
25878 AGAAATCAGAACATAATTTAGATA
1 AGAAATCAGAACAGAA-TTAAATC
*
25902 AGAAATCAAAACAGAATTCAAATC
1 AGAAATCAGAACAGAATT-AAATC
*
25926 ATAAATCAGA
1 AGAAATCAGA
25936 TAAAACATTC
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 2 0.03
24 58 0.94
25 2 0.03
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (23 bp):
AGAAATCAGAACAGAATTAAATC
Found at i:25918 original size:48 final size:48
Alignment explanation
Indices: 25830--25935 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
25820 CGGAGATATT
* * * * *
25830 AGAAATCAAAACAGAATTCAGATCAGACACCAGAATAGAA-TCTAAATC
1 AGAAATCAGAACAGAATTCAGATAAGAAACCAAAACAGAATTC-AAATC
* * *
25878 AGAAATCAGAACATAATTTAGATAAGAAATCAAAACAGAATTCAAATC
1 AGAAATCAGAACAGAATTCAGATAAGAAACCAAAACAGAATTCAAATC
*
25926 ATAAATCAGA
1 AGAAATCAGA
25936 TAAAACATTC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
48 46 0.96
49 2 0.04
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (48 bp):
AGAAATCAGAACAGAATTCAGATAAGAAACCAAAACAGAATTCAAATC
Found at i:25929 original size:36 final size:35
Alignment explanation
Indices: 25830--25938 Score: 89
Period size: 36 Copynumber: 3.0 Consensus size: 35
25820 CGGAGATATT
* * *
25830 AGAAATCAAAACAGAATTCAGATCAGACACCAGA-A
1 AGAAATCAAAACAGAATTCAAATCATA-ATCAGATA
* * *
25865 TAG-AATCTAAATCAGAAATCAGAA-CATAATTTAGATA
1 -AGAAATC-AAAACAGAATTCA-AATCATAA-TCAGATA
25902 AGAAATCAAAACAGAATTCAAATCATAAATCAGATA
1 AGAAATCAAAACAGAATTCAAATCAT-AATCAGATA
25938 A
1 A
25939 AACATTCATG
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
35 7 0.12
36 42 0.74
37 8 0.14
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (35 bp):
AGAAATCAAAACAGAATTCAAATCATAATCAGATA
Found at i:28412 original size:18 final size:18
Alignment explanation
Indices: 28389--28423 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28379 CAAAGTCAAC
*
28389 GGTCAACTGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
28407 GGTCAACGGGTTGGGTC
1 GGTCAACGGGTCGGGTC
28424 AAACTGCCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.20, G:0.46, T:0.23
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:30498 original size:24 final size:24
Alignment explanation
Indices: 30467--30558 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
30457 TGGAGATATT
30467 AGAAATCAAAACAGAATTCAGATC
1 AGAAATCAAAACAGAATTCAGATC
** *
30491 A-AACATCATCACAGAATCCAGATC
1 AGAA-ATCAAAACAGAATTCAGATC
* * *
30515 AGAAATTAGAACAAAATTCAGATC
1 AGAAATCAAAACAGAATTCAGATC
*
30539 AGAAATCAAAACATAATTCA
1 AGAAATCAAAACAGAATTCA
30559 AATCGTAAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
23 2 0.04
24 51 0.93
25 2 0.04
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.18
Consensus pattern (24 bp):
AGAAATCAAAACAGAATTCAGATC
Found at i:30568 original size:24 final size:24
Alignment explanation
Indices: 30467--30570 Score: 77
Period size: 24 Copynumber: 4.3 Consensus size: 24
30457 TGGAGATATT
* *
30467 AGAAATCAAAACAGAATTCAGATC
1 AGAAATCAAAACAAAATTCAAATC
** * * *
30491 A-AACATCATCACAGAATCCAGATC
1 AGAA-ATCAAAACAAAATTCAAATC
* * *
30515 AGAAATTAGAACAAAATTCAGATC
1 AGAAATCAAAACAAAATTCAAATC
*
30539 AGAAATCAAAACATAATTCAAATC
1 AGAAATCAAAACAAAATTCAAATC
30563 -GTAAATCA
1 AG-AAATCA
30571 GATAAAACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
23 3 0.05
24 60 0.92
25 2 0.03
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.19
Consensus pattern (24 bp):
AGAAATCAAAACAAAATTCAAATC
Found at i:33029 original size:21 final size:22
Alignment explanation
Indices: 33005--33057 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
32995 GCCTGTAAAA
*
33005 AATATAA-AATGT-TTAATTAAT
1 AATATAATAATATATTAA-TAAT
33026 AATAATAATAATATAATTAATAAT
1 AAT-ATAATAATAT-ATTAATAAT
33050 AATATAAT
1 AATATAAT
33058 TTTTAACCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.11
22 4 0.15
23 9 0.33
24 7 0.26
25 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATAATAATATATTAATAAT
Found at i:33063 original size:18 final size:15
Alignment explanation
Indices: 33024--33058 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33014 TGTTTAATTA
33024 ATAA-TAATAATAAT
1 ATAATTAATAATAAT
33038 ATAATTAATAATAAT
1 ATAATTAATAATAAT
33053 ATAATT
1 ATAATT
33059 TTTAACCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATTAATAATAAT
Found at i:33538 original size:128 final size:133
Alignment explanation
Indices: 33246--33560 Score: 326
Period size: 128 Copynumber: 2.4 Consensus size: 133
33236 GTGACAAAAC
* * * *
33246 TCCTAAATAATGAGGAGATCTAGTTAAGTGATGATACTG-CTCATACGTGATGAAGTGTTCTTGG
1 TCCTACATAATGAGGAGATCTAGTTAGGTGATGACAC-GACTCATACGTGATGAAGAGTTCTTGG
* * * * *
33310 CCATTTTAGGAATGGTGATAACTCTGTTACTATGCGATGAGGGCAACTGGTTATCAAGGATTGAC
65 CCATTCTA-GAATGGTGATAACTCGGTTACTACGCGATGAGGACAACTGGCTATCAAGGATTGAC
33375 ACGAT
129 ACGAT
* ** *
33380 TCCTACATAATGAGGAAATCTAGTCGGGTGATGACACGACTCATACGTGATTAAGAGTT-TTGGC
1 TCCTACATAATGAGGAGATCTAGTTAGGTGATGACACGACTCATACGTGATGAAGAGTTCTTGGC
* * * * * *
33444 CA-TCTA-AA-GGTGATAACAT-GGTTCCTACGTGATGAGGACGATTGGCTATC-TGGGTTGACA
66 CATTCTAGAATGGTGATAAC-TCGGTTACTACGCGATGAGGACAACTGGCTATCAAGGATTGACA
33504 C-AT
130 CGAT
*
33507 ATCCTACATAATGAGGAGATC-AGGTTAGGTGATGACACGATTTC-TACGTGATGA
1 -TCCTACATAATGAGGAGATCTA-GTTAGGTGATGACACGA-CTCATACGTGATGA
33561 GGAAATTTGG
Statistics
Matches: 152, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
127 3 0.02
128 52 0.34
129 34 0.22
130 3 0.02
132 3 0.02
133 8 0.05
134 49 0.32
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (133 bp):
TCCTACATAATGAGGAGATCTAGTTAGGTGATGACACGACTCATACGTGATGAAGAGTTCTTGGC
CATTCTAGAATGGTGATAACTCGGTTACTACGCGATGAGGACAACTGGCTATCAAGGATTGACAC
GAT
Found at i:33561 original size:40 final size:39
Alignment explanation
Indices: 33499--33602 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 39
33489 CTATCTGGGT
* * * *
33499 TGACACA-TATCCTACATAATGAGGAGATCAGGTTAGGTGA
1 TGACACAGT-TCCTACGTGATGAGGAAATCAGGTCAGG-GA
* **
33539 TGACAC-GATTTCTACGTGATGAGGAAATTTGGTCAGGGA
1 TGACACAG-TTCCTACGTGATGAGGAAATCAGGTCAGGGA
33578 TGACACAGTTCCTACGTGATGAGGA
1 TGACACAGTTCCTACGTGATGAGGA
33603 CGGCATGCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 24 0.45
40 28 0.53
41 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (39 bp):
TGACACAGTTCCTACGTGATGAGGAAATCAGGTCAGGGA
Found at i:34688 original size:32 final size:32
Alignment explanation
Indices: 34647--34734 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
34637 TTCGCATCAG
* *
34647 GATGTTGAATCCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
* *
34679 GATGTTGAATTTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
* * *
34711 GATATTGAGTCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAGATGCCC
34735 TCATTGTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTC
Found at i:35851 original size:21 final size:21
Alignment explanation
Indices: 35827--35884 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
35817 TCTTGATTCA
* *
35827 ATTTCTTTTCTTTTTTTTTTC
1 ATTTTTTTTCTTTTTTTTGTC
*
35848 ATTTTTTTTTCATTTTTTTGTC
1 A-TTTTTTTTCTTTTTTTTGTC
35870 -TTTTTTTGTCTTTTT
1 ATTTTTTT-TCTTTTT
35885 CTCTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 17 0.55
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.81
Consensus pattern (21 bp):
ATTTTTTTTCTTTTTTTTGTC
Found at i:35852 original size:11 final size:11
Alignment explanation
Indices: 35832--35876 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
35822 ATTCAATTTC
*
35832 TTTTCTTTTTT
1 TTTTCATTTTT
35843 TTTTCATTTTT
1 TTTTCATTTTT
35854 TTTTCATTTTT
1 TTTTCATTTTT
*
35865 TTGTC-TTTTT
1 TTTTCATTTTT
35875 TT
1 TT
35877 GTCTTTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:35877 original size:10 final size:11
Alignment explanation
Indices: 35838--35884 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
35828 TTTCTTTTCT
*
35838 TTTTTTTTTCA
1 TTTTTTTGTCA
*
35849 TTTTTTTTTCA
1 TTTTTTTGTCA
35860 TTTTTTTGTC-
1 TTTTTTTGTCA
35870 TTTTTTTGTC-
1 TTTTTTTGTCA
35880 TTTTT
1 TTTTT
35885 CTCTTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
10 15 0.43
11 20 0.57
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTCA
Found at i:35884 original size:11 final size:11
Alignment explanation
Indices: 35835--35884 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 11
35825 CAATTTCTTT
*
35835 TCTTTTTTTTT
1 TCTTTTTTTTG
35846 TCATTTTTTTT-
1 TC-TTTTTTTTG
*
35857 TCATTTTTTTG
1 TCTTTTTTTTG
35868 TC-TTTTTTTG
1 TCTTTTTTTTG
35878 TCTTTTT
1 TCTTTTT
35885 CTCTTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 17 0.49
11 10 0.29
12 8 0.23
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTTG
Found at i:38481 original size:2 final size:2
Alignment explanation
Indices: 38474--38500 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38464 ACAACAAGGG
38474 AT 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 AT A
38501 ATAATAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50645 original size:3 final size:3
Alignment explanation
Indices: 50637--50697 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
50627 TATTTTTAAA
* * *
50637 ATT ATT ATT A-T ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT AAAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
50685 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
50698 CAAGCCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:51975 original size:11 final size:11
Alignment explanation
Indices: 51959--51983 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51949 AGTATTTTAC
51959 TTTAATTATTA
1 TTTAATTATTA
51970 TTTAATTATTA
1 TTTAATTATTA
51981 TTT
1 TTT
51984 TAGTAATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:55266 original size:20 final size:20
Alignment explanation
Indices: 55243--55281 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55233 TTTTCATTAC
*
55243 ATTTGCATTTTTATGTTTGT
1 ATTTGCATTTTTATATTTGT
55263 ATTTGCATTTTTATATTTG
1 ATTTGCATTTTTATATTTG
55282 CATCTTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (20 bp):
ATTTGCATTTTTATATTTGT
Found at i:59561 original size:398 final size:398
Alignment explanation
Indices: 58810--59605 Score: 1432
Period size: 398 Copynumber: 2.0 Consensus size: 398
58800 AGAGAAAAGA
* * *
58810 GACAAGACATTGATACCCCTGGGGAACATGTCTCTTAAGATCGAAAGATGATAAGTCATTGTGTC
1 GACAAGACATTGATACCCCTGGGGAACATGTCTCTTAAGACCGAAAGATGACAAGTCATTGTATC
58875 AACCTAGAATGGATTACCAAGCGATTTATACCACTCTGTCCAACTAGATCCCTCCATATCTAAAA
66 AACCTAGAATGGATTACCAAGCGATTTATACCACTCTGTCCAACTAGATCCCTCCATATCTAAAA
*
58940 AATGGGCACCTCATTCAGAAGAGGAACATATCTCAGACATTTTCTTCAGAATGATTGATTACTTC
131 AATGGGCACCTCATTCAGAAGAGGAACATATCTCAGACATTTTCGTCAGAATGATTGATTACTTC
*
59005 TTAGGTTTATGACAAAATGAAGAGAATCCTTCAAGTTACTTAACAACATTACTGTTTGTTGGTAC
196 TTAAGTTTATGACAAAATGAAGAGAATCCTTCAAGTTACTTAACAACATTACTGTTTGTTGGTAC
*
59070 CCAAATGAGAACATTCAAGATTAAGAGATTTGGGTACAAATAGAACCACGAATACCCACAATAGA
261 CCAAATGAGAACATTCAAGATTAAGAGATTTGGGCACAAATAGAACCACGAATACCCACAATAGA
*
59135 GCATTACCAAAATTAGATTTCGTGGGGATCATGAGATTCAAATCAATAAACATTGAGAGTAAGCC
326 GCATTACCAAAATTAGATTTCATGGGGATCATGAGATTCAAATCAATAAACATTGAGAGTAAGCC
59200 TTACAGTT
391 TTACAGTT
59208 GACAAGACATTGATACCCCTGGGGAACATGTCTCTTAAGACCGAAAGATGACAAGTCATTGTATC
1 GACAAGACATTGATACCCCTGGGGAACATGTCTCTTAAGACCGAAAGATGACAAGTCATTGTATC
* *
59273 GACCTAGAATGGATTACCAAGCGATTTATACCACTCTGTCCGACTAGATCCCTCCATATCTAAAA
66 AACCTAGAATGGATTACCAAGCGATTTATACCACTCTGTCCAACTAGATCCCTCCATATCTAAAA
*
59338 AATGGGCACCTCATTCATAAGAGGAACATATCTCAGACATTTTCGTCAGAATGATTGATTACTTC
131 AATGGGCACCTCATTCAGAAGAGGAACATATCTCAGACATTTTCGTCAGAATGATTGATTACTTC
*
59403 TTAAGTTTATGACAACATGAAGAGAATCCTTCAAGTTACTTAACAACATTACTGTTTGTTGGTAC
196 TTAAGTTTATGACAAAATGAAGAGAATCCTTCAAGTTACTTAACAACATTACTGTTTGTTGGTAC
* * *
59468 CCAAATGAGAACATTCAGGATTAAGAGATTTGGGCACAAATAGAACCACGAATATCCACAATGGA
261 CCAAATGAGAACATTCAAGATTAAGAGATTTGGGCACAAATAGAACCACGAATACCCACAATAGA
* *
59533 GCATTACCAACATTGGACTTT-ATGGGGATCATGAGATTCAAATCAATAAACATTGAGAGTAAGC
326 GCATTACCAAAATTAGA-TTTCATGGGGATCATGAGATTCAAATCAATAAACATTGAGAGTAAGC
59597 CTTACAGTT
390 CTTACAGTT
59606 TAGAATGTTG
Statistics
Matches: 381, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
398 378 0.99
399 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (398 bp):
GACAAGACATTGATACCCCTGGGGAACATGTCTCTTAAGACCGAAAGATGACAAGTCATTGTATC
AACCTAGAATGGATTACCAAGCGATTTATACCACTCTGTCCAACTAGATCCCTCCATATCTAAAA
AATGGGCACCTCATTCAGAAGAGGAACATATCTCAGACATTTTCGTCAGAATGATTGATTACTTC
TTAAGTTTATGACAAAATGAAGAGAATCCTTCAAGTTACTTAACAACATTACTGTTTGTTGGTAC
CCAAATGAGAACATTCAAGATTAAGAGATTTGGGCACAAATAGAACCACGAATACCCACAATAGA
GCATTACCAAAATTAGATTTCATGGGGATCATGAGATTCAAATCAATAAACATTGAGAGTAAGCC
TTACAGTT
Found at i:59788 original size:39 final size:40
Alignment explanation
Indices: 59730--59813 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
59720 ATCCATGTGA
* *
59730 GGCATTTTGAAGGCCCACATCAATATGAA-AAAATGTTGG
1 GGCATTTTGAAGGCCCACATCAATAAGAAGAAAATGCTGG
* *
59769 GGCATTTTGAAGGCTCACATCAATAAGAAGCAAATGCTGG
1 GGCATTTTGAAGGCCCACATCAATAAGAAGAAAATGCTGG
59809 GGCAT
1 GGCAT
59814 GCTAAAAGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 27 0.68
40 13 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (40 bp):
GGCATTTTGAAGGCCCACATCAATAAGAAGAAAATGCTGG
Found at i:60845 original size:54 final size:54
Alignment explanation
Indices: 60763--60929 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
60753 GCTTCACTAG
*
60763 CGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
1 CGAACATCTGGGAAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
60817 CGAACATCTGGGAAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
1 CGAACATCTGGGAAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
* * * * **
60871 CGAACATCTGAGAAGAAACCACATGAGATAATGAATGTGTTGTCAAATGTTTTA
1 CGAACATCTGGGAAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
*
60925 TGAAC
1 CGAAC
60930 CAGTTATTCT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (54 bp):
CGAACATCTGGGAAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
Found at i:61342 original size:22 final size:22
Alignment explanation
Indices: 61285--61343 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
61275 CTACATCTAC
* *
61285 ATTCTTCAAAGATAATATATTT
1 ATTCTTCAAAGATGATAGATTT
61307 ATTCTTCAAAGATGATAGATTCT
1 ATTCTTCAAAGATGATAGATT-T
*
61330 CTT-TTCAAAGATGA
1 ATTCTTCAAAGATGA
61344 AATCTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (22 bp):
ATTCTTCAAAGATGATAGATTT
Found at i:62469 original size:22 final size:21
Alignment explanation
Indices: 62441--62498 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
62431 GGGTCATCTG
62441 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* *
62463 TAAGACCT-CAG-GC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
62482 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
62499 GATGTGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 2 0.07
19 9 0.31
20 5 0.17
21 5 0.17
22 8 0.28
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:62549 original size:115 final size:116
Alignment explanation
Indices: 62020--62720 Score: 1133
Period size: 116 Copynumber: 6.1 Consensus size: 116
62010 CCCACATCTG
* * *
62020 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAG-TTTTTGATATTTAAATCCTCCA
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
62084 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCAT-AGGGCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACC-TCAGGGCCATCCA
* * *
62135 TAAGACCTACAGTGCAGTATG-TTTCAAAAACCCTTCGGGAGCTTTTTTGATATTTAAAACCTCC
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATATTTAAAGCCTCC
*
62199 GGGTCATCTGTAAGACCTACAATGCAAGATGATAAGACCTCAGGGCCATCCA
65 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
*
62251 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
*
62316 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
* * * *
62367 TAAGACCTAAAGTGCAGAATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTTCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
62432 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCA-GGCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
* *
62482 TAAGACCTACAGTGCAGGATGTGTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTCCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
62547 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
* * * *
62598 TAAGACCTATAGTGCAGGATGTGTTCAAAAA-CCTTCGGGAGCTTTTTGATATTTAAAACCTTCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
* * * * *
62662 GGTCATTTGTAAGACCTATAGTGCAATATGATAAGACCTCAGGGTCATTCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
62713 TAAGACCT
1 TAAGACCT
62721 CTGGGCATAG
Statistics
Matches: 548, Mismatches: 33, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
114 18 0.03
115 214 0.39
116 296 0.54
117 20 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (116 bp):
TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
Found at i:62585 original size:231 final size:230
Alignment explanation
Indices: 62020--62720 Score: 1154
Period size: 231 Copynumber: 3.0 Consensus size: 230
62010 CCCACATCTG
* * *
62020 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGTTTTTGATATTTAAATCCTCCAG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTGATATTTAAAGCCTCCGG
* *
62085 GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCATAGGGCCATCCATAAGACCTACAGTGC
66 GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTAAAGTGC
* *
62150 AGTATG-TTTCAAAAACCCTTCGGGAGCTTTTTTGATATTTAAAACCTCCGGGTCATCTGTAAGA
131 AGAATGTTTTCAAAAA-CCTTCGGGAGC-TTTTTGATATTTAAAACCTTCGGGTCATCTGTAAGA
*
62214 CCTACAATGCAAGATGATAAGACCTCAGGGCCATCCA
194 CCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
*
62251 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAG-TTTTTGATATTTAAAGCCTCCG
62316 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTAAAGTG
65 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTAAAGTG
* *
62381 CAGAATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTTCGGGTCATCTGTAAGA
130 CAGAATGTTTTCAAAAA-CCTTCGGGAGCTTTTTGATATTTAAAACCTTCGGGTCATCTGTAAGA
62446 CCTACAGTGCAAGATGATAAGACCTCA-GGCCATCCA
194 CCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
*
62482 TAAGACCTACAGTGCAGGATGTGTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTCCG
1 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAG-TTTTTGATATTTAAAGCCTCCG
* *
62547 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTATAGTG
65 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTAAAGTG
* * *
62612 CAGGATGTGTTCAAAAACCTTCGGGAGCTTTTTGATATTTAAAACCTTCGGGTCATTTGTAAGAC
130 CAGAATGTTTTCAAAAACCTTCGGGAGCTTTTTGATATTTAAAACCTTCGGGTCATCTGTAAGAC
* * * *
62677 CTATAGTGCAATATGATAAGACCTCAGGGTCATTCA
195 CTACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
62713 TAAGACCT
1 TAAGACCT
62721 CTGGGCATAG
Statistics
Matches: 441, Mismatches: 26, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
230 69 0.16
231 204 0.46
232 149 0.34
233 19 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (230 bp):
TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTGATATTTAAAGCCTCCGG
GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTAAAGTGC
AGAATGTTTTCAAAAACCTTCGGGAGCTTTTTGATATTTAAAACCTTCGGGTCATCTGTAAGACC
TACAGTGCAAGATGATAAGACCTCAGGGCCATCCA
Found at i:62876 original size:12 final size:12
Alignment explanation
Indices: 62861--62927 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
62851 TTTTTTCATT
*
62861 TTATTTTTAAAA
1 TTATTATTAAAA
62873 TTATTATT---A
1 TTATTATTAAAA
62882 TTATTATTATAAA
1 TTATTATTA-AAA
*
62895 -TATTATTAATA
1 TTATTATTAAAA
62906 TTATTATTAAATA
1 TTATTATTAAA-A
62919 TTATTATTA
1 TTATTATTA
62928 TTAGAAAGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.20
11 2 0.04
12 24 0.52
13 11 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTATTAAAA
Found at i:62880 original size:3 final size:3
Alignment explanation
Indices: 62872--62930 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
62862 TATTTTTAAA
* * * *
62872 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT AAT ATT ATT ATT AAAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
62918 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
62931 GAAAGCCCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:64156 original size:14 final size:11
Alignment explanation
Indices: 64123--64149 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
64113 TATTTTGGTC
64123 ATTTTATTGCA
1 ATTTTATTGCA
64134 ATTTTATTGCA
1 ATTTTATTGCA
64145 ATTTT
1 ATTTT
64150 TTTATTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (11 bp):
ATTTTATTGCA
Found at i:66817 original size:17 final size:17
Alignment explanation
Indices: 66797--66829 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
66787 GTGTTTATTG
66797 TTCGAAAGGGAGTTTTA
1 TTCGAAAGGGAGTTTTA
66814 TTCGAAAGGGAGTTTT
1 TTCGAAAGGGAGTTTT
66830 TCTCAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.36
Consensus pattern (17 bp):
TTCGAAAGGGAGTTTTA
Found at i:66838 original size:17 final size:17
Alignment explanation
Indices: 66801--66838 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
66791 TTATTGTTCG
*
66801 AAAGGGAGTTTTATTCG
1 AAAGGGAGTTTTATTCA
66818 AAAGGGAGTTTT-TCTCA
1 AAAGGGAGTTTTAT-TCA
66835 AAAG
1 AAAG
66839 AAAATTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (17 bp):
AAAGGGAGTTTTATTCA
Found at i:72125 original size:21 final size:21
Alignment explanation
Indices: 72083--72125 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
72073 TTTCTAGGGC
*
72083 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
72104 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
72125 A
1 A
72126 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:72178 original size:20 final size:20
Alignment explanation
Indices: 72153--72190 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72143 GAACGCTAGA
*
72153 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
72173 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
72191 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:72997 original size:103 final size:103
Alignment explanation
Indices: 72669--72989 Score: 642
Period size: 103 Copynumber: 3.1 Consensus size: 103
72659 GTAGAGGGTC
72669 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
72734 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
72772 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
72837 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
72875 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
72940 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
72978 TATGTGGTCCTT
1 TATGTGGTCCTT
72990 ATGGACATTA
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 218 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:73039 original size:23 final size:23
Alignment explanation
Indices: 73006--73068 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
72996 ATTATTATAT
73006 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
73029 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
73052 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
73069 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:79144 original size:21 final size:21
Alignment explanation
Indices: 79102--79144 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
79092 TTTCTGGGCT
*
79102 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
79123 AGGGGAATTGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
79144 A
1 A
79145 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:79196 original size:19 final size:19
Alignment explanation
Indices: 79172--79208 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
79162 GAACGCTAGA
79172 GGGGAATCGATACCCCCAG
1 GGGGAATCGATACCCCCAG
*
79191 GGGGAATCGATTCCCCCA
1 GGGGAATCGATACCCCCA
79209 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (19 bp):
GGGGAATCGATACCCCCAG
Found at i:80026 original size:103 final size:103
Alignment explanation
Indices: 79690--80010 Score: 624
Period size: 103 Copynumber: 3.1 Consensus size: 103
79680 GTAGAGGGTC
*
79690 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
79755 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
79793 TATGTGGTCCTTCGGGACAAATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
79858 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
79896 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
79961 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
79999 TATGTGGTCCTT
1 TATGTGGTCCTT
80011 ATGGACATTA
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 215 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:80060 original size:23 final size:23
Alignment explanation
Indices: 80027--80089 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
80017 ATTATTATAT
80027 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
80050 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
80073 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
80090 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:80920 original size:34 final size:33
Alignment explanation
Indices: 80854--80954 Score: 96
Period size: 33 Copynumber: 2.9 Consensus size: 33
80844 TTTTAGGGAC
*
80854 CAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCTAGA
1 CAAAGATGAAATTCCCA-AT---AAGTTGGCCACC-A-A
*
80893 -AAATATGAAATTCCCAATAAGTTGGCCACCAA
1 CAAAGATGAAATTCCCAATAAGTTGGCCACCAA
* * *
80925 CCAAGATGAATTTTCCAATAAGTTGGCCAC
1 CAAAGATGAAATTCCCAATAAGTTGGCCAC
80955 TAACCAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
32 1 0.02
33 26 0.47
34 12 0.22
37 1 0.02
38 15 0.27
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (33 bp):
CAAAGATGAAATTCCCAATAAGTTGGCCACCAA
Found at i:80979 original size:33 final size:33
Alignment explanation
Indices: 80897--80971 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
80887 CCTAGAAAAT
* *
80897 ATGAAATTCCCAATAAGTTGGCCACCAACCAAG
1 ATGAATTTTCCAATAAGTTGGCCACCAACCAAG
*
80930 ATGAATTTTCCAATAAGTTGGCCACTAACCAAG
1 ATGAATTTTCCAATAAGTTGGCCACCAACCAAG
*
80963 TTGAATTTT
1 ATGAATTTT
80972 TCGATAAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGAATTTTCCAATAAGTTGGCCACCAACCAAG
Found at i:97843 original size:35 final size:36
Alignment explanation
Indices: 97804--97946 Score: 92
Period size: 35 Copynumber: 4.2 Consensus size: 36
97794 TAGAATTTGA
97804 ATTTAT-TTATTATAATTGTTTATTTTATTAAAAGT
1 ATTTATATTATTATAATTGTTTATTTTATTAAAAGT
* * *
97839 ATTTATCTTA--A-AA-T-TTTA-TTTA-TATATGT
1 ATTTATATTATTATAATTGTTTATTTTATTAAAAGT
* * * * * *
97868 -TTTATATTTTTTTTATTG-TTATTTATTTTAGAATTTGA
1 ATTTATATTATTATAATTGTTTATTT-TATTA-AA--AGT
97906 ATTTAT-TTATTATAATTGTTTATTTTATTAAAAGT
1 ATTTATATTATTATAATTGTTTATTTTATTAAAAGT
97941 ATTTAT
1 ATTTAT
97947 CTTAAAATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 28
0.65 0.12 0.23
Matches are distributed among these distances:
28 7 0.09
29 5 0.06
30 4 0.05
31 5 0.06
32 5 0.06
33 4 0.05
34 2 0.03
35 15 0.19
36 4 0.05
37 2 0.03
38 15 0.19
39 11 0.14
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (36 bp):
ATTTATATTATTATAATTGTTTATTTTATTAAAAGT
Found at i:97854 original size:53 final size:53
Alignment explanation
Indices: 97785--97956 Score: 196
Period size: 53 Copynumber: 3.3 Consensus size: 53
97775 GGTGGATACA
* *
97785 TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAG
1 TATTTATCTTAAAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAG
* * * *
97838 TATTTATCTTAAAATTT-TATTTATATATGTTTTATAT-TTT-TTTTATT----G
1 TATTTATCTTAAAATTTGAATTTATTTAT-TATAAT-TGTTTATTTTATTAAAAG
* *
97886 TTATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAG
1 -TATTTATCTTAAAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAG
97940 TATTTATCTTAAAATTT
1 TATTTATCTTAAAATTT
97957 TATTTATATA
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
48 2 0.02
49 22 0.23
50 16 0.17
52 16 0.17
53 37 0.39
54 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (53 bp):
TATTTATCTTAAAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAG
Found at i:97876 original size:48 final size:48
Alignment explanation
Indices: 97824--97979 Score: 170
Period size: 48 Copynumber: 3.1 Consensus size: 48
97814 TATAATTGTT
97824 TATTTTATTAAAAGTATTTATCTTAAAATTTTATTTATATATGTTTTA
1 TATTTTATTAAAAGTATTTATCTTAAAATTTTATTTATATATGTTTTA
* * ** * * * *
97872 TATTTTTTTTATTGTTATTTATTTTAGAATTTGAATTTATTTATTATAATTGTT-
1 TATTTTATTAAAAG-TATTTATCTTAAAATTT-TATTTA--TA-TAT-GTT-TTA
97926 TATTTTATTAAAAGTATTTATCTTAAAATTTTATTTATATATGTTTTA
1 TATTTTATTAAAAGTATTTATCTTAAAATTTTATTTATATATGTTTTA
97974 TATTTT
1 TATTTT
97980 TTTTAAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
47 2 0.02
48 18 0.21
49 18 0.21
50 7 0.08
52 7 0.08
53 18 0.21
54 12 0.14
55 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (48 bp):
TATTTTATTAAAAGTATTTATCTTAAAATTTTATTTATATATGTTTTA
Found at i:97960 original size:102 final size:102
Alignment explanation
Indices: 97785--97984 Score: 400
Period size: 102 Copynumber: 2.0 Consensus size: 102
97775 GGTGGATACA
97785 TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAGTATTTATCTTAA
1 TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAGTATTTATCTTAA
97850 AATTTTATTTATATATGTTTTATATTTTTTTTATTGT
66 AATTTTATTTATATATGTTTTATATTTTTTTTATTGT
97887 TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAGTATTTATCTTAA
1 TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAGTATTTATCTTAA
97952 AATTTTATTTATATATGTTTTATATTTTTTTTA
66 AATTTTATTTATATATGTTTTATATTTTTTTTA
97985 AAAAATATTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (102 bp):
TATTTATTTTAGAATTTGAATTTATTTATTATAATTGTTTATTTTATTAAAAGTATTTATCTTAA
AATTTTATTTATATATGTTTTATATTTTTTTTATTGT
Found at i:99227 original size:2 final size:2
Alignment explanation
Indices: 99215--99254 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
99205 AGTTCTACTA
*
99215 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99255 TCATGTCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101012 original size:38 final size:37
Alignment explanation
Indices: 100999--101209 Score: 153
Period size: 38 Copynumber: 5.6 Consensus size: 37
100989 ATTTTAAAAA
** *
100999 ATATATATAATATATGATTTTTAAAATCATTTTGAAAAC
1 ATATATATAATATA-G-TTTTTAAAAAAATTTTTAAAAC
* * *
101038 TTATATAT-ATATAGTTTTTGAAAACATTTTTGAAAAC
1 ATATATATAATATAGTTTTTAAAAAAATTTTT-AAAAC
* **
101075 ATATATAT--TATAGTTTTGAAAACATTTTTTTGAAAAC
1 ATATATATAATATAGTTTTTAAAA-AAATTTTT-AAAAC
* * * * *
101112 ATATATATTATATAGTTTTTGAAGATATTTTTGAAACC
1 ATATATATAATATAGTTTTTAAAAAAATTTTT-AAAAC
* ** *
101150 ATATATATTATATAGTTTTTAAAACCATTTTGAAAAC
1 ATATATATAATATAGTTTTTAAAAAAATTTTTAAAAC
*
101187 TTATATAATAA-ATAG-TTTTAAAA
1 ATATAT-ATAATATAGTTTTTAAAA
101210 TCATTTTGAA
Statistics
Matches: 145, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
36 34 0.23
37 46 0.32
38 47 0.32
39 18 0.12
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (37 bp):
ATATATATAATATAGTTTTTAAAAAAATTTTTAAAAC
Found at i:101012 original size:74 final size:75
Alignment explanation
Indices: 100928--101209 Score: 210
Period size: 75 Copynumber: 3.8 Consensus size: 75
100918 TGAAACTACG
*
100928 TATATAATATAT-AGTTTTT-AAT-AGTTTTTAAAAA-TATATAATATATAGTTTTAAAAAAAAT
1 TATATAATATATGA-TTTTTAAATCA-TTTTGAAAAATTATAT-ATATATAGTTTTAAAAAAAAT
100989 ATTTT-AAAAAATA
63 -TTTTGAAAAAATA
* ** *
101002 TATATAATATATGATTTTTAAAATCATTTTGAAAACTTATATATATATAGTTTTTGAAAACATTT
1 TATATAATATATGATTTTT-AAATCATTTTGAAAAATTATATATATATAGTTTTAAAAAAAATTT
*
101067 TTGAAAACATA
65 TTGAAAAAATA
* * ** * *
101078 TATAT--TATA-G-TTTTGAAAACATTTTTTTGAAAACA-TATATATTATATAGTTTTTGAAGAT
1 TATATAATATATGATTTTTAAATCA---TTTTGAAAA-ATTATATA-TATATAGTTTTAAAAAAA
**
101138 ATTTTTGAAACCATA
61 ATTTTTGAAAAAATA
* * * *
101153 TATATTATATA-G-TTTTTAAAACCATTTTGAAAACTTATATAATAAATAGTTTTAAAA
1 TATATAATATATGATTTTT-AAATCATTTTGAAAAATTATAT-ATATATAGTTTTAAAA
101210 TCATTTTGAA
Statistics
Matches: 174, Mismatches: 18, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
71 5 0.03
72 4 0.02
73 1 0.01
74 36 0.21
75 66 0.38
76 42 0.24
77 15 0.09
78 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (75 bp):
TATATAATATATGATTTTTAAATCATTTTGAAAAATTATATATATATAGTTTTAAAAAAAATTTT
TGAAAAAATA
Found at i:101025 original size:37 final size:36
Alignment explanation
Indices: 100928--101234 Score: 136
Period size: 38 Copynumber: 8.3 Consensus size: 36
100918 TGAAACTACG
*
100928 TATATAATATATAGTTTTT--AATAGTTTT-TAAAA-A
1 TATATAATATAT-GTTTTTAAAATA-TTTTAAAAAATA
*
100962 TATATAATATATAGTTTTAAAAAAAATATTTTAAAAAATA
1 TATATAATATAT-GTTTT---TAAAATATTTTAAAAAATA
* *
101002 TATATAATATATGATTTTTAAAATCATTTTGAAAACT-
1 TATATAATATATG-TTTTTAAAAT-ATTTTAAAAAATA
* ** *
101039 TATAT-ATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATAATATAT-GTTTTT-AAAATATTTTAAAAAATA
* * * *
101076 TATATATTATA-GTTTTGAAAACATTTTTTTGAAAACATA
1 TATATAATATATGTTTT-TAAA-A-TATTTT-AAAAAATA
* * **
101115 TATATTATATA-GTTTTTGAAGATATTTTTGAAACCATA
1 TATATAATATATGTTTTT-AAAATA-TTTT-AAAAAATA
* * * *
101153 TATATTATATA-GTTTTTAAAACCATTTTGAAAACT-
1 TATATAATATATGTTTTTAAAA-TATTTTAAAAAATA
* * *
101188 TATATAATAAATAG-TTTTAAAATCATTTT--GAAATT
1 TATATAATATAT-GTTTTTAAAAT-ATTTTAAAAAATA
101223 TATATAATATAT
1 TATATAATATAT
101235 AGTTGAAATT
Statistics
Matches: 213, Mismatches: 36, Indels: 47
0.72 0.12 0.16
Matches are distributed among these distances:
34 21 0.10
35 20 0.09
36 43 0.20
37 30 0.14
38 53 0.25
39 29 0.14
40 17 0.08
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATAATATATGTTTTTAAAATATTTTAAAAAATA
Found at i:101069 original size:12 final size:12
Alignment explanation
Indices: 101052--101076 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101042 ATATATATAG
101052 TTTTTGAAAACA
1 TTTTTGAAAACA
101064 TTTTTGAAAACA
1 TTTTTGAAAACA
101076 T
1 T
101077 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:101146 original size:75 final size:74
Alignment explanation
Indices: 100962--101353 Score: 299
Period size: 75 Copynumber: 5.5 Consensus size: 74
100952 TTTTTAAAAA
** * * * * *
100962 TATATAATATATAGTTTTAAAAAAAATATTTT-AAAAAATATATATAATATATGATTTTTAAAAT
1 TATAT-ATATATAGTTTTTGAAAACAT-TTTTGAAAACATATATATTATATA-G-TTTTGAAAAC
101026 CATTTTGAAAACT
62 CATTTTGAAAACT
101039 TATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATA-T-TATAGTTTTGAAAA-CATT
1 TATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCA--
*
101101 TTTTTGAAAACA
64 -TTTTGAAAACT
* * * *
101113 TATATATTATATAGTTTTTGAAGATATTTTTGAAACCATATATATTATATAGTTTTTAAAACCAT
1 TATATA-TATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCAT
101178 TTTGAAAACT
65 TTTGAAAACT
* ** * ****
101188 TATATAATAAATAG-TTTT-AAAATCA-TTTTG-AAATTTATATAATATATAG--TTGAAATTTT
1 TATAT-ATATATAGTTTTTGAAAA-CATTTTTGAAAACATATATATTATATAGTTTTGAAAACCA
101247 TTTTG-AAAC-
64 TTTTGAAAACT
* *
101256 -ATATA-ATATAG-TTTT-AAAACGTTTTTGAAAAC-TATA-A-CATATAGTTTT-AAAA-CATT
1 TATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATT
*
101312 TTTAAAA-T
66 TTGAAAACT
* *
101320 TATATAGTATAT-GGTTTTGAAAATATTTTTGAAA
1 TATATA-TATATAGTTTTTGAAAACATTTTTGAAA
101354 TGTATATAGT
Statistics
Matches: 260, Mismatches: 34, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
63 10 0.04
64 8 0.03
65 29 0.11
66 5 0.02
67 12 0.05
68 13 0.05
69 4 0.02
70 10 0.04
71 2 0.01
72 23 0.09
73 9 0.03
74 25 0.10
75 59 0.23
76 31 0.12
77 18 0.07
78 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (74 bp):
TATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATT
TTGAAAACT
Found at i:101377 original size:29 final size:29
Alignment explanation
Indices: 101326--101389 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
101316 AAATTATATA
* *
101326 GTATATGGTTTTGAAAATATTTTTGAAAT
1 GTATATAGTTTTAAAAATATTTTTGAAAT
*
101355 GTATATAGTTTTAAAACAT-TTTTTTAAAT
1 GTATATAGTTTTAAAA-ATATTTTTGAAAT
*
101384 ATATAT
1 GTATAT
101390 TATATAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (29 bp):
GTATATAGTTTTAAAAATATTTTTGAAAT
Found at i:101416 original size:4 final size:4
Alignment explanation
Indices: 101400--101466 Score: 54
Period size: 4 Copynumber: 18.0 Consensus size: 4
101390 TATATAGTAT
* * * **
101400 TTTA TTT- TTTA TTTA TTT- CTTG TTTA -TTA -TTA TTTA CTCG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
101444 TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA
101467 GGTCTATCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
3 14 0.28
4 36 0.72
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:102753 original size:27 final size:27
Alignment explanation
Indices: 102723--102778 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
102713 TTATTTATCA
* *
102723 TTATTTTTCTTCATTTTTTTCATGTTT
1 TTATTTTTCTTCATTTTTATCATATTT
* *
102750 TTATTTTTTTTTATTTTTATCATATTT
1 TTATTTTTCTTCATTTTTATCATATTT
102777 TT
1 TT
102779 TACTAGCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (27 bp):
TTATTTTTCTTCATTTTTATCATATTT
Found at i:104630 original size:19 final size:19
Alignment explanation
Indices: 104596--104640 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
104586 ATTTAGACAT
104596 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
104614 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
104633 TTTGCATT
1 TTTGCATT
104641 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:108397 original size:84 final size:83
Alignment explanation
Indices: 108015--109046 Score: 1054
Period size: 84 Copynumber: 12.4 Consensus size: 83
108005 TAAACAAACT
* ** * *
108015 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACG
* *
108080 CTCAGCTTCGAGGGCACATC
65 CTCAGC-TCCAAGGCACATC
*
108100 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACG
108165 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * *
108184 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAGGACC-CCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGC
* *
108245 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * ** *
108264 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACTACG
108329 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
*
108348 ATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACG
*
108413 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * * ** * *
108432 ATTTGCAACACAACTTAAGTCTAGAAGGGTT-TCTGCCAAAAAAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACG
*
108496 CTCAGCT-CAACGACACATC
65 CTCAGCTCCAA-GGCACATC
* * ** *
108515 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGA-TCACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACT-ACG
* *
108576 CTCAGCTTCGAGGGCACATC
65 CTCAGC-TCCAAGGCACATC
* * * * *
108596 ATTTGCAGTATAACTTAAATCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC-AACCAAAGACCTTCGAGTTCGACTACG
108661 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * ** * *
108680 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
108742 TCAACTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * *** ** * *
108761 ATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACTACG
108826 CTCAGCT-CAACGGCACATC
65 CTCAGCTCCAA-GGCACATC
* * * ** * *
108845 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
108907 TCAGCTTCGAGGGCACAAC
66 TCAGC-TCCAAGGCACATC
* * * *
108926 ATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACG
*
108991 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * *
109010 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
109047 CAAAGACCCC
Statistics
Matches: 774, Mismatches: 144, Indels: 60
0.79 0.15 0.06
Matches are distributed among these distances:
79 18 0.02
80 117 0.15
81 119 0.15
82 5 0.01
83 72 0.09
84 286 0.37
85 156 0.20
86 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:108460 original size:248 final size:248
Alignment explanation
Indices: 108015--109079 Score: 1120
Period size: 248 Copynumber: 4.3 Consensus size: 248
108005 TAAACAAACT
* * * * *
108015 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG-TGACCAAAGACCCCCGAGTTCGACTACA
* * *
108080 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAA
65 CTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
108145 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
130 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
*
108210 GGGCTATCTGCCAAGGACCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
195 GGGCTATCTGCCAAAGACCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * *** *
108264 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACC-AAAGACCCCCGAGTTCGACTACA
*
108329 CTCAGC-TCCAAGGCACATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
65 CTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
* * * * * *
108393 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAA
130 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* ** * ** * * *
108458 GGG-TTTCTGCCAAAAAAAGACCTTTGAGTTCGACTATGCTCAGC-TCAACGACACATC
195 GGGCTATCTGCC----AAAGACC-CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * *
108515 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGA-TCACA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCCCCGAGTTCGACT-ACA
* * * * * * *
108576 CTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAATCAAGAAGGGTTATCTGCTAACAAAA
65 CTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
*
108641 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
130 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
*
108706 GGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATC
195 GGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
** * *** *
108761 ATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACC-AAAGACCCCCGAGTTCGACTACA
* * *
108826 CTCAGC-T-CAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAA
65 CTCAGCTTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
*** * * * * * * *
108885 AGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAACATTTGCAGCATACCTGAAGTCGAG
129 AGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * * * * * *
108950 AAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCATATC
193 AAGGGCTATCTG----CCAAAGACC-CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
** * * * * *
109010 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCCCCGAGTTCGACTACAC
*
109072 TCAACTTC
66 TCAGCTTC
109080 GAGGTCATAT
Statistics
Matches: 667, Mismatches: 124, Indels: 52
0.79 0.15 0.06
Matches are distributed among these distances:
245 67 0.10
246 84 0.13
247 32 0.05
248 236 0.35
249 143 0.21
250 45 0.07
251 44 0.07
252 16 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (248 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCCCCGAGTTCGACTACAC
TCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:108681 original size:165 final size:165
Alignment explanation
Indices: 108015--109119 Score: 1488
Period size: 165 Copynumber: 6.7 Consensus size: 165
108005 TAAACAAACT
* *
108015 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---G-CCAAAGACCCCCGAGTTCGATTACA
* * *
108080 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGTGAACAAAA
108145 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
108184 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGA-CCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * *
108248 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAA-AAGGGTTATCTGTGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC-AAGAAGGGTTATCTGTGAACAAAAGAC
108312 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * ** * *
108348 ATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * * * ** *
108413 CTCAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTT-TCTGCCAAAAAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGTGAACAAAA
* *
108476 GACCTTTGAGTTCGACTATGCTCAGCT-CAACGACACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
*
108515 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATCACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
108580 GCTTCGAGGGCACATCATTTGCAGTATAACTTAAATCAAGAAGGGTTATCTGCT-AACAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-TGAACAAAAGAC
108644 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
108680 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * *
108745 ACTTCGAGGGCACATCATTTACAGCATAACTCAAG-GATAGAAGGGTTATCTGTGACCAAAAGTC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA-AGAAGGGTTATCTGTGAACAAAAGAC
108809 CTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
*
108845 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * ** *
108910 GCTTCGAGGGCACAACATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGTGAACAAAAGACC
* * *
108975 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
109010 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * * *
109075 ACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGG
109120 CTATTTGTCA
Statistics
Matches: 824, Mismatches: 95, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
163 26 0.03
164 186 0.23
165 435 0.53
166 10 0.01
167 76 0.09
168 39 0.05
169 52 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGTGAACAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:109858 original size:12 final size:12
Alignment explanation
Indices: 109841--109865 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109831 ATATATATAG
109841 TTTTTGAAAACA
1 TTTTTGAAAACA
109853 TTTTTGAAAACA
1 TTTTTGAAAACA
109865 T
1 T
109866 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:109881 original size:35 final size:36
Alignment explanation
Indices: 109742--110142 Score: 304
Period size: 37 Copynumber: 11.2 Consensus size: 36
109732 TTTTTAATAG
**
109742 TTTTT-AAAA-ATATATAATATATAGTTTAAAAAAAACA
1 TTTTTGAAAACATATAT-ATATATAGTTT--TGAAAACA
* * *
109779 TTTTAGAAAATATATATA-ATATATGATTTTTAAAATCA
1 TTTTTGAAAACATATATATATATA-G-TTTTGAAAA-CA
*
109817 -TTTTGAAAACTTATATATATATAGTTTTTGAAAACA
1 TTTTTGAAAACATATATATATATAG-TTTTGAAAACA
109853 TTTTTGAAAACATATATAT-TATAGTTTTGAAAACA
1 TTTTTGAAAACATATATATATATAGTTTTGAAAACA
* *
109888 TTTTTTTGAAAACATATATATTATATAGTTTTTGAAGATA
1 --TTTTTGAAAACATATATA-TATATAG-TTTTGAAAACA
* *
109928 TTTTTGAAACCATATATATTATATAGTTTTTAAAACCA
1 TTTTTGAAAACATATATA-TATATAGTTTTGAAAA-CA
* *
109966 -TTTTGAAAACTTATATAATAAATAGTTTT-AAAATCA
1 TTTTTGAAAACATATAT-ATATATAGTTTTGAAAA-CA
** ***
110002 -TTTTG-AAATTTATATAATATATAG--TTGAAATTT
1 TTTTTGAAAACATATAT-ATATATAGTTTTGAAAACA
*
110035 TTTTTG-AAAC--ATATA-ATATAGTTTT-AAAACG
1 TTTTTGAAAACATATATATATATAGTTTTGAAAACA
*
110066 TTTTTGAAAAC-TATA-ACATATAGTTTT-AAAACA
1 TTTTTGAAAACATATATATATATAGTTTTGAAAACA
* * *
110099 TTTTT-AAAA-TTATATAGTATATGGTTTTGAAAATA
1 TTTTTGAAAACATATATA-TATATAGTTTTGAAAACA
110134 TTTTTGAAA
1 TTTTTGAAA
110143 TGTATATAGT
Statistics
Matches: 306, Mismatches: 32, Indels: 53
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.02
31 10 0.03
32 19 0.06
33 26 0.08
34 20 0.07
35 38 0.12
36 21 0.07
37 102 0.33
38 41 0.13
39 14 0.05
40 9 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTTTGAAAACATATATATATATAGTTTTGAAAACA
Found at i:109936 original size:75 final size:74
Alignment explanation
Indices: 109773--110142 Score: 300
Period size: 75 Copynumber: 5.2 Consensus size: 74
109763 TAGTTTAAAA
* * * * *
109773 AAAACATTTTAGAAAATATATATAATATAT-GATTTTTAAAATCATTTTGAAAACTTATATATAT
1 AAAACATTTTTGAAAACATATATATTATATAG-TTTTGAAAACCATTTTGAAAACTTATATATAT
109837 ATAGTTTTTG
65 ATAGTTTTTG
*
109847 AAAACATTTTTGAAAACATATATA-T-TATAGTTTTGAAAA-CATTTTTTTGAAAACATATATAT
1 AAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCA---TTTTGAAAACTTATATA-
109909 TATATAGTTTTTG
62 TATATAGTTTTTG
* * * * *
109922 AAGATATTTTTGAAACCATATATATTATATAGTTTTTAAAACCATTTTGAAAACTTATATAATAA
1 AAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATTTTGAAAACTTATAT-ATAT
109987 ATAG-TTTT-
65 ATAGTTTTTG
** * ****
109995 AAAATCA-TTTTG-AAATTTATATAATATATAG--TTGAAATTTTTTTTG-AAAC--ATATA-AT
1 AAAA-CATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATTTTGAAAACTTATATATAT
110052 ATAG-TTTT-
65 ATAGTTTTTG
* * *
110060 AAAACGTTTTTGAAAAC-TATA-A-CATATAGTTTT-AAAA-CATTTTTAAAA-TTATATAGTAT
1 AAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATTTTGAAAACTTATATA-TAT
*
110119 AT-GGTTTTG
65 ATAGTTTTTG
*
110128 AAAATATTTTTGAAA
1 AAAACATTTTTGAAA
110143 TGTATATAGT
Statistics
Matches: 244, Mismatches: 31, Indels: 48
0.76 0.10 0.15
Matches are distributed among these distances:
63 10 0.04
64 8 0.03
65 29 0.12
66 5 0.02
67 12 0.05
68 13 0.05
69 4 0.02
70 10 0.04
71 2 0.01
72 26 0.11
73 10 0.04
74 43 0.18
75 55 0.23
76 2 0.01
77 13 0.05
78 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (74 bp):
AAAACATTTTTGAAAACATATATATTATATAGTTTTGAAAACCATTTTGAAAACTTATATATATA
TAGTTTTTG
Found at i:110166 original size:29 final size:29
Alignment explanation
Indices: 110115--110178 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
110105 AAATTATATA
* *
110115 GTATATGGTTTTGAAAATATTTTTGAAAT
1 GTATATAGTTTTAAAAATATTTTTGAAAT
*
110144 GTATATAGTTTTAAAACAT-TTTTTTAAAT
1 GTATATAGTTTTAAAA-ATATTTTTGAAAT
*
110173 ATATAT
1 GTATAT
110179 TATATAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (29 bp):
GTATATAGTTTTAAAAATATTTTTGAAAT
Found at i:110205 original size:4 final size:4
Alignment explanation
Indices: 110189--110263 Score: 70
Period size: 4 Copynumber: 20.0 Consensus size: 4
110179 TATATAGTAT
* * * **
110189 TTTA TTT- TTTA TTTA TTT- CTTG TTTA -TTA -TTA TTTA CTCG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
110233 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
110264 GGTCTATCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
3 14 0.24
4 44 0.76
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:111551 original size:26 final size:26
Alignment explanation
Indices: 111522--111575 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
111512 TTATTTATCA
*
111522 TTATTTTTCTTCATTTTT-TCATGTTT
1 TTATTTTT-TTCATTTTTATCATATTT
*
111548 TTATTTTTTTTATTTTTATCATATTT
1 TTATTTTTTTCATTTTTATCATATTT
111574 TT
1 TT
111576 TACTAGCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (26 bp):
TTATTTTTTTCATTTTTATCATATTT
Found at i:116242 original size:21 final size:20
Alignment explanation
Indices: 116218--116263 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
116208 GGTGAGGTAA
* *
116218 AGAAAGAGAGTTTAGAGTGAG
1 AGAAAGAGAGATTAGAG-AAG
116239 AGAAAGAGAGATTAGAGAAG
1 AGAAAGAGAGATTAGAGAAG
116259 AGAAA
1 AGAAA
116264 AATAATGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.35, T:0.13
Consensus pattern (20 bp):
AGAAAGAGAGATTAGAGAAG
Found at i:118864 original size:26 final size:25
Alignment explanation
Indices: 118831--118880 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
118821 TATTAGGGAT
118831 TTTATTATTTCAAATT-AATTAAATC
1 TTTATTATTT-AAATTAAATTAAATC
*
118856 TTTATTTATTTAATTTAAATTAAAT
1 TTTA-TTATTTAAATTAAATTAAAT
118881 ATTCGGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTATTTAAATTAAATTAAATC
Found at i:125137 original size:28 final size:28
Alignment explanation
Indices: 125105--125161 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
125095 AAATGTTTCT
125105 TGTAGTGTTTTGACTATTATAAATTCAA
1 TGTAGTGTTTTGACTATTATAAATTCAA
125133 TGTAGTGTTTTGACTATTATAAATTCAA
1 TGTAGTGTTTTGACTATTATAAATTCAA
125161 T
1 T
125162 ATTGTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (28 bp):
TGTAGTGTTTTGACTATTATAAATTCAA
Found at i:127979 original size:64 final size:65
Alignment explanation
Indices: 127911--128060 Score: 187
Period size: 65 Copynumber: 2.3 Consensus size: 65
127901 AGTAGGGGTA
* * *
127911 CATCGGTACACTAATTACATTAGATATTTC-AAAGAGCCAGGAGTGCATCGATGCATGG-TCTGT
1 CATCGGTACACAAAATACATTAGATATTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCT-TGT
127974 G
65 G
* * * * **
127975 CATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTGTG
1 CATCGGTACACAAAATACATTAGATATTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGTG
*
128040 CATCGGTACACAAAATGCATT
1 CATCGGTACACAAAATACATT
128061 CGAAATGAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
64 25 0.33
65 49 0.65
66 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (65 bp):
CATCGGTACACAAAATACATTAGATATTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGTG
Found at i:130813 original size:44 final size:43
Alignment explanation
Indices: 130748--130842 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
130738 AAAGTGCATT
** *
130748 GATGCACATTCAAGGAGTGCATCGGTGTA-TCTTCATGGTGTATC
1 GATGCACATTCAAGGAGTGCATCGGTACACT-TTC-TCGTGTATC
130792 GATGCACATTCAAGGCA-TGCATCGGTACACTTTCTCGTGTATC
1 GATGCACATTCAAGG-AGTGCATCGGTACACTTTCTCGTGTATC
130835 GATGCACA
1 GATGCACA
130843 AAGCACAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
43 16 0.35
44 28 0.61
45 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (43 bp):
GATGCACATTCAAGGAGTGCATCGGTACACTTTCTCGTGTATC
Found at i:130815 original size:23 final size:22
Alignment explanation
Indices: 130742--130815 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
130732 CGCAACAAAG
*
130742 TGCATTGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
* * *
130764 GTGCATCGGTGTATC-TTCATGG-
1 -TGCATCGATGCA-CATTCAAGGA
*
130786 TGTATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
130809 TGCATCG
1 TGCATCG
130816 GTACACTTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 1 0.03
21 15 0.39
23 21 0.55
24 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:134362 original size:65 final size:63
Alignment explanation
Indices: 134227--134373 Score: 170
Period size: 65 Copynumber: 2.3 Consensus size: 63
134217 CATTTCGAAT
* * * * **
134227 AAATTTATGCACCGATGCACAGCCATGCATCGATGCACTCTGGATTTTATAAAACATCGAATT
1 AAATTTGTGCACCGATGCAAAGCCATGCATCGATGCACCCCGGATTTTATAAAACATCGAAGC
* * * *
134290 GATTTTGTGCACCGATGCATAAGTCATGCATCGATGCACCCCGGCTATTTT-TGAAACATCGAAG
1 AAATTTGTGCACCGATGCA-AAGCCATGCATCGATGCACCCCGG--ATTTTATAAAACATCGAAG
134354 C
63 C
134355 AAATTTGTGCACCGATGCA
1 AAATTTGTGCACCGATGCA
134374 CACCCTAGTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 16 0.23
64 20 0.29
65 28 0.41
66 5 0.07
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (63 bp):
AAATTTGTGCACCGATGCAAAGCCATGCATCGATGCACCCCGGATTTTATAAAACATCGAAGC
Found at i:134491 original size:21 final size:21
Alignment explanation
Indices: 134441--134492 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
134431 CATAGTGTAC
*
134441 CGATGCACAAAGCCTATGCAT
1 CGATGCACCAAGCCTATGCAT
134462 CGATGCACCAAGCCTATGCAT
1 CGATGCACCAAGCCTATGCAT
134483 CGATGCACCA
1 CGATGCACCA
134493 TACGGTCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (21 bp):
CGATGCACCAAGCCTATGCAT
Found at i:140251 original size:23 final size:23
Alignment explanation
Indices: 140220--140266 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
140210 TGCATCGATT
*
140220 CACCATGAAGGTGCACCTATGCA
1 CACCATGAAGGTGCACCGATGCA
* * *
140243 CACCTTGAATGTGCATCGATGCA
1 CACCATGAAGGTGCACCGATGCA
140266 C
1 C
140267 TCTGCTGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (23 bp):
CACCATGAAGGTGCACCGATGCA
Found at i:145569 original size:65 final size:65
Alignment explanation
Indices: 145449--145597 Score: 162
Period size: 65 Copynumber: 2.3 Consensus size: 65
145439 TTTCAAATAC
* * ** * **
145449 AATTTATGCACCGATGCAC-AGGCATGCATCGATGCACTCTGGATTTTATTAAAACATCGAA-TT
1 AATTTTTGCACCGATGCACAAGCCATGCATCGATGCACTCCCGATTTTATTAAAACATCAAAGCA
* *
145512 GATTTTGTGCACCGATGCACAAGCCATGCATCGATGCAC-CCCGACTATTT-TTGAAACATCAAA
1 AATTTT-TGCACCGATGCACAAGCCATGCATCGATGCACTCCCGA-T-TTTATTAAAACATCAAA
145575 GCA
63 GCA
145578 AATTTTTGCACCGATGCACA
1 AATTTTTGCACCGATGCACA
145598 CCCTAGTGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
63 4 0.06
64 16 0.23
65 43 0.61
66 8 0.11
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (65 bp):
AATTTTTGCACCGATGCACAAGCCATGCATCGATGCACTCCCGATTTTATTAAAACATCAAAGCA
Found at i:147245 original size:15 final size:12
Alignment explanation
Indices: 147211--147241 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
147201 TCTTGTTCCT
147211 CTTCATCGGAAC
1 CTTCATCGGAAC
147223 CTTCATCGGAAC
1 CTTCATCGGAAC
147235 CTTCATC
1 CTTCATC
147242 ATCGCTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (12 bp):
CTTCATCGGAAC
Found at i:149106 original size:64 final size:66
Alignment explanation
Indices: 149015--149165 Score: 193
Period size: 65 Copynumber: 2.3 Consensus size: 66
149005 AGTAGGGGTA
* * * *
149015 CATCAGTACACTAATTACATT-AGATGTTTC-AAAGAGCCAGGAGTGCATCGATGCATGG-TATG
1 CATCGGTACACAAAATACATTCAGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCT-TG
149077 TG
65 TG
* **
149079 CATCGGTACACAAAATACATTCA-ATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTGT
1 CATCGGTACACAAAATACATTCAGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGT
149143 G
66 G
*
149144 CATCGGTACACAAAATGCATTC
1 CATCGGTACACAAAATACATTC
149166 GAAATGGCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 25 0.33
65 50 0.66
66 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (66 bp):
CATCGGTACACAAAATACATTCAGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGT
G
Found at i:149910 original size:22 final size:22
Alignment explanation
Indices: 149865--149915 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
149855 AAATTTAAAC
*
149865 ATTCAAACATCCAAATCATCCA
1 ATTCAAACATCCAAATCATACA
*
149887 ATTCAAACATTCAAA-CATAACA
1 ATTCAAACATCCAAATCAT-ACA
*
149909 ATCCAAA
1 ATTCAAA
149916 AACATCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (22 bp):
ATTCAAACATCCAAATCATACA
Found at i:155569 original size:20 final size:21
Alignment explanation
Indices: 155530--155569 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
155520 GAAGCTTTAA
* *
155530 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
155551 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
155570 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:155721 original size:22 final size:21
Alignment explanation
Indices: 155679--155718 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
155669 GAGATTATTT
*
155679 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
*
155700 TCATTTTTCTATTTTAAAA
1 TCATTTTTCAATTTTAAAA
155719 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:155725 original size:20 final size:21
Alignment explanation
Indices: 155681--155725 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
155671 GATTATTTTC
* *
155681 ATTTTTCAATTTTGAAATATC
1 ATTTTTCAATTTTGAAAAATA
*
155702 ATTTTTCTATTTT-AAAAATA
1 ATTTTTCAATTTTGAAAAATA
155722 ATTT
1 ATTT
155726 CTCAGAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTCAATTTTGAAAAATA
Found at i:162379 original size:30 final size:30
Alignment explanation
Indices: 162339--162415 Score: 127
Period size: 30 Copynumber: 2.5 Consensus size: 30
162329 AGAAAAAGTT
*
162339 ATATGATCTATGTGATAAAGGTATGGAAATC
1 ATATG-TCTATGTGATAAAGGTATGGAAATA
162370 ATATGTCTATGTGATAAAGGTATGGAAATA
1 ATATGTCTATGTGATAAAGGTATGGAAATA
*
162400 ATATGTCTATGAGATA
1 ATATGTCTATGTGATA
162416 CACTATGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 39 0.89
31 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (30 bp):
ATATGTCTATGTGATAAAGGTATGGAAATA
Found at i:163307 original size:21 final size:20
Alignment explanation
Indices: 163253--163314 Score: 97
Period size: 20 Copynumber: 3.0 Consensus size: 20
163243 TGTAGCAGTA
*
163253 CTATAGCAGGGCATCGGTAC
1 CTATAGCAGGGTATCGGTAC
163273 CTATAGCAGGGTATCGGTAC
1 CTATAGCAGGGTATCGGTAC
*
163293 CTATAGCAGGGGTATCGATAC
1 CTATAGCA-GGGTATCGGTAC
163314 C
1 C
163315 CCTCTAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 27 0.69
21 12 0.31
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (20 bp):
CTATAGCAGGGTATCGGTAC
Found at i:163618 original size:19 final size:19
Alignment explanation
Indices: 163594--163638 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
163584 GTGTTATAGG
163594 TACACTAGGGGTGCATCAA
1 TACACTAGGGGTGCATCAA
*
163613 TACACTAGGGGTGCATCGA
1 TACACTAGGGGTGCATCAA
163632 TACACTA
1 TACACTA
163639 ATTACATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (19 bp):
TACACTAGGGGTGCATCAA
Found at i:163759 original size:65 final size:64
Alignment explanation
Indices: 163623--163778 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 64
163613 TACACTAGGG
* * * * * *
163623 GTGCATCGATACACTAATTACATTCGATGTTTCAAAGAGCCAGTAGTGTATCGATGCATGGTAT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCAAGTAGTGCATCGATGCATGGTAT
* *
163687 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAG-AGTGCATCGATGCATGGCT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTC-AAAGA-GCAAGTAGTGCATCGATGCATGG-T
163751 -T
63 AT
163752 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
163779 AATACTTTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 29 0.36
65 48 0.59
66 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCAAGTAGTGCATCGATGCATGGTAT
Found at i:166147 original size:21 final size:21
Alignment explanation
Indices: 166121--166177 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
166111 TTAAATGCAG
166121 AGTTATATTGTCAACCATTAA
1 AGTTATATTGTCAACCATTAA
* ** *
166142 AGTTATATTGTGAACTGTTTA
1 AGTTATATTGTCAACCATTAA
166163 AGTTATATTGTCAAC
1 AGTTATATTGTCAAC
166178 ATGTTTCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (21 bp):
AGTTATATTGTCAACCATTAA
Found at i:166410 original size:101 final size:102
Alignment explanation
Indices: 166230--166415 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 102
166220 GTCAATCGTT
* * * * *
166230 TAAGTTATATTGATATAACCTTTTTTTATTATGGACATGTAAGAGAAAACAAGTTTTAATATATA
1 TAAGTTATATTGATATAACCTTTGTTCATTATGGACATGTAACAGAAAACAAGTTTCAATATAAA
* *
166295 GCAATACATGTAGCGCCTTTGTATATTGTTAAAAGTG
66 ACAATACAAGTAGCGCCTTTGTATATTGTTAAAAGTG
* * *
166332 TAAGTTATATTGTTATAACC-TTGTTCATTATGGACATGTAACATAAATCAAGTTTCAAGT-TAA
1 TAAGTTATATTGATATAACCTTTGTTCATTATGGACATGTAACAGAAAACAAGTTTCAA-TATAA
166395 AACAATACAAGTAGCGCCTTT
65 AACAATACAAGTAGCGCCTTT
166416 TATTATATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
101 53 0.73
102 20 0.27
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (102 bp):
TAAGTTATATTGATATAACCTTTGTTCATTATGGACATGTAACAGAAAACAAGTTTCAATATAAA
ACAATACAAGTAGCGCCTTTGTATATTGTTAAAAGTG
Found at i:166471 original size:23 final size:19
Alignment explanation
Indices: 166420--166464 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
166410 GCCTTTTATT
166420 ATATTCAACCATTTAATTG
1 ATATTCAACCATTTAATTG
166439 ATATTCAACCATTTAATTG
1 ATATTCAACCATTTAATTG
166458 ATATTCA
1 ATATTCA
166465 TATAACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (19 bp):
ATATTCAACCATTTAATTG
Found at i:166782 original size:101 final size:99
Alignment explanation
Indices: 166465--166798 Score: 420
Period size: 99 Copynumber: 3.3 Consensus size: 99
166455 TTGATATTCA
* * * * *
166465 TATAACCTTTTCCATTACGGACATGTAAGAC-AAATCATGTTTAAATTTATGATAATACA-GCTG
1 TATAA-CTTTTTCATTATGGACATGTAAGACAAAAT-ATGTTTCAATTTATAATAATACATGTTG
* *
166528 ACACCTTTTATATGTTCAATCGTATAAGTTATATTAT
64 -CACCTTTTATATGTTCAATCGTTTAAGTTATATTGT
* * ** * * *
166565 TATAACTTTTTCATTATGCACATGAAAGACAAAACCTATTTCAATTTATAACAATACATATTGCA
1 TATAACTTTTTCATTATGGACATGTAAGACAAAATATGTTTCAATTTATAATAATACATGTTGCA
*
166630 CCTTTTATATGTTCAACCGTTTAAGTTATATTGT
66 CCTTTTATATGTTCAATCGTTTAAGTTATATTGT
*
166664 TATAACTTTTTTCATTATGGACATGTAACACAAAATATGTTTCAATTTATAATAATACATGTTGC
1 TATAAC-TTTTTCATTATGGACATGTAAGACAAAATATGTTTCAATTTATAATAATACATGTTGC
* *
166729 GCCTTTTTATATGTTCAATCGTTTAAGTTATAGTGT
65 ACC-TTTTATATGTTCAATCGTTTAAGTTATATTGT
* *
166765 TATAACATCTTTCATTATGGATATGTAAGACAAA
1 TATAAC-TTTTTCATTATGGACATGTAAGACAAA
166799 TGGGATTTCA
Statistics
Matches: 200, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
99 78 0.39
100 62 0.31
101 60 0.30
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (99 bp):
TATAACTTTTTCATTATGGACATGTAAGACAAAATATGTTTCAATTTATAATAATACATGTTGCA
CCTTTTATATGTTCAATCGTTTAAGTTATATTGT
Found at i:169183 original size:37 final size:38
Alignment explanation
Indices: 169128--169214 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
169118 TCTATGACTT
* *
169128 GTAAGTACTTACCACAGGCTCCTCGCCTTTGTG-CAGG
1 GTAAGTCCTTACCACAGGCTCCTCGCCTCTGTGCCAGG
* * *
169165 GTAAGTCCTTACCGCAGGCTCCTTGGCTCTGTGCTCAGG
1 GTAAGTCCTTACCACAGGCTCCTCGCCTCTGTGC-CAGG
169204 GTAAGTCCTTA
1 GTAAGTCCTTA
169215 TGTTGAAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 28 0.65
39 15 0.35
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (38 bp):
GTAAGTCCTTACCACAGGCTCCTCGCCTCTGTGCCAGG
Found at i:175441 original size:44 final size:43
Alignment explanation
Indices: 175359--175454 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 43
175349 TTGTGCAACA
* *
175359 TGCATCGATACACTAGAAAGTGTACCGATGCATCTCTTGAATG
1 TGCATCGATACACCAGAAAGTGCACCGATGCATCTCTTGAATG
* *
175402 TGCATCGATACACCATGAAGGTGCACCGATGCATTTCTTGAATG
1 TGCATCGATACACCA-GAAAGTGCACCGATGCATCTCTTGAATG
*
175446 TGCACCGAT
1 TGCATCGAT
175455 GCACTCTGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 14 0.30
44 33 0.70
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACCAGAAAGTGCACCGATGCATCTCTTGAATG
Found at i:175448 original size:23 final size:22
Alignment explanation
Indices: 175382--175457 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
175372 TAGAAAGTGT
175382 ACCGATGCATCTCTTGAATGTGC
1 ACCGATGCAT-TCTTGAATGTGC
* * * * *
175405 ATCGATACA-CCATGAAGGTGC
1 ACCGATGCATTCTTGAATGTGC
175426 ACCGATGCATTTCTTGAATGTGC
1 ACCGATGCA-TTCTTGAATGTGC
175449 ACCGATGCA
1 ACCGATGCA
175458 CTCTGCTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 16 0.39
23 25 0.61
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (22 bp):
ACCGATGCATTCTTGAATGTGC
Found at i:178233 original size:64 final size:65
Alignment explanation
Indices: 178153--178285 Score: 180
Period size: 65 Copynumber: 2.1 Consensus size: 65
178143 ACCCTATTTT
* * * *
178153 GAATGCATTTTGTGTACCAATGCACAG-TCATGCCTCGATGCACTCTTGAAT-TTATTGAAACAT
1 GAATGCATTTTATGTACCAATGCACAGACCATGCATCGATGCACTCATGAATCTT-TTGAAACAT
178216 C
65 C
* **
178217 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCATGGCTCTTTTGAAACATC
1 GAATGCATTTTATGTACCAATGCACAGACCATGCATCGATGCACTCATGAATCTTTTGAAACATC
178282 GAAT
1 GAAT
178286 CTAATTAGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 25 0.42
65 33 0.55
66 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (65 bp):
GAATGCATTTTATGTACCAATGCACAGACCATGCATCGATGCACTCATGAATCTTTTGAAACATC
Found at i:178280 original size:65 final size:64
Alignment explanation
Indices: 178153--178306 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 64
178143 ACCCTATTTT
* * * * *
178153 GAATGCATTTTGTGTACCAATGCACAGTCATGCCTCGATGCACTCTTGAATTTATTGAAACATC
1 GAATGCATTTTATGTACCGATGCACAGCCATGCATCGATGCACTCATGAATTTATTGAAACATC
**
178217 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCATGGCTCTT-TTGAAACAT
1 GAATGCATTTTATGTACCGATGCACAG-CCATGCATCGATGCACTCATGAAT-TTATTGAAACAT
178281 C
64 C
*
178282 GAAT-C-TAATTAGTGTACCGATGCAC
1 GAATGCAT-TTTA-TGTACCGATGCAC
178307 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
63 1 0.01
64 29 0.37
65 46 0.59
66 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (64 bp):
GAATGCATTTTATGTACCGATGCACAGCCATGCATCGATGCACTCATGAATTTATTGAAACATC
Found at i:182550 original size:23 final size:22
Alignment explanation
Indices: 182524--182572 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
182514 AAACAGAAAG
*
182524 AAAATGATACT-TTAGGTGTGATC
1 AAAATGATACTATT-GG-ATGATC
182547 AAAA-GATACTATTGGATGATC
1 AAAATGATACTATTGGATGATC
182568 AAAAT
1 AAAAT
182573 ATAAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (22 bp):
AAAATGATACTATTGGATGATC
Found at i:188403 original size:28 final size:28
Alignment explanation
Indices: 188371--188434 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
188361 TTCGGGTTCA
*
188371 GGTCGGGTTTTT-TAAAGTTTGATATTCG
1 GGTCGGGTTTTTGT-AAGTGTGATATTCG
188399 GGTCGGGTTTTTGTAAGTGTGATATTCG
1 GGTCGGGTTTTTGTAAGTGTGATATTCG
188427 GGTCGGGT
1 GGTCGGGT
188435 CGAATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.14, C:0.08, G:0.36, T:0.42
Consensus pattern (28 bp):
GGTCGGGTTTTTGTAAGTGTGATATTCG
Found at i:189125 original size:18 final size:18
Alignment explanation
Indices: 189102--189137 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
189092 ATTTCATATT
*
189102 CAGATTCCAGTTCCTTCA
1 CAGATTCCAATTCCTTCA
*
189120 CAGATTTCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
189138 TAAACATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.36
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:189666 original size:27 final size:28
Alignment explanation
Indices: 189628--189684 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 28
189618 GTATTCAAAG
189628 TATGACTCTTATTTGAAAGAT-GGAATA
1 TATGACTCTTATTTGAAAGATGGGAATA
189655 TATGACTCTTATTTGAAAGATGGGAATA
1 TATGACTCTTATTTGAAAGATGGGAATA
189683 TA
1 TA
189685 AAAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (28 bp):
TATGACTCTTATTTGAAAGATGGGAATA
Found at i:191931 original size:23 final size:23
Alignment explanation
Indices: 191896--191977 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
191886 ACATGAAGCT
*
191896 ATTGTATCGGTACGGTCAATATG
1 ATTGTATCGGTACGATCAATATG
* *
191919 ACTGTATCAGTACGATCAATATG
1 ATTGTATCGGTACGATCAATATG
* * *
191942 GTTGTATCGATACGCTCAATATG
1 ATTGTATCGGTACGATCAATATG
191965 ATTGTATCGGTAC
1 ATTGTATCGGTAC
191978 ATAACTCGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (23 bp):
ATTGTATCGGTACGATCAATATG
Found at i:193749 original size:41 final size:42
Alignment explanation
Indices: 193692--193771 Score: 135
Period size: 41 Copynumber: 1.9 Consensus size: 42
193682 GTAATTTCTC
*
193692 GCTAAATTTGGGAGGATCTAATA-AAATTATTCCACTTTCGT
1 GCTAAACTTGGGAGGATCTAATAGAAATTATTCCACTTTCGT
*
193733 GCTAAACTTGGGAGGATCTAATAGTAATTATTCCACTTT
1 GCTAAACTTGGGAGGATCTAATAGAAATTATTCCACTTT
193772 AATTAAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 22 0.61
42 14 0.39
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (42 bp):
GCTAAACTTGGGAGGATCTAATAGAAATTATTCCACTTTCGT
Found at i:194540 original size:32 final size:33
Alignment explanation
Indices: 194473--194544 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
194463 AACTAATAGT
* * *
194473 AAATAATATATATATATGAAATGATGTTATAAA
1 AAATGATATATATAAATGAAATGATGTCATAAA
194506 AAAGTGATATATATAAAT-AAAT-ATGTACAT-AA
1 AAA-TGATATATATAAATGAAATGATGT-CATAAA
194538 AAATGAT
1 AAATGAT
194545 GAAGCATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.12
32 9 0.26
33 9 0.26
34 12 0.35
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (33 bp):
AAATGATATATATAAATGAAATGATGTCATAAA
Found at i:194603 original size:2 final size:2
Alignment explanation
Indices: 194596--194628 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
194586 GAGGAACGAA
194596 AT AT AT AT 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 AT AT AT AT A
194629 GATAATAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:196404 original size:12 final size:12
Alignment explanation
Indices: 196387--196417 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
196377 TGTGAAGTTG
196387 AAATTGGCTCTA
1 AAATTGGCTCTA
*
196399 AAATTGGCTCTG
1 AAATTGGCTCTA
196411 AAATTGG
1 AAATTGG
196418 GAAGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (12 bp):
AAATTGGCTCTA
Found at i:196434 original size:118 final size:118
Alignment explanation
Indices: 196294--196511 Score: 384
Period size: 118 Copynumber: 1.8 Consensus size: 118
196284 GTGAAGTTGG
*
196294 AATTGGGAGATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
1 AATTGGGAGATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
196359 GGGCCCAATCTCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGCTCTGA
66 GAGCCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGCTCTGA
196412 AATTGGGA-AGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 AATTGGGAGA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
196476 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
65 GGAGCCCAATATCCTTCGTTGTGAAGTTGAAATTGG
196512 GAAATTGTTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
117 1 0.01
118 94 0.99
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (118 bp):
AATTGGGAGATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGCCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGCTCTGA
Found at i:196654 original size:98 final size:98
Alignment explanation
Indices: 196422--197114 Score: 1090
Period size: 98 Copynumber: 7.0 Consensus size: 98
196412 AATTGGGAAG
196422 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
196487 TCCTTCGTTGTGAAGTTGAAATTGG----GAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
*
196516 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
**
196581 TCCTTCGTTGAAAAGTTGAAATTGGCTCTGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
196614 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
196679 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
196712 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
196777 TCCTTCGTTGTGAACTTGAAATTGGC-CTCGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAA
* * * * *
196810 TTATTTATTGACAACCAGTGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTTTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
196875 TCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
*
196908 TTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
1 -T------TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
196973 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
59 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* *
197013 TTGAGAAATGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
1 -T------TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
197078 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
59 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
197115 GGTAAAACCT
Statistics
Matches: 563, Mismatches: 23, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
94 87 0.15
97 2 0.00
98 280 0.50
99 3 0.01
105 191 0.34
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (98 bp):
TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
Done.