Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 47 of 129
Found at i:6561414 original size:45 final size:45
Alignment explanation
Indices: 6561365--6561451 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
6561355 TGTATAAATC
* *
6561365 GACCATCATCAGCACAAGCTAGCCTTTAGTATGAGCACCTACGTT
1 GACCACCATCAGCACAAGCTAGCCTTCAGTATGAGCACCTACGTT
* * * *
6561410 GACCACCATTAGCATAAGTTGGCCTTCAGTATGAGCACCTAC
1 GACCACCATCAGCACAAGCTAGCCTTCAGTATGAGCACCTAC
6561452 CTCAACCACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (45 bp):
GACCACCATCAGCACAAGCTAGCCTTCAGTATGAGCACCTACGTT
Found at i:6563255 original size:28 final size:28
Alignment explanation
Indices: 6563189--6563257 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
6563179 GCCTATGATG
* * *
6563189 GTTGGAATTAAAGCCAATTCTAATTAGA
1 GTTGGTATTAGAGCCAATTCTAATCAGA
*
6563217 GTTGGTATTAGAGCCAGTTCTAATCAGA
1 GTTGGTATTAGAGCCAATTCTAATCAGA
6563245 GTTGGTATTAGAG
1 GTTGGTATTAGAG
6563258 TAGATTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (28 bp):
GTTGGTATTAGAGCCAATTCTAATCAGA
Found at i:6565310 original size:45 final size:44
Alignment explanation
Indices: 6565204--6565328 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
6565194 GGTAGTCAGT
*
6565204 CATAGAAAGGCCTAGAACTACCTGGAGATAGGCCAAGTGCACATG
1 CATAAAAAGGCCTAGAACTACCTGGAGATAGGCC-AGTGCACATG
** *
6565249 CATAAAAAGGTTTAGAACTACCTGGAGATTGGCCAG-GCACATGAG
1 CATAAAAAGGCCTAGAACTACCTGGAGATAGGCCAGTGCACAT--G
** * * *
6565294 CATGGAAGGGCCTAGAACCACTTGGAGATAGGCCA
1 CATAAAAAGGCCTAGAACTACCTGGAGATAGGCCA
6565329 AACGAGTGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 58 0.88
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (44 bp):
CATAAAAAGGCCTAGAACTACCTGGAGATAGGCCAGTGCACATG
Found at i:6565429 original size:12 final size:12
Alignment explanation
Indices: 6565412--6565445 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
6565402 GGCCAAGCAT
6565412 GGGCATAGTGAC
1 GGGCATAGTGAC
6565424 GGGCATAGTGAC
1 GGGCATAGTGAC
6565436 GGGCATAGTG
1 GGGCATAGTG
6565446 CTCATCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.44, T:0.18
Consensus pattern (12 bp):
GGGCATAGTGAC
Found at i:6574474 original size:75 final size:75
Alignment explanation
Indices: 6574381--6574530 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 75
6574371 AGTGTGGGTC
*
6574381 ATTCCCTCAAACACCATCAACACATGCTAGGCCATACACCATGCACGGGTATCCTTGGATCAAGC
1 ATTCCCTCAAACACCATCAACACATGCTAGGCCATACACCATACACGGGTATCCTTGGATCAAGC
6574446 TATACACCAT
66 TATACACCAT
* * * *
6574456 ATTCCCTGAAACACCATCAACACATGCTGGGCCATGCACCCTACACGGGTATCCTTGGATCAAGC
1 ATTCCCTCAAACACCATCAACACATGCTAGGCCATACACCATACACGGGTATCCTTGGATCAAGC
*
6574521 TATGCACCAT
66 TATACACCAT
6574531 GGGTACCACG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.21
Consensus pattern (75 bp):
ATTCCCTCAAACACCATCAACACATGCTAGGCCATACACCATACACGGGTATCCTTGGATCAAGC
TATACACCAT
Found at i:6575219 original size:22 final size:22
Alignment explanation
Indices: 6575187--6575239 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
6575177 ACATGACGTA
*
6575187 AGCACATGCCTCAACCATCATC
1 AGCACAAGCCTCAACCATCATC
6575209 AGCACAAGCCTCAACCATCATC
1 AGCACAAGCCTCAACCATCATC
*
6575231 GGCACAAGC
1 AGCACAAGC
6575240 TAGCCTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.40, G:0.13, T:0.13
Consensus pattern (22 bp):
AGCACAAGCCTCAACCATCATC
Found at i:6578648 original size:45 final size:45
Alignment explanation
Indices: 6578599--6578713 Score: 151
Period size: 45 Copynumber: 2.5 Consensus size: 45
6578589 CTATACCTTG
* **
6578599 ATCATCAGTGCCCACACCTA-GGTCCAACCATGTGCTTGCACTTCC
1 ATCATTAGTGCCCACACC-AGGGTCCAACCATGTGCTCACACTTCC
* *
6578644 ATCATTAGTGCCTACACCAGGGTCTAACCATGTGCTCACACTTCC
1 ATCATTAGTGCCCACACCAGGGTCCAACCATGTGCTCACACTTCC
*
6578689 ATCATTAGTGGCCACACCAAGGGTC
1 ATCATTAGTGCCCACACC-AGGGTC
6578714 TAACTATATG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 54 0.89
46 6 0.10
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (45 bp):
ATCATTAGTGCCCACACCAGGGTCCAACCATGTGCTCACACTTCC
Found at i:6585277 original size:19 final size:18
Alignment explanation
Indices: 6585234--6585283 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
6585224 CATGGTAAAA
**
6585234 AGAGCCAAAGTTGTTGTG
1 AGAGCCAAAGTTGTCATG
6585252 AGAGCCAAAGTTGTCATG
1 AGAGCCAAAGTTGTCATG
*
6585270 AGGAGCCAGAGTTG
1 A-GAGCCAAAGTTG
6585284 GTGTTGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (18 bp):
AGAGCCAAAGTTGTCATG
Found at i:6592600 original size:22 final size:22
Alignment explanation
Indices: 6592574--6592617 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6592564 TATCTACTTA
*
6592574 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
6592596 TATTTTTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6592618 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:6592785 original size:22 final size:23
Alignment explanation
Indices: 6592760--6592803 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6592750 AATATACATT
6592760 TAGTTTTA-CTCTTAGTTTTTCA
1 TAGTTTTATCTCTTAGTTTTTCA
*
6592782 TAGTTTTATTTCTTAGTTTTTC
1 TAGTTTTATCTCTTAGTTTTTC
6592804 CATACGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (23 bp):
TAGTTTTATCTCTTAGTTTTTCA
Found at i:6596233 original size:22 final size:22
Alignment explanation
Indices: 6596218--6596261 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6596208 TCTATATATT
6596218 TATATTTGTATCTCTAGAATTA
1 TATATTTGTATCTCTAGAATTA
* * *
6596240 TGTATTTGTATCCCTAAAATTA
1 TATATTTGTATCTCTAGAATTA
6596262 AGGATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (22 bp):
TATATTTGTATCTCTAGAATTA
Found at i:6608793 original size:26 final size:25
Alignment explanation
Indices: 6608764--6608825 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
6608754 AACTCTAAAA
6608764 TGAAACCTTAAAAAAAAAAGCCTAAG
1 TGAAACCTTAAAAAAAAAA-CCTAAG
**
6608790 TGAAACCTT-AAAATGAAACCTAAG
1 TGAAACCTTAAAAAAAAAACCTAAG
*
6608814 TGAAACCCTAAA
1 TGAAACCTTAAA
6608826 CTCTAGGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.44
25 9 0.28
26 9 0.28
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (25 bp):
TGAAACCTTAAAAAAAAAACCTAAG
Found at i:6609332 original size:41 final size:41
Alignment explanation
Indices: 6609272--6609352 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
6609262 ATTTGCATTC
* * *
6609272 ATTTCACATTCTCCTATTTTTAAATTGTTATTTTTATCCCTT
1 ATTTCACATGCTCATA-TTTTAAATTGTTATTATTATCCCTT
*
6609314 ATTT-ACATGCTCATATTTTAAGTTGTTATTATTATCCCT
1 ATTTCACATGCTCATATTTTAAATTGTTATTATTATCCCT
6609353 CTTTTAATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 22 0.63
41 9 0.26
42 4 0.11
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.54
Consensus pattern (41 bp):
ATTTCACATGCTCATATTTTAAATTGTTATTATTATCCCTT
Found at i:6610701 original size:3 final size:3
Alignment explanation
Indices: 6610695--6610841 Score: 170
Period size: 3 Copynumber: 49.0 Consensus size: 3
6610685 TTTAATAATA
* *
6610695 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* *
6610743 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT- ATTA ATA
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A-TG ATG
* * * * * * * *
6610788 ATA ATG ATG ATA ATG TTA ATA ATA ATG ATG ATG ACG ATG ATA ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
6610836 ATG ATG
1 ATG ATG
6610842 GTAATAATAA
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
2 1 0.01
3 125 0.98
4 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:6610849 original size:3 final size:3
Alignment explanation
Indices: 6610843--6610870 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6610833 ATGATGATGG
6610843 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6610871 TGTATTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6612887 original size:13 final size:14
Alignment explanation
Indices: 6612871--6612927 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
6612861 AGGAAAAAGG
6612871 AAAGAA-AAAAATA
1 AAAGAAGAAAAATA
6612884 AAAGAAGAAAAAT-
1 AAAGAAGAAAAATA
*
6612897 AAGGAAGAACAAA-A
1 AAAGAAGAA-AAATA
* *
6612911 AAAGAGGAAAAAGA
1 AAAGAAGAAAAATA
6612925 AAA
1 AAA
6612928 AAGGGGGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAGAAAAATA
Found at i:6612904 original size:16 final size:16
Alignment explanation
Indices: 6612867--6612928 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
6612857 AACTAGGAAA
6612867 AAGGAAAGAA-AAAAAT
1 AAGG-AAGAAGAAAAAT
6612883 AA--AAGAAGAAAAAT
1 AAGGAAGAAGAAAAAT
* *
6612897 AAGGAAGAACAAAAAA
1 AAGGAAGAAGAAAAAT
*
6612913 AGAGGAAAAAGAAAAA
1 A-AGGAAGAAGAAAAA
6612929 AGGGGGAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.13
14 8 0.21
16 13 0.34
17 12 0.32
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (16 bp):
AAGGAAGAAGAAAAAT
Found at i:6614082 original size:23 final size:23
Alignment explanation
Indices: 6614039--6614082 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
6614029 AGATAAGATG
* *
6614039 TTTTGAAACAAAGGGTGAAAAAC
1 TTTTGAAACAAAGAGTAAAAAAC
6614062 TTTTGAAACCAAA-AGTAAAAA
1 TTTTGAAA-CAAAGAGTAAAAA
6614083 TTTTGGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (23 bp):
TTTTGAAACAAAGAGTAAAAAAC
Found at i:6614429 original size:164 final size:158
Alignment explanation
Indices: 6614148--6614536 Score: 465
Period size: 164 Copynumber: 2.4 Consensus size: 158
6614138 ATATGATTTG
* * * *
6614148 CAAAGACCTTTGGGCAAAATTTTAGATTTTTGAAAATTTCCAAGACCTCCAAGCAAAACTTTAAA
1 CAAAGA-CTTTGGGCAAAATTTTAGATTTTTG-AAGTTTTCAAGACCTCTAGGCAAAAC-TTAAA
* * * **
6614213 TTATTTTTATGATTCCAAAGACCTTTAAGTGAAACCTTTGATTTTTAAATGATCACCATGACCTC
63 TTATTTTTATGATTCCAAAGACCTTCAAGTAAAACCTTAGATTTTTAAATGATCACCAACACCTC
6614278 CAAGCAAAATCTTAAATCTTTGAATGATCTC
128 CAAGCAAAATCTTAAATCTTTGAATGATCTC
* *
6614309 CAAAGACTTGTGGGCAAAATTTTAGACTTTTGAATGTTTTCTAAGACCTCTAGGCAAAACCTAAA
1 CAAAGACTT-TGGGCAAAATTTTAGATTTTTGAA-GTTTTC-AAGACCTCTAGGCAAAACTTAAA
* * * **
6614374 TTTTTTTTTTATGATTTCTAAAGACCTTCATGTAAAACCTTAGATTTTTAAATGATTTCCAACAC
63 --TTATTTTTATGA-TTCCAAAGACCTTCAAGTAAAACCTTAGATTTTTAAATGATCACCAACAC
*
6614439 CTTCAAGCAAAATCTTAAATCTTTGAATGATCTC
125 CTCCAAGCAAAATCTTAAATCTTTGAATGATCTC
*** * *
6614473 C-AAGATCTCCAGGTAAAAATTTAGATTTTTGAACGATTTTCAAGACCTCTAGGCAAAACTTAAA
1 CAAAGA-CTTTGGGCAAAATTTTAGATTTTTGAA-G-TTTTCAAGACCTCTAGGCAAAACTTAAA
6614537 AACTTTAAAT
Statistics
Matches: 195, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
160 5 0.03
161 35 0.18
162 16 0.08
163 57 0.29
164 82 0.42
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (158 bp):
CAAAGACTTTGGGCAAAATTTTAGATTTTTGAAGTTTTCAAGACCTCTAGGCAAAACTTAAATTA
TTTTTATGATTCCAAAGACCTTCAAGTAAAACCTTAGATTTTTAAATGATCACCAACACCTCCAA
GCAAAATCTTAAATCTTTGAATGATCTC
Found at i:6614548 original size:80 final size:81
Alignment explanation
Indices: 6614163--6614612 Score: 229
Period size: 81 Copynumber: 5.6 Consensus size: 81
6614153 ACCTTTGGGC
* * * * **
6614163 AAAATTTTAGATTTTTGAA-AATTTCCAAGACCTCCAAGCAAAA-CTTTAAATTA-TTTTTATGA
1 AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCTAAGCAAAATC-TTAAA--ACTTTAAATGA
* ** *
6614225 T-TCCAAAGACCTTTAAGT
63 TCTCCAAAGATCTCCAAGA
* * * * *** * * * *
6614243 GAAACCTTTGATTTTTAAATGATCACCATGACCTCCAAGCAAAATCTTAAATCTTTGAATGATCT
1 AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCTAAGCAAAATCTTAAAACTTTAAATGATCT
**** *
6614308 CCAAAGA-CTTGTGGGC
66 CCAAAGATC-TCCAAGA
* * * * ** **
6614324 AAAATTTTAGACTTTTGAATG-TTTTCTAAGACCTCTAGGCAAAA-CCTAAATTTTTTTTTTATG
1 AAAATCTTAGATTTTTGAATGATTTTC-AAGACCTCTAAGCAAAATCTTAAA---ACTTTAAATG
* * * * * *
6614387 ATTTCTAAAGACCTTCATGT
62 ATCTCCAAAGATCTCCAAGA
* * * * * *
6614407 AAAACCTTAGATTTTTAAATGATTTCCAACACCT-TCAAGCAAAATCTTAAATCTTTGAATGATC
1 AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCT-AAGCAAAATCTTAAAACTTTAAATGATC
*
6614471 TCC-AAGATCTCCAGGTA
65 TCCAAAGATCTCCAAG-A
* * *
6614488 AAAAT-TTAGATTTTTGAACGATTTTCAAGACCTCTAGGCAAAA-CTTAAAAACTTTAAATGATT
1 AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCTAAGCAAAATCTT-AAAACTTTAAATGATC
6614551 TCCAAAGATCTCCAAGA
65 TCCAAAGATCTCCAAGA
* * * * *
6614568 AAAATCTTAAATCTTTGAATGATCTTAAAGACCTCTAAGAAAAAT
1 AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCTAAGCAAAAT
6614613 TTTAGATTTT
Statistics
Matches: 278, Mismatches: 73, Indels: 36
0.72 0.19 0.09
Matches are distributed among these distances:
79 3 0.01
80 92 0.33
81 123 0.44
82 2 0.01
83 48 0.17
84 10 0.04
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (81 bp):
AAAATCTTAGATTTTTGAATGATTTTCAAGACCTCTAAGCAAAATCTTAAAACTTTAAATGATCT
CCAAAGATCTCCAAGA
Found at i:6614591 original size:121 final size:121
Alignment explanation
Indices: 6614420--6614678 Score: 342
Period size: 121 Copynumber: 2.1 Consensus size: 121
6614410 ACCTTAGATT
* * * * *
6614420 TTTAAATGATTTCC-AACACCTTCAAGCAAAATCTTAAATCTTTGAATGATCTCCAAGATCTCCA
1 TTTAAATGATTTCCAAAGACCTCCAAGAAAAATCTTAAATCTTTGAATGATCTCAAAGACCTCCA
* *
6614484 GGTAAAAA-TTTAGATTTTTGAACGATTTTCAAGACCTCTAGGCAAAACTTAAAAAC
66 AG-AAAAATTTTAGATTTTTGAACGATTTCCAAGACCTCTAGGCAAAACTTAAAAAC
* * *
6614540 TTTAAATGATTTCCAAAGATCTCCAAGAAAAATCTTAAATCTTTGAATGATCTTAAAGACCTCTA
1 TTTAAATGATTTCCAAAGACCTCCAAGAAAAATCTTAAATCTTTGAATGATCTCAAAGACCTCCA
* * * * **
6614605 AGAAAAATTTTAGATTTTTGAATGATTTCCAAGACCTTTAGGCAAATCTTTAAATT
66 AGAAAAATTTTAGATTTTTGAACGATTTCCAAGACCTCTAGGCAAAACTTAAAAAC
*
6614661 TTTAAATGATTTTCAAAG
1 TTTAAATGATTTCCAAAG
6614679 TCTTCTTGGT
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
120 19 0.16
121 101 0.84
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (121 bp):
TTTAAATGATTTCCAAAGACCTCCAAGAAAAATCTTAAATCTTTGAATGATCTCAAAGACCTCCA
AGAAAAATTTTAGATTTTTGAACGATTTCCAAGACCTCTAGGCAAAACTTAAAAAC
Found at i:6614662 original size:40 final size:40
Alignment explanation
Indices: 6614140--6614996 Score: 223
Period size: 40 Copynumber: 21.2 Consensus size: 40
6614130 GAATGAGTAT
* * *
6614140 ATGATTTGCAAAGACCTTTGGGCAAAAT-TTTAGATTTTTGA
1 ATGATTT-CCAAGACCTTTAGGC-AAATCTTTAAATTTTTGA
* ** * * **
6614181 A-AATTTCCAAGACCTCCAAGCAAAACTTTAAATTATTTTT
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATT-TTTGA
* * *
6614221 ATGA-TTCCAAAGACCTTTAAGTG-AAACCTTT-GATTTTTAA
1 ATGATTTCC-AAGACCTTT-AG-GCAAATCTTTAAATTTTTGA
** * ** * *
6614261 ATGATCACCATGACCTCCAAGCAAAATC-TTAAATCTTTGA
1 ATGATTTCCAAGACCTTTAGGC-AAATCTTTAAATTTTTGA
* * * *
6614301 ATGATCTCCAAAGA-CTTGTGGGCAAAAT-TTTAGACTTTTGA
1 ATGATTTCC-AAGACCTT-TAGGC-AAATCTTTAAATTTTTGA
* * * * * **
6614342 ATGTTTTCTAAGACCTCTAGGCAAAAC-CTAAATTTTTTTTTT
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAA---TTTTTGA
* * * * * * * *
6614384 ATGATTTCTAAAGACCTTCATGTAAAACCTTAGATTTTTAA
1 ATGATTTC-CAAGACCTTTAGGCAAATCTTTAAATTTTTGA
* * * *
6614425 ATGATTTCCAACACCTTCAAGCAAAATC-TTAAATCTTTGA
1 ATGATTTCCAAGACCTTTAGGC-AAATCTTTAAATTTTTGA
* * ** * ** *
6614465 ATGATCTCCAAGATCTCCAGGTAAAAATTTAGATTTTTGA
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTGA
* * * * * ** *
6614505 ACGATTTTCAAGACCTCTAGGCAAAACTTAAAAACTTTAA
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTGA
* ** ** *
6614545 ATGATTTCCAAAGATCTCCAAGAAAAATC-TTAAATCTTTGA
1 ATGATTTCC-AAGACCT-TTAGGCAAATCTTTAAATTTTTGA
* * ** *
6614586 ATGATCTT-AAAGACCTCTAAGAAAAAT-TTTAGATTTTTGA
1 ATGAT-TTCCAAGACCT-TTAGGCAAATCTTTAAATTTTTGA
*
6614626 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTAA
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTGA
* * * * * * *
6614666 ATGATTTTCAA-AGTCTTCTTGGTGAAAT-TTCAATTTTTTAA
1 ATGATTTCCAAGA-CCTT-TAGG-CAAATCTTTAAATTTTTGA
* * * ***
6614707 ATGATTTCCAA-ACACTCTGGGTAAAATC-TTAAAAAATTGA
1 ATGATTTCCAAGAC-CTTTAGG-CAAATCTTTAAATTTTTGA
* * *
6614747 ATGATCTCCAAGACCTTT-GGATAAAAT-TTTAGATTTTTGA
1 ATGATTTCCAAGACCTTTAGG--CAAATCTTTAAATTTTTGA
* *
6614787 ATGATTTCCAAAGACCTTTAGGCAAAATC-TTAGATTTTTAA
1 ATGATTTCC-AAGACCTTTAGGC-AAATCTTTAAATTTTTGA
* ** ** *
6614828 ATGATTTCAAAAGACC-TCCGAGCAAAATC-TTAAAACTTTAA
1 ATGATTTC-CAAGACCTTTAG-GC-AAATCTTTAAATTTTTGA
* * * * *
6614869 ATGATCTCTAAGACCTCTAGGAAAAAT-TTTAGATTTTTGA
1 ATGATTTCCAAGACCTTTAGG-CAAATCTTTAAATTTTTGA
* * * * *
6614909 AAGATTTTCAAAAACTTATGGGCAAAATC-TTAAATTTTTGA
1 ATGATTTCCAAGACCTT-TAGGC-AAATCTTTAAATTTTTGA
* * * * * * * *
6614950 AGGATTTTCAAAACCCTTAAGCAAAACTTTGAATTTTTAA
1 ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTGA
6614990 ATGATTT
1 ATGATTT
6614997 TCTAAGATCT
Statistics
Matches: 597, Mismatches: 170, Indels: 99
0.69 0.20 0.11
Matches are distributed among these distances:
38 4 0.01
39 45 0.08
40 294 0.49
41 202 0.34
42 34 0.06
43 15 0.03
44 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (40 bp):
ATGATTTCCAAGACCTTTAGGCAAATCTTTAAATTTTTGA
Found at i:6614816 original size:81 final size:82
Alignment explanation
Indices: 6614544--6614845 Score: 267
Period size: 81 Copynumber: 3.7 Consensus size: 82
6614534 AAAAACTTTA
* * * * * * **
6614544 AATGATTTCCAAAGATCTCCAAGAAAAATCTTAAATCTTTGAATGATCTTAAAGACCTCTAAGA-
1 AATGATTTCCAAAGACCTCTAGGCAAAATCTTAAATATTTGAATGATCTCAAAGACCTCTTGGAT
6614608 AAAATTTTAGATTTTTG
66 AAAATTTTAGATTTTTG
* * * * * *
6614625 AATGATTTCC-AAGACCTTTAGGC-AAATCTTTAAATTTTTAAATGATTTTCAAAGTCTTCTTGG
1 AATGATTTCCAAAGACCTCTAGGCAAAATC-TTAAATATTTGAATGA-TCTCAAAGACCTCTTGG
* * *
6614688 -TGAAATTTCA-ATTTTTTA
64 ATAAAATTTTAGA-TTTTTG
* * * * * *
6614706 AATGATTTCCAAACA-CTCTGGGTAAAATCTTAAAAAATTGAATGATCTCCAAGACCT-TTGGAT
1 AATGATTTCCAAAGACCTCTAGGCAAAATCTTAAATATTTGAATGATCTCAAAGACCTCTTGGAT
6614769 AAAATTTTAGATTTTTG
66 AAAATTTTAGATTTTTG
* * * * *
6614786 AATGATTTCCAAAGACCTTTAGGCAAAATCTTAGATTTTTAAATGATTTCAAAAGACCTC
1 AATGATTTCCAAAGACCTCTAGGCAAAATCTTAAATATTTGAATGATCTC-AAAGACCTC
6614846 CGAGCAAAAT
Statistics
Matches: 168, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
79 9 0.05
80 58 0.35
81 86 0.51
82 15 0.09
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (82 bp):
AATGATTTCCAAAGACCTCTAGGCAAAATCTTAAATATTTGAATGATCTCAAAGACCTCTTGGAT
AAAATTTTAGATTTTTG
Found at i:6614895 original size:122 final size:121
Alignment explanation
Indices: 6614700--6614963 Score: 325
Period size: 122 Copynumber: 2.2 Consensus size: 121
6614690 AAATTTCAAT
* * * * * *
6614700 TTTTTAAATGATTTCCAAACACTCTGGGTAAAATCTTAAAAAATTGAATGATCTCCAAGACCTTT
1 TTTTTAAATGATTTCAAAACACTCCGAGCAAAATCTTAAAAAATTAAATGATCTCCAAGACCTTA
* * *
6614765 GGATAAAATTTTAGATTTTTGAATGATTTCCAAAGACCTT-TAGGCAAAATCTTAGA
66 GGATAAAATTTTAGATTTTTGAAAGATTTCCAAA-AACTTATAGGCAAAATCTTAAA
* ** *
6614821 TTTTTAAATGATTTCAAAAGACCTCCGAGCAAAATCTTAAAACTTTAAATGATCTCTAAGACCTC
1 TTTTTAAATGATTTCAAAACA-CTCCGAGCAAAATCTTAAAAAATTAAATGATCTCCAAGACCT-
* *
6614886 TAGGA-AAAATTTTAGATTTTTGAAAGATTTTCAAAAACTTATGGGCAAAATCTTAAA
64 TAGGATAAAATTTTAGATTTTTGAAAGATTTCCAAAAACTTATAGGCAAAATCTTAAA
* *
6614943 TTTTTGAAGGATTTTCAAAAC
1 TTTTTAAATGA-TTTCAAAAC
6614964 CCTTAAGCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
121 23 0.19
122 86 0.71
123 12 0.10
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (121 bp):
TTTTTAAATGATTTCAAAACACTCCGAGCAAAATCTTAAAAAATTAAATGATCTCCAAGACCTTA
GGATAAAATTTTAGATTTTTGAAAGATTTCCAAAAACTTATAGGCAAAATCTTAAA
Found at i:6615771 original size:30 final size:30
Alignment explanation
Indices: 6615735--6615798 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
6615725 TTGGCTATTT
6615735 AAAAAACCAAATAAAAATATAAAATCATTA
1 AAAAAACCAAATAAAAATATAAAATCATTA
* * * * *
6615765 AAAAAACTAGATAAAAATGTAAAATTATTT
1 AAAAAACCAAATAAAAATATAAAATCATTA
6615795 AAAA
1 AAAA
6615799 TTAAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAAAACCAAATAAAAATATAAAATCATTA
Found at i:6618921 original size:9 final size:8
Alignment explanation
Indices: 6618902--6618931 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6618892 GTGATTGGCC
6618902 TTTTATTT
1 TTTTATTT
6618910 TTTTATTT
1 TTTTATTT
6618918 TTTTATTT
1 TTTTATTT
6618926 TGTTTA
1 T-TTTA
6618932 GAGAATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:6619309 original size:16 final size:16
Alignment explanation
Indices: 6619288--6619320 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6619278 TTTTTATTAT
6619288 TTTTTTATTTAT-TTTG
1 TTTTTT-TTTATATTTG
6619304 TTTTTTTTTATATTTG
1 TTTTTTTTTATATTTG
6619320 T
1 T
6619321 GTTTCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTATATTTG
Found at i:6619310 original size:18 final size:18
Alignment explanation
Indices: 6619287--6619324 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6619277 ATTTTTATTA
6619287 TTTTTTTATT-TATTT-TG
1 TTTTTTT-TTATATTTGTG
6619304 TTTTTTTTTATATTTGTG
1 TTTTTTTTTATATTTGTG
6619322 TTT
1 TTT
6619325 CATATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.63
18 5 0.26
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTATATTTGTG
Found at i:6622876 original size:18 final size:18
Alignment explanation
Indices: 6622853--6622887 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6622843 CATCATTTGA
6622853 AAAAAG-AAACAAAAAAAT
1 AAAAAGTAAA-AAAAAAAT
6622871 AAAAAGTAAAAAAAAAA
1 AAAAAGTAAAAAAAAAA
6622888 GGGGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.86, C:0.03, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAAAGTAAAAAAAAAAT
Found at i:6625903 original size:21 final size:21
Alignment explanation
Indices: 6625877--6625916 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6625867 TGTTGTCGAT
*
6625877 AATTCCTTGATGATGATATTC
1 AATTCCTGGATGATGATATTC
6625898 AATTCCTGGATGATGATAT
1 AATTCCTGGATGATGATAT
6625917 CCAAGTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (21 bp):
AATTCCTGGATGATGATATTC
Found at i:6628501 original size:15 final size:16
Alignment explanation
Indices: 6628481--6628519 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
6628471 TTGGGTCATT
6628481 TTTATTATTTA-TTTA
1 TTTATTATTTATTTTA
6628496 TTTATT-TTTATTTTA
1 TTTATTATTTATTTTA
6628511 TTTA-TATTT
1 TTTATTATTT
6628520 GTGTTTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTATTTATTTTA
Found at i:6631782 original size:13 final size:13
Alignment explanation
Indices: 6631764--6631789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6631754 GACCACTCAG
6631764 TTAGAGATATTTT
1 TTAGAGATATTTT
6631777 TTAGAGATATTTT
1 TTAGAGATATTTT
6631790 GGGGCTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGAGATATTTT
Found at i:6642525 original size:13 final size:13
Alignment explanation
Indices: 6642507--6642656 Score: 115
Period size: 13 Copynumber: 11.4 Consensus size: 13
6642497 TTCATAAATT
6642507 CCTAAATTGAAAC
1 CCTAAATTGAAAC
* *
6642520 CCTAAACTAAAAC
1 CCTAAATTGAAAC
* *
6642533 CCTAAGATTAAAAT
1 CCTAA-ATTGAAAC
* * *
6642547 CTTAAACTAAAAC
1 CCTAAATTGAAAC
*
6642560 CCTAAATTGAAAT
1 CCTAAATTGAAAC
*
6642573 CCTAAACTGAAAC
1 CCTAAATTGAAAC
*
6642586 CTTAAATTGAAA-
1 CCTAAATTGAAAC
* *
6642598 CCTTAATCGAAAC
1 CCTAAATTGAAAC
*
6642611 CCTAAA-TCAAATC
1 CCTAAATTGAAA-C
*
6642624 CCTAAATTAAAATC
1 CCTAAATTGAAA-C
*
6642638 CCTAAGGTTGAAAC
1 CCTAA-ATTGAAAC
6642652 CCTAA
1 CCTAA
6642657 TTAGAACCCA
Statistics
Matches: 108, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
12 12 0.11
13 64 0.59
14 27 0.25
15 5 0.05
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (13 bp):
CCTAAATTGAAAC
Found at i:6642537 original size:26 final size:26
Alignment explanation
Indices: 6642507--6642656 Score: 142
Period size: 26 Copynumber: 5.7 Consensus size: 26
6642497 TTCATAAATT
6642507 CCTAAATTGAAACCCTAAACTAAAAC
1 CCTAAATTGAAACCCTAAACTAAAAC
* * *
6642533 CCTAAGATTAAAATCTTAAACTAAAAC
1 CCTAA-ATTGAAACCCTAAACTAAAAC
* *
6642560 CCTAAATTGAAATCCTAAACTGAAAC
1 CCTAAATTGAAACCCTAAACTAAAAC
* * * *
6642586 CTTAAATTGAAACCTTAATC-GAAAC
1 CCTAAATTGAAACCCTAAACTAAAAC
* *
6642611 CCTAAA-TCAAATCCCTAAATTAAAATC
1 CCTAAATTGAAA-CCCTAAACTAAAA-C
*
6642638 CCTAAGGTTGAAACCCTAA
1 CCTAA-ATTGAAACCCTAA
6642657 TTAGAACCCA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.04
25 15 0.15
26 42 0.42
27 29 0.29
28 6 0.06
29 4 0.04
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (26 bp):
CCTAAATTGAAACCCTAAACTAAAAC
Found at i:6642742 original size:92 final size:92
Alignment explanation
Indices: 6642631--6642840 Score: 366
Period size: 92 Copynumber: 2.2 Consensus size: 92
6642621 ATCCCTAAAT
*
6642631 TAAAATCCCTAAGGTTGAAACCCTAATTAGAACCCACAAGTCCGAAACCTGTAAACCCTAAACCC
1 TAAAAT-CCT-AGG-TGAAACCCTAATTAGAACCCACAAGTCCGAAACCTATAAACCCTAAACCC
*
6642696 TAGGTAAAATCTTAAACCCTAAGGAAACCC
63 TAGGCAAAATCTTAAACCCTAAGGAAACCC
*
6642726 TAAAATCCTAGGTGAAACCCTAATTAGAACCCACAAGTTCGAAACCTATAAACCCTAAACCCTAG
1 TAAAATCCTAGGTGAAACCCTAATTAGAACCCACAAGTCCGAAACCTATAAACCCTAAACCCTAG
6642791 GCAAAATCTTAAACCCTAAGGAAACCC
66 GCAAAATCTTAAACCCTAAGGAAACCC
6642818 TAAAATCCTAGGTGAAACCCTAA
1 TAAAATCCTAGGTGAAACCCTAA
6642841 ACTTTAGGTC
Statistics
Matches: 112, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
92 100 0.89
93 3 0.03
94 3 0.03
95 6 0.05
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (92 bp):
TAAAATCCTAGGTGAAACCCTAATTAGAACCCACAAGTCCGAAACCTATAAACCCTAAACCCTAG
GCAAAATCTTAAACCCTAAGGAAACCC
Found at i:6643512 original size:19 final size:19
Alignment explanation
Indices: 6643471--6643513 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6643461 TATGTCAAAG
* **
6643471 AATTTGAATGTATTTATTT
1 AATTTGAATATATTTATAA
*
6643490 AATTTGAATATTTTTATAA
1 AATTTGAATATATTTATAA
6643509 AATTT
1 AATTT
6643514 CTAAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
AATTTGAATATATTTATAA
Found at i:6646259 original size:20 final size:20
Alignment explanation
Indices: 6646234--6646272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6646224 TTGTCATTTG
* *
6646234 TCATTTATGCATTCATTCAT
1 TCATTTATCCATCCATTCAT
6646254 TCATTTATCCATCCATTCA
1 TCATTTATCCATCCATTCA
6646273 ATAGAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.46
Consensus pattern (20 bp):
TCATTTATCCATCCATTCAT
Found at i:6649239 original size:8 final size:7
Alignment explanation
Indices: 6649221--6649297 Score: 59
Period size: 7 Copynumber: 10.4 Consensus size: 7
6649211 AAGAATGGTG
6649221 AAAAGAA
1 AAAAGAA
*
6649228 AAAGGAA
1 AAAAGAA
6649235 AAAAGAA
1 AAAAGAA
6649242 AAGTGAAGAA
1 AA---AAGAA
*
6649252 AAAGAGTA
1 AAA-AGAA
*
6649260 AAATGAA
1 AAAAGAA
6649267 AAAA-AA
1 AAAAGAA
6649273 AAAA-AA
1 AAAAGAA
6649279 AGAAAGAA
1 A-AAAGAA
6649287 AGAAAGAA
1 A-AAAGAA
6649295 AAA
1 AAA
6649298 CAATAGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
6 9 0.16
7 25 0.43
8 17 0.29
10 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:6649266 original size:18 final size:17
Alignment explanation
Indices: 6649232--6649296 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
6649222 AAAGAAAAAG
6649232 GAAAAAAGAAAAGTGAA
1 GAAAAAAGAAAAGTGAA
6649249 GAAAAAGAGTAAAA-TGAAA
1 GAAAAA-AG-AAAAGTG-AA
* * *
6649268 AAAAAAAAAAAAG-AAA
1 GAAAAAAGAAAAGTGAA
6649284 GAAAGAAAGAAAA
1 GAAA-AAAGAAAA
6649297 ACAATAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 5 0.13
17 17 0.45
18 5 0.13
19 11 0.29
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
GAAAAAAGAAAAGTGAA
Found at i:6649599 original size:35 final size:34
Alignment explanation
Indices: 6649527--6649675 Score: 126
Period size: 35 Copynumber: 4.4 Consensus size: 34
6649517 AGCATAGAGG
* *
6649527 TTTAAACCTAATTTAGCTGGC-CTTA-AAAAAGA
1 TTTAAGCCTAATTTAGCTGGCACTTATGAAAAGA
6649559 TTTAAGCCTAATTTAGCTGGCACTTGATGAAAAGA
1 TTTAAGCCTAATTTAGCTGGCACTT-ATGAAAAGA
* * * **
6649594 TTTAAGCCCAGTTTAGTTGGCACCCAATG--AAGA
1 TTTAAGCCTAATTTAGCTGGCA-CTTATGAAAAGA
* ** * * *
6649627 TTTAAACCTAGCTTATCTGGCACTCATGAAAATA
1 TTTAAGCCTAATTTAGCTGGCACTTATGAAAAGA
*
6649661 TTTAGGCCTAATTTA
1 TTTAAGCCTAATTTA
6649676 TTTGGCCTCA
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
32 24 0.26
33 24 0.26
34 15 0.16
35 28 0.30
36 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (34 bp):
TTTAAGCCTAATTTAGCTGGCACTTATGAAAAGA
Found at i:6649681 original size:67 final size:68
Alignment explanation
Indices: 6649555--6649681 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 68
6649545 GGCCTTAAAA
* * * *
6649555 AAGATTTAAGCCTAATTTAGCTGGCACTTGATGAAAAGATTTAAGCCCAGTTTAGTTGGCACCCA
1 AAGATTTAAACCTAACTTAGCTGGCACTTCATGAAAAGATTTAAGCCCAATTTAGTTGGCACCCA
6649620 ATG
66 ATG
* * * * * *
6649623 AAGATTTAAACCTAGCTTATCTGGCAC-TCATGAAAATATTTAGGCCTAATTTATTTGGC
1 AAGATTTAAACCTAACTTAGCTGGCACTTCATGAAAAGATTTAAGCCCAATTTAGTTGGC
6649682 CTCAGAGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
67 26 0.53
68 23 0.47
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (68 bp):
AAGATTTAAACCTAACTTAGCTGGCACTTCATGAAAAGATTTAAGCCCAATTTAGTTGGCACCCA
ATG
Found at i:6649735 original size:30 final size:30
Alignment explanation
Indices: 6649668--6649725 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
6649658 ATATTTAGGC
*
6649668 CTAA-TTTATTTGGCCTCAGAGAAATTAAA
1 CTAAGTTTATTTGGCATCAGAGAAATTAAA
* *
6649697 CTCAGTTTATTTGGCATTAGAGAAATTAA
1 CTAAGTTTATTTGGCATCAGAGAAATTAA
6649726 GGCAAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (30 bp):
CTAAGTTTATTTGGCATCAGAGAAATTAAA
Found at i:6649818 original size:32 final size:33
Alignment explanation
Indices: 6649782--6650780 Score: 150
Period size: 33 Copynumber: 30.7 Consensus size: 33
6649772 AAATCCAATG
6649782 AAGATTTAAGCCCAATTTAGCTTA-CA-CTAAT-A
1 AAGATTTAAGCCCAATTTAGC-TAGCATC-AATAA
* *
6649814 AAGATTTAAACCCAGTTTAGCTAGCATCAATAA
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * *
6649847 AAGATTTAAGCCCAATTTATCTAACACCCCATGAA
1 AAGATTTAAGCCCAATTTAGCTAGCA-TCAAT-AA
** * * **
6649882 AAGATTTAATTCCAGTTTAGCTGGCA-C---CC
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * * * *
6649911 AAGATTTAAGCCTAGTTTTGTTGGCA-C-CT--
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * * *
6649940 AGGTTTTAAGCCTAGTTTATCTAGCACCTC-ATGAA
1 AAGATTTAAGCCCAATTTAGCTAGCA--TCAAT-AA
*
6649975 AAGATTTAAG-CCAAGTTTGGCT-GTCATCAATGAA
1 AAGATTTAAGCCCAA-TTTAGCTAG-CATCAAT-AA
*
6650009 AA-ATTTAAG-CTAAGTTTAGCTAGCACTCAATAA
1 AAGATTTAAGCCCAA-TTTAGCTAGCA-TCAATAA
* * * * *
6650042 AAAATTTTAAGTCTAAGTTGGCTAGCATCTAA-AGA
1 AAGA-TTTAAGCCCAATTTAGCTAGCATC-AATA-A
* * * *
6650077 AA-ATTTAAGCCCAAATTACCTAGC-CCAAT-G
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * *
6650107 AAGTTTTAAGCCCAGA-TTATCTGGCCCTC-ATGAA
1 AAGATTTAAGCCCA-ATTTAGCTAG-CATCAAT-AA
* * * *
6650141 AAGATTTAAGTCCAGA-TTAGTTGGGA-C--T--
1 AAGATTTAAGCCCA-ATTTAGCTAGCATCAATAA
* * * * * * *
6650169 CA-ATTTAAGCCTAAATAACCTAGCCT-AAT-G
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * *
6650199 AAGTTTTAAGCCCAATTTAGCTGGCACCAATGA
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * *
6650232 AA-A-TTAAGCACAGTTTATCTAGCATCTCATGAA
1 AAGATTTAAGCCCAATTTAGCTAGCATC-AAT-AA
* * * * *
6650265 AAGATTTAAGCCCAAGTTGGCTGGCACCCAAT-T
1 AAGATTTAAGCCCAATTTAGCTAGCA-TCAATAA
* * * *
6650298 AAGATTTAAGCCCAAATTACCTGGTCCTC-ATGAA
1 AAGATTTAAGCCCAATTTAGCTAG-CATCAAT-AA
* * * **
6650332 AGGATTTAAGCCTAGTTTAGCT-GACATC-ATTG
1 AAGATTTAAGCCCAATTTAGCTAG-CATCAATAA
* * *
6650364 AA-ACTTAAGCCCAATTTATCTAGCACCTC-ATGGA
1 AAGATTTAAGCCCAATTTAGCTAGCA--TCAAT-AA
* *
6650398 AAGATTTAAG-CCAGTTTAGCTGGC-TGCAATAA
1 AAGATTTAAGCCCAATTTAGCTAGCAT-CAATAA
* ** **
6650430 AA-ATTTATGCCCTGTTTAGCTAGCACTTTATGAA
1 AAGATTTAAGCCCAATTTAGCTAGCA-TCAAT-AA
* * * * *
6650464 AAGATTTAAGCCTAGTTTAACTAACATCAATGA
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * * *
6650497 AAGATTTAAGCCTAGTTT-GACTGGCATCAATTA
1 AAGATTTAAGCCCAATTTAG-CTAGCATCAATAA
*
6650530 AAGATTTAAGTCCC-GTTTAGCTAGCA-CATCATGAA
1 AAGATTTAAG-CCCAATTTAGCTAGCATCA--AT-AA
* * **
6650565 AAGATTTAAGTCCAATTTAACTAGCA-C---CC
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* * ** *
6650594 AAGTTTTAAGCCCAGTATTAATTAGCA-CTAATGA
1 AAGATTTAAGCCCAAT-TTAGCTAGCATC-AATAA
* * * *
6650628 AA-ATTTAAACCCAGTTTA-CATAGC-CCTTATAAA
1 AAGATTTAAGCCCAATTTAGC-TAGCATC-AAT-AA
* * * * *
6650661 AAAATTTAAACCCGATTTAGCTGGCACCAAT-A
1 AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
* *
6650693 AAGATTTAAGCCCAATTTAACTGGCACTCAAT-A
1 AAGATTTAAGCCCAATTTAGCTAGCA-TCAATAA
* * * * * *
6650726 AGGATTTAAGCTCAGA-TTAGTTTGCACTCAGTGA
1 AAGATTTAAGCCCA-ATTTAGCTAGCA-TCAATAA
6650760 AA-ATTTAAGCCCAATTTAGCT
1 AAGATTTAAGCCCAATTTAGCT
6650781 GGCAACAAGA
Statistics
Matches: 714, Mismatches: 173, Indels: 159
0.68 0.17 0.15
Matches are distributed among these distances:
26 1 0.00
27 13 0.02
28 1 0.00
29 56 0.08
30 13 0.02
31 79 0.11
32 94 0.13
33 214 0.30
34 115 0.16
35 123 0.17
36 5 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (33 bp):
AAGATTTAAGCCCAATTTAGCTAGCATCAATAA
Found at i:6649855 original size:33 final size:31
Alignment explanation
Indices: 6649782--6649865 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 31
6649772 AAATCCAATG
6649782 AAGATTTAAGCCCAATTTAGCTTACACTAAT-A
1 AAGATTTAAGCCCAATTTAGC-TACAC-AATAA
* *
6649814 AAGATTTAAACCCAGTTTAGCTAGCATCAATAA
1 AAGATTTAAGCCCAATTTAGCTA-CA-CAATAA
6649847 AAGATTTAAGCCCAATTTA
1 AAGATTTAAGCCCAATTTA
6649866 TCTAACACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
31 2 0.04
32 24 0.53
33 19 0.42
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (31 bp):
AAGATTTAAGCCCAATTTAGCTACACAATAA
Found at i:6649910 original size:35 final size:34
Alignment explanation
Indices: 6649782--6649912 Score: 108
Period size: 35 Copynumber: 3.9 Consensus size: 34
6649772 AAATCCAATG
* * *
6649782 AAGATTTAAGCCCAATTTAGCTTA-CA-CTAAT-A
1 AAGATTTAAACCCAGTTTAGC-TAGCACCCAATAA
*
6649814 AAGATTTAAACCCAGTTTAGCTAGCA-TCAATAA
1 AAGATTTAAACCCAGTTTAGCTAGCACCCAATAA
* * * * *
6649847 AAGATTTAAGCCCAATTTATCTAACACCCCATGAA
1 AAGATTTAAACCCAGTTTAGCTAGCACCCAAT-AA
** *
6649882 AAGATTTAATTCCAGTTTAGCTGGCACCCAA
1 AAGATTTAAACCCAGTTTAGCTAGCACCCAA
6649913 GATTTAAGCC
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
31 2 0.03
32 24 0.31
33 23 0.29
34 3 0.04
35 26 0.33
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (34 bp):
AAGATTTAAACCCAGTTTAGCTAGCACCCAATAA
Found at i:6649927 original size:29 final size:29
Alignment explanation
Indices: 6649882--6649967 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 29
6649872 ACCCCATGAA
*
6649882 AAGATTTAATTCC-AGTTTAGCTGGCACCC
1 AAGATTTAA-GCCTAGTTTAGCTGGCACCC
* * *
6649911 AAGATTTAAGCCTAGTTTTGTTGGCACCT
1 AAGATTTAAGCCTAGTTTAGCTGGCACCC
* * * *
6649940 AGGTTTTAAGCCTAGTTTATCTAGCACC
1 AAGATTTAAGCCTAGTTTAGCTGGCACC
6649968 TCATGAAAAG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 2 0.04
29 44 0.96
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (29 bp):
AAGATTTAAGCCTAGTTTAGCTGGCACCC
Found at i:6649992 original size:35 final size:34
Alignment explanation
Indices: 6649944--6650591 Score: 163
Period size: 33 Copynumber: 19.7 Consensus size: 34
6649934 GCACCTAGGT
* *
6649944 TTTAAGCCTAGTTTATCTAGCACCTC-ATGAAAAGA
1 TTTAAGCCAAGTTTAGCTAGCA-CTCAATGAAAA-A
*
6649979 TTTAAGCCAAGTTTGGCT-GTCA-TCAATGAAAAA
1 TTTAAGCCAAGTTTAGCTAG-CACTCAATGAAAAA
* *
6650012 TTTAAGCTAAGTTTAGCTAGCACTCAATAAAAAA
1 TTTAAGCCAAGTTTAGCTAGCACTCAATGAAAAA
* * *
6650046 TTTTAAGTCTAAG-TTGGCTAGCA-TCTAAAG-AAAA
1 -TTTAAG-CCAAGTTTAGCTAGCACTC-AATGAAAAA
* * **
6650080 TTTAAGCCCAA-ATTACCTAGC-C-CAATG-AAGT
1 TTTAAG-CCAAGTTTAGCTAGCACTCAATGAAAAA
* * * * *
6650111 TTTAAGCCCAGATTATCTGGCCCTC-ATGAAAAGA
1 TTTAAGCCAAGTTTAGCTAGCACTCAATGAAAA-A
* * * *
6650145 TTTAAGTCC-AGATTAGTTGGGACTC-------AA
1 TTTAAG-CCAAGTTTAGCTAGCACTCAATGAAAAA
* * * **
6650172 TTTAAGCCTAA-ATAACCTAGC-CT-AATG-AAGT
1 TTTAAGCC-AAGTTTAGCTAGCACTCAATGAAAAA
*
6650203 TTTAAGCCCAA-TTTAGCTGGCAC-CAATG-AAAA
1 TTTAAG-CCAAGTTTAGCTAGCACTCAATGAAAAA
*
6650235 -TTAAG-CACAGTTTATCTAGCATCTC-ATGAAAAGA
1 TTTAAGCCA-AGTTTAGCTAGCA-CTCAATGAAAA-A
* * * * *
6650269 TTTAAGCCCAAG-TTGGCTGGCACCCAAT-TAAGA
1 TTTAAG-CCAAGTTTAGCTAGCACTCAATGAAAAA
* * * *
6650302 TTTAAGCCCAA-ATTACCTGGTC-CTC-ATGAAAGGA
1 TTTAAG-CCAAGTTTAGCTAG-CACTCAATGAAA-AA
* *
6650336 TTTAAGCCTAGTTTAGCT-G-ACATCATTG--AAA
1 TTTAAGCCAAGTTTAGCTAGCAC-TCAATGAAAAA
* * *
6650367 CTTAAGCCCAA-TTTATCTAGCACCTC-ATGGAAAGA
1 TTTAAG-CCAAGTTTAGCTAGCA-CTCAAT-GAAAAA
*
6650402 TTTAAGCC-AGTTTAGCT-G-GCTGCAAT-AAAAA
1 TTTAAGCCAAGTTTAGCTAGCACT-CAATGAAAAA
* ** **
6650433 TTTATGCCCTGTTTAGCTAGCACTTTATGAAAAGA
1 TTTAAGCCAAGTTTAGCTAGCACTCAATGAAAA-A
* * * *
6650468 TTTAAGCCTAGTTTAACTAACA-TCAATGAAAGA
1 TTTAAGCCAAGTTTAGCTAGCACTCAATGAAAAA
* * * *
6650501 TTTAAGCCTAGTTT-GACTGGCA-TCAATTAAAGA
1 TTTAAGCCAAGTTTAG-CTAGCACTCAATGAAAAA
*
6650534 TTTAAGTCC-CGTTTAGCTAGCACATC-ATGAAAAGA
1 TTTAAG-CCAAGTTTAGCTAGCAC-TCAATGAAAA-A
*
6650569 TTTAAGTCCAA-TTTAACTAGCAC
1 TTTAAG-CCAAGTTTAGCTAGCAC
6650592 CCAAGTTTTA
Statistics
Matches: 460, Mismatches: 87, Indels: 132
0.68 0.13 0.19
Matches are distributed among these distances:
26 4 0.01
27 12 0.03
28 2 0.00
29 2 0.00
30 4 0.01
31 72 0.16
32 36 0.08
33 127 0.28
34 94 0.20
35 98 0.21
36 7 0.02
37 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (34 bp):
TTTAAGCCAAGTTTAGCTAGCACTCAATGAAAAA
Found at i:6650063 original size:68 final size:67
Alignment explanation
Indices: 6649944--6650086 Score: 152
Period size: 68 Copynumber: 2.1 Consensus size: 67
6649934 GCACCTAGGT
* * *
6649944 TTTAAGCCTAGTTTATCTAGCACCTCATGAAAAGATTTAAGCCAAGTTTGGCT-GTCATC-AATG
1 TTTAAG-CTAGTTTAGCTAGCACCTCATGAAAAAATTTAAGCCAAGTTTGGCTAG-CATCTAAAG
6650007 AAAAA
64 -AAAA
*
6650012 TTTAAGCTAAGTTTAGCTAGCA-CTCAAT-AAAAAATTTTAAGTCTAAG-TTGGCTAGCATCTAA
1 TTTAAGCT-AGTTTAGCTAGCACCTC-ATGAAAAAA-TTTAAG-CCAAGTTTGGCTAGCATCTAA
6650074 AGAAAA
62 AGAAAA
6650080 TTTAAGC
1 TTTAAGC
6650087 CCAAATTACC
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
67 10 0.15
68 47 0.72
69 8 0.12
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (67 bp):
TTTAAGCTAGTTTAGCTAGCACCTCATGAAAAAATTTAAGCCAAGTTTGGCTAGCATCTAAAGAA
AA
Found at i:6650548 original size:101 final size:99
Alignment explanation
Indices: 6650396--6650587 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 99
6650386 GCACCTCATG
* * *
6650396 GAAAGATTTAAGCCAGTTTAGCTGGCTGCAATAAAAATTTATGCCCTGTTTAGCTAGCACTTTAT
1 GAAAGATTTAAGCCAGTTTAGCTGGCTGCAATAAAAATTTAAGCCCTGTTTAGCTAGCACATCAT
*
6650461 GAAAAGATTTAAG-CCTAGTTTAACTAACATCAAT
66 GAAAAGATTTAAGTCC-AATTTAACTAACATCAAT
*
6650495 GAAAGATTTAAGCCTAGTTT-GACTGGCAT-CAATTAAAGATTTAAGTCCC-GTTTAGCTAGCAC
1 GAAAGATTTAAGCC-AGTTTAG-CTGGC-TGCAA-TAAAAATTTAAG-CCCTGTTTAGCTAGCAC
6650557 ATCATGAAAAGATTTAAGTCCAATTTAACTA
61 ATCATGAAAAGATTTAAGTCCAATTTAACTA
6650588 GCACCCAAGT
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
99 15 0.18
100 13 0.16
101 49 0.60
102 5 0.06
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (99 bp):
GAAAGATTTAAGCCAGTTTAGCTGGCTGCAATAAAAATTTAAGCCCTGTTTAGCTAGCACATCAT
GAAAAGATTTAAGTCCAATTTAACTAACATCAAT
Found at i:6650725 original size:33 final size:34
Alignment explanation
Indices: 6650195--6650784 Score: 251
Period size: 33 Copynumber: 17.9 Consensus size: 34
6650185 AACCTAGCCT
*
6650195 AATG-AAGTTTTAAGCCCAATTTAGCTGGCAC-C
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCACTC
* * * *
6650227 AATGAAA-A-TTAAGCACAGTTTATCTAGCATCTC
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCA-CTC
* * *
6650260 -ATGAAAAGATTTAAGCCCAAGTTGGCTGGCACCC
1 AATG-AAAGATTTAAGCCCAATTTAGCTGGCACTC
* * *
6650294 AAT-TAAGATTTAAGCCCAAATTACCTGGTC-CTC
1 AATGAAAGATTTAAGCCCAATTTAGCTGG-CACTC
* * *
6650327 -ATGAAAGGATTTAAGCCTAGTTTAGCTGACA-TC
1 AATGAAA-GATTTAAGCCCAATTTAGCTGGCACTC
* * * *
6650360 ATTG-AA-ACTTAAGCCCAATTTATCTAGCACCTC
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCA-CTC
*
6650393 -ATGGAAAGATTTAAG-CCAGTTTAGCTGG--CTGC
1 AAT-GAAAGATTTAAGCCCAATTTAGCTGGCACT-C
* * ** * *
6650425 AAT-AAAAATTTATGCCCTGTTTAGCTAGCACTT
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCACTC
* * * * **
6650458 TATGAAAAGATTTAAGCCTAGTTTAACTAACA-TC
1 AATG-AAAGATTTAAGCCCAATTTAGCTGGCACTC
* *
6650492 AATGAAAGATTTAAGCCTAGTTT-GACTGGCA-TC
1 AATGAAAGATTTAAGCCCAATTTAG-CTGGCACTC
* * *
6650525 AATTAAAGATTTAAGTCCC-GTTTAGCTAGCACATC
1 AATGAAAGATTTAAG-CCCAATTTAGCTGGCAC-TC
* * *
6650560 -ATGAAAAGATTTAAGTCCAATTTAACTAGCAC-C
1 AATG-AAAGATTTAAGCCCAATTTAGCTGGCACTC
* * * ** *
6650593 ----CAAGTTTTAAGCCCAGTATTAATTAGCACT-
1 AATGAAAGATTTAAGCCCAAT-TTAGCTGGCACTC
* * * *
6650623 AATGAAA-ATTTAAACCCAGTTTA-CATAGCCCT-
1 AATGAAAGATTTAAGCCCAATTTAGC-TGGCACTC
* * * * *
6650655 TATAAAAAAATTTAAACCCGATTTAGCTGGCAC-C
1 AAT-GAAAGATTTAAGCCCAATTTAGCTGGCACTC
*
6650689 AAT-AAAGATTTAAGCCCAATTTAACTGGCACTC
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCACTC
* * * *
6650722 AAT-AAGGATTTAAGCTCAGA-TTAGTTTGCACTC
1 AATGAAAGATTTAAGCCCA-ATTTAGCTGGCACTC
*
6650755 AGTGAAA-ATTTAAGCCCAATTTAGCTGGCA
1 AATGAAAGATTTAAGCCCAATTTAGCTGGCA
6650785 ACAAGAATAA
Statistics
Matches: 422, Mismatches: 90, Indels: 91
0.70 0.15 0.15
Matches are distributed among these distances:
29 13 0.03
30 10 0.02
31 45 0.11
32 59 0.14
33 153 0.36
34 73 0.17
35 69 0.16
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (34 bp):
AATGAAAGATTTAAGCCCAATTTAGCTGGCACTC
Found at i:6650980 original size:13 final size:13
Alignment explanation
Indices: 6650959--6650999 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
6650949 TTTATTTTTG
*
6650959 ACAAAAAAACAAA
1 ACAAGAAAACAAA
6650972 ACAAGAAAACAAA
1 ACAAGAAAACAAA
6650985 ACAAGAAAAACAAA
1 ACAAG-AAAACAAA
6650999 A
1 A
6651000 AAATAGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.80, C:0.15, G:0.05, T:0.00
Consensus pattern (13 bp):
ACAAGAAAACAAA
Found at i:6651296 original size:12 final size:12
Alignment explanation
Indices: 6651274--6651304 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6651264 TAAAAAAATG
6651274 ATAATAATTAATA
1 ATAA-AATTAATA
6651287 ATAAAATTAATA
1 ATAAAATTAATA
6651299 ATAAAA
1 ATAAAA
6651305 AATACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAATTAATA
Found at i:6653105 original size:21 final size:20
Alignment explanation
Indices: 6653080--6653120 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6653070 TATTGGAGGG
6653080 AATTAAAAATTATATTCTAAA
1 AATTAAAAATTATA-TCTAAA
* *
6653101 AATTAATAATTTTATCTAAA
1 AATTAAAAATTATATCTAAA
6653121 TGTTGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTAAAAATTATATCTAAA
Found at i:6653177 original size:3 final size:3
Alignment explanation
Indices: 6653169--6653216 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
6653159 TAATAAATTA
*
6653169 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6653217 TTTTTAATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6653351 original size:13 final size:13
Alignment explanation
Indices: 6653333--6653475 Score: 153
Period size: 13 Copynumber: 10.9 Consensus size: 13
6653323 TTAGTAAATT
6653333 CCTAAATTGAAAC
1 CCTAAATTGAAAC
* *
6653346 CCTAAACTAAAAC
1 CCTAAATTGAAAC
* *
6653359 CCTAAGATTAAAAT
1 CCTAA-ATTGAAAC
* *
6653373 CCTAAATTAAAAT
1 CCTAAATTGAAAC
*
6653386 CCTAAATTAAAAC
1 CCTAAATTGAAAC
* *
6653399 CCTAAAGTGAAAT
1 CCTAAATTGAAAC
6653412 CCTAAATTGAAAC
1 CCTAAATTGAAAC
6653425 CCTAAATTGAAAC
1 CCTAAATTGAAAC
* *
6653438 CTTAAA-TCAATAC
1 CCTAAATTGAA-AC
*
6653451 CTTAAATTGAAAC
1 CCTAAATTGAAAC
6653464 CCTAAATTGAAA
1 CCTAAATTGAAA
6653476 TCCTTAGAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
12 3 0.03
13 96 0.85
14 14 0.12
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (13 bp):
CCTAAATTGAAAC
Found at i:6654801 original size:19 final size:18
Alignment explanation
Indices: 6654752--6654812 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
6654742 ATGGGGTCAA
6654752 GAGGTATGTTTTAGGGTT
1 GAGGTATGTTTTAGGGTT
* *
6654770 TAGGGT-CGATTTTAGGGTT
1 GA-GGTATG-TTTTAGGGTT
6654789 CGAGGTATGTTTTAGGGTT
1 -GAGGTATGTTTTAGGGTT
*
6654808 TAGGT
1 GAGGT
6654813 TTTTAGGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 6 0.18
19 26 0.76
20 2 0.06
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.43
Consensus pattern (18 bp):
GAGGTATGTTTTAGGGTT
Found at i:6654811 original size:7 final size:7
Alignment explanation
Indices: 6654799--6654879 Score: 63
Period size: 7 Copynumber: 11.4 Consensus size: 7
6654789 CGAGGTATGT
6654799 TTTAGGG
1 TTTAGGG
*
6654806 TTTAGGTT
1 TTTAGG-G
6654814 TTTAGGG
1 TTTAGGG
* *
6654821 TATAGGT
1 TTTAGGG
6654828 TTTAGGG
1 TTTAGGG
*
6654835 TTTAAGG
1 TTTAGGG
* *
6654842 TTTATGC
1 TTTAGGG
*
6654849 ATTAGGG
1 TTTAGGG
*
6654856 TTTAGGA
1 TTTAGGG
* *
6654863 TTTAAGC
1 TTTAGGG
6654870 TTTAGGG
1 TTTAGGG
6654877 TTT
1 TTT
6654880 TATGAAATTT
Statistics
Matches: 55, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
7 49 0.89
8 6 0.11
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:6654818 original size:15 final size:15
Alignment explanation
Indices: 6654798--6654844 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
6654788 TCGAGGTATG
6654798 TTTTAGGGTTTAGGT
1 TTTTAGGGTTTAGGT
*
6654813 TTTTAGGGTATAGG-
1 TTTTAGGGTTTAGGT
6654827 TTTTAGGGTTTAAGGT
1 TTTTAGGGTTT-AGGT
6654843 TT
1 TT
6654845 ATGCATTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.36
15 16 0.57
16 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (15 bp):
TTTTAGGGTTTAGGT
Found at i:6654905 original size:17 final size:16
Alignment explanation
Indices: 6654875--6654921 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6654865 TAAGCTTTAG
*
6654875 GGTTTTATGAAATTTG-
1 GGTTTCATG-AATTTGT
6654891 GAGTTTCATGGAATTTGT
1 G-GTTTCAT-GAATTTGT
6654909 GGTTTCATGAATT
1 GGTTTCATGAATT
6654922 ATACACATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.22
17 19 0.70
18 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.47
Consensus pattern (16 bp):
GGTTTCATGAATTTGT
Found at i:6660356 original size:35 final size:35
Alignment explanation
Indices: 6660303--6660372 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
6660293 TGTATATGTC
* *
6660303 AAGTTAGTTGTAGGTTTATGCCCAAAAAACATTTG
1 AAGTCAGTTGTAGATTTATGCCCAAAAAACATTTG
* * * *
6660338 AAGTCAGTTGTATATTTATGCTCAGAAAATATTTG
1 AAGTCAGTTGTAGATTTATGCCCAAAAAACATTTG
6660373 GTTTATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (35 bp):
AAGTCAGTTGTAGATTTATGCCCAAAAAACATTTG
Found at i:6662122 original size:9 final size:9
Alignment explanation
Indices: 6662108--6662133 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6662098 GGTCATCAAT
6662108 TTGTTGCTG
1 TTGTTGCTG
6662117 TTGTTGCTG
1 TTGTTGCTG
6662126 TTGTTGCT
1 TTGTTGCT
6662134 CAATGATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.31, T:0.58
Consensus pattern (9 bp):
TTGTTGCTG
Found at i:6663589 original size:25 final size:25
Alignment explanation
Indices: 6663548--6663627 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
6663538 CAACAATGTG
*
6663548 CTCAGACACATCC-TTTAGCAAACCA
1 CTCAGAAACA-CCATTTAGCAAACCA
*
6663573 CTCAGAAACACCATTTAACAAACCA
1 CTCAGAAACACCATTTAGCAAACCA
* * * *
6663598 TTCATAAACCCCATTCAGCAAACCA
1 CTCAGAAACACCATTTAGCAAACCA
*
6663623 TTCAG
1 CTCAG
6663628 CATATGATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 2 0.04
25 44 0.96
ACGTcount: A:0.40, C:0.34, G:0.06, T:0.20
Consensus pattern (25 bp):
CTCAGAAACACCATTTAGCAAACCA
Found at i:6663625 original size:12 final size:12
Alignment explanation
Indices: 6663564--6663629 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
6663554 CACATCCTTT
*
6663564 AGCAAACCACTC
1 AGCAAACCATTC
* *
6663576 AGAAACACCATTT
1 AGCAA-ACCATTC
*
6663589 AACAAACCATTC
1 AGCAAACCATTC
*
6663601 A-TAAACCCCATTC
1 AGCAAA--CCATTC
6663614 AGCAAACCATTC
1 AGCAAACCATTC
6663626 AGCA
1 AGCA
6663630 TATGATTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 3 0.07
12 21 0.50
13 15 0.36
14 3 0.07
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (12 bp):
AGCAAACCATTC
Found at i:6665076 original size:371 final size:370
Alignment explanation
Indices: 6664256--6665922 Score: 2047
Period size: 371 Copynumber: 4.5 Consensus size: 370
6664246 AGTAGACAAC
* * ** * * * ** *
6664256 TGCCTTTAATAATTATGTACAAAAATTAAAAGGAATTAGTGAAGGCATTTTTTTAAAATAAATGC
1 TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTATTTTGGAATAAACGC
* * ** **
6664321 CTTCATTAACCGTCTCAACCTTTTAGTTGTGGAATATTAAAGGTGTTTTTCACTAGAAGATGCCT
66 CTTCACTAACCATCTCAA-AATTTAGTTGTGGAATATTAAAGGCATTTTTCACTAGAAGATGCCT
* * * *
6664386 TTAATAATCCAAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTTAAAAAACACATTTAA
130 TTAATAATCC-AAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACCTTCAA
* ** * * *
6664451 TAATTGTGCACATAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTTACTAA
194 TAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAA
* * ** * * *
6664516 CTGTCTCAAAATTTGAGTTGTGGAATATTGAATGTGTTTTTCATTGGAAGACGCCTTTAATGATC
259 CCGTCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAATC
* * *
6664581 CTAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGATCTAAAAAAAA
324 CTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGATCT-CAAAAGA
* * * * *
6664629 TACCTTCACTAATTATGCACGCAAATTAGAA-AGAATTAGTGAAGGCGTTATTTTGGAATAAACA
1 TGCCTTCAATAATTATGCACGTAAATTAGAAGA-AATTAGTGAAGGCATTATTTTGGAATAAACG
* * * *
6664693 CCTTCA-TAACCATCTCAAAATTTCGTTATGGAATATTGAAGGCATTTTTCACTGGAAGATGCCT
65 CCTTCACTAACCATCTCAAAATTTAGTTGTGGAATATTAAAGGCATTTTTCACTAGAAGATGCCT
* * * *
6664757 TTAATAACCCTAAAAATTTTAAGAGGAAATTATTGAAGGCGTTCGATCTCAAAAGACACCTTCAA
130 TTAATAATCC-AAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACCTTCAA
* *
6664822 TAATTATGCATGTAAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAA
194 TAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAA
* * * *
6664887 CCATCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCAGTGGAAGATTCCTTTAATAATC
259 CCGTCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAATC
* ** * *
6664952 TTAAAAACATTAA-AAGGATATTATTGAAGGCGTTTGATCTCAAAAGA
324 CTAAAAATTTTAAGAA-AAAATTATTGAAGGCGTTTGATCTCAAAAGA
* * *
6664999 TGCCTTCAATAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTATTCTGGAATAAACAC
1 TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTATTTTGGAATAAACGC
*
6665064 CTTCACTAACCATCTCAAAATTT-GTGTCGTGAAATATTAAAGGCATTTTTCACTAGAAGATGCC
66 CTTCACTAACCATCTCAAAATTTAGT-T-GTGGAATATTAAAGGCATTTTTCACTAGAAGATGCC
*
6665128 TTTAATAATCCAAAAATTTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACTTTCA
129 TTTAATAATCCAAAAA-TTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACCTTCA
* **
6665193 ATAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCA-TTTTCTGGAATAAATGTTTTCACTA
193 ATAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTA
* * * * * ** *
6665257 ACCGTCTCAAAATTTGTGTTGTGGAATATTAAAGGTATTTTTTACTAAAAGATACATTTAATAAT
258 ACCGTCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAAT
*
6665322 -CTCAAAAATTTTAAGAAAAAATTATTGAAGGTGTTTGATCTCAAAAGA
323 CCT-AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGATCTCAAAAGA
* * * *
6665370 CGCCTTCAATAATTGTGCATGTAAATTAGAAAAAATTAGTGAAGGCATT-TTTTGGAATAAACGC
1 TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTATTTTGGAATAAACGC
* * * * **
6665434 CTTCACTAACTATTTCAAAATTTGTGTTGTGGAATGTTAAAGGCATTTTTCACT-GAAAGACACC
66 CTTCACTAACCATCTCAAAATTT-AGTTGTGGAATATTAAAGGCATTTTTCACTAG-AAGATGCC
* * ** **
6665498 TTTAATAATCTTAAAAATTTTAAGAGGAAATTATTGAAGGTGTTTGATCTCAAAAGATGCCTTCA
129 TTTAATAATC-CAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACCTTCA
* * * * ** *
6665563 ATAATTGTGTATGTAAATTTGAAAAAATTAGTGAAGGTGTTTTTCTGGAATAAACACCTTCACTA
193 ATAATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTA
*
6665628 ACCGTCTCAAAATTTGAGTTATGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAAT
258 ACCGTCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAAT
* * * *
6665693 CCTAAAAATTTTAAGAAAAAATTATTAAAAGCCTATGATCTCAAAAGA
323 CCTAAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGATCTCAAAAGA
* * * *
6665741 TGCCTTTAATAATTATGCACGTAAATTTGAAGAAATTAGTGAAGGCATT-TTTCTAGAATAAATG
1 TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTATTT-TGGAATAAACG
* * * * ** * * *
6665805 CCTTCACTAATCATCTTAAAATTTGAGTTATGAAATATTAAAGGTGTTTTTCATTTGAAGACGCC
65 CCTTCACTAACCATCTCAAAATTT-AGTTGTGGAATATTAAAGGCATTTTTCACTAGAAGATGCC
* *
6665870 TTTATTAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCAA
129 TTTAATAAT-CCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAA
6665923 GAAATGCCTT
Statistics
Matches: 1117, Mismatches: 159, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
369 1 0.00
370 220 0.20
371 593 0.53
372 246 0.22
373 57 0.05
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (370 bp):
TGCCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTATTTTGGAATAAACGC
CTTCACTAACCATCTCAAAATTTAGTTGTGGAATATTAAAGGCATTTTTCACTAGAAGATGCCTT
TAATAATCCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACCTTCAATA
ATTATGCATGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACC
GTCTCAAAATTTGAGTTGTGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAATCCT
AAAAATTTTAAGAAAAAATTATTGAAGGCGTTTGATCTCAAAAGA
Found at i:6665319 original size:557 final size:557
Alignment explanation
Indices: 6664278--6665910 Score: 2096
Period size: 557 Copynumber: 2.9 Consensus size: 557
6664268 TTATGTACAA
* ** * * * **
6664278 AAATTAAAAGGAATTAGTGAAGGCATTTTTTTAAAATAAATGCCTTCATTAACCGTCTCAACCTT
1 AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* ** * * **
6664343 TTAGTTGTGGAATATTAAAGGTGTTTTTCACTAGAAGATGCCTTTAATAATCCAAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTTAAAAATTTTAA
* * * * ** * * **
6664408 GAGAAAATTATTGAAGGCATTTGATCTTAAAAAACACATTTAATAATTGTGCACATAAATTAGAA
131 GAGGAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTGTGCATGTAAATTAGAA
* * * * *
6664473 GGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTTACTAACTGTCTCAAAATTTGAGTTGTG
196 GAAATTAGTGAAGGCATTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATTTGAGTTGTG
* ** * *
6664538 GAATATTGAATGTGTTTTTCATTGGAAGACGCCTTTAATGATCCTAAAAATTTTAAGAGAAAATT
261 GAATATTGAAGGCATTTTTCATTGGAAGATGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATT
* * * * * * *
6664603 ATTGAAGGCGTTTGATCTAAAAAAAATACCTTCACTAATTATGCACGCAAATTAGAA-AGAATTA
326 ATTGAAGGCATTTGATCT-CAAAAGACACTTTCAATAATTATGCACGTAAATTAGAAGA-AATTA
* * ** *
6664667 GTGAAGGCGTTATTTTGGAATAAACACCTTCA-TAACCATCTCAAAATTT-CGTTATGGAATATT
389 GTGAAGGCATT-TTCTGGAATAAATGCCTTCACTAACCATCTCAAAATTTGAGTTATGGAATATT
* * * *
6664730 GAAGGCATTTTTCACTGGAAGATGCCTTTAATAACCCTAAAAATTTTAAGAGGAAATTATTGAAG
453 AAAGGTATTTTTCACTAGAAGATGCCTTTAATAACCCTAAAAATTTTAAGAGAAAATTATTGAAG
6664795 GCGTTCGATCTCAAAAGACACCTTCAATAATTATGCATGT
518 GCGTTCGATCTCAAAAGACACCTTCAATAATTATGCATGT
6664835 AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
1 AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * **
6664900 TGAGTTGTGGAATATTGAAGGCATTTTTCAGTGGAAGATTCCTTTAATAATCTTAAAAACATTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTTAAAAATTTTAA
* * *
6664965 AAGGATATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGTAAATTAGAA
131 GAGGAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTGTGCATGTAAATTAGAA
* * * *
6665030 GAAATTAGTGAAGGCATTATTCTGGAATAAACACCTTCACTAACCATCTCAAAATTTGTGTCGTG
196 GAAATTAGTGAAGGCATTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATTTGAGTTGTG
* * * *
6665095 AAATATTAAAGGCATTTTTCACTAGAAGATGCCTTTAATAATCC-AAAAATTTTTAAGAGAAAAT
261 GAATATTGAAGGCATTTTTCATTGGAAGATGCCTTTAATAATCCTAAAAA-TTTTAAGAGAAAAT
*
6665159 TATTGAAGGCATTTGATCTCAAAAGACACTTTCAATAATTATGCATGTAAATTAGAAGAAATTAG
325 TATTGAAGGCATTTGATCTCAAAAGACACTTTCAATAATTATGCACGTAAATTAGAAGAAATTAG
** * * *
6665224 TGAAGGCATTTTCTGGAATAAATGTTTTCACTAACCGTCTCAAAATTTGTGTTGTGGAATATTAA
390 TGAAGGCATTTTCTGGAATAAATGCCTTCACTAACCATCTCAAAATTTGAGTTATGGAATATTAA
* * * * * *
6665289 AGGTATTTTTTACTAAAAGATACATTTAATAA-TCTCAAAAATTTTAAGAAAAAATTATTGAAGG
455 AGGTATTTTTCACTAGAAGATGCCTTTAATAACCCT-AAAAATTTTAAGAGAAAATTATTGAAGG
* * * *
6665353 TGTTTGATCTCAAAAGACGCCTTCAATAATTGTGCATGT
519 CGTTCGATCTCAAAAGACACCTTCAATAATTATGCATGT
** * *
6665392 AAATTAGAAAAAATTAGTGAAGGCA-TTTTTTGGAATAAACGCCTTCACTAACTATTTCAAAATT
1 AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * *
6665456 TGTGTTGTGGAATGTTAAAGGCATTTTTCACTGAAAGACACCTTTAATAATCTTAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTTAAAAATTTTAA
* * *
6665521 GAGGAAATTATTGAAGGTGTTTGATCTCAAAAGATGCCTTCAATAATTGTGTATGTAAATTTGAA
131 GAGGAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTGTGCATGTAAATTAGAA
* ** *
6665586 AAAATTAGTGAAGGTGTTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATTTGAGTTATG
196 GAAATTAGTGAAGGCATTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATTTGAGTTGTG
* *
6665651 GAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAATCCTAAAAATTTTAAGAAAAAATT
261 GAATATTGAAGGCATTTTTCATTGGAAGATGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATT
* * * * *
6665716 ATTAAAAGCCTATGATCTCAAAAGATGC-CTTT-AATAATTATGCACGTAAATTTGAAGAAATTA
326 ATTGAAGGCATTTGATCTCAAAAGA--CACTTTCAATAATTATGCACGTAAATTAGAAGAAATTA
* * * *
6665779 GTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAATCATCTTAAAATTTGAGTTATGAAATATT
389 GTGAAGGCA-TTTTCTGGAATAAATGCCTTCACTAACCATCTCAAAATTTGAGTTATGGAATATT
* * * * *
6665844 AAAGGTGTTTTTCATTTGAAGACGCCTTTATTAATCCC-AAAAATTTTAAGAGAAAATTATTGAA
453 AAAGGTATTTTTCACTAGAAGATGCCTTTAATAA-CCCTAAAAATTTTAAGAGAAAATTATTGAA
6665908 GGC
517 GGC
6665911 ATTTGTTCTC
Statistics
Matches: 924, Mismatches: 141, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
555 15 0.02
556 390 0.42
557 517 0.56
558 1 0.00
559 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (557 bp):
AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTTAAAAATTTTAA
GAGGAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTGTGCATGTAAATTAGAA
GAAATTAGTGAAGGCATTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATTTGAGTTGTG
GAATATTGAAGGCATTTTTCATTGGAAGATGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATT
ATTGAAGGCATTTGATCTCAAAAGACACTTTCAATAATTATGCACGTAAATTAGAAGAAATTAGT
GAAGGCATTTTCTGGAATAAATGCCTTCACTAACCATCTCAAAATTTGAGTTATGGAATATTAAA
GGTATTTTTCACTAGAAGATGCCTTTAATAACCCTAAAAATTTTAAGAGAAAATTATTGAAGGCG
TTCGATCTCAAAAGACACCTTCAATAATTATGCATGT
Found at i:6665932 original size:186 final size:186
Alignment explanation
Indices: 6664278--6665934 Score: 1955
Period size: 186 Copynumber: 8.9 Consensus size: 186
6664268 TTATGTACAA
* * * ** * * * **
6664278 AAATTAAAAGGAATTAGTGAAGGCATTTTTTTAAAATAAATGCCTTCATTAACCGTCTCAACCTT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* ** * *
6664343 TTAGTTGTGGAATATTAAAGGTGTTTTTCACTAGAAGATGCCTTTAATAATCCAAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * * ** * * * **
6664408 GAGAAAATTATTGAAGGCATTTGATCTTAAAAAACACATTTAATAATTGTGCACAT
131 GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* * * **
6664464 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTTACTAACTGTCTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * ** * * * *
6664529 TGAGTTGTGGAATATTGAATGTGTTTTTCATTGGAAGACGCCTTTAATGATCCTAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * * * * *
6664594 GAGAAAATTATTGAAGGCGTTTGATCTAAAAAAAATACCTTCACTAATTATGCACGC
131 GAGAAAATTATTGAAGGCGTTTGATCT-CAAAAGATGCCTTCAATAATTATGCATGT
* *
6664651 AAATTAGAA-AGAATTAGTGAAGGCGTTATTT-TGGAATAAACACCTTCA-TAACCATCTCAAAA
1 AAATTAGAAGA-AATTAGTGAAGGCATT-TTTCTGGAATAAACGCCTTCACTAACCATCTCAAAA
* * *
6664713 TTT-CGTTATGGAATATTGAAGGCATTTTTCACTGGAAGATGCCTTTAATAA-CCCTAAAAATTT
64 TTTGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCC-AAAAATTT
* * **
6664776 TAAGAGGAAATTATTGAAGGCGTTCGATCTCAAAAGACACCTTCAATAATTATGCATGT
128 TAAGAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* *
6664835 AAATTAGAAGGAATTAGTGAAGGCATTTTTTTGGAATAAACGCCTTCACTAACCATCTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * ** **
6664900 TGAGTTGTGGAATATTGAAGGCATTTTTCAGTGGAAGATTCCTTTAATAATCTTAAAAACATTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * *
6664965 AAGGATATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
131 GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* *
6665021 AAATTAGAAGAAATTAGTGAAGGCATTATTCTGGAATAAACACCTTCACTAACCATCTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * *
6665086 TGTGTCGTGAAATATTAAAGGCATTTTTCACTAGAAGATGCCTTTAATAAT-CCAAAAATTTTTA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAA-TTTTA
* ** *
6665150 AGAGAAAATTATTGAAGGCATTTGATCTCAAAAGACACTTTCAATAATTATGCATGT
130 AGAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* ** *
6665207 AAATTAGAAGAAATTAGTGAAGGCA-TTTTCTGGAATAAATGTTTTCACTAACCGTCTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * ** * * *
6665271 TGTGTTGTGGAATATTAAAGGTATTTTTTACTAAAAGATACATTTAATAATCTCAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * * *
6665336 GAAAAAATTATTGAAGGTGTTTGATCTCAAAAGACGCCTTCAATAATTGTGCATGT
131 GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* * *
6665392 AAATTAGAAAAAATTAGTGAAGGCATTTTT-TGGAATAAACGCCTTCACTAACTATTTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * ** **
6665456 TGTGTTGTGGAATGTTAAAGGCATTTTTCACTGAAAGACACCTTTAATAATCTTAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * * *
6665521 GAGGAAATTATTGAAGGTGTTTGATCTCAAAAGATGCCTTCAATAATTGTGTATGT
131 GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* * ** * *
6665577 AAATTTGAAAAAATTAGTGAAGGTGTTTTTCTGGAATAAACACCTTCACTAACCGTCTCAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * * * *
6665642 TGAGTTATGGAATATTGAAGGCATTTTTCATTGGAAGATGCATTTAATAATCCTAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* * * * * * *
6665707 GAAAAAATTATTAAAAGCCTATGATCTCAAAAGATGCCTTTAATAATTATGCACGT
131 GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
* * * * *
6665763 AAATTTGAAGAAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAATCATCTTAAAATT
1 AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
* * ** * * * *
6665828 TGAGTTATGAAATATTAAAGGTGTTTTTCATTTGAAGACGCCTTTATTAATCCCAAAAATTTTAA
66 TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
* *
6665893 GAGAAAATTATTGAAGGCATTTGTTCTCAAGAA-ATGCCTTCA
131 GAGAAAATTATTGAAGGCGTTTGATCTCAA-AAGATGCCTTCA
6665935 TTAACCGTCC
Statistics
Matches: 1278, Mismatches: 179, Indels: 28
0.86 0.12 0.02
Matches are distributed among these distances:
183 3 0.00
184 65 0.05
185 420 0.33
186 725 0.57
187 62 0.05
188 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (186 bp):
AAATTAGAAGAAATTAGTGAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATCTCAAAATT
TGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA
GAGAAAATTATTGAAGGCGTTTGATCTCAAAAGATGCCTTCAATAATTATGCATGT
Found at i:6672252 original size:19 final size:19
Alignment explanation
Indices: 6672209--6672246 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6672199 AGGCATGGAC
6672209 AAGTCCGAAGCCTTGGATT
1 AAGTCCGAAGCCTTGGATT
6672228 AAGTCCGAAGCCTTGGATT
1 AAGTCCGAAGCCTTGGATT
6672247 GGGTCCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGTCCGAAGCCTTGGATT
Found at i:6672438 original size:21 final size:21
Alignment explanation
Indices: 6672395--6672438 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6672385 AAGAGAATAG
* *
6672395 GAATGTGCCAAAATTGAGGAA
1 GAATGTGCCAAAATAGAGCAA
* *
6672416 GAATGTGCTAGAATAGAGCAA
1 GAATGTGCCAAAATAGAGCAA
6672437 GA
1 GA
6672439 GCGTGCAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.30, T:0.18
Consensus pattern (21 bp):
GAATGTGCCAAAATAGAGCAA
Found at i:6672905 original size:21 final size:21
Alignment explanation
Indices: 6672866--6672932 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
6672856 GAAAATAATA
* *
6672866 ATATT-AAACATAAAATTTTT
1 ATATTAAAAAATACAATTTTT
6672886 ATATTAAAAAATACAATTTTT
1 ATATTAAAAAATACAATTTTT
6672907 AT-TTAAAAAATGACCAATTTTT
1 ATATTAAAAAAT-A-CAATTTTT
6672929 -TATT
1 ATATT
6672933 TTGTGATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.34
21 17 0.41
22 10 0.24
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (21 bp):
ATATTAAAAAATACAATTTTT
Found at i:6673209 original size:34 final size:34
Alignment explanation
Indices: 6673124--6673210 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 34
6673114 GGCGTGTCAA
* *
6673124 ATATACAAACGCCGCTAATATAGTGATATTTTTC
1 ATATACAAACGCCGTTAATATAGTGATATTTTCC
** * * *
6673158 GGATACAAGCACCGTTAATATAGTGGTATTTTCC
1 ATATACAAACGCCGTTAATATAGTGATATTTTCC
*
6673192 ATATACAAACGCTGTTAAT
1 ATATACAAACGCCGTTAAT
6673211 GTAGCAGCGT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (34 bp):
ATATACAAACGCCGTTAATATAGTGATATTTTCC
Found at i:6677724 original size:18 final size:17
Alignment explanation
Indices: 6677696--6677737 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
6677686 CTAATCAATA
6677696 TTCTCCTTTTTAT-TCTT
1 TTCTCCTTTTT-TCTCTT
6677713 TTCTCTCTTTTTTCTCTT
1 TTCTC-CTTTTTTCTCTT
6677731 TTCTCCT
1 TTCTCCT
6677738 GCAAACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTCCTTTTTTCTCTT
Found at i:6685287 original size:33 final size:31
Alignment explanation
Indices: 6685234--6685339 Score: 90
Period size: 33 Copynumber: 3.3 Consensus size: 31
6685224 GACATCTTAA
* *
6685234 AAAAAAAAAAGTAATCAAATTATATCCAAACAAT
1 AAAAAATAAA-TAATAAAATTATAT-CAAA-AAT
* *
6685268 AAAAAATAAATAATTAAATTATAT-TAAAAT
1 AAAAAATAAATAATAAAATTATATCAAAAAT
*
6685298 AATAAATAAA-AATAAAATTATATTCAAATAAT
1 AAAAAATAAATAATAAAATTATA-TCAAA-AAT
*
6685330 GAAACAATAA
1 -AAAAAATAA
6685340 TAAAGTAGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 11 0.18
30 13 0.22
31 4 0.07
32 3 0.05
33 20 0.33
34 9 0.15
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (31 bp):
AAAAAATAAATAATAAAATTATATCAAAAAT
Found at i:6685304 original size:26 final size:27
Alignment explanation
Indices: 6685267--6685329 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
6685257 ATCCAAACAA
*
6685267 TAAAA-AATAAAT-AATTAAATTATAT
1 TAAAATAATAAATAAATAAAATTATAT
6685292 TAAAATAATAAATAAAAATAAAATTATAT
1 TAAAATAATAAAT--AAATAAAATTATAT
*
6685321 TCAAATAAT
1 TAAAATAAT
6685330 GAAACAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.16
26 7 0.22
29 20 0.62
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAATAATAAATAAATAAAATTATAT
Found at i:6685326 original size:29 final size:29
Alignment explanation
Indices: 6685265--6685343 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
6685255 ATATCCAAAC
* *
6685265 AATAAAAAATAAATAATTAAATTATATTAA
1 AATAATAAATAAA-AATAAAATTATATTAA
*
6685295 AATAATAAATAAAAATAAAATTATATTCA
1 AATAATAAATAAAAATAAAATTATATTAA
* *
6685324 AATAATGAAACAATAATAAA
1 AATAAT-AAATAAAAATAAA
6685344 GTAGTGGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 20 0.47
30 23 0.53
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAATAAATAAAAATAAAATTATATTAA
Found at i:6685838 original size:15 final size:15
Alignment explanation
Indices: 6685810--6685853 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6685800 AATGAAAGAT
*
6685810 TATTAATTTCAATTA
1 TATTAATTTAAATTA
6685825 T-TTAAATTTAAATTA
1 TATT-AATTTAAATTA
6685840 TGATTAATTTAAAT
1 T-ATTAATTTAAAT
6685854 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 9 0.36
17 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TATTAATTTAAATTA
Found at i:6686338 original size:158 final size:158
Alignment explanation
Indices: 6685923--6686329 Score: 582
Period size: 158 Copynumber: 2.6 Consensus size: 158
6685913 AAATATATTT
* * * * *
6685923 TGGGGCTTCTATTTCATTCTGCCAAAGATATTGAAAAGCACCAGCAAAAAAATTTGGGGTTCTAT
1 TGGGGCTTCTATTTCATTATGCCAAAGGTATTGAAAAGCACCAGCAAAAAAAATAGGGCTTCTAT
* * * * *
6685988 TTTATTACGGTGGGCACACCCTGGGGTTTGGGTTGGCACCCTTTTATGCTTTAGCTTAGAATAGA
66 TTCATTACCGTGGGCACACCCTGGGGTTTGGGTTAGCACCCTCTTATGCTTTAGCTTAGAATAAA
* *
6686053 TAGGAAGAGAAAAGCCCAAGAAAGAAAA
131 CAGGAAAAGAAAAGCCCAAGAAAGAAAA
* * * * *
6686081 TGGGGCTTCTATTTCATTTTGCAAAAGGTACTGAAAAGCACTAGCAAAATAAAATGGGGCTTCTA
1 TGGGGCTTCTATTTCATTATGCCAAAGGTATTGAAAAGCACCAGCAAAA-AAAATAGGGCTTCTA
* * * * *
6686146 TTTCATTACTGTGGGCATAGCTTGAGGTTTGGGTTAGCA-CCTCTTATGCTTTAGCTTAGAATAA
65 TTTCATTACCGTGGGCACACCCTGGGGTTTGGGTTAGCACCCTCTTATGCTTTAGCTTAGAATAA
6686210 ACAGGAAAAGAAAAGCCCAAGAAAGAAAA
130 ACAGGAAAAGAAAAGCCCAAGAAAGAAAA
* *
6686239 TGGGGATTCTATTTCATTATACCAAAGGTATTGAAAAGCACCAGCAAAAAAAATAGGGCTTCTAT
1 TGGGGCTTCTATTTCATTATGCCAAAGGTATTGAAAAGCACCAGCAAAAAAAATAGGGCTTCTAT
6686304 TTCATTACCGTGGGCACACCCTGGGG
66 TTCATTACCGTGGGCACACCCTGGGG
6686330 CTGGGGGTTT
Statistics
Matches: 217, Mismatches: 31, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
157 36 0.17
158 137 0.63
159 44 0.20
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (158 bp):
TGGGGCTTCTATTTCATTATGCCAAAGGTATTGAAAAGCACCAGCAAAAAAAATAGGGCTTCTAT
TTCATTACCGTGGGCACACCCTGGGGTTTGGGTTAGCACCCTCTTATGCTTTAGCTTAGAATAAA
CAGGAAAAGAAAAGCCCAAGAAAGAAAA
Found at i:6687428 original size:14 final size:14
Alignment explanation
Indices: 6687409--6687435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6687399 AGTAACAATA
6687409 GAATAAAATAAATG
1 GAATAAAATAAATG
6687423 GAATAAAATAAAT
1 GAATAAAATAAAT
6687436 ATTAGGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
GAATAAAATAAATG
Found at i:6687724 original size:32 final size:32
Alignment explanation
Indices: 6687686--6687788 Score: 127
Period size: 32 Copynumber: 3.1 Consensus size: 32
6687676 TTATTGTCAA
6687686 TGATAATATTTTAGAATATTATTGATTTGATT
1 TGATAATATTTTAGAATATTATTGATTTGATT
*
6687718 TGATAATATTTTAGAATATTATTAATTTGATT
1 TGATAATATTTTAGAATATTATTGATTTGATT
* * *
6687750 TGAGGTTAAT-TTATAGAATATTGTTGATTTTATAT
1 TGA---TAATATTTTAGAATATTATTGATTTGAT-T
6687785 TGAT
1 TGAT
6687789 TTGGATGATG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
32 35 0.56
34 19 0.31
35 8 0.13
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (32 bp):
TGATAATATTTTAGAATATTATTGATTTGATT
Found at i:6690792 original size:27 final size:29
Alignment explanation
Indices: 6690743--6690805 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
6690733 TGTGAAAAAT
*
6690743 TTTAAAAATAAAATTAGGTTAAGCA-TTAGAG
1 TTTAAAAATAAAATT--GTTAAG-ATTTAAAG
6690774 TTTAAAAATAAAA-T-TTAAGATTTAAAG
1 TTTAAAAATAAAATTGTTAAGATTTAAAG
6690801 TTTAA
1 TTTAA
6690806 CGATAGGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.03
27 15 0.50
30 1 0.03
31 13 0.43
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTAAAAATAAAATTGTTAAGATTTAAAG
Found at i:6695439 original size:14 final size:15
Alignment explanation
Indices: 6695410--6695442 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6695400 TATTTAAATT
*
6695410 TTTTTAAATTTATAA
1 TTTTTAAATATATAA
6695425 TTTTTAAATAT-TAA
1 TTTTTAAATATATAA
6695439 TTTT
1 TTTT
6695443 AATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAAATATATAA
Found at i:6695722 original size:7 final size:7
Alignment explanation
Indices: 6695712--6695745 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
6695702 AAATTAAAAA
6695712 TTAAATT
1 TTAAATT
6695719 TTAAATT
1 TTAAATT
*
6695726 TTAAATA
1 TTAAATT
*
6695733 ATAAATT
1 TTAAATT
6695740 TTAAAT
1 TTAAAT
6695746 CGATCTGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTAAATT
Found at i:6695737 original size:21 final size:21
Alignment explanation
Indices: 6695705--6695745 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6695695 TAAATTCAAA
6695705 TTAAAAATTAAATTTTAAATT
1 TTAAAAATTAAATTTTAAATT
6695726 TTAAATAA-TAAATTTTAAAT
1 TTAAA-AATTAAATTTTAAAT
6695746 CGATCTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAAATTAAATTTTAAATT
Found at i:6696210 original size:17 final size:17
Alignment explanation
Indices: 6696190--6696222 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6696180 TGAAAAACAA
6696190 AAAATTATTAAA-ATTAG
1 AAAATT-TTAAATATTAG
6696207 AAAATTTTAAATATTA
1 AAAATTTTAAATATTA
6696223 CTTATTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATTAG
Found at i:6696522 original size:94 final size:93
Alignment explanation
Indices: 6696257--6696527 Score: 228
Period size: 94 Copynumber: 2.8 Consensus size: 93
6696247 TTTAGTTTTT
*
6696257 TAAAATTTAAATTTTATTTATTTTAAATTATAAAACTAGATAGAATATAAAAATT-TATTATATC
1 TAAAATTTAAA-ATTATTTATTTTAAATTATAAAACTAGATA-AA-ATAAAAATTATATTATATC
*
6696321 TAGAAATTAAAAAAAAACAAAAACGTATTAAAATA
63 TA-AAATT---TAAAAACAAAAACGTATTAAAATA
* * ** * *
6696356 GAAAATTTTAAAATTATTTATTTTAAACTATAAAACTTTATAAAATATGTTAAAACTATAGTATA
1 TAAAA-TTTAAAATTATTTATTTTAAATTATAAAACTAGATAAAATA----AAAATTATATTATA
* *** *
6696421 T-T-TAATTTTTTAA-AAAAACTTATTAAAA-A
61 TCTAAAATTTAAAAACAAAAACGTATTAAAATA
* *
6696450 TAAAATTTCAAACTTATTTATTTTAAATTATAAAACTAGATAAAATACACAATTATATTATATCT
1 TAAAATTT-AAAATTATTTATTTTAAATTATAAAACTAGATAAAATA-AAAATTATATTATATCT
*
6696515 AAAAATTTGAAAA
64 -AAAATTTAAAAA
6696528 TAGAAATTTG
Statistics
Matches: 136, Mismatches: 26, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
91 12 0.09
92 1 0.01
93 3 0.02
94 46 0.34
95 14 0.10
96 2 0.01
97 3 0.02
98 2 0.01
99 34 0.25
100 6 0.04
101 6 0.04
102 7 0.05
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (93 bp):
TAAAATTTAAAATTATTTATTTTAAATTATAAAACTAGATAAAATAAAAATTATATTATATCTAA
AATTTAAAAACAAAAACGTATTAAAATA
Found at i:6696670 original size:96 final size:95
Alignment explanation
Indices: 6696524--6696806 Score: 272
Period size: 96 Copynumber: 2.9 Consensus size: 95
6696514 TAAAAATTTG
* * * *
6696524 AAAATAGAAATTTGAAAATTTTATTTATTTTAAACTATAAATTTTGATAAAATATATTAAAACTA
1 AAAATAAAAATTTG-AAA-TTTATTTAATTTAAATTATAAATTTTTATAAAATATATTAAAACTA
*
6696589 TATTAGATTTAAAAATTAAAAAAAACTTATTCA
64 TATTAGATTTAAAAA-TAAAAAAAACTTATTAA
* * *
6696622 AAAATAAAAATTTGAAATTTATTTAATCTAAATTATAGATTTTTATAAAAGT-TATTAATA-TAT
1 AAAATAAAAATTTGAAATTTATTTAATTTAAATTATAAATTTTTATAAAA-TATATTAAAACTAT
* *
6696685 ATTATATTTGAAAAATAAAAATAAACTTCTTAA
65 ATTAGATTT-AAAAATAAAAA-AAACTTATTAA
* * * * * *
6696718 AAAATAGAAAATTTTAAAACTTATTT-ATTTAAATTAT-TATATTTGT-AAATATGTTAAACATC
1 AAAATA-AAAA-TTTGAAATTTATTTAATTTAAATTATAAATTTTTATAAAATATATTAAA-A-C
6696780 TATATTATG-TTTAAAAAATAAAAAAAA
62 TATATTA-GATTT-AAAAATAAAAAAAA
6696807 TATTTTTTTC
Statistics
Matches: 155, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
94 1 0.01
95 25 0.16
96 62 0.40
97 21 0.14
98 46 0.30
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (95 bp):
AAAATAAAAATTTGAAATTTATTTAATTTAAATTATAAATTTTTATAAAATATATTAAAACTATA
TTAGATTTAAAAATAAAAAAAACTTATTAA
Found at i:6696797 original size:98 final size:95
Alignment explanation
Indices: 6696524--6696806 Score: 263
Period size: 98 Copynumber: 2.9 Consensus size: 95
6696514 TAAAAATTTG
* * *
6696524 AAAATAG-AAATTTGAAAATTTTATTTATTTTAAACTATAAATTTTGATAAAATATATTAAAA-C
1 AAAATAGAAAATTTTAAAA-TTTATTTA-TTTAAATTATAAA-TTTG-T-AAATATGTTAAAATC
* *
6696587 TATATTA-GATTTAAAAATTAAAAAAAACTTATTCA
61 TATATTATG-TTTAAAAAATAAAAAAAACTTATTAA
* * * * * * *
6696622 AAAATA-AAAA-TTTGAAATTTATTTAATCTAAATTATAGATTTTTATAA-AAGTTATTAATATA
1 AAAATAGAAAATTTTAAAATTTATTT-ATTTAAATTATAAATTTGTA-AATATGTTA-AAATCTA
* * *
6696684 TATTATATTTGAAAAATAAAAATAAACTTCTTAA
63 TATTATGTTTAAAAAATAAAAA-AAACTTATTAA
* *
6696718 AAAATAGAAAATTTTAAAACTTATTTATTTAAATTATTATATTTGTAAATATGTTAAACATCTAT
1 AAAATAGAAAATTTTAAAATTTATTTATTTAAATTA-TAAATTTGTAAATATGTTAAA-ATCTAT
6696783 ATTATGTTTAAAAAATAAAAAAAA
64 ATTATGTTTAAAAAATAAAAAAAA
6696807 TATTTTTTTC
Statistics
Matches: 148, Mismatches: 25, Indels: 25
0.75 0.13 0.13
Matches are distributed among these distances:
93 5 0.03
94 5 0.03
95 23 0.16
96 32 0.22
97 25 0.17
98 58 0.39
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (95 bp):
AAAATAGAAAATTTTAAAATTTATTTATTTAAATTATAAATTTGTAAATATGTTAAAATCTATAT
TATGTTTAAAAAATAAAAAAAACTTATTAA
Found at i:6697761 original size:28 final size:27
Alignment explanation
Indices: 6697730--6697804 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 27
6697720 TAAAACTATT
6697730 TATTATTCTTTATATTAATATTTTAAAA
1 TATTATT-TTTATATTAATATTTTAAAA
*** *
6697758 TATT-TAAAATAGTATTACTATTTTAAAA
1 TATTAT-TTTTA-TATTAATATTTTAAAA
6697786 TATTA-TTTT-TATTAATATT
1 TATTATTTTTATATTAATATT
6697805 AAAATAGTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
25 9 0.25
27 4 0.11
28 23 0.64
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (27 bp):
TATTATTTTTATATTAATATTTTAAAA
Found at i:6698476 original size:152 final size:148
Alignment explanation
Indices: 6698168--6698476 Score: 340
Period size: 152 Copynumber: 2.1 Consensus size: 148
6698158 TTAAAATATT
* * *
6698168 TAAAATTA-AAATATCAAAAGACTTTTAATGCTAATATTTTAATATTTCAATTAAAATTAAATAA
1 TAAAATTATAAATATCAAAAGACTTTTAATACTAATATTTTAATATTTAAATTAAAATTAAAAAA
* ** * *
6698232 AATATTTTTATTAATATAATAATATTCAAATTGAACTAAATTAAATTTGAGTTTAAAATATTATG
66 AATATTTTTATTAATATAATAATATTCAAATAGAACTAAATTAAATTTGAACTTAAAAAATTATA
* *
6698297 TTCAAAGTATTAGTTGAG
131 TTCAAAATATTAGTTGAA
* * * * * *
6698315 CATAATTATAAGATATTAAAAGACTTTTAGTATTAATATTTTAATTTTTAAATT-AAATTAGATA
1 TAAAATTATAA-ATATCAAAAGACTTTTAATACTAATATTTTAATATTTAAATTAAAATTA-A-A
* *
6698379 AAAAATATTATTTATTAATATAATAATATTTTAAATCAGATC-AAATTAAATTTGAACTTAAAAA
63 AAAAATATT-TTTATTAATATAATAATA-TTCAAAT-AGAACTAAATTAAATTTGAACTTAAAAA
*
6698443 ATTATATAT-AAAAT-TTGATTTGAA
125 ATTATAT-TCAAAATATT-AGTTGAA
6698467 TAAAATTATA
1 TAAAATTATA
6698477 CTCAAACATT
Statistics
Matches: 132, Mismatches: 21, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
147 6 0.05
148 8 0.06
149 37 0.28
150 9 0.07
151 20 0.15
152 48 0.36
153 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (148 bp):
TAAAATTATAAATATCAAAAGACTTTTAATACTAATATTTTAATATTTAAATTAAAATTAAAAAA
AATATTTTTATTAATATAATAATATTCAAATAGAACTAAATTAAATTTGAACTTAAAAAATTATA
TTCAAAATATTAGTTGAA
Found at i:6701467 original size:3 final size:3
Alignment explanation
Indices: 6701459--6701498 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6701449 TCATATATGG
*
6701459 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6701499 CTATAAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6702514 original size:2 final size:2
Alignment explanation
Indices: 6702507--6702532 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6702497 TAAAAACATG
6702507 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
6702533 TGGTAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6705758 original size:49 final size:47
Alignment explanation
Indices: 6705701--6705862 Score: 157
Period size: 49 Copynumber: 3.3 Consensus size: 47
6705691 GAGGTCTAGG
*
6705701 TTAGGGTTTGGTTTAGGGGTTGGGGTTAGTTTAGGGTCTAGGTTAGGCT
1 TTAGGGTTTGGTTTAGGGGTT-AGGTTAGTTTAGGGT-TAGGTTAGGCT
* * * *
6705750 TTAGGGTTTGGTTTAAGGATTAAGGTTAGTTTAGGATTAAGGTTAGGTT
1 TTAGGGTTTGGTTTAGGGGTT-AGGTTAGTTTAGGGTT-AGGTTAGGCT
* *
6705799 TTAGGGTTAT--TTTAGGGGTTAGGTTAGGCTTTAGGGTTTGGTTTAGGGT
1 TTAGGGTT-TGGTTTAGGGGTTAGGTTA-G-TTTAGGGTTAGG-TTAGGCT
* *
6705848 TTAAGGTTTGATTTA
1 TTAGGGTTTGGTTTA
6705863 AGATTTAGGG
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
47 6 0.06
48 13 0.14
49 70 0.74
50 5 0.05
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (47 bp):
TTAGGGTTTGGTTTAGGGGTTAGGTTAGTTTAGGGTTAGGTTAGGCT
Found at i:6705787 original size:17 final size:18
Alignment explanation
Indices: 6705760--6705795 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
6705750 TTAGGGTTTG
6705760 GTTTAAGGATTAAGGTTA
1 GTTTAAGGATTAAGGTTA
6705778 GTTT-AGGATTAAGGTTA
1 GTTTAAGGATTAAGGTTA
6705795 G
1 G
6705796 GTTTTAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (18 bp):
GTTTAAGGATTAAGGTTA
Found at i:6705832 original size:7 final size:7
Alignment explanation
Indices: 6705809--6705927 Score: 66
Period size: 7 Copynumber: 18.9 Consensus size: 7
6705799 TTAGGGTTAT
6705809 TTTAGGG
1 TTTAGGG
*
6705816 GTTA-GG
1 TTTAGGG
*
6705822 -TTAGGC
1 TTTAGGG
6705828 TTTAGGG
1 TTTAGGG
6705835 TTT--GG
1 TTTAGGG
6705840 TTTAGGG
1 TTTAGGG
*
6705847 TTTAAGG
1 TTTAGGG
*
6705854 TTT--GA
1 TTTAGGG
* *
6705859 TTTAAGA
1 TTTAGGG
6705866 TTTAGGG
1 TTTAGGG
6705873 TTTAGGG
1 TTTAGGG
6705880 TTT--GG
1 TTTAGGG
*
6705885 TTTAGTG
1 TTTAGGG
6705892 TTTAGGG
1 TTTAGGG
6705899 -TTA--G
1 TTTAGGG
*
6705903 TTTAGGA
1 TTTAGGG
*
6705910 TTTA-TG
1 TTTAGGG
6705916 -TTAGGG
1 TTTAGGG
6705922 TTTAGG
1 TTTAGG
6705928 ATTTGGTTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
4 1 0.01
5 23 0.27
6 7 0.08
7 55 0.64
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:6705844 original size:19 final size:19
Alignment explanation
Indices: 6705730--6705875 Score: 77
Period size: 19 Copynumber: 7.5 Consensus size: 19
6705720 TTGGGGTTAG
* *
6705730 TTTAGGGTCTAGG-TTAGGC
1 TTTAGGGT-TTGGTTTAGGA
6705749 TTTAGGGTTTGGTTTAAGGA
1 TTTAGGGTTTGGTTT-AGGA
* *
6705769 -TTAAGG-TTAGTTTAGGA
1 TTTAGGGTTTGGTTTAGGA
* *
6705786 -TTAAGGTTAGGTTTTAGGGTTA
1 TTTAGGGTTTGG-TTTA-GG--A
* *
6705808 TTTTAGGGGTTAGG-TTAGGC
1 -TTTA-GGGTTTGGTTTAGGA
*
6705828 TTTAGGGTTTGGTTTAGGG
1 TTTAGGGTTTGGTTTAGGA
* * *
6705847 TTTAAGGTTTGATTTAAGA
1 TTTAGGGTTTGGTTTAGGA
6705866 TTTAGGGTTT
1 TTTAGGGTTT
6705876 AGGGTTTGGT
Statistics
Matches: 101, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
17 10 0.10
18 18 0.18
19 52 0.51
20 5 0.05
22 3 0.03
23 3 0.03
24 3 0.03
25 7 0.07
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (19 bp):
TTTAGGGTTTGGTTTAGGA
Found at i:6705878 original size:45 final size:44
Alignment explanation
Indices: 6705822--6705913 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 44
6705812 AGGGGTTAGG
*
6705822 TTAGGCTTTAGGGTTTGGTTTAGGGTTTAAGGTTTGATTTAAGAT
1 TTAGGCTTTAGGGTTTGGTTTAGGGTTTAAGGTTAG-TTTAAGAT
* * * *
6705867 TTAGGGTTTAGGGTTTGGTTTAGTGTTTAGGGTTAGTTTAGGAT
1 TTAGGCTTTAGGGTTTGGTTTAGGGTTTAAGGTTAGTTTAAGAT
6705911 TTA
1 TTA
6705914 TGTTAGGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 10 0.24
45 32 0.76
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (44 bp):
TTAGGCTTTAGGGTTTGGTTTAGGGTTTAAGGTTAGTTTAAGAT
Found at i:6705888 original size:19 final size:19
Alignment explanation
Indices: 6705729--6705937 Score: 76
Period size: 19 Copynumber: 10.9 Consensus size: 19
6705719 GTTGGGGTTA
*
6705729 GTTTAGGGTCTAGG-TTAGG
1 GTTTAGGGT-TTGGTTTAGG
* *
6705748 CTTTAGGGTTTGGTTTAAG
1 GTTTAGGGTTTGGTTTAGG
* * *
6705767 GATTAAGG-TTAGTTTA-G
1 GTTTAGGGTTTGGTTTAGG
* * *
6705784 GATTAAGGTTAGGTTTTAGG
1 GTTTAGGGTTTGG-TTTAGG
*
6705804 GTTATTTTAGGGGTTAGG-TTAGG
1 G----TTTA-GGGTTTGGTTTAGG
*
6705827 CTTTAGGGTTTGGTTTAGG
1 GTTTAGGGTTTGGTTTAGG
* * *
6705846 GTTTAAGGTTTGATTTAAG
1 GTTTAGGGTTTGGTTTAGG
*
6705865 ATTTAGGGTTTAGGGTTT--G
1 GTTTAGGGTTT--GGTTTAGG
* *
6705884 GTTTAGTGTTTAGGGTTA--
1 GTTTAGGGTTT-GGTTTAGG
* *
6705902 GTTTAGGATTT-ATGTTAGG
1 GTTTAGGGTTTGGT-TTAGG
*
6705921 GTTTAGGATTTGGTTTA
1 GTTTAGGGTTTGGTTTA
6705938 CAATTTGGAG
Statistics
Matches: 144, Mismatches: 29, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
17 12 0.08
18 32 0.22
19 78 0.54
20 3 0.02
21 4 0.03
23 5 0.03
24 3 0.02
25 7 0.05
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (19 bp):
GTTTAGGGTTTGGTTTAGG
Found at i:6705895 original size:26 final size:26
Alignment explanation
Indices: 6705839--6705937 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 26
6705829 TTAGGGTTTG
* *
6705839 GTTTAGGGTTTAAGGTTTGATTTAAG-
1 GTTTAGGGTTTAGGGTTTGGTTT-AGT
*
6705865 ATTTAGGGTTTAGGGTTTGGTTTAGT
1 GTTTAGGGTTTAGGGTTTGGTTTAGT
6705891 GTTTAGGG-TTA--GTTTAGGATTTA-T
1 GTTTAGGGTTTAGGGTTT-GG-TTTAGT
*
6705915 G-TTAGGGTTTAGGATTTGGTTTA
1 GTTTAGGGTTTAGGGTTTGGTTTA
6705938 CAATTTGGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
23 10 0.16
24 11 0.18
25 11 0.18
26 30 0.48
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (26 bp):
GTTTAGGGTTTAGGGTTTGGTTTAGT
Found at i:6705925 original size:12 final size:13
Alignment explanation
Indices: 6705828--6705925 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 13
6705818 TAGGTTAGGC
*
6705828 TTTAGGGTTT-GG
1 TTTAGGGTTTATG
*
6705840 TTTAGGGTTTAAGG
1 TTTAGGGTTT-ATG
* *
6705854 TTT--GATTTAAG
1 TTTAGGGTTTATG
*
6705865 ATTTAGGGTTTAGGG
1 -TTTAGGGTTTA-TG
6705880 TTT--GGTTTAGTG
1 TTTAGGGTTTA-TG
6705892 TTTAGGG-TTA-G
1 TTTAGGGTTTATG
*
6705903 TTTAGGATTTATG
1 TTTAGGGTTTATG
6705916 -TTAGGGTTTA
1 TTTAGGGTTTA
6705926 GGATTTGGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
11 9 0.13
12 40 0.58
13 4 0.06
14 15 0.22
15 1 0.01
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (13 bp):
TTTAGGGTTTATG
Found at i:6707997 original size:19 final size:20
Alignment explanation
Indices: 6707954--6708008 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
6707944 TTCAAAATGA
* *
6707954 TTTGATTAATTTTGACTAAT
1 TTTGATCAAGTTTGACTAAT
*
6707974 TTTGATCAAGTTTGACT-TT
1 TTTGATCAAGTTTGACTAAT
*
6707993 TTTGACCAAGTTTGAC
1 TTTGATCAAGTTTGAC
6708009 CTTGGGGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTGATCAAGTTTGACTAAT
Found at i:6708310 original size:19 final size:18
Alignment explanation
Indices: 6708273--6708321 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6708263 GTTATTGATG
*
6708273 TTATTA-TTTTTTTTGGT
1 TTATTATTTTTTTTTAGT
*
6708290 TTATTGTTTTTTTGTTAGT
1 TTATTATTTTTTT-TTAGT
*
6708309 TTTTTATTTTTTT
1 TTATTATTTTTTT
6708322 AAGGACCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 5 0.19
18 6 0.23
19 15 0.58
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (18 bp):
TTATTATTTTTTTTTAGT
Found at i:6708791 original size:79 final size:79
Alignment explanation
Indices: 6708637--6708788 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 79
6708627 AGTTTCTAAG
* *
6708637 GTTTTGCTTGGAAGCCTTGAAAATCATTCCAAAATTTAAAATTTCACCTAGAGGTCTTGGAAAAT
1 GTTTTGCTTGGAAGCCTTGAAAATCATTCAAAAATTTAAAATTTCACCGAGAGGTCTTGGAAAAT
6708702 TTCAAAAATTTAAA
66 TTCAAAAATTTAAA
** * * ***
6708716 GTTTTGCTT-GAAGGCCTTGGCAATCATTTAAAAATTTAAATTTTTGTCGAGAGGTCTT-GAAAA
1 GTTTTGCTTGGAA-GCCTTGAAAATCATTCAAAAATTTAAAATTTCACCGAGAGGTCTTGGAAAA
6708779 TCTTTCAAAA
65 --TTTCAAAA
6708789 TTTTGAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 8 0.13
79 45 0.74
80 8 0.13
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (79 bp):
GTTTTGCTTGGAAGCCTTGAAAATCATTCAAAAATTTAAAATTTCACCGAGAGGTCTTGGAAAAT
TTCAAAAATTTAAA
Found at i:6713227 original size:19 final size:19
Alignment explanation
Indices: 6713205--6713292 Score: 88
Period size: 19 Copynumber: 4.6 Consensus size: 19
6713195 AGGATTTAGG
* *
6713205 GTTTCATTTAGGGTTTCGA
1 GTTTCACTTAAGGTTTCGA
*
6713224 GTTTCACTTAAGGTTTTGA
1 GTTTCACTTAAGGTTTCGA
*
6713243 GTTTCACTTAAGGTTTCAA
1 GTTTCACTTAAGGTTTCGA
** * *
6713262 GTTT-TGTTTAGAGTTTCTA
1 GTTTCACTTAAG-GTTTCGA
6713281 GTTTCACTTAAG
1 GTTTCACTTAAG
6713293 ATTTAGGATT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
18 4 0.07
19 47 0.85
20 4 0.07
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.48
Consensus pattern (19 bp):
GTTTCACTTAAGGTTTCGA
Found at i:6713548 original size:15 final size:16
Alignment explanation
Indices: 6713517--6713551 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6713507 TTCATTAAAA
6713517 ATTTATTATTCTTATT
1 ATTTATTATTCTTATT
*
6713533 ATTTATT-TTTTTATT
1 ATTTATTATTCTTATT
6713548 ATTT
1 ATTT
6713552 TCATTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTATTATTCTTATT
Found at i:6713676 original size:3 final size:3
Alignment explanation
Indices: 6713670--6713714 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
6713660 TTATTTATAC
6713670 TAT TAT TAT TAT TAT TATT TAT TAT TA- TAT T-T T-T TAAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
6713714 T
1 T
6713715 TTAAACACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 27 0.71
4 5 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6713693 original size:16 final size:16
Alignment explanation
Indices: 6713672--6713714 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
6713662 ATTTATACTA
6713672 TTATTATTATTATTAT
1 TTATTATTATTATTAT
*
6713688 TTATTATTA-TATTTT
1 TTATTATTATTATTAT
6713703 TTAATTATTATT
1 TT-ATTATTATT
6713715 TTAAACACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 16 0.67
17 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:6714486 original size:3 final size:3
Alignment explanation
Indices: 6714478--6714519 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
6714468 CCTAACAAGC
* *
6714478 TCT TCT TCT TCT TCT TCT TCT TCT ACT TCT TCT ACT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
6714520 CTCTCTCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:6714524 original size:2 final size:2
Alignment explanation
Indices: 6714517--6714555 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6714507 TTCTACTTCT
6714517 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6714556 TTTAAAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6716082 original size:7 final size:7
Alignment explanation
Indices: 6716072--6716108 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6716062 CTTTTTTCTT
6716072 TTTTATG
1 TTTTATG
6716079 TTTTATG
1 TTTTATG
6716086 TTTTATG
1 TTTTATG
*
6716093 CTTT-TG
1 TTTTATG
6716099 TTTTATG
1 TTTTATG
6716106 TTT
1 TTT
6716109 CTTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.73
Consensus pattern (7 bp):
TTTTATG
Found at i:6716293 original size:31 final size:31
Alignment explanation
Indices: 6716258--6716354 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
6716248 ATGGAATTAA
* * *
6716258 AAGTCGAATGAGGTGACCGAGATTGAACTGC
1 AAGTCAAATAAGGTGACCAAGATTGAACTGC
* **
6716289 AAGTCAAATAAGGTGATCAAGATTGAACCAC
1 AAGTCAAATAAGGTGACCAAGATTGAACTGC
* * * * * *
6716320 AGGTCAAATAAAGTAATCGAGATTGAACCGC
1 AAGTCAAATAAGGTGACCAAGATTGAACTGC
6716351 AAGT
1 AAGT
6716355 TGAGTGAGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (31 bp):
AAGTCAAATAAGGTGACCAAGATTGAACTGC
Found at i:6716538 original size:33 final size:31
Alignment explanation
Indices: 6716500--6716614 Score: 88
Period size: 33 Copynumber: 3.5 Consensus size: 31
6716490 AATTGGGATT
6716500 AAATTTTATTGGGTGCCAACTTGACTGGACTTA
1 AAATTTTATT-GGTGCCAACTTGACTGG-CTTA
* * * * *
6716533 AAATTTAATTGGTG-CTAGTTAAACTAGGCTTT
1 AAATTTTATTGGTGCCAACTT-GACT-GGCTTA
* * *
6716565 AAATTTCATTGGGTGCCAACTAGATTTGGCTTA
1 AAATTTTATT-GGTGCCAACTTGA-CTGGCTTA
*
6716598 AATTTTTATTGGTGCCA
1 AAATTTTATTGGTGCCA
6716615 GCTAAATTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
31 4 0.06
32 26 0.41
33 29 0.46
34 4 0.06
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (31 bp):
AAATTTTATTGGTGCCAACTTGACTGGCTTA
Found at i:6716570 original size:65 final size:65
Alignment explanation
Indices: 6716437--6716758 Score: 201
Period size: 65 Copynumber: 5.0 Consensus size: 65
6716427 AAGTGGGCTT
* * * * * * * **
6716437 AATTCTCATT-GGTGCCAAATA-AACTGAGCTTAAATTTTTATAGGGGCCAGCTAAA-TTGGGAT
1 AATT-TCATTGGGTGCCAACTAGATCTG-GCTTAAAATTTAATTGGTGCCAGCTAAACTAGGCTT
6716499 TA
64 TA
* * * *
6716501 AATTTTATTGGGTGCCAACTTGA-CTGGACTTAAAATTTAATTGGTGCTAGTTAAACTAGGCTTT
1 AATTTCATTGGGTGCCAACTAGATCTGG-CTTAAAATTTAATTGGTGCCAGCTAAACTAGGCTTT
6716565 A
65 A
* * * * *
6716566 AATTTCATTGGGTGCCAACTAGATTTGGCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTTTA
1 AATTTCATTGGGTGCCAACTAGATCTGGCTTAAAATTTAATTGGTGCCAGCTAAACTAGGCTTTA
** * * * * * *
6716631 AATTTCATTATGTGCCAGCTAGAT-TGGGC-TAAGATTTTCATTTGTGCAAGCTAAATTAGGC-T
1 AATTTCATTGGGTGCCAACTAGATCT-GGCTTAA-AATTTAATTGGTGCCAGCTAAACTAGGCTT
6716693 TA
64 TA
* * * * * * * ** *
6716695 CATTTTCATTAGGTGCTAGCTA-AACTGAGTTTAAAATTTTATTGGTGCCATATAAACTGGGCTT
1 -AATTTCATTGGGTGCCAACTAGATCTG-GCTTAAAATTTAATTGGTGCCAGCTAAACTAGGCTT
6716759 AAAACTTGGG
Statistics
Matches: 205, Mismatches: 41, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
63 5 0.02
64 46 0.22
65 147 0.72
66 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (65 bp):
AATTTCATTGGGTGCCAACTAGATCTGGCTTAAAATTTAATTGGTGCCAGCTAAACTAGGCTTTA
Found at i:6716628 original size:32 final size:32
Alignment explanation
Indices: 6716417--6716761 Score: 207
Period size: 32 Copynumber: 10.7 Consensus size: 32
6716407 AACCTCATAA
* * * *
6716417 GTGCCAGATAAAGTGGGCTT-AATTCTCATTG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
** * *
6716448 GTGCCAAATAAACTGAGCTTAAATTTTTATAG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
* * *
6716480 GGGCCAGCTAAATTGGGATTAAA-TTTTATTGG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATT-G
* ** * * *
6716512 GTGCCAACTTGACTGGACTTAAAATTTAATTG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
* * * *
6716544 GTGCTAGTTAAACTAGGCTTTAAA-TTTCATTGG
1 GTGCCAGCTAAACTGGGC-TTAAATTTTTATT-G
* * * *
6716577 GTGCCAACTAGATTTGGCTTAAATTTTTATTG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
*
6716609 GTGCCAGCTAAATTGGGCTTTAAATTTCATTA-T-
1 GTGCCAGCTAAACTGGGC-TTAAATTT--TTATTG
* * * *
6716642 GTGCCAGCTAGATTGGGC-TAAGATTTTCATTT
1 GTGCCAGCTAAACTGGGCTTAA-ATTTTTATTG
* * * * *
6716674 GTGCAAGCTAAATTAGGCTTACATTTTCATTAG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATT-G
* * * *
6716707 GTGCTAGCTAAACTGAGTTTAAAATTTTATTG
1 GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
**
6716739 GTGCCATATAAACTGGGCTTAAA
1 GTGCCAGCTAAACTGGGCTTAAA
6716762 ACTTGGGTAG
Statistics
Matches: 241, Mismatches: 59, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
30 2 0.01
31 27 0.11
32 128 0.53
33 80 0.33
34 1 0.00
35 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (32 bp):
GTGCCAGCTAAACTGGGCTTAAATTTTTATTG
Found at i:6716729 original size:130 final size:130
Alignment explanation
Indices: 6716437--6716758 Score: 321
Period size: 130 Copynumber: 2.5 Consensus size: 130
6716427 AAGTGGGCTT
* * * *
6716437 AATTCTCATT-GGTGCCAAATAAACTGAGCTTAAATTTTTATAGGGGCCAGCTAAATTGGG-ATT
1 AATT-TCATTAGGTGCCAACTAAACTGAGCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTTT
* * * * *
6716500 AAATTTTATTGGGTGCCAACTTGACTGGACTTAAAATTTAATTGGTGCTAGTTAAACTAGGCTTT
65 AAATTTCATTAGGTGCCAACTAGACTGGACTTAAAATTTAATTGGTGCAAGCTAAACTAGGCTTT
6716565 A
130 A
* **
6716566 AATTTCATTGGGTGCCAACTAGATTTG-GCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTTT
1 AATTTCATTAGGTGCCAACTA-AACTGAGCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTTT
* * * * * * * *
6716630 AAATTTCATTATGTGCCAGCTAGATTGGGC-TAAGATTTTCATTTGTGCAAGCTAAATTAGGC-T
65 AAATTTCATTAGGTGCCAACTAGACTGGACTTAA-AATTTAATTGGTGCAAGCTAAACTAGGCTT
6716693 TA
129 TA
* * * * * ** *
6716695 CATTTTCATTAGGTGCTAGCTAAACTGAGTTTAAAATTTTATTGGTGCCATATAAACTGGGCTT
1 -AATTTCATTAGGTGCCAACTAAACTGAGCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTT
6716759 AAAACTTGGG
Statistics
Matches: 157, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
128 5 0.03
129 54 0.34
130 98 0.62
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (130 bp):
AATTTCATTAGGTGCCAACTAAACTGAGCTTAAATTTTTATTGGTGCCAGCTAAATTGGGCTTTA
AATTTCATTAGGTGCCAACTAGACTGGACTTAAAATTTAATTGGTGCAAGCTAAACTAGGCTTTA
Found at i:6716978 original size:22 final size:22
Alignment explanation
Indices: 6716929--6716978 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
6716919 ATACTTTTTT
* * *
6716929 AGCTAATTTGGACTTACGTGCT
1 AGCTAAATTAGACTTACGTGCC
* *
6716951 AACTAAATTAGACTTATGTGCC
1 AGCTAAATTAGACTTACGTGCC
6716973 AGCTAA
1 AGCTAA
6716979 TCTGGGTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
AGCTAAATTAGACTTACGTGCC
Found at i:6716989 original size:22 final size:22
Alignment explanation
Indices: 6716964--6717010 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
6716954 TAAATTAGAC
*
6716964 TTATGTGCCAGCT-AATCTGGGT
1 TTATGTGCAAGCTAAAT-TGGGT
6716986 TTATGTGCAAGCTAAATTGGGT
1 TTATGTGCAAGCTAAATTGGGT
6717008 TTA
1 TTA
6717011 AAACTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (22 bp):
TTATGTGCAAGCTAAATTGGGT
Found at i:6718059 original size:27 final size:30
Alignment explanation
Indices: 6718007--6718078 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
6717997 TTCTTTTTTG
6718007 TTCTTTTTTCTTTCTTTTTGCTTTCACCTT
1 TTCTTTTTTCTTTCTTTTTGCTTTCACCTT
6718037 TTCTTTTTTCTTT-TTTTT-C-TTCACCTT
1 TTCTTTTTTCTTTCTTTTTGCTTTCACCTT
6718064 TT-TTTTCATTCTTTC
1 TTCTTTT--TTCTTTC
6718079 ATTTCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.10
27 10 0.26
28 7 0.18
29 5 0.13
30 13 0.33
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.72
Consensus pattern (30 bp):
TTCTTTTTTCTTTCTTTTTGCTTTCACCTT
Found at i:6718071 original size:39 final size:39
Alignment explanation
Indices: 6717995--6718071 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
6717985 TCATTTCATT
* *
6717995 TTTTCTTTTTTGTTCTTTTTTCTTTCTTTTTGCTTTCACC
1 TTTTCTTTTTTCTTCTTTTTTCTTCCTTTTT-CTTTCACC
6718035 TTTTCTTTTTTCTT-TTTTTTCTTCACCTTTTT-TTTCA
1 TTTTCTTTTTTCTTCTTTTTTCTT--CCTTTTTCTTTCA
6718072 TTCTTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 14 0.42
40 13 0.39
41 6 0.18
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (39 bp):
TTTTCTTTTTTCTTCTTTTTTCTTCCTTTTTCTTTCACC
Found at i:6718083 original size:28 final size:27
Alignment explanation
Indices: 6718007--6718085 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
6717997 TTCTTTTTTG
*
6718007 TTCTTTTTTCTTTCTTTTTGCTTTCACCTT
1 TTCTTTTTTCTTTC-ATTT-C-TTCACCTT
**
6718037 TTCTTTTTTCTTTTTTTTCTTCACCTT
1 TTCTTTTTTCTTTCATTTCTTCACCTT
6718064 TT-TTTTCATTCTTTCATTTCTT
1 TTCTTTT--TTCTTTCATTTCTT
6718086 TTTTTCCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.09
27 10 0.23
28 13 0.30
29 4 0.09
30 13 0.30
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (27 bp):
TTCTTTTTTCTTTCATTTCTTCACCTT
Found at i:6718577 original size:17 final size:17
Alignment explanation
Indices: 6718544--6718583 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6718534 TTTTTTTTCA
6718544 TTTTTTCTTTCTCTCTT
1 TTTTTTCTTTCTCTCTT
*
6718561 TTTTTGTCTTT-TGTCTT
1 TTTTT-TCTTTCTCTCTT
6718578 TTTTTT
1 TTTTTT
6718584 TTAACATGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTTCTCTCTT
Found at i:6718700 original size:22 final size:22
Alignment explanation
Indices: 6718672--6718716 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6718662 AACCACTTTT
*
6718672 AATGAAAGTTATTATGAGAAAA
1 AATGAAAGTTATTACGAGAAAA
6718694 AATGAAAGTTATTACGAGAAAA
1 AATGAAAGTTATTACGAGAAAA
6718716 A
1 A
6718717 GGGCCATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.18, T:0.24
Consensus pattern (22 bp):
AATGAAAGTTATTACGAGAAAA
Done.