Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 50 of 210
Found at i:15242320 original size:16 final size:17
Alignment explanation
Indices: 15242289--15242323 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15242279 AAGACACGTT
15242289 ATTAAAATACATTTAAAA
1 ATTAAAATA-ATTTAAAA
15242307 ATTAAAAT-ATTTAAAA
1 ATTAAAATAATTTAAAA
15242323 A
1 A
15242324 CAAATCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAAATAATTTAAAA
Found at i:15242503 original size:23 final size:23
Alignment explanation
Indices: 15242474--15242520 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15242464 AATATTTATG
15242474 TAAGAATTAAAATATTAAAATTA
1 TAAGAATTAAAATATTAAAATTA
15242497 TAAGAATTAAAATATTAAAATTA
1 TAAGAATTAAAATATTAAAATTA
15242520 T
1 T
15242521 CAATTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAGAATTAAAATATTAAAATTA
Found at i:15242735 original size:23 final size:23
Alignment explanation
Indices: 15242703--15242752 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
15242693 TTGAAAATGC
15242703 AAAATGAAATCAGAAA-AAAACTTT
1 AAAATGAAAT-A-AAAGAAAACTTT
*
15242727 AAAAT-AAATAAAAGAAAAGTTT
1 AAAATGAAATAAAAGAAAACTTT
15242749 AAAA
1 AAAA
15242753 ATGGTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.12
22 12 0.50
23 4 0.17
24 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAATGAAATAAAAGAAAACTTT
Found at i:15246311 original size:19 final size:19
Alignment explanation
Indices: 15246267--15246302 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15246257 TCCAAGTCAG
15246267 ATAA-AAAAATTAAAATAA
1 ATAACAAAAATTAAAATAA
15246285 ATAACAAAAA-TAAAATAA
1 ATAACAAAAATTAAAATAA
15246303 TAAATCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
ATAACAAAAATTAAAATAA
Found at i:15250439 original size:13 final size:14
Alignment explanation
Indices: 15250418--15250454 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
15250408 TCCAAGTCGG
15250418 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
15250432 AT-AAATAACTAAA
1 ATAAAATAATTAAA
15250445 ATAAAATAAT
1 ATAAAATAAT
15250455 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:15253458 original size:26 final size:24
Alignment explanation
Indices: 15253425--15253484 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
15253415 GCCATGATCG
*
15253425 GTAAGCTCATTTCGAGCTAAAGAACA
1 GTAAGCTCATATCGAGCT-AA-AACA
*
15253451 GTAAGCTC-TATCGAGCTAAAACG
1 GTAAGCTCATATCGAGCTAAAACA
15253474 GTAAGCTCATA
1 GTAAGCTCATA
15253485 AGAGCTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 11 0.35
24 4 0.13
25 8 0.26
26 8 0.26
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (24 bp):
GTAAGCTCATATCGAGCTAAAACA
Found at i:15253489 original size:23 final size:25
Alignment explanation
Indices: 15253423--15253516 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 25
15253413 GAGCCATGAT
*
15253423 CGGTAAGCTCATTTCGAGCTAAAGAA
1 CGGTAAGCTCA-TACGAGCTAAAGAA
*
15253449 CAGTAAGCTC-TATCGAGCT-AA-AA
1 CGGTAAGCTCATA-CGAGCTAAAGAA
* * * *
15253472 CGGTAAGCTCATAAGAGCTGATATAT
1 CGGTAAGCTCATACGAGCT-AAAGAA
*
15253498 CGGTAAGCTCGTACGAGCT
1 CGGTAAGCTCATACGAGCT
15253517 GTGGTGAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 16 0.29
24 5 0.09
25 7 0.13
26 27 0.49
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTAAAGAA
Found at i:15255669 original size:17 final size:18
Alignment explanation
Indices: 15255649--15255692 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15255639 ATTGCAGTCT
15255649 ACATAAAAT-AGCAACTC
1 ACATAAAATAAGCAACTC
* * *
15255666 ACATATAATAAGTAATTC
1 ACATAAAATAAGCAACTC
15255684 ACATAAAAT
1 ACATAAAAT
15255693 GGGCAGATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (18 bp):
ACATAAAATAAGCAACTC
Found at i:15256482 original size:18 final size:18
Alignment explanation
Indices: 15256459--15256512 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
15256449 ATAGTTTGGA
15256459 AAATTAATACAGTTCACC
1 AAATTAATACAGTTCACC
* *
15256477 ATATTAATACAGATCACC
1 AAATTAATACAGTTCACC
* *
15256495 AAATTAACACACTTCACC
1 AAATTAATACAGTTCACC
15256513 TTAATAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATTAATACAGTTCACC
Found at i:15256738 original size:15 final size:16
Alignment explanation
Indices: 15256706--15256738 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15256696 CATTATCAAT
15256706 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
15256723 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
15256738 A
1 A
15256739 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:15258307 original size:32 final size:31
Alignment explanation
Indices: 15258242--15258308 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
15258232 ACCTAAAATT
* * *
15258242 ATTAATTCTAATTATTATAATATTTTATTTA
1 ATTAATTCTAATTATTATAATATATAATCTA
15258273 ATTAATTCCTAATTATT-TAATTATATAATCTA
1 ATTAATT-CTAATTATTATAA-TATATAATCTA
15258305 ATTA
1 ATTA
15258309 CAGTTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTAATTCTAATTATTATAATATATAATCTA
Found at i:15258569 original size:31 final size:31
Alignment explanation
Indices: 15258534--15258595 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
15258524 TTCAAAATGT
15258534 TCACTAAACTATTCAAAAGTTTACATTTAAA
1 TCACTAAACTATTCAAAAGTTTACATTTAAA
* **
15258565 TCACTGAACTATTCAAAAGTTTTTATTTAAA
1 TCACTAAACTATTCAAAAGTTTACATTTAAA
15258596 CATTGGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.39
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTACATTTAAA
Found at i:15262557 original size:24 final size:24
Alignment explanation
Indices: 15262530--15262575 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15262520 AAATCCAAAA
*
15262530 TAAAAAAAATTTTAAATTTAAATT
1 TAAAAAAAATTTTAAAATTAAATT
* *
15262554 TAAAATATATTTTAAAATTAAA
1 TAAAAAAAATTTTAAAATTAAA
15262576 CTTTTAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAAAAAATTTTAAAATTAAATT
Found at i:15285948 original size:18 final size:18
Alignment explanation
Indices: 15285927--15285965 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
15285917 AGTTATTTGA
15285927 ATTGTAAAATTCAACTCG
1 ATTGTAAAATTCAACTCG
15285945 ATTGTAAAATTCAACTCG
1 ATTGTAAAATTCAACTCG
15285963 ATT
1 ATT
15285966 TCTTACCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
ATTGTAAAATTCAACTCG
Found at i:15286871 original size:20 final size:21
Alignment explanation
Indices: 15286840--15286880 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
15286830 CCGTCTACCC
*
15286840 ATATTAATTTTTTTATATATT
1 ATATTAATTTTTTTACATATT
15286861 ATATT-ATTTTTTTACATATT
1 ATATTAATTTTTTTACATATT
15286881 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
ATATTAATTTTTTTACATATT
Found at i:15293701 original size:20 final size:20
Alignment explanation
Indices: 15293676--15293715 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15293666 AATATTTTCC
*
15293676 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
15293696 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
15293716 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:15293730 original size:34 final size:35
Alignment explanation
Indices: 15293664--15293730 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15293654 CAAACACCAG
*
15293664 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
15293699 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
15293731 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15294336 original size:9 final size:9
Alignment explanation
Indices: 15294324--15294353 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
15294314 TAATCTATTT
15294324 AATCAATTC
1 AATCAATTC
15294333 AATCAATTC
1 AATCAATTC
15294342 AATCAATTC
1 AATCAATTC
15294351 AAT
1 AAT
15294354 GTTTAGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
AATCAATTC
Found at i:15300592 original size:14 final size:14
Alignment explanation
Indices: 15300573--15300600 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15300563 GCACACATTT
15300573 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
15300587 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
15300601 CTACTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.29, G:0.21, T:0.50
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:15300659 original size:11 final size:11
Alignment explanation
Indices: 15300643--15300674 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15300633 TCCAAATTTT
15300643 GTTCTCTGCTG
1 GTTCTCTGCTG
*
15300654 GTTCTCTGTTG
1 GTTCTCTGCTG
15300665 GTTCTCTGCT
1 GTTCTCTGCT
15300675 AGTGCTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.25, G:0.25, T:0.50
Consensus pattern (11 bp):
GTTCTCTGCTG
Found at i:15300729 original size:25 final size:23
Alignment explanation
Indices: 15300683--15300739 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
15300673 CTAGTGCTGG
15300683 TGTTCCTCTGCTTGCTAGTTCTT
1 TGTTCCTCTGCTTGCTAGTTCTT
* *
15300706 TGTTCCTTTGCTGGTGCTTGTTCTT
1 TGTTCCTCTGCT--TGCTAGTTCTT
15300731 TGTTCCTCT
1 TGTTCCTCT
15300740 TCTCCACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 11 0.38
25 18 0.62
ACGTcount: A:0.02, C:0.25, G:0.19, T:0.54
Consensus pattern (23 bp):
TGTTCCTCTGCTTGCTAGTTCTT
Found at i:15301697 original size:72 final size:72
Alignment explanation
Indices: 15301598--15301768 Score: 251
Period size: 72 Copynumber: 2.4 Consensus size: 72
15301588 CTGGTAATGC
* *
15301598 TAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGT-TTTTGAATATTGAATTTATGTTCTACTT
1 TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAG-ATATTGAATTTATGTTCTACTT
*
15301661 ATTTATGT
65 ATTTATAT
*
15301669 GT-AATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
1 -TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
15301733 ATTTTTAT
65 ATTTATAT
15301741 TAAAT-TAGTTTTATCAATAGTTGTTTAT
1 TAAATCTAGTTTTATCAATAGTTGTTTAT
15301769 ATATGATTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
71 25 0.28
72 61 0.68
73 4 0.04
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
TTTATAT
Found at i:15304791 original size:3 final size:3
Alignment explanation
Indices: 15304785--15304811 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15304775 ACTTCTTCTT
15304785 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
15304812 TGGGTTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15309737 original size:19 final size:19
Alignment explanation
Indices: 15309715--15309769 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
15309705 ATTACAAAAT
15309715 AAATTCAAAATAAATTT-T-A
1 AAATTCAAAAT--ATTTATAA
15309734 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
15309753 AAATTCAAAA-ATTTATA
1 AAATTCAAAATATTTATA
15309770 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 22 0.65
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:15315841 original size:38 final size:38
Alignment explanation
Indices: 15315798--15315872 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
15315788 TAGCATATAA
15315798 CAACTCACTAGATGAAACCAAGTTATGGCATAGAAGAC
1 CAACTCACTAGATGAAACCAAGTTATGGCATAGAAGAC
*
15315836 CAACTCACTAGATGAAACCAAGTTATGGTATAGAAGA
1 CAACTCACTAGATGAAACCAAGTTATGGCATAGAAGA
15315873 ATGGGACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (38 bp):
CAACTCACTAGATGAAACCAAGTTATGGCATAGAAGAC
Found at i:15318482 original size:17 final size:17
Alignment explanation
Indices: 15318462--15318494 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15318452 GTCTGTGAGC
15318462 TCACCAA-ATCTGCAAGT
1 TCACCAAGA-CTGCAAGT
15318479 TCACCAAGACTGCAAG
1 TCACCAAGACTGCAAG
15318495 CTTACCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.18
Consensus pattern (17 bp):
TCACCAAGACTGCAAGT
Found at i:15319642 original size:23 final size:24
Alignment explanation
Indices: 15319598--15319644 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
15319588 AACAAAAAAA
*
15319598 AAACATATAAAAGGAGAACTTTAGT
1 AAACAGATAAAA-GAGAACTTTAGT
15319623 AAACAGATAAAA-AGAACTTTAG
1 AAACAGATAAAAGAGAACTTTAG
15319645 CATTTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (24 bp):
AAACAGATAAAAGAGAACTTTAGT
Found at i:15320427 original size:266 final size:266
Alignment explanation
Indices: 15319945--15320481 Score: 794
Period size: 266 Copynumber: 2.0 Consensus size: 266
15319935 AGTATAATAA
** * *
15319945 AAATATGTTTGACTCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTATTTATTAGA
1 AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTACTTATTAGA
*
15320010 TTAAAAATATTTAAAAAAATTAATTTTAATTATAAATTAATAAACATATGTGTGACCCAAATTCT
66 TTAAAAACATTTAAAAAAATTAATTTTAATTATAAATTAATAAACATATGTGTGACCCAAATTCT
* ** *
15320075 TGTCAAATAAAATAAGACATTGTTTGCAATTCAAGTTAAACAAAATATATTTTCTTTCTAGAAGA
131 TATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCTAGAAGA
* * *
15320140 TTTAGTATTTATTAGTATAATATATTTTACA-TTATTAGCATAATTTATTTGACCTATGAATTTA
196 TTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACGAATTTA
15320204 ATCTAT
261 ATCTAT
15320210 AAATATGTGAGACCCATTATAATAAGAATATATATATGTAATATTTGTCTAGTTAATGTACTTAT
1 AAATATGTGAGACCCATTATAATAAG-A-ATATATA--TAATATTTGTCTAGTTAATGTACTTAT
**** *
15320275 TAGATTAAAAACATTT-TTTTAATTAATTTTAATTATAAATTAAT-AA-ATATGTGTTACCCAAA
62 TAGATTAAAAACATTTAAAAAAATTAATTTTAATTATAAATTAATAAACATATGTGTGACCCAAA
* * *
15320337 TTCTTATTAAATAAAATAAGAGATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTTTAG
127 TTCTTATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCTAG
** *
15320402 AAGATTTAGTATCTATTAATATAATATATTTTGTATTTATTAGTATAATTTATTTGACCTACGAA
192 AAGATTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACGAA
*
15320467 TTTAGTCTAT
257 TTTAATCTAT
15320477 AAATA
1 AAATA
15320482 GACACTTTTA
Statistics
Matches: 243, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
265 23 0.09
266 105 0.43
267 50 0.21
268 24 0.10
269 41 0.17
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (266 bp):
AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTACTTATTAGA
TTAAAAACATTTAAAAAAATTAATTTTAATTATAAATTAATAAACATATGTGTGACCCAAATTCT
TATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCTAGAAGA
TTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACGAATTTA
ATCTAT
Found at i:15320432 original size:24 final size:24
Alignment explanation
Indices: 15320405--15320456 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15320395 TTTTTAGAAG
15320405 ATTTAGTATCTATTAATATAATAT
1 ATTTAGTATCTATTAATATAATAT
* * * *
15320429 ATTTTGTATTTATTAGTATAATTT
1 ATTTAGTATCTATTAATATAATAT
15320453 ATTT
1 ATTT
15320457 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGTATCTATTAATATAATAT
Found at i:15331924 original size:33 final size:36
Alignment explanation
Indices: 15331849--15331926 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
15331839 ATAAATTCTT
* *
15331849 ATACAAATATTATTGTTGTAAAAAAAAAGTCGAATA
1 ATACAAATATTATTGTCGTAAAAAAAAAGTCCAATA
*
15331885 ATACAAATATTATTGTCGT-AAAAAGAA-TCCAATA
1 ATACAAATATTATTGTCGTAAAAAAAAAGTCCAATA
15331919 A-ACAAATA
1 ATACAAATA
15331927 AAGACAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 7 0.18
34 7 0.18
35 7 0.18
36 18 0.46
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (36 bp):
ATACAAATATTATTGTCGTAAAAAAAAAGTCCAATA
Found at i:15336508 original size:24 final size:24
Alignment explanation
Indices: 15336493--15336544 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15336483 AATCAAAGTC
15336493 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
15336517 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
15336541 AAAT
1 AAAT
15336545 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:15340911 original size:24 final size:24
Alignment explanation
Indices: 15340896--15340947 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15340886 AATCAAAGTC
15340896 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
15340920 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
15340944 AAAT
1 AAAT
15340948 CTTCTAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:15342252 original size:31 final size:30
Alignment explanation
Indices: 15342216--15342287 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
15342206 GATTAAATCA
*
15342216 AAATTAAAGTTTAAAGTATACATTTGAACC
1 AAATTAAAGTTTAAAGTATACAATTGAACC
* * * * *
15342246 ACAATTAGAGTTTCAGGTATATAATTGCACC
1 A-AATTAAAGTTTAAAGTATACAATTGAACC
15342277 AAATTAAAGTT
1 AAATTAAAGTT
15342288 CATTTATACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTAAAGTATACAATTGAACC
Found at i:15342329 original size:29 final size:27
Alignment explanation
Indices: 15342265--15342329 Score: 67
Period size: 31 Copynumber: 2.3 Consensus size: 27
15342255 GTTTCAGGTA
* *
15342265 TATAATTGCACCAAATTAAAGTTCATT
1 TATAATTGCACCAAATCAAAGTTCATG
*
15342292 TATACAATTGCACACTAAATCAAAGTTTATG
1 TAT--AATTGCAC-C-AAATCAAAGTTCATG
15342323 TATAATT
1 TATAATT
15342330 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.10
29 12 0.39
30 1 0.03
31 15 0.48
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (27 bp):
TATAATTGCACCAAATCAAAGTTCATG
Found at i:15342426 original size:18 final size:19
Alignment explanation
Indices: 15342403--15342446 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
15342393 AATATTTTAA
*
15342403 TTAATAATAAA-AATAAAT
1 TTAATAATAAATAAAAAAT
15342421 TTAATAATAAATAAAAAAT
1 TTAATAATAAATAAAAAAT
*
15342440 ATAATAA
1 TTAATAA
15342447 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAATAATAAATAAAAAAT
Found at i:15348486 original size:5 final size:5
Alignment explanation
Indices: 15348480--15348511 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
15348470 TTGAGTAGTG
*
15348480 GAGTG GAGTT GAGTT GAGTT GAGTT GAGTT GA
1 GAGTT GAGTT GAGTT GAGTT GAGTT GAGTT GA
15348512 ACTACTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (5 bp):
GAGTT
Found at i:15357449 original size:155 final size:156
Alignment explanation
Indices: 15357167--15357479 Score: 538
Period size: 155 Copynumber: 2.0 Consensus size: 156
15357157 AATTACAAAT
*
15357167 GAACAAAATCTTACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
1 GAACAAAATCTCACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
* * * *
15357232 TTGGGGGCAAAAAGGAATTGGTTTTTATTTTAGTATACAAGTTTTTTTTATATATAATTTTCTAC
66 TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTATACAAGTTTTTTATATAAATAATTTTCTAA
*
15357297 AG-TTTTAAATTTTTTAGATTTTTAA
131 AGTTTTTAAATGTTTTAGATTTTTAA
*
15357322 GAACAAAATCTCACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGGTTTTTA
1 GAACAAAATCTCACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
* *
15357387 TTGGGGGCAAAAGGGAATAGGTTTTTATTTTAGTTTACAAGTTTTTTATATAAATAATTTTCTAA
66 TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTATACAAGTTTTTTATATAAATAATTTTCTAA
15357452 AGTTTTTAAATGTTTTAGATTTTTAA
131 AGTTTTTAAATGTTTTAGATTTTTAA
15357478 GA
1 GA
15357480 TTTTCACTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
155 124 0.84
156 24 0.16
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (156 bp):
GAACAAAATCTCACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTATACAAGTTTTTTATATAAATAATTTTCTAA
AGTTTTTAAATGTTTTAGATTTTTAA
Found at i:15369284 original size:22 final size:22
Alignment explanation
Indices: 15369231--15369284 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
15369221 ATTAACTCAA
15369231 TCATAAAACATTTCAATTCACT
1 TCATAAAACATTTCAATTCACT
* ** *
15369253 TAATTCAACATTTCATTATCA-T
1 TCATAAAACATTTCAAT-TCACT
15369275 TCATAAAACA
1 TCATAAAACA
15369285 AACAATCATT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (22 bp):
TCATAAAACATTTCAATTCACT
Found at i:15371049 original size:23 final size:20
Alignment explanation
Indices: 15371006--15371045 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15370996 TGGTGGTGAG
15371006 CAAAAATGATGATAATTTCT
1 CAAAAATGATGATAATTTCT
15371026 CAAAAATGATGATAATTTCT
1 CAAAAATGATGATAATTTCT
15371046 TCTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
CAAAAATGATGATAATTTCT
Found at i:15375603 original size:50 final size:50
Alignment explanation
Indices: 15375486--15375769 Score: 302
Period size: 50 Copynumber: 5.7 Consensus size: 50
15375476 ACATGTCAAA
** ** * * *
15375486 GCCATGTCCCAGACATGGTCTTACATGAAATGTTTCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAAC
* * ** * * *
15375535 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * ** **
15375585 GCCATATCCCAAACATGGTCTTACGGGGGACCAATCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
15375635 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * *
15375685 GTCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * *
15375735 GCCATTTCCCATACACGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15375770 TTACCCAAAT
Statistics
Matches: 198, Mismatches: 35, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
48 1 0.01
49 32 0.16
50 165 0.83
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:15376141 original size:30 final size:30
Alignment explanation
Indices: 15376107--15376164 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15376097 ACTCGACTCT
15376107 AACTTTGGA-AAAATTACAATTTTGCCCCTA
1 AACTTT-GACAAAATTACAATTTTGCCCCTA
* * *
15376137 AACTTTTACACAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
15376165 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:15377655 original size:23 final size:24
Alignment explanation
Indices: 15377601--15377652 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15377591 ACAAATAAAT
* *
15377601 TACTACTAAAATAATAACCAATTA
1 TACTAATAAAATAATAACCAACTA
15377625 TACTAATAAAA-AATAACCAACTA
1 TACTAATAAAATAATAACCAACTA
15377648 -ACTAA
1 TACTAA
15377653 ATACACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 10 0.38
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (24 bp):
TACTAATAAAATAATAACCAACTA
Found at i:15382726 original size:6 final size:6
Alignment explanation
Indices: 15382681--15382711 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15382671 TAATATGTTT
15382681 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
15382712 CATATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:15383439 original size:17 final size:17
Alignment explanation
Indices: 15383405--15383453 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
15383395 TTCTCTCGCA
*
15383405 TTTATA-TTTTTTTA-T
1 TTTATAGTTTTTTAATT
15383420 TTTAT-GTTGTTTTAATT
1 TTTATAGTT-TTTTAATT
*
15383437 TTTTTAGTTTTTTAATT
1 TTTATAGTTTTTTAATT
15383454 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 13 0.46
18 3 0.11
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTATAGTTTTTTAATT
Found at i:15383458 original size:17 final size:19
Alignment explanation
Indices: 15383416--15383458 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
15383406 TTATATTTTT
15383416 TTATTTTATGTTGTTTTAA
1 TTATTTTATGTTGTTTTAA
*
15383435 TTTTTTTA-GTT-TTTTAA
1 TTATTTTATGTTGTTTTAA
15383452 TTATTTT
1 TTATTTT
15383459 TTAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (19 bp):
TTATTTTATGTTGTTTTAA
Found at i:15383590 original size:97 final size:100
Alignment explanation
Indices: 15383488--15383686 Score: 307
Period size: 97 Copynumber: 2.0 Consensus size: 100
15383478 TCTTCAAATG
15383488 TTTAATCAA-AATATCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAAT-AAA-A
1 TTTAATCAATAAT-TCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATGAAATA
*
15383550 ATATAT-TTTATATATATCATTATGTTAAAAATATT
65 ATATATATTTATATATACCATTATGTTAAAAATATT
* * *
15383585 TTTAATTAATAATTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATGAAATTA
1 TTTAATCAATAATTCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATGAAATAA
* *
15383650 TATATATTTATATTTACCATTATGTTAAATATATT
66 TATATATTTATATATACCATTATGTTAAAAATATT
15383685 TT
1 TT
15383687 ATTTTTAACT
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
97 52 0.57
98 6 0.07
99 6 0.07
100 28 0.30
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (100 bp):
TTTAATCAATAATTCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATGAAATAA
TATATATTTATATATACCATTATGTTAAAAATATT
Found at i:15388757 original size:28 final size:28
Alignment explanation
Indices: 15388726--15388784 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
15388716 ACACACCCGA
*
15388726 AATAAATAT-AAATCCTCCATAACACACC
1 AATAAATATCAAATCCTCC-CAACACACC
*
15388754 AAT--ATATCATATCCTCCCAACACACC
1 AATAAATATCAAATCCTCCCAACACACC
15388780 AATAA
1 AATAA
15388785 GGCATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
26 15 0.58
27 8 0.31
28 3 0.12
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (28 bp):
AATAAATATCAAATCCTCCCAACACACC
Found at i:15389963 original size:24 final size:21
Alignment explanation
Indices: 15389933--15389980 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 21
15389923 ATATTTATAA
15389933 TATAATTAATTTAATAATATACTT
1 TATAATTAATTT-AT-ATATA-TT
15389957 TATAATTAATTTATATATATT
1 TATAATTAATTTATATATATT
15389978 TAT
1 TAT
15389981 CTAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 2 0.08
24 12 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATAATTAATTTATATATATT
Found at i:15389971 original size:11 final size:11
Alignment explanation
Indices: 15389933--15389971 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
15389923 ATATTTATAA
15389933 TATAATTAATT
1 TATAATTAATT
*
15389944 TAATAATATACTT
1 T-ATAAT-TAATT
15389957 TATAATTAATT
1 TATAATTAATT
15389968 TATA
1 TATA
15389972 TATATTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:15397864 original size:45 final size:45
Alignment explanation
Indices: 15397789--15397952 Score: 131
Period size: 45 Copynumber: 3.7 Consensus size: 45
15397779 TACACGGTGG
* * * * *
15397789 ATCAGCACACAGC-ACCACCCTTATAATCAATAGTACTCAGTGAA
1 ATCAGCACATAGCAACTACCTTTATACTCAATGGTACTCAGTGAA
***
15397833 ATCAGCACATAGCAACTACCTTTATACTCAATGGTACAGGGTGAA
1 ATCAGCACATAGCAACTACCTTTATACTCAATGGTACTCAGTGAA
* * **
15397878 TTCAACACATAGCAA-T-CACTTATATAAC-CGTTGGTA-TCCAGTGAA
1 ATCAGCACATAGCAACTAC-CTT-TAT-ACTCAATGGTACT-CAGTGAA
* *
15397923 ATCAGCACATAGCAATTACCTTTATTCTCA
1 ATCAGCACATAGCAACTACCTTTATACTCA
15397953 TTAATATCTG
Statistics
Matches: 93, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 17 0.18
45 68 0.73
46 6 0.06
47 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (45 bp):
ATCAGCACATAGCAACTACCTTTATACTCAATGGTACTCAGTGAA
Found at i:15397980 original size:90 final size:90
Alignment explanation
Indices: 15397826--15397992 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
15397816 CAATAGTACT
** *
15397826 CAGTGAAATCAGCACATAGCAACTACCTTTATACTCAATGGTACAGGGTGAATTCAACACATAGC
1 CAGTGAAATCAGCACATAGCAACTACCTTTATACTCAATAATACAGGGTGAATTCAACAAATAGC
*
15397891 AATCACTTATATAACCGTTGGTATC
66 AATCACCTATATAACCGTTGGTATC
* * * * *
15397916 CAGTGAAATCAGCACATAGCAATTACCTTTATTCTCATTAATATC-TGGTGGAA-TCAGCAAATA
1 CAGTGAAATCAGCACATAGCAACTACCTTTATACTCAATAATA-CAGGGT-GAATTCAACAAATA
*
15397979 GCATTCACCTATAT
64 GCAATCACCTATAT
15397993 TTTCAACGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 61 0.94
91 4 0.06
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (90 bp):
CAGTGAAATCAGCACATAGCAACTACCTTTATACTCAATAATACAGGGTGAATTCAACAAATAGC
AATCACCTATATAACCGTTGGTATC
Found at i:15398557 original size:50 final size:50
Alignment explanation
Indices: 15398391--15398667 Score: 350
Period size: 50 Copynumber: 5.6 Consensus size: 50
15398381 TAGGACGCCA
* * * * *
15398391 ATGCCATATCCCAGATATGGTCTTACA-TGGGATC-AC-ATATCGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GGCTCTCCTATATCCGTGCCG
* * * *
15398439 ATGCCATGTCCCAGACATGGTCTTACTCTGGCCCT-C-ATCT-CGAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
*
15398486 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATGTCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
15398536 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
* * *** **
15398586 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTTTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
15398636 ATGCCATGTCCCAGACATGGTCTTACACTGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC
15398668 ACACTCATTG
Statistics
Matches: 203, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 38 0.19
48 32 0.16
49 4 0.02
50 129 0.64
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGTGCCG
Found at i:15398693 original size:150 final size:145
Alignment explanation
Indices: 15398394--15398669 Score: 356
Period size: 147 Copynumber: 1.9 Consensus size: 145
15398384 GACGCCAATG
* * *
15398394 CCATATCCCAGATATGGTCTTACATGGGATCACATATCGGTGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACATGGGATCACATATCCGTGCCGATGCCATGTCCCAGACATGG
* * * * *
15398459 TCTTACTCTGGCCCTCATCTCGAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCT
66 TCTTACACTAGCACTCATCTCGAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT
* *
15398524 ATGTCCGTGCCGATG
131 ATGTCCATGCCGATA
* *
15398539 CCATGTCCCAGACATGGTCTTACACT-GGCTCTCCTATATCCGTGCCGATGCCATGTCCCAGACA
1 CCATGTCCCAGACATGGTCTTACA-TGGGATC-AC-ATATCCGTGCCGATGCCATGTCCCAGACA
* **
15398603 TGGTCTTACACTAGCACTCCTCGGTCTTTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
63 TGGTCTTACACTAGCACTCATC--TC-GAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
15398668 AC
125 AC
15398670 ACTCATTGCC
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
145 26 0.23
146 2 0.02
147 46 0.41
149 2 0.02
150 37 0.33
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (145 bp):
CCATGTCCCAGACATGGTCTTACATGGGATCACATATCCGTGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCACTCATCTCGAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT
ATGTCCATGCCGATA
Found at i:15403791 original size:9 final size:9
Alignment explanation
Indices: 15403777--15403807 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15403767 GTTAAACGAA
15403777 TCGAGTTAT
1 TCGAGTTAT
*
15403786 TCGAGTTAA
1 TCGAGTTAT
15403795 TCGAGTTAT
1 TCGAGTTAT
15403804 TCGA
1 TCGA
15403808 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15403876 original size:9 final size:9
Alignment explanation
Indices: 15403859--15403895 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15403849 TGAGTTTTCG
15403859 AATTCGAAT
1 AATTCGAAT
*
15403868 AACTCGAAT
1 AATTCGAAT
15403877 AATTCGAAT
1 AATTCGAAT
15403886 AATTCGAAT
1 AATTCGAAT
15403895 A
1 A
15403896 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15406108 original size:20 final size:21
Alignment explanation
Indices: 15406068--15406107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15406058 TAATAGTGGA
15406068 TTTAGAAATAAATCCTAAAAT
1 TTTAGAAATAAATCCTAAAAT
* *
15406089 TTTAGAGATAAATCGTAAA
1 TTTAGAAATAAATCCTAAA
15406108 TAAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTAGAAATAAATCCTAAAAT
Found at i:15408976 original size:16 final size:15
Alignment explanation
Indices: 15408951--15408981 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
15408941 TAATGAATAG
15408951 TAAAATTTTTAAAAA
1 TAAAATTTTTAAAAA
15408966 TAAATATTTTTAAAAA
1 TAAA-ATTTTTAAAAA
15408982 AGACACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTTTTAAAAA
Found at i:15409854 original size:20 final size:20
Alignment explanation
Indices: 15409831--15409871 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15409821 AAATTAGGGT
* *
15409831 TTTTTTGTATTTTTAATGAA
1 TTTTTTATATTTTTAAAGAA
15409851 TTTTTTATATTTTTAAAGAA
1 TTTTTTATATTTTTAAAGAA
15409871 T
1 T
15409872 ATTGAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTTTATATTTTTAAAGAA
Found at i:15410281 original size:19 final size:19
Alignment explanation
Indices: 15410259--15410298 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15410249 TAAAATGAAA
*
15410259 AAAAAAACCCCAAAATTTT
1 AAAAAAACCACAAAATTTT
* *
15410278 AAAAAAATCATAAAATTTT
1 AAAAAAACCACAAAATTTT
15410297 AA
1 AA
15410299 GATTTTCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAAACCACAAAATTTT
Found at i:15422786 original size:31 final size:32
Alignment explanation
Indices: 15422751--15422824 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
15422741 TCCAATGAGT
*
15422751 TAAAATTAAATTT-AAAAACTTTTAAGGGA-GA
1 TAAAATAAAATTTGAAAAA-TTTTAAGGGATGA
* *
15422782 TAAAATAAAATTTGTAAAATTTTAGGGGATGA
1 TAAAATAAAATTTGAAAAATTTTAAGGGATGA
*
15422814 TAAGATAAAAT
1 TAAAATAAAAT
15422825 GGTGGTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.57
32 16 0.43
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.32
Consensus pattern (32 bp):
TAAAATAAAATTTGAAAAATTTTAAGGGATGA
Found at i:15423095 original size:9 final size:9
Alignment explanation
Indices: 15423081--15423150 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
15423071 ATTAAACTAT
15423081 TATTTTTTA
1 TATTTTTTA
15423090 TATTTTTTA
1 TATTTTTTA
*
15423099 TACTTTTTA
1 TATTTTTTA
* * *
15423108 AATTTGTAA
1 TATTTTTTA
*
15423117 TAATTTTTA
1 TATTTTTTA
*
15423126 TGCTTTTTTCA
1 T-ATTTTTT-A
*
15423137 AATTTTTTA
1 TATTTTTTA
15423146 TATTT
1 TATTT
15423151 AAAAAATTAA
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
9 33 0.73
10 11 0.24
11 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (9 bp):
TATTTTTTA
Found at i:15423819 original size:21 final size:21
Alignment explanation
Indices: 15423795--15423840 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15423785 TACAAAAGTG
*
15423795 TTAATATCTA-ATTATAAATAT
1 TTAATAGCTATATT-TAAATAT
*
15423816 TTAATGGCTATATTTAAATAT
1 TTAATAGCTATATTTAAATAT
15423837 TTAA
1 TTAA
15423841 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAATAGCTATATTTAAATAT
Found at i:15423867 original size:33 final size:35
Alignment explanation
Indices: 15423829--15423925 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 35
15423819 ATGGCTATAT
15423829 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
15423862 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
15423897 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
15423926 AAAATATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
32 7 0.13
33 25 0.48
34 5 0.10
35 12 0.23
36 3 0.06
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:15424259 original size:7 final size:7
Alignment explanation
Indices: 15424240--15424277 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
15424230 TCTGCTACCT
15424240 TTCTTT-
1 TTCTTTC
15424246 TTCTTTC
1 TTCTTTC
*
15424253 CTCTTTC
1 TTCTTTC
15424260 TTCTTTC
1 TTCTTTC
15424267 TTCTTT-
1 TTCTTTC
15424273 TTCTT
1 TTCTT
15424278 CCTCATCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTTC
Found at i:15424365 original size:23 final size:22
Alignment explanation
Indices: 15424335--15424391 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
15424325 ATGAATTTTC
15424335 AAAAACATAATTAAAAAACATTT
1 AAAAACATAATTAAAAAA-ATTT
* *
15424358 AAAAACATAGTTAATAAAATTT
1 AAAAACATAATTAAAAAAATTT
*
15424380 TAAAA-ATAATTA
1 AAAAACATAATTA
15424392 CAATATCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 16 0.53
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAACATAATTAAAAAAATTT
Found at i:15424821 original size:2 final size:2
Alignment explanation
Indices: 15424814--15424849 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15424804 ATTAAAAATA
15424814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15424850 GTAACTTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15429199 original size:25 final size:25
Alignment explanation
Indices: 15429167--15429267 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 25
15429157 GGCTCTTTGT
15429167 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCTGATTAATGGCTCTCCG
* * * **
15429192 GAGCTTCC-CAAT-ATGGCTCACTT
1 GAGCTTCCTGATTAATGGCTCTCCG
* * *
15429215 GAACTTCCCGA-TATATGGCTATCCG
1 GAGCTTCCTGATTA-ATGGCTCTCCG
*
15429240 GAGCTT-CTCGATTAATGGCTCTTCG
1 GAGCTTCCT-GATTAATGGCTCTCCG
15429265 GAG
1 GAG
15429268 ATACCTGTTA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
23 16 0.29
24 4 0.07
25 34 0.61
26 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCCG
Found at i:15430282 original size:48 final size:48
Alignment explanation
Indices: 15430211--15430308 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
15430201 AATGTGTTTA
15430211 AATGTTAATGTAGGTGGAAGACAAGATTGGGTGAGAAATAAGGCTTGG
1 AATGTTAATGTAGGTGGAAGACAAGATTGGGTGAGAAATAAGGCTTGG
15430259 AATGTTAATGTAGGTGGAAGACAAGATTGGGTGAGAAATAAGGCTTGG
1 AATGTTAATGTAGGTGGAAGACAAGATTGGGTGAGAAATAAGGCTTGG
15430307 AA
1 AA
15430309 ATGACCTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (48 bp):
AATGTTAATGTAGGTGGAAGACAAGATTGGGTGAGAAATAAGGCTTGG
Found at i:15431987 original size:22 final size:21
Alignment explanation
Indices: 15431942--15431989 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
15431932 TCGTAACAGT
*
15431942 TCAGATAAGATGCAGAACAAA
1 TCAGATAAGATGCAAAACAAA
* *
15431963 TCAGATATAGATGCAAAATAGA
1 TCAGATA-AGATGCAAAACAAA
15431985 TCAGA
1 TCAGA
15431990 ATCAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (21 bp):
TCAGATAAGATGCAAAACAAA
Found at i:15437008 original size:146 final size:148
Alignment explanation
Indices: 15436742--15437015 Score: 340
Period size: 146 Copynumber: 1.9 Consensus size: 148
15436732 TATATAACAA
* * * * * *
15436742 GGGTCTTCTTACACAAGCTGTAGGGTTAGGATTGTTCATATAAGTGTTATTTGATGCTGCTCACT
1 GGGTCTGCTTACACAAGCTGTAGGGTTAGGATTGTTCATATAACTGTAATTCGATACTACTCACT
* * ** ** *
15436807 CATGCCATCGAGAATTCGTAACAACTGTTAGATCTCAACCATCGATAAACAAATCCTTGACCAGT
66 CAAGCCATCGAGAATCCACAACAACTGCCAGATCTCAACCATCGATAAACAAATCCCTGACCAGT
15436872 ACCCGATCTGTATCATTT
131 ACCCGATCTGTATCATTT
*
15436890 GGGTCTGCTTTCACAAGCTGTA-GGTTAGGATTGTT-ATGATAACT-TAATTCGATACTACTCAC
1 GGGTCTGCTTACACAAGCTGTAGGGTTAGGATTGTTCAT-ATAACTGTAATTCGATACTACTCAC
* * * *
15436952 TCAAGCCATCGGGAATCCACAAC-ACATGCCAGATCTTAACTATCGATAAAGAAATCCCTGACCA
65 TCAAGCCATCGAGAATCCACAACAAC-TGCCAGATCTCAACCATCGATAAACAAATCCCTGACCA
15437016 ACACCCAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
145 2 0.02
146 66 0.62
147 18 0.17
148 20 0.19
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (148 bp):
GGGTCTGCTTACACAAGCTGTAGGGTTAGGATTGTTCATATAACTGTAATTCGATACTACTCACT
CAAGCCATCGAGAATCCACAACAACTGCCAGATCTCAACCATCGATAAACAAATCCCTGACCAGT
ACCCGATCTGTATCATTT
Found at i:15442389 original size:44 final size:44
Alignment explanation
Indices: 15442340--15442427 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
15442330 GGGGCATGTT
* *
15442340 TGTTTTCATAGACTCCCTTGAGTGCACCCTTGTGGAGGCCAATC
1 TGTTTTCATAGACTCCCTTGAGCGCACCCTTGTAGAGGCCAATC
15442384 TGTTTTCATAGACTCCCTTGAGCGCACCCTTGTAGAGGCCAATC
1 TGTTTTCATAGACTCCCTTGAGCGCACCCTTGTAGAGGCCAATC
15442428 GCAACAGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (44 bp):
TGTTTTCATAGACTCCCTTGAGCGCACCCTTGTAGAGGCCAATC
Found at i:15446528 original size:43 final size:43
Alignment explanation
Indices: 15446472--15446765 Score: 430
Period size: 43 Copynumber: 6.8 Consensus size: 43
15446462 TTTTTATAAT
*
15446472 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
* *
15446515 AAACGCCGCTATAGAGCATGGTCTTTAGCGGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
* * *
15446558 AAACGACGCTATAGACCATGGTCTTTAGTGGCGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
* * *
15446601 AAATGCCGCTATAGCCCATGGTCTTTAGCGGCGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
*
15446644 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATG
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
* * *
15446687 AAACGCCGCTATAGACCTTGGTCTTTAGCGGCGCTTA-ACAAA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
*
15446729 CAAACGCCGCTATAG-CTCATGGTTTTTAGCGGCGCTT
1 -AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
15446766 TTAGAAAAAC
Statistics
Matches: 230, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
42 3 0.01
43 227 0.99
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATA
Found at i:15447197 original size:21 final size:21
Alignment explanation
Indices: 15447168--15447207 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15447158 TTTCGTTGAA
15447168 CCTCAGCTTCTCTCGCTGCTG
1 CCTCAGCTTCTCTCGCTGCTG
*
15447189 CCTCTGCTTCTCTCGCTGC
1 CCTCAGCTTCTCTCGCTGC
15447208 CGCATCTGTT
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:0.03, C:0.45, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCAGCTTCTCTCGCTGCTG
Found at i:15447207 original size:87 final size:86
Alignment explanation
Indices: 15447086--15447284 Score: 231
Period size: 87 Copynumber: 2.3 Consensus size: 86
15447076 AAGCTGTTCT
* * *
15447086 GCTTCTCTCGCTGTAGCCTCTACTTCCCTTGCTGCAGCCTCTGCTTTAAGTTGCT-GCTAGAGTT
1 GCTTCTCTCGCTGT-GCCTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTG-TAGCTAGAGTT
*
15447150 GTTCATA-CTTTCGTTGAACCTCA
64 CTTCATATCTTT-GTTGAACCTCA
* * * *
15447173 GCTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGTTTTAAGTTGTAGCTGGAGTTC
1 GCTTCTCTCGCTG-TGCCTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTGTAGCTAGAGTTC
*
15447238 TTCATATCTTTTTTGAACCTCA
65 TTCATATCTTTGTTGAACCTCA
* * *
15447260 GCTTTTCTCGATGTTGCCTCCGCTT
1 GCTTCTCTCGCTG-TGCCTCTGCTT
15447285 TAAGTTGTGT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 90 0.94
88 5 0.05
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.40
Consensus pattern (86 bp):
GCTTCTCTCGCTGTGCCTCTGCTTCCCTCGCTGCAGCATCTGCTTTAAGTTGTAGCTAGAGTTCT
TCATATCTTTGTTGAACCTCA
Found at i:15447215 original size:21 final size:21
Alignment explanation
Indices: 15447173--15447215 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15447163 TTGAACCTCA
* *
15447173 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
15447194 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
15447215 G
1 G
15447216 TTTTAAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.42, G:0.21, T:0.35
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:15447923 original size:28 final size:28
Alignment explanation
Indices: 15447898--15447962 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
15447888 ATTCAAAATA
* *
15447898 CCTCGGCCTGAGCTACACACGCAAAACT
1 CCTCGACCCGAGCTACACACGCAAAACT
*
15447926 TCTCGACCCGAGCTACACACGCAAAACT
1 CCTCGACCCGAGCTACACACGCAAAACT
*
15447954 TCTCGACCC
1 CCTCGACCC
15447963 AACTGTGTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.42, G:0.15, T:0.15
Consensus pattern (28 bp):
CCTCGACCCGAGCTACACACGCAAAACT
Found at i:15450866 original size:20 final size:20
Alignment explanation
Indices: 15450837--15450876 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15450827 AGAACAGACG
* *
15450837 AAAATGATGTCATAGCAATT
1 AAAATAATGTCATAACAATT
15450857 AAAATAATGTCATAACAATT
1 AAAATAATGTCATAACAATT
15450877 CATATTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AAAATAATGTCATAACAATT
Found at i:15452377 original size:16 final size:16
Alignment explanation
Indices: 15452356--15452386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15452346 GTAAATGGAG
15452356 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
15452372 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
15452387 GAGGATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:15453957 original size:23 final size:23
Alignment explanation
Indices: 15453914--15453958 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15453904 TGCTTTTGTA
*
15453914 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
15453937 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
15453959 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:15454318 original size:794 final size:793
Alignment explanation
Indices: 15452658--15454600 Score: 2755
Period size: 794 Copynumber: 2.4 Consensus size: 793
15452648 TTAAAATTTA
* * * *
15452658 TAAATATTAATCTCAATACCCTAAAATACAAAACTTTCATTTGCGACGTTTTTACAAAAAAACGC
1 TAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTGCGGCGTTTTTAC-AAAAAACG-
* *
15452723 CCCTAATACCAATAAGCAGTATAAAAACGAAGACGTTTCGGTTACACGTTTTGTGGCGTTTTTGC
64 -CCTAATACCAATAAACAGTATAAAAACG-A-A----T--GTTACA--TTTTGCGGCG---TT-C
*
15452788 AATAAACGCCACAAATCTTGTTCTATAGTGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATT
114 --T--A----ACAAATCTTGTTCTATAGAGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATT
*
15452853 TATTTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAATAGA-TTTTT-TTTTGATAATTGTT
171 TATTTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTT
* *
15452916 ATGATATTATTTTAAATTGATACATTAATATGCATTTATAAAATTATTTCAATTTTATGCAGTAT
236 ATGACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTAT
* * *
15452981 ATATAATATATAACATATATGCGTAGATATATATCGTGGCATATATTATATATATAACCCTGTCA
301 GTATAATATATAACATATATGCATAGATATATATCGTGGCATATATTATATATATAACCATGTCA
* * *
15453046 CTTATAATCCTATATATTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAATTTAAAAATTTTTT
366 CTTATAATCCTATATACTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAAATT----ATTTATT
15453111 TTTGCTTTTGTACCCTAAAACCCGAAGCCATTAATCCCTATAACCCGTAAACATTAAAATTAAAG
427 TTTGCTTTTGTACCCTAAAACCCGAAGCCATTAATCCCTATAACCCGTAAACATTAAAATTAAAG
* **
15453176 GCTAAACCCTAGCTAACTCGTAAAATTCATGCAAATCCGAAGGCAAAAACCAAGCATTGTAACAT
492 GCTAAACCCTAGCTAACTCATAAAATTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACAT
* *
15453241 TCAAATCAATAAGGGTGAACCATAAACCATAAACATCAAGCCGTAAAACAGTAAATTTGATCATT
557 TCAAATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATT
15453306 ACATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGCAAACTCAAACCCTAAACCCCATTC
622 ACATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGCAAACTCAAACCCTAAACCCCATTC
15453371 CTCAAGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATT
687 CTCAAGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATT
*
15453436 ATGTATCGAACCCTAAAACCCCAAATCGTATGCAACAAAACT
752 ATGTATCGAACCCTAAAACCCCAAATCGTATACAACAAAACT
* * ** *
15453478 TAAATATTAATCTCAATACCCTAAAATACATAACTTTCATTTGCGGCGTTTTT-TTAAAAATGCC
1 TAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTGCGGCGTTTTTACAAAAAACG-C
* *
15453542 GCTCATACCAATAAACAGTATAAAACCGAA-G-T-CA-TTT-C-G-G-T-T-ACAAATCTTGTTC
65 -CTAATACCAATAAACAGTATAAAAACGAATGTTACATTTTGCGGCGTTCTAACAAATCTTGTTC
* *
15453597 TATAGAGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTTATTTGTGTTTATTTATA
129 TATAGAGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTTGTCTTTATTTATA
*
15453662 AGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTATTTTAAATTGATAC
194 AGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTATTTTAAATTGATAC
15453727 ATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATATAACATATATGCA
259 ATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATATAACATATATGCA
*
15453792 TAGATATATATCGTGGCATATTATATACATATATATATATAACCATGTCTCTTATAATCCTATAT
324 TAGATATATATCGTGGC-----ATAT--AT-TATATATATAACCATGTCACTTATAATCCTATAT
*
15453857 ACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAAATT-TTTATTTTTGCTTTTGTACCCTAAA
381 ACTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAAATTATTTATTTTTGCTTTTGTACCCTAAA
* *
15453921 ACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACTCTAGCTAACTC
446 ACCCGAAGCCATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAACTC
***
15453986 ATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTAAA
511 ATAAAATTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTAAA
*
15454051 CCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTAATATATCTTATAAGCCGT
576 CCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCA-T--TACATCTTATAAGCCGT
*
15454116 AAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCCGTAAACCT
638 AAACCTCGCATTAAAACTAACATGCAAACTCAAACCCTAAACCCCATTCCTCAAGCCGTAAACCT
* *
15454181 AAACCCAAAACCCTAAACATAAAATTGTAATCCTAAATTAATAAACATTATGTATTGAACCCTAA
703 AAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCGAACCCTAA
15454246 AACCCCAAA-CTGTATACAACAAAACT
768 AACCCCAAATC-GTATACAACAAAACT
15454272 TAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTGCGGCGTTTTTACAAAAAACGCC
1 TAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTGCGGCGTTTTTACAAAAAACGCC
*
15454337 TAATACCAATAAACAGTATAAAAATGAAGTCGTTTCGGTTACACATTTTGCGGCGTTTTTGCACT
66 TAATACCAATAAACAGTATAAAAACGAA------T--GTT--ACATTTTGCGGCG---TT---CT
* *
15454402 AAACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTTAATTTAT
115 --A----ACAAATCTTGTTCTATAGAGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTAT
*
15454467 TTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAAATTTTTTATTTTGATAATTGTTATG
174 TTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATG
* *
15454532 ACCTTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAATATGTA
239 ACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTA
15454597 TAAT
304 TAAT
15454601 TTAAATATAA
Statistics
Matches: 1020, Mismatches: 55, Indels: 91
0.87 0.05 0.08
Matches are distributed among these distances:
786 94 0.09
787 5 0.00
788 115 0.11
791 188 0.18
792 1 0.00
793 32 0.03
794 218 0.21
795 8 0.01
796 68 0.07
797 1 0.00
801 1 0.00
802 2 0.00
803 1 0.00
804 3 0.00
806 2 0.00
807 5 0.00
808 2 0.00
809 2 0.00
810 1 0.00
814 1 0.00
816 1 0.00
817 3 0.00
818 31 0.03
820 51 0.05
825 184 0.18
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (793 bp):
TAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTGCGGCGTTTTTACAAAAAACGCC
TAATACCAATAAACAGTATAAAAACGAATGTTACATTTTGCGGCGTTCTAACAAATCTTGTTCTA
TAGAGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTTGTCTTTATTTATAAG
TTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTATTTTAAATTGATACAT
TAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATATAACATATATGCATA
GATATATATCGTGGCATATATTATATATATAACCATGTCACTTATAATCCTATATACTAGTGACA
TAATAAGAAGTAAAAAGAAGAAAGAAATTATTTATTTTTGCTTTTGTACCCTAAAACCCGAAGCC
ATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAACTCATAAAATTCA
TGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTAAACCATAAACCA
TAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTATAAGCCGTAAACCTCGCATTA
AAACTAACATGCAAACTCAAACCCTAAACCCCATTCCTCAAGCCGTAAACCTAAACCCAAAACCC
TAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCGAACCCTAAAACCCCAAATCGT
ATACAACAAAACT
Found at i:15454891 original size:41 final size:41
Alignment explanation
Indices: 15454846--15455008 Score: 116
Period size: 41 Copynumber: 4.0 Consensus size: 41
15454836 TAGATTTTCT
* * *
15454846 AATTAGCGGCGTTTTTACACAAACGCTGCTATAGACC-GAA
1 AATTAGCGGCGCTGTTACACAAACGCCGCTATAGACCGGAA
* *
15454886 GAATTACCGGCGCTGTTACACAAATGCCGCTATAGACCGGAA
1 -AATTAGCGGCGCTGTTACACAAACGCCGCTATAGACCGGAA
* * * * * * *
15454928 CATTAGCGGCGAT-TCTCCATAAACGCCGCTTTAGAGCGGAG
1 AATTAGCGGCGCTGT-TACACAAACGCCGCTATAGACCGGAA
* * * * * *
15454969 CATCAGCGGCGGT-TTATAAAAAACGCCGCTATAGATCGGA
1 AATTAGCGGCGCTGTTA-CACAAACGCCGCTATAGACCGGA
15455009 TTATTTGCGG
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
40 2 0.02
41 93 0.95
42 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (41 bp):
AATTAGCGGCGCTGTTACACAAACGCCGCTATAGACCGGAA
Found at i:15455039 original size:40 final size:41
Alignment explanation
Indices: 15454986--15455082 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
15454976 GGCGGTTTAT
* ** ** *
15454986 AAAAAACGCCGCTATAGATCGGATTATTTGCGGCGCATA-A
1 AAAAAACGCCGCTAAAGATAAGACCATTAGCGGCGCATACA
15455026 AAAAAACGCCGCTAAAGATAAGACCATTAGCGGCGCATACA
1 AAAAAACGCCGCTAAAGATAAGACCATTAGCGGCGCATACA
* *
15455067 CAAAAACGCGGCTAAA
1 AAAAAACGCCGCTAAA
15455083 ATACCGGTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 33 0.69
41 15 0.31
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAGATAAGACCATTAGCGGCGCATACA
Found at i:15455314 original size:40 final size:37
Alignment explanation
Indices: 15455208--15455358 Score: 131
Period size: 41 Copynumber: 3.8 Consensus size: 37
15455198 TGTTACTCTA
* *
15455208 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTT
1 TTGCGGCG-TTTTTGTAAAACGCCGCTAATGCTCGATT
* *
15455246 TTAGCGGCGTTTTTTTTATGTAACGCCGCTAATGCTCGATACT
1 TT-GCGGCG-TTTTTGTA--AAACGCCGCTAATGCTCGAT--T
*
15455289 TTGCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGATT
1 TTGCGGCGTTTTT-GTAAAACGCCGCTAATGCTCGATT
* *
15455327 GTTAGTGGCGTTTTTTGTCCAAACGCCGCTAA
1 -TT-GCGGCG-TTTTTGT-AAAACGCCGCTAA
15455359 AAGCGCCGCT
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.03
39 15 0.16
40 25 0.27
41 38 0.41
42 8 0.09
43 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (37 bp):
TTGCGGCGTTTTTGTAAAACGCCGCTAATGCTCGATT
Found at i:15455352 original size:81 final size:81
Alignment explanation
Indices: 15455208--15455358 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
15455198 TGTTACTCTA
* * * ***
15455208 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTTTAGCGGCGTTTTTTTTATGTAACGCC
1 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTCGATTTTAGCGGCGTTTTTTGTACCAAACGCC
15455273 GCTAATGCTCGATACT
66 GCTAATGCTCGATACT
* *
15455289 TTGCGGCG-TTTTTCGTAAAATGCCGCTAATGCTCGATTGTTAGTGGCGTTTTTTGT-CCAAACG
1 TTGCGGCGCTTTTT-GTAAAACGCCGCTAATGCTCGATT-TTAGCGGCGTTTTTTGTACCAAACG
15455352 CCGCTAA
64 CCGCTAA
15455359 AAGCGCCGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.08
81 40 0.67
82 15 0.25
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (81 bp):
TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTCGATTTTAGCGGCGTTTTTTGTACCAAACGCC
GCTAATGCTCGATACT
Found at i:15455355 original size:41 final size:39
Alignment explanation
Indices: 15455210--15455358 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 39
15455200 TTACTCTATT
* * *
15455210 GCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTTTA
1 GCGGCGTTTTTTGTAAAACGCCGCTAATGCTCGATTTTA
* *
15455249 GCGGCGTTTTTTTTATGTAACGCCGCTAATGCTCGATACTTT-
1 GCGGCGTTTTTTGTA--AAACGCCGCTAATGCTCGAT--TTTA
* *
15455291 GCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGATTGTTA
1 GCGGCGTTTTTTGTAAAACGCCGCTAATGCTCGATT-TTA
* *
15455331 GTGGCGTTTTTTGTCCAAACGCCGCTAA
1 GCGGCGTTTTTTGT-AAAACGCCGCTAA
15455359 AAGCGCCGCT
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 15 0.17
40 30 0.33
41 28 0.31
42 13 0.14
43 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (39 bp):
GCGGCGTTTTTTGTAAAACGCCGCTAATGCTCGATTTTA
Found at i:15455691 original size:20 final size:20
Alignment explanation
Indices: 15455641--15455869 Score: 134
Period size: 20 Copynumber: 11.4 Consensus size: 20
15455631 GACTAGATCA
15455641 AAAAATTGT-AAAAATATTT
1 AAAAATTGTAAAAAATATTT
* *
15455660 --AAATTATTAAAAATATTT
1 AAAAATTGTAAAAAATATTT
15455678 AAAAATTGTAAAAAA-A--T
1 AAAAATTGTAAAAAATATTT
* * *
15455695 AAATATCGTAAATAAT-TATT
1 AAAAATTGTAAAAAATAT-TT
* *
15455715 AAATATTGTTAAAAATATTT
1 AAAAATTGTAAAAAATATTT
*
15455735 TAAAATTGTAAAAAATTATTT
1 AAAAATTGTAAAAAA-TATTT
* * * *
15455756 AGAATTTTTAAAAATTA-TT
1 AAAAATTGTAAAAAATATTT
* *
15455775 AAAAATTAGAAAAAAATATTA
1 AAAAATT-GTAAAAAATATTT
* *
15455796 AAAAACTT-TCAAATAATTATTA
1 AAAAA-TTGT-AAA-AAATATTT
* * *
15455818 AAAAATTGTAAGTAATTATTA
1 AAAAATTGTAA-AAAATATTT
*
15455839 AAAAATTTTAAAAAATTTATTT
1 AAAAATTGTAAAAAA--TATTT
15455861 AAAAATTGT
1 AAAAATTGT
15455870 GAATCGGTGG
Statistics
Matches: 161, Mismatches: 31, Indels: 33
0.72 0.14 0.15
Matches are distributed among these distances:
17 19 0.12
18 10 0.06
19 8 0.05
20 50 0.31
21 47 0.29
22 27 0.17
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AAAAATTGTAAAAAATATTT
Found at i:15455749 original size:10 final size:10
Alignment explanation
Indices: 15455723--15455856 Score: 69
Period size: 10 Copynumber: 13.1 Consensus size: 10
15455713 TTAAATATTG
15455723 TTAAAAATATT
1 TTAAAAA-ATT
15455734 TT--AAAATT
1 TTAAAAAATT
*
15455742 GTAAAAAATT
1 TTAAAAAATT
* *
15455752 ATT-TAGAATT
1 -TTAAAAAATT
*
15455762 TTTAAAAATT
1 TTAAAAAATT
15455772 ATT-AAAAATT
1 -TTAAAAAATT
** *
15455782 AGAAAAAAATA
1 -TTAAAAAATT
15455793 TTAAAAAACTT
1 TTAAAAAA-TT
* *
15455804 TCAAATAATT
1 TTAAAAAATT
15455814 ATTAAAAAATT
1 -TTAAAAAATT
* **
15455825 GTAAGTAATT
1 TTAAAAAATT
15455835 ATTAAAAAATT
1 -TTAAAAAATT
15455846 TTAAAAAATT
1 TTAAAAAATT
15455856 T
1 T
15455857 ATTTAAAAAT
Statistics
Matches: 92, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.04
9 5 0.05
10 50 0.54
11 33 0.36
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:15455833 original size:21 final size:21
Alignment explanation
Indices: 15455702--15455869 Score: 116
Period size: 21 Copynumber: 8.1 Consensus size: 21
15455692 AATAAATATC
*
15455702 GTAAATAATTATT-AAATATT
1 GTAAATAATTATTAAAAAATT
**
15455722 GTTAAA-AA-TATTTTAAAATT
1 G-TAAATAATTATTAAAAAATT
* * * *
15455742 GTAAAAAATTATTTAGAATTT
1 GTAAATAATTATTAAAAAATT
*
15455763 TTAAA-AATTATT-AAAAATT
1 GTAAATAATTATTAAAAAATT
* *
15455782 AG-AAAAAAATATTAAAAAACTT
1 -GTAAATAATTATTAAAAAA-TT
15455804 -TCAAATAATTATTAAAAAATT
1 GT-AAATAATTATTAAAAAATT
*
15455825 GTAAGTAATTATTAAAAAATT
1 GTAAATAATTATTAAAAAATT
* * *
15455846 TTAAAAAATTTATTTAAAAATT
1 GTAAATAA-TTATTAAAAAATT
15455868 GT
1 GT
15455870 GAATCGGTGG
Statistics
Matches: 118, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
19 16 0.14
20 24 0.20
21 47 0.40
22 31 0.26
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (21 bp):
GTAAATAATTATTAAAAAATT
Found at i:15461892 original size:25 final size:25
Alignment explanation
Indices: 15461864--15461912 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
15461854 TTTTGCTTAT
15461864 CGTTAATGATATAGGCTTATTACAC
1 CGTTAATGATATAGGCTTATTACAC
15461889 CGTTAATGATATAGGCTTATTACA
1 CGTTAATGATATAGGCTTATTACA
15461913 TGAAACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
CGTTAATGATATAGGCTTATTACAC
Found at i:15476788 original size:34 final size:34
Alignment explanation
Indices: 15476703--15476794 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
15476693 ATTTTTCTTT
* ** **
15476703 TAACAGAACAATACGGTAGCAACCAATATGCTTA
1 TAACAGATCAATATAGTAGCAAATAATATGCTTA
*
15476737 TAACAGCTCAATATAGTAGCAAATAATATGCTTA
1 TAACAGATCAATATAGTAGCAAATAATATGCTTA
* *
15476771 TAGCATATCAACT-TAGTAGCAAAT
1 TAACAGATCAA-TATAGTAGCAAAT
15476795 TGTCATGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 47 0.98
35 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (34 bp):
TAACAGATCAATATAGTAGCAAATAATATGCTTA
Found at i:15477148 original size:26 final size:26
Alignment explanation
Indices: 15477077--15477149 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
15477067 AGTTGCAGAC
*
15477077 AAAATTGTAAAATTTGAAAATAGGGG
1 AAAATTGTAAAATCTGAAAATAGGGG
*
15477103 AAAA-TGCAAAATCTGAAAAATAGGGG
1 AAAATTGTAAAATCTG-AAAATAGGGG
* *
15477129 TAAAATTTTAAAATCTAAAAA
1 -AAAATTGTAAAATCTGAAAA
15477150 AACTAAGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 9 0.23
26 14 0.36
27 8 0.21
28 8 0.21
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.25
Consensus pattern (26 bp):
AAAATTGTAAAATCTGAAAATAGGGG
Found at i:15477150 original size:28 final size:28
Alignment explanation
Indices: 15477077--15477214 Score: 129
Period size: 28 Copynumber: 5.0 Consensus size: 28
15477067 AGTTGCAGAC
**
15477077 AAAATTGTAAAAT-TTGAAAATAGGGG-
1 AAAATTGTAAAATCTAAAAAATAGGGGT
* *
15477103 AAAA-TGCAAAATCTGAAAAATAGGGGT
1 AAAATTGTAAAATCTAAAAAATAGGGGT
* *
15477130 AAAATTTTAAAATCTAAAAAAACTAAGGGT
1 AAAATTGTAAAATCT-AAAAAA-TAGGGGT
* * * * *
15477160 AAATTTGTAAAATTTAAAAAAAATGGGC
1 AAAATTGTAAAATCTAAAAAATAGGGGT
*
15477188 AAAACTGTAAAATCTAAAAAATAGGGG
1 AAAATTGTAAAATCTAAAAAATAGGGG
15477215 ACATACGATC
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
25 7 0.08
26 15 0.17
27 4 0.04
28 34 0.38
29 11 0.12
30 18 0.20
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAATTGTAAAATCTAAAAAATAGGGGT
Found at i:15482893 original size:67 final size:66
Alignment explanation
Indices: 15482798--15483163 Score: 314
Period size: 67 Copynumber: 5.5 Consensus size: 66
15482788 CACAATTACA
* * * * * *
15482798 CATAGCCGAGCTATAGTCTTACACAATATACCCTATGTTTAATGTCCTGACGGACTTTCTATGTT
1 CATAGTCGAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCTGACAGACTCTCTATGTT
15482863 G
66 G
* * * * *
15482864 CAATAGTCAAGCTATCGTCTTACATAATATACCCCATG--T--T-TCTTGACAGACTCTCTATGT
1 C-ATAGTCGAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCTGACAGACTCTCTATGT
15482924 TG
65 TG
* * * **
15482926 TCATAGTCGAGTTATGGTCTTACACATTTTGCCCCATGTTTAATGTTTTGGA-AGACTCTCTATG
1 -CATAGTCGAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCT-GACAGACTCTCTATG
*
15482990 TTT
64 TTG
* * *
15482993 CTATAG-CTGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTAACAGACTCTCTATG
1 C-ATAGTC-GAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCTGACAGACTCTCTATG
15483057 TTG
64 TTG
* * ** * * * * * *
15483060 CCATAGTTGAGCTATGATCTTATGCATTTTACCCAATGTTTAATGTCCTGACGGGCTTTTTATGT
1 -CATAGTCGAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCTGACAGACTCTCTATG-
*
15483125 TTC
64 TTG
* * *
15483128 CATAGTTGAGCCATGGTCTTACACACTTTACCCCAT
1 CATAGTCGAGCTATGGTCTTACACAATTTACCCCAT
15483164 TATAGACCAT
Statistics
Matches: 244, Mismatches: 42, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
62 48 0.20
63 2 0.01
64 1 0.00
65 1 0.00
66 5 0.02
67 182 0.75
68 5 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (66 bp):
CATAGTCGAGCTATGGTCTTACACAATTTACCCCATGTTTAATGTCCTGACAGACTCTCTATGTT
G
Found at i:15488427 original size:50 final size:50
Alignment explanation
Indices: 15488302--15488547 Score: 267
Period size: 50 Copynumber: 4.8 Consensus size: 50
15488292 ATTTGGGTAA
* * * *
15488302 AGAGATCCCATGTAAGACCATGTCTGAGACATGGTATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
15488358 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
15488408 GGGGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
15488458 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
15488508 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
15488548 TAGTACAAGA
Statistics
Matches: 166, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 124 0.75
53 3 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15495918 original size:24 final size:23
Alignment explanation
Indices: 15495833--15495948 Score: 124
Period size: 24 Copynumber: 4.9 Consensus size: 23
15495823 CATTATTGGG
* * *
15495833 AAAGGATGAATTGATGGAAATGG
1 AAAGGATGAATTGACGAAAATGT
*
15495856 AAAGGATGAATTGATGGAAAATGT
1 AAAGGATGAATTGA-CGAAAATGT
* * *
15495880 AATGGAGGAACTGACAGAAAATGT
1 AAAGGATGAATTGAC-GAAAATGT
**
15495904 AAAGGATGAATTGACGGTAATGT
1 AAAGGATGAATTGACGAAAATGT
15495927 AAAGGATGAATTGACGACAAAT
1 AAAGGATGAATTGACGA-AAAT
15495949 TATTTAAGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
23 36 0.47
24 40 0.53
ACGTcount: A:0.45, C:0.04, G:0.29, T:0.22
Consensus pattern (23 bp):
AAAGGATGAATTGACGAAAATGT
Found at i:15495941 original size:23 final size:23
Alignment explanation
Indices: 15495833--15495942 Score: 130
Period size: 23 Copynumber: 4.7 Consensus size: 23
15495823 CATTATTGGG
* *
15495833 AAAGGATGAATTGATGGAAATGG
1 AAAGGATGAATTGACGGAAATGT
*
15495856 AAAGGATGAATTGATGGAAAATGT
1 AAAGGATGAATTGACGG-AAATGT
* * * *
15495880 AATGGAGGAACTGACAGAAAATGT
1 AAAGGATGAATTGAC-GGAAATGT
*
15495904 AAAGGATGAATTGACGGTAATGT
1 AAAGGATGAATTGACGGAAATGT
15495927 AAAGGATGAATTGACG
1 AAAGGATGAATTGACG
15495943 ACAAATTATT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
23 39 0.53
24 34 0.46
25 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.22
Consensus pattern (23 bp):
AAAGGATGAATTGACGGAAATGT
Found at i:15497039 original size:12 final size:12
Alignment explanation
Indices: 15497006--15497044 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15496996 AGAGTGAGAA
* *
15497006 GGGTATGGAGAT
1 GGGTATGGACAC
15497018 GGGTATGGACAC
1 GGGTATGGACAC
15497030 GGGTATGGACAC
1 GGGTATGGACAC
15497042 GGG
1 GGG
15497045 CAGGGACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.10, G:0.49, T:0.18
Consensus pattern (12 bp):
GGGTATGGACAC
Found at i:15497051 original size:24 final size:24
Alignment explanation
Indices: 15497006--15497052 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
15496996 AGAGTGAGAA
* * * *
15497006 GGGTATGGAGATGGGTATGGACAC
1 GGGTATGGACACGGGCAGGGACAC
15497030 GGGTATGGACACGGGCAGGGACA
1 GGGTATGGACACGGGCAGGGACA
15497053 TGACCATGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.47, T:0.15
Consensus pattern (24 bp):
GGGTATGGACACGGGCAGGGACAC
Found at i:15499322 original size:24 final size:24
Alignment explanation
Indices: 15499293--15499342 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
15499283 CCGGTGCTTT
*
15499293 CCATTAATTGCTCTTCGGAGCTAC
1 CCATTAATTACTCTTCGGAGCTAC
*
15499317 CCATTAATTACTCTTTGGAGCTAC
1 CCATTAATTACTCTTCGGAGCTAC
15499341 CC
1 CC
15499343 GTTATAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (24 bp):
CCATTAATTACTCTTCGGAGCTAC
Found at i:15499368 original size:25 final size:24
Alignment explanation
Indices: 15499302--15499373 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
15499292 TCCATTAATT
* *
15499302 GCTCTTCGGAGCTACCCATTAATTA-
1 GCTCTTTGGAGCTACCCGTT-A-TAG
15499327 -CTCTTTGGAGCTACCCGTTATAG
1 GCTCTTTGGAGCTACCCGTTATAG
*
15499350 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTTG-GAGCTACCCGTTATA
15499374 TTACCCGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 24 0.59
25 14 0.34
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.36
Consensus pattern (24 bp):
GCTCTTTGGAGCTACCCGTTATAG
Found at i:15507571 original size:33 final size:35
Alignment explanation
Indices: 15507534--15507599 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
15507524 AATCATTTGG
*
15507534 AAATGAATGTAGGT-T-TCCAAAAATAGAAATGAA
1 AAATGAATGTAGGTGTCTCAAAAAATAGAAATGAA
* *
15507567 AAATGAATGTGGGTGTCTCAAAAAATGGAAATG
1 AAATGAATGTAGGTGTCTCAAAAAATAGAAATG
15507600 GAACTGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 13 0.46
34 1 0.04
35 14 0.50
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (35 bp):
AAATGAATGTAGGTGTCTCAAAAAATAGAAATGAA
Found at i:15509821 original size:40 final size:40
Alignment explanation
Indices: 15509774--15509858 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
15509764 CTACAACCAT
*
15509774 ATATTATCTATAATTATAGAAAATTCATGTAAATTTCAAA
1 ATATTATCTATAATTACAGAAAATTCATGTAAATTTCAAA
*
15509814 ATATTATCTATAATTACAGAAAATTCATTTAAATTTCAAA
1 ATATTATCTATAATTACAGAAAATTCATGTAAATTTCAAA
15509854 ATATT
1 ATATT
15509859 TATACTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (40 bp):
ATATTATCTATAATTACAGAAAATTCATGTAAATTTCAAA
Found at i:15510150 original size:12 final size:13
Alignment explanation
Indices: 15510133--15510166 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
15510123 AATGGCTTCC
15510133 TTAATTTTTCTT-
1 TTAATTTTTCTTA
15510145 TTAATTTTTCTTA
1 TTAATTTTTCTTA
15510158 TTCAATTTT
1 TT-AATTTT
15510167 ACATATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 2 0.10
14 6 0.30
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TTAATTTTTCTTA
Found at i:15512408 original size:55 final size:58
Alignment explanation
Indices: 15512349--15512457 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 58
15512339 ATTCCTTGTA
* * *
15512349 CATTTCTAAATGAATT-CAT-TTCTC-ATTTTCATTTCCATTT-TGAGAAAACCACATT
1 CATTTCCAAATG-ATTCCATCTTCTCTATTTTCATTTCAATTTAGGAGAAAACCACATT
*
15512404 CATTTCCAAATGATTCCATCTTCTCTATTTTCATTTTAATTTAGGAGAAAACCA
1 CATTTCCAAATGATTCCATCTTCTCTATTTTCATTTCAATTTAGGAGAAAACCA
15512458 TAATAATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 3 0.07
55 14 0.30
56 5 0.11
57 14 0.30
58 10 0.22
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.42
Consensus pattern (58 bp):
CATTTCCAAATGATTCCATCTTCTCTATTTTCATTTCAATTTAGGAGAAAACCACATT
Found at i:15512467 original size:58 final size:55
Alignment explanation
Indices: 15512350--15512468 Score: 132
Period size: 58 Copynumber: 2.1 Consensus size: 55
15512340 TTCCTTGTAC
* * * * *
15512350 ATTTCTAAATGAATTCATTTCTCATTTTCATTTCCATTTTGAGAAAACCACATTC
1 ATTTCCAAATGAATTCATTTCTCATTTTCATTTCAATTTGGAGAAAACCACAATA
* *
15512405 ATTTCCAAATG-ATTCCATCTTCTCTATTTTCATTTTAATTTAGGAGAAAACCATAATA
1 ATTTCCAAATGAATT-CAT-TTCTC-ATTTTCATTTCAATTT-GGAGAAAACCACAATA
15512463 ATTTCC
1 ATTTCC
15512469 TGAATATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
54 3 0.06
55 13 0.25
56 5 0.09
57 14 0.26
58 18 0.34
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (55 bp):
ATTTCCAAATGAATTCATTTCTCATTTTCATTTCAATTTGGAGAAAACCACAATA
Found at i:15515000 original size:21 final size:21
Alignment explanation
Indices: 15514956--15515000 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15514946 ATAAACTTGT
* *
15514956 AAAATATTATTAAAATTTATA
1 AAAATATTAATAAAATTCATA
15514977 AAAATATTAAATAAAATTCA-A
1 AAAATATT-AATAAAATTCATA
15514998 AAA
1 AAA
15515001 GTTCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAATAAAATTCATA
Found at i:15518228 original size:16 final size:16
Alignment explanation
Indices: 15518207--15518239 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15518197 CAAGAGAAAC
15518207 ACAAATTAGAAATAAA
1 ACAAATTAGAAATAAA
15518223 ACAAATTAGAAATAAA
1 ACAAATTAGAAATAAA
15518239 A
1 A
15518240 ACGAGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
ACAAATTAGAAATAAA
Found at i:15518646 original size:31 final size:32
Alignment explanation
Indices: 15518582--15518646 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15518572 GGCAAATTAC
15518582 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15518614 AAGAGTAATTGAATCCTAATAAAAA-TCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15518645 AA
1 AA
15518647 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:15524239 original size:9 final size:9
Alignment explanation
Indices: 15524216--15524263 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
15524206 AGGCAACTTT
15524216 TTTTTTTGC
1 TTTTTTTGC
**
15524225 GCTTTTTGC
1 TTTTTTTGC
15524234 -TTTTTTGC
1 TTTTTTTGC
15524242 TTTTTTTG-
1 TTTTTTTGC
*
15524250 TTTTTTTTC
1 TTTTTTTGC
15524259 TTTTT
1 TTTTT
15524264 GCTGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 14 0.42
9 19 0.58
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:15524256 original size:17 final size:17
Alignment explanation
Indices: 15524216--15524274 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
15524206 AGGCAACTTT
**
15524216 TTTTTTTGCGCTTTTTG
1 TTTTTTTGCTTTTTTTG
*
15524233 CTTTTTTGCTTTTTTTG
1 TTTTTTTGCTTTTTTTG
* *
15524250 TTTTTTTTCTTTTTGCTG
1 TTTTTTTGCTTTTT-TTG
15524268 TTTTTTT
1 TTTTTTT
15524275 AAAGAATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
17 26 0.74
18 9 0.26
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (17 bp):
TTTTTTTGCTTTTTTTG
Found at i:15524262 original size:7 final size:8
Alignment explanation
Indices: 15524217--15524272 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
15524207 GGCAACTTTT
15524217 TTTTTTGC
1 TTTTTTGC
*
15524225 GCTTTTTGC
1 -TTTTTTGC
15524234 TTTTTTGC
1 TTTTTTGC
*
15524242 TTTTTTTGT
1 -TTTTTTGC
*
15524251 TTTTTTTC
1 TTTTTTGC
15524259 -TTTTTGC
1 TTTTTTGC
15524266 TGTTTTT
1 T-TTTTT
15524273 TTAAAGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 6 0.16
8 13 0.34
9 19 0.50
ACGTcount: A:0.00, C:0.11, G:0.12, T:0.77
Consensus pattern (8 bp):
TTTTTTGC
Found at i:15524873 original size:31 final size:32
Alignment explanation
Indices: 15524814--15524878 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15524804 GGCAAATTAC
15524814 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15524846 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15524877 AA
1 AA
15524879 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:15525272 original size:16 final size:16
Alignment explanation
Indices: 15525251--15525315 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 16
15525241 TTCCCTCATT
15525251 TTTTAATTATTATAAC
1 TTTTAATTATTATAAC
* *
15525267 TTTTAAGAATATTAGAAC
1 TTTT-A-ATTATTATAAC
**
15525285 TTTTGCTTA-T-TAAC
1 TTTTAATTATTATAAC
15525299 TTTTAATTATTATAAC
1 TTTTAATTATTATAAC
15525315 T
1 T
15525316 CTTTTTACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 10 0.27
15 2 0.05
16 11 0.30
17 1 0.03
18 13 0.35
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (16 bp):
TTTTAATTATTATAAC
Found at i:15528246 original size:948 final size:946
Alignment explanation
Indices: 15525939--15531101 Score: 6158
Period size: 948 Copynumber: 5.5 Consensus size: 946
15525929 CTCTCATTTA
* * * * * *
15525939 ATTTCGCTTCAAGCAGCACAATGATGGTTGCTCCTTGAATCTACTAGTGATTCTTGTCTTTTCTT
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
**
15526004 TATTTATCCTAATGTTTTC-CCTTTTTTATTTTAATGTCTACAGCGACAAGAGCAGCTATCTAAA
66 TATTTAT-CTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
* * *
15526068 TCCGTCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATTCCTTTATTCATTTT-GAAAAGATA
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
* * *
15526132 GTCATAATCAATTATCCTTTCTATATTCTCATTATTTTTTACCATGGAACTTTGAGAATTTTTTT
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAA-TTTTTT
15526197 CTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCA--TTTTTT
259 CTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCATTTTTTTT
* *
15526260 TACTTTGTTTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGGC
324 TGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGGC
* * *
15526325 TAATATTGCCTACTTGTAAACCACCACTAGTTTATTCCTGCACTGTCATCGTCTATTAGTTGAAA
389 TAATATTGCCTACTTGTAAA-CTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAAA
* *
15526390 TTACTACCATCTTAAATAAGTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTG
453 TTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTG
15526455 TATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCT
518 TATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCT
15526520 TGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAG
583 TGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAG
*
15526585 GATGATTTGATAATATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATA
648 GATGATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATA
15526650 ACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAGA
713 ACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAGA
15526715 AAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTA
778 AAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTA
15526780 ATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAG
843 ATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAG
* *
15526845 CAGCTTATTGCTTATTTATCCTAATGTTTCCCTTTTTTT
908 CAGCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
* ** * *
15526884 ATTTCACTTCAAGCAGCAAAATAATGGTTGCTCTTTGAATCTGCTACCGATTCTTGTCTCTTCTT
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
15526949 TATTTATACTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
66 TATTTAT-CTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
15527014 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
*
15527079 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGCATTTTTTC
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAATTTTTTC
* *
15527144 TTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTTGATTTTGTTGATCTGATAGCATTTTTTTTT
260 TTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCA--TTTTTTT
15527209 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
323 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
15527274 CTAATATTGCCTACTTGTAAACCTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAA
388 CTAATATTGCCTACTTGTAAA-CTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAA
15527339 ATTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGT
452 ATTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGT
15527404 GTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTC
517 GTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTC
* *
15527469 TTGCTTTCATATTTTCTAATAAGAATATTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTA
582 TTGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTA
* *
15527534 GGATGATTTGATATTTTGAGTAGTTTTACAGTCTCAGCCTTCAAAAACTATGAGATTGATGTCAT
647 GGATGATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCAT
* *
15527599 AACCTTGAGTGATTAAATGCATTTTTTT-TACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAG
712 AACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAG
*
15527663 AAAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTATTCGTACTATTGTTTT
777 AAAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTT
*
15527728 AATCCAAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAA
842 AATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAA
*
15527793 GCAGCTTATTGCTTATTTATCCTAATATTTCCCCTTTTTG
907 GCAGCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
* *
15527833 ATTTCGCTTCAAGCAGCAGAACGATGGTTGCTCCTTGAAACTGCTACTGATTCTTGTCTCTTCTT
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
15527898 TATTTATCGTAATG-TTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
66 TATTTATC-TAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
15527962 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
*
15528027 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGCATTTTTTC
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAATTTTTTC
* *
15528092 TTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTTGATTTTGTTGATCTGATAGCATTTTTTTTT
260 TTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCA--TTTTTTT
15528157 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
323 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
*
15528222 CTAATATTGCCTACTTGTAAACCTCCACTTGTTTATTCCTGCACTGTCATCCTATATTAGTTGAA
388 CTAATATTGCCTACTTGTAAA-CTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAA
15528287 ATTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGT
452 ATTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGT
15528352 GTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTC
517 GTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTC
15528417 TTGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTA
582 TTGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTA
*
15528482 GGATGATTTGATAATATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCAT
647 GGATGATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCAT
15528547 AACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAG
712 AACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAG
15528612 AAAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTT
777 AAAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTT
* * *
15528677 AATCCAAATTCTAGAGAATCTAAAGGGATTTGTCTAGATCAAGTGGAATTTTACACTGAAGCTAA
842 AATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAA
15528742 GCAGCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
907 GCAGCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
* * ***************************
15528782 ATTTCACTTCAAGTAGCAGGACGATGGTTGCTCCTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTG-AATCTGCTACTGATTCTTGTCTCTTCT
*****************************************************************
15528847 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
65 TTATTTATCTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
*****************************************************************
15528912 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
**********************************************************
15528977 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTTTTTC
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAATTTTTTC
* *
15529042 TTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCCATTTTGTTGATATGATAGCATTTTTTTTT
260 TTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCATTTTTTTTT
* *
15529107 GCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATATGTAAAAAGTATGGGCT
325 GCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGGCT
15529172 AATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAAATT
390 AATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAAATT
* * * *
15529237 ACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCTATTAAGCACATTTACTGGTGTA
455 ACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTGTA
15529302 TAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTG
520 TAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTG
*
15529367 CTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAGGA
585 TTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAGGA
*
15529432 TGATTTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAAC
650 TGATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAAC
*
15529497 CTTGAGTGATTAAATGCATTTTTTT--ACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAA
715 CTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAGAAA
*
15529560 AACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTATTCGTACTATTGTTTTAAT
780 AACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAAT
*
15529625 CCAAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCA
845 CCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCA
*
15529690 GCTTATTGCTTATTTATCCTAATATTTCCCCTTTTTG
910 GCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
* *
15529727 ATTTCGCTTCAAGCAGCAGAACGATGGTTGCTCCTTGAAACTGCTACTGATTCTTGTCTCTTCTT
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
*
15529792 TATTTATCCTAATG-TTTCCCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
66 TATTTAT-CTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
15529856 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCT-AAAATGCCTTTATTCATTTTCAAAAAGATA
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
* * *
15529920 GTCATAATCAATTATCCTCTCTATATCCTCGATA-TAATTACCATGGAACTTTGAGAATTTTTTC
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAATTTTTTC
* * **********************************************************
15529984 ATTCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
260 TTTAG--TGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCATTTTTTT
*************************************************
15530049 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTCAAAAGTATGGG
323 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
* *
15530114 CTAATAGTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCATCCTATATTAGTTGAAA
388 CTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAAA
* * * *
15530179 TTACTACCACCTTAAATAATTAATTATACATATAATAGAATATCCATTAAGCACATTTACTGGTA
453 TTACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTG
15530244 TATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCT
518 TATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCT
* *
15530309 TGTTTTCGTATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTATTTAAAAGAAAAAAGGGGTTA
583 TGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAG-AAAAAGGGGTTA
* *
15530374 GGATAATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCTAAAACTATGAGATTGATGTCAT
647 GGATGATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCAT
15530439 AACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAG
712 AACCTTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAG
*
15530504 AAAAACCAAACTACTCAAGTTTGCTTAAACATTTTCTGGTAGACACCTGTTCGTACTATTGTTTT
777 AAAAACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTT
*
15530569 AATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATCTTACACTGAAGCTAA
842 AATCCAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAA
* *
15530634 GCAGCTTATTGCTTATTTATCCTAATGTTTCCCTTTTTTT
907 GCAGCTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
* * ** * * * *
15530674 ATTTCACTTCAAGCTGCAAAATAATGGTTGCTCTTTGAGTCTGCTACCGATTCTTGTCTTTTCTT
1 ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
* * **
15530739 TATTTATACTAATGTTTTCACTTTTTTTATTTTAATGTCTACAGCGACAAGAGCAGCTATCTAAA
66 TATTTAT-CTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAA
* * *
15530804 TCCGTCCCAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTT-GAAAAGATA
130 TCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATA
* * * *
15530868 GTCATAATCAATTATCCTTTCTATATCATCGTTATTGTTTACCGTAGATA-TTTGAGAATTTTTT
195 GTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGA-ACTTTGAGAA-TTTTT
* *
15530932 TCTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCCATTTTGTTGATATGATAGCATTTTTTT
258 TCTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCATTTTTTT
* *
15530997 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATATGTAAAAAGTATGGG
323 TTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGG
15531062 CTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTG
388 CTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTG
15531102 NNNNNNNNNN
Statistics
Matches: 3416, Mismatches: 781, Indels: 39
0.81 0.18 0.01
Matches are distributed among these distances:
942 10 0.00
944 252 0.07
945 409 0.12
946 157 0.05
947 650 0.19
948 919 0.27
949 538 0.16
950 481 0.14
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.37
Consensus pattern (946 bp):
ATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTT
TATTTATCTAATGTTTTCGCCTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAAT
CCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTCAAAAAGATAG
TCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATGGAACTTTGAGAATTTTTTCT
TTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGATCTGATAGCATTTTTTTTTG
CTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAATGTGTCAAAAGTATGGGCTA
ATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAGTTGAAATTA
CTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTGTAT
AGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTGT
TTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAGGAT
GATTTGATATTATGAGTAGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACC
TTGAGTGATTAAATGCATTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAGAAAA
ACCAAACTACTCAAGTTTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATC
CAAATTCTAGAGAATCTAAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAG
CTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTG
Found at i:15535149 original size:947 final size:946
Alignment explanation
Indices: 15534176--15538679 Score: 6198
Period size: 945 Copynumber: 4.8 Consensus size: 946
15534166 NNNNNNNNNN
15534176 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
1 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
*
15534241 TTTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
66 TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
15534306 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
131 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
* *
15534371 TAAAGGGGTTTGTCAAGATCAAGTGGAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
196 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
* *
15534436 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGTAGCAGGACGATGGTTGCTCCTTGAATCTGCT
261 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
*
15534501 ACCGATTCTCGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGCAGCG
326 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGCAGCG
*
15534566 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAGGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
391 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
* * *
15534631 ATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCATCGTTATTGTTTACCGTAG
456 ATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGG
* *
15534696 ATA-TTTGAGAATTTTTTCTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCCATTTTGTTGA
521 A-ACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGA
*
15534760 TATGATAGCATTTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAA
585 TCTGATAGCA-TTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAA
* * *
15534825 ATATGTAAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTATC
649 ATGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTC
15534890 ATCGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCAT
714 ATCGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCAT
*
15534955 TAAGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGCGGAACAAGCT
779 TAAGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCT
15535020 GCTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTT
844 GCTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTT
*
15535085 AAAAGAAAAAGGGGTTCGGATGATTTGATATTTTGAGT
909 AAAAGAAAAAGGGGTTAGGATGATTTGATATTTTGAGT
* *
15535123 AGTTTTACAGTCTGGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGTA
1 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
15535188 TTTTTTTT--ACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
66 TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
*
15535251 TTGCTTAAACTTTTTCTGGTAGACACCTATTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
131 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
15535316 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
196 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
* *
15535381 CCTAATGTTTCCCCTTTTTGATTTCGCTTCAAGCAGCAGAACGATGGTTGCTCCTTGAAACTGCT
261 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
* *
15535446 ACTGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGTAGCG
326 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGCAGCG
15535511 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
391 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
*
15535576 ATTCATTTTCAAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATG
456 ATTCATTTT-GAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATG
* *
15535641 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTATTTGATTTTGTTGA
520 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGA
* *
15535706 TCTGATAGCATTTTTTTTTGCTTTGTCTACAATTCAATTTACTGTTTAAACTTATATTTATGAAA
585 TCTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAA
* * *
15535771 TGTGTCAAAAGTATGGGCTAATATTTCCTACTTGTAAACCTCCACTTCTTTATTCTTGCACTGTC
650 TGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAA-CTCCACTTGTTTATTCCTGCACTGTC
* ****************************************************
15535836 ATTGTATATTAGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
714 ATCGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCAT
*****************************************************************
15535901 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
779 TAAGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCT
*****************************************************************
15535966 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
844 GCTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTT
*** * *
15536031 NNNAGAAAAATGGGTTAAGATGATTTGATATTTTGAGT
909 AAAAGAAAAAGGGGTTAGGATGATTTGATATTTTGAGT
*
15536069 AGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
1 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
15536134 --TTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
66 TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
* * * *
15536197 TTGCTTACAC-TTTTCTAGTAGAAACATGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
131 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
15536261 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
196 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
* * * ** *
15536326 CCTAATGTTTTCCCTTTTTTATTTCACTTCAAGCAGCAAAATAATGGTTGCTCTTTGAATCTGCT
261 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
* * * * *
15536391 ACCGATTCTTTTCTCTTCTTTATTTATACTAATGTTTTCACTTTTTTTATTTTAATGTCTACAGC
326 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATG-TTTCCCCTTTTTTATTTTAATGTCTGCAGC
* * *
15536456 GGCAAGAGCAGCTATCTAAATCCGTCCCAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTT
390 GACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTT
* *
15536521 TATTCATTATGAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATG
455 TATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATG
* *
15536586 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTACATCTTTTGTTCGATTTTGTTGA
520 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGA
15536651 TCTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAA
585 TCTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAA
15536716 TGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCA
650 TGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCA
* * *
15536781 TCCTATATTAGTTGAAATTACTACCACCTTAAATAATTAATTATACATATAATAGAATATCCATT
715 TCGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCATT
*
15536846 AAGCACATTTACTGGTATATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTG
780 AAGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTG
*
15536911 CTGGTTTGGCTATGTCTTGTTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTA
845 CTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTA
* * *
15536976 AAAGAAAAAAAGGGTTAGGATAATTTGATATTATGAGT
910 AAAG-AAAAAGGGGTTAGGATGATTTGATATTTTGAGT
*
15537014 AGTTTTACAGTCTCGGCCTTCTAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
1 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
* *
15537079 TTTTTTTTAGACTAAAGTAAAAATTTGATGTCTAGTGTTGTTAAGAAAAACCAAACTACTCAAGT
66 TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
*
15537144 TTGCTTAAACTTTTTCTGGTAGACACGTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
131 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
* *
15537209 TAAAGGGGTTTGTCAAGATCAAGTGGAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
196 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
* * *
15537274 CCTAATGTTTCCCCTTTTTTATTTCACTTCAAGTAGCAGGACGATGGTTGCTCCTTGAATCTGCT
261 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
15537339 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTTATTTTAATGTCTGCAGC
326 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCC-TTTTTTATTTTAATGTCTGCAGC
*
15537404 GACAAGAGCAGCTATCTAAATCCATCCAAAAGCAGGAGGTAGTTTAATGTCTCTAAAAATGCCTT
390 GACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTT
* * *
15537469 TATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCATCGTTATTGTTTACCGTA
455 TATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATG
* *
15537534 GATA-TTTGAGAATTTTTTTCTTTAGTGTTCATCTTATGGCTTTCATCCTTTGTTCCATTTTGTT
520 GA-ACTTTGAGAA-TTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTT
*
15537598 GATATGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGA
583 GATCTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGA
* *
15537663 AATATGTAAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGT
648 AATGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGT
*
15537728 CATCGTATATTAGTTGAAATTACTACCGTCTTAAATAATTAATTATACAGATAATAGAATATCCA
713 CATCGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCA
* *
15537793 TTATGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCAAATGTGGAACAAGC
778 TTAAGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGC
15537858 TGCTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTT
843 TGCTGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTT
* * *
15537923 TAAAAGAAAAAGGGGTTCGAATGATTTCATATTTTGAGT
908 TAAAAGAAAAAGGGGTTAGGATGATTTGATATTTTGAGT
* *
15537962 AGTTTTACAGTCTGGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGTA
1 AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
*
15538027 TTTTTTTT-TACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
66 TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
*
15538091 TTGCTTAAACTTTTTCTGGTAGACACCTATTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
131 TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
15538156 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
196 TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
* * *
15538221 CCTAATATTTCCCCTTTTTGATTTCGCTTCAAGCAGCAGAACGATGGTTGCTCCTTGAAACTGCT
261 CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
* * * *
15538286 ACTGATTCTTGTCTCTTCTTTATTTATCGTAATGTTTCGCCTTTTTTATTTTAATGTCTGTAGCG
326 ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGCAGCG
15538351 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
391 ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
* *
15538416 ATTCATTTTCAAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTATTTACCATG
456 ATTCATTTT-GAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATG
*
15538481 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTTGATTTTGTTGA
520 GAACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGA
* * *
15538546 TCTAATAGCATTTTTTTTTGGTTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAA
585 TCTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAA
* *
15538611 TGTGTCAAAAGTATGGGCTAATATTTCGTACTTGTAAACCTCCACTTGTTTATTCCTGCACTGTC
650 TGTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAA-CTCCACTTGTTTATTCCTGCACTGTC
15538676 ATCG
714 ATCG
15538680 NNNNNNNNNN
Statistics
Matches: 3003, Mismatches: 538, Indels: 32
0.84 0.15 0.01
Matches are distributed among these distances:
944 43 0.01
945 975 0.32
946 651 0.22
947 512 0.17
948 454 0.15
949 368 0.12
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.38
Consensus pattern (946 bp):
AGTTTTACAGTCTCGGCCTTCAAAAACTATGAGATTGATGTCATAACCTTGAGTGATTAAATGCA
TTTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACCAAACTACTCAAGT
TTGCTTAAACTTTTTCTGGTAGACACCTGTTCGTACTATTGTTTTAATCCAAATTCTAGAGAATC
TGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGCTTATTGCTTATTTAT
CCTAATGTTTCCCCTTTTTGATTTCACTTCAAGCAGCAGAACGATGGTTGCTCCTTGAATCTGCT
ACCGATTCTTGTCTCTTCTTTATTTATCCTAATGTTTCCCCTTTTTTATTTTAATGTCTGCAGCG
ACAAGAGCAGCTATCTAAATCCATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTT
ATTCATTTTGAAAAGATAGTCATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGG
AACTTTGAGAATTTTTTCTTTCGTGTTCATCTTATGGCTTTCATCCTTTGTTCGATTTTGTTGAT
CTGATAGCATTTTTTTTTGCTTTGTCTACATTTCAATTTACTGTTTAAACCTATATTTATGAAAT
GTGTCAAAAGTATGGGCTAATATTGCCTACTTGTAAACTCCACTTGTTTATTCCTGCACTGTCAT
CGTATATTAGTTGAAATTACTACCATCTTAAATAATTAATTATACAGATAATAGAATATCCATTA
AGCACATTTACTGGTGTATAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGC
TGGTTTGGCTATGTCTTGCTTTCATATTTTCTAATAAGAATGTTGCAAAGGCTTACCCTTTTTAA
AAGAAAAAGGGGTTAGGATGATTTGATATTTTGAGT
Found at i:15550542 original size:937 final size:943
Alignment explanation
Indices: 15548719--15550822 Score: 3814
Period size: 937 Copynumber: 2.2 Consensus size: 943
15548709 NNNNNNNNNN
* *
15548719 ATTTATCCTAATGTTTCTACTTTTTTATTTTAATGTCTGTAGCGACAAGAGCAGCTATCTAAATC
1 ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTGCAGCGACAAGAGCAGCTATCTAAATC
15548784 CATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
66 CATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
15548849 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
131 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
* * *
15548914 CATGTTCATCTTATGGCTTTCATCCTTTGTTTGATTTTGTTGATCTAAAAGCTTTTTTTTTGTTG
196 CGTGTTCATCTTTTGGCTTTCATCCTTTGTTTGATTTTGTTGATCTAAAAGC-TATTTTTTGTTG
15548979 CTTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAATGTGTCAAAAGTATGGGCTA
260 CTTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAATGTGTCAAAAGTATGGGCTA
*
15549044 ATATTTCCTACTTGTAAACCTCCACTTGTTTATTCCTGCACTGTCATCGTATATTAATTGAAATT
325 ATATTTCCTACTTGTAAACCTCCACTTGTTTATTCCTACACTGTCATCGTATATTAATTGAAATT
*
15549109 ACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTGGTGTA
390 ACTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTAGTGTA
15549174 TAGGGAATGCTTTAGACCACATAACAAGCTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTG
455 TAGGGAATGCTTTAGACCAC--AACAA-CTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTG
*
15549239 TTTTCATATTTTCTAAAAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAGGGGTTAAGA
517 TTTTCATATTTTCTAAAAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAAGGGTTAAGA
15549304 TGATTTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCAAAAC
582 TGATTTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCAAAAC
*
15549369 CTTGAGTGATTAAATGCATTTTTTTAGAGTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAA
647 CTTGAGTGATTAAATGCATTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAA
15549434 AACCAAACTACTCAAGTTTGCTTACACTTTTCTGGTAGAAACCTGTTCGTACTATTGTTTTAATC
712 AACCAAACTACTCAAGTTTGCTTACACTTTTCTGGTAGAAACCTGTTCGTACTATTGTTTTAATC
*
15549499 CAAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTATACATTGAAGCTAAGCAG
777 CAAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTATACACTGAAGCTAAGCAG
* *
15549564 CTTATTGCTTATTTATCCTGATGTTTCCCGTTTTTGATTTTGCTTCAAGCAGCAGAACGATGGTT
842 CTTATTGCTTATTTATCCTAATGTTTCCCCTTTTTGATTTTGCTTCAAGCAGCAGAACGATGGTT
*
15549629 GCTCCTTGAATCTGCTACTGATTCTTGTCTCTTCTTT
907 GCTCCTTGAATCTGCTACTGATTCATGTCTCTTCTTT
15549666 ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTGCAGCGACAAGAGCAGCTATCTAAATC
1 ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTGCAGCGACAAGAGCAGCTATCTAAATC
*
15549731 CATCCAAAAGCAAGAGGTAGTTTAGTGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
66 CATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
*
15549796 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACAATGGATCTTTGAGAATTTTTTCTTT
131 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
*
15549861 CGTGTTCATCTTTTGGCTTTCATCCTTTGTTTGATTTTGTTGATCTGAAAGC-ATTTTTT-TTGC
196 CGTGTTCATCTTTTGGCTTTCATCCTTTGTTTGATTTTGTTGATCTAAAAGCTATTTTTTGTTGC
15549924 TTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAATGTGTCAAAAGTATGGGCTAA
261 TTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAATGTGTCAAAAGTATGGGCTAA
*
15549989 TATTTCCTACTTGTAAACCTCCACTTGTTTATTCCTACACTGTCATCGTATATTATTTGAAATTA
326 TATTTCCTACTTGTAAACCTCCACTTGTTTATTCCTACACTGTCATCGTATATTAATTGAAATTA
15550054 CTA-CAGCCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTAGTGTA
391 CTACCA-CCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTAGTGTA
15550118 TAGGGAATGCTTTAGA-C-C-AC-A-TAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTGTTT
455 TAGGGAATGCTTTAGACCACAACAACTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTGTTT
* *
15550178 TCATATTTTCTAAAAAGAATGTTGCAAATGCTTACCCTTTTTAAAAGAAAAAAAGGGTTAGGATG
520 TCATATTTTCTAAAAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAG-AAAAAAGGGTTAAGATG
*
15550243 ATTTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCATAACCT
584 ATTTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCAAAACCT
*
15550308 TGAGTGATTAAATGCATTTGTTTT-TACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAA
649 TGAGTGATTAAATGCATTT-TTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAA
15550372 ACCAAACTACTCAAGTTTGCTTACACTTTTCTGGTAGAAACCTGTTCGTACTATTGTTTTAATCC
713 ACCAAACTACTCAAGTTTGCTTACACTTTTCTGGTAGAAACCTGTTCGTACTATTGTTTTAATCC
*
15550437 AAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTTTACACTGAAGCTAAGCAGC
778 AAATTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTATACACTGAAGCTAAGCAGC
15550502 TTATTGCTTATTTATCCTAATGTTTCCCCTTTTTGATTTTGCTTCAAGCAGCAGAACGATGGTTG
843 TTATTGCTTATTTATCCTAATGTTTCCCCTTTTTGATTTTGCTTCAAGCAGCAGAACGATGGTTG
*
15550567 CTCCTTGAATCTGCTGCTGATTCATGTCTCTTCTTT
908 CTCCTTGAATCTGCTACTGATTCATGTCTCTTCTTT
* * *
15550603 ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTTCAGCAACAAGAGCAACTATCTAAATC
1 ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTGCAGCGACAAGAGCAGCTATCTAAATC
*
15550668 CATCCAAAAGCAAGAGGTAGTTTAATATCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
66 CATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
15550733 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
131 ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
*
15550798 AGTGTTCATCTTATT-GCTTTCATCC
196 CGTGTTCATCTT-TTGGCTTTCATCC
15550823 ATTCGTGATG
Statistics
Matches: 1123, Mismatches: 30, Indels: 18
0.96 0.03 0.02
Matches are distributed among these distances:
936 85 0.08
937 571 0.51
938 7 0.01
939 2 0.00
942 1 0.00
943 3 0.00
944 208 0.19
945 6 0.01
947 240 0.21
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (943 bp):
ATTTATCCTAATGTTTCCACTTTTTTATTTTAATGTCTGCAGCGACAAGAGCAGCTATCTAAATC
CATCCAAAAGCAAGAGGTAGTTTAATGTCTCTAAAAATGCCTTTATTCATTTTGAAAAGATAGTC
ATAATCAATTATCCTTTCTATATCCTCGTTATTGTTTACCATGGATCTTTGAGAATTTTTTCTTT
CGTGTTCATCTTTTGGCTTTCATCCTTTGTTTGATTTTGTTGATCTAAAAGCTATTTTTTGTTGC
TTTGTCTACATTTCAATTTACTGTTTAAACTTATATTTATGAAATGTGTCAAAAGTATGGGCTAA
TATTTCCTACTTGTAAACCTCCACTTGTTTATTCCTACACTGTCATCGTATATTAATTGAAATTA
CTACCACCTTAAATAATTAATTAAACAGATAATAAAATATCCATTAAGCACATTTACTAGTGTAT
AGGGAATGCTTTAGACCACAACAACTAATGTGGAACAAGCTGCTGGTTTGGCTATGTCTTGTTTT
CATATTTTCTAAAAAGAATGTTGCAAAGGCTTACCCTTTTTAAAAGAAAAAAGGGTTAAGATGAT
TTGATATTTTGAGTAGTTTTACAGTCTCGGCCTTCAGAAACTATGAGATTGATGTCAAAACCTTG
AGTGATTAAATGCATTTTTTTAGACTAAACTAAAAATTTGATGTCTAGTGTTGCTAAGAAAAACC
AAACTACTCAAGTTTGCTTACACTTTTCTGGTAGAAACCTGTTCGTACTATTGTTTTAATCCAAA
TTCTAGAGAATCTGAAGGGGTTTGTCAAGATCAAGTGCAATTATACACTGAAGCTAAGCAGCTTA
TTGCTTATTTATCCTAATGTTTCCCCTTTTTGATTTTGCTTCAAGCAGCAGAACGATGGTTGCTC
CTTGAATCTGCTACTGATTCATGTCTCTTCTTT
Found at i:15555313 original size:39 final size:39
Alignment explanation
Indices: 15555268--15555345 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
15555258 AACATGTGCT
15555268 TTATTTTTGCATTTCCTGGTTGGGAAGGAACAACATATG
1 TTATTTTTGCATTTCCTGGTTGGGAAGGAACAACATATG
*
15555307 TTATTTTTGCATTTCCTGGTTGGGAAGGAACAGCATATG
1 TTATTTTTGCATTTCCTGGTTGGGAAGGAACAACATATG
15555346 ATAGTAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (39 bp):
TTATTTTTGCATTTCCTGGTTGGGAAGGAACAACATATG
Found at i:15556303 original size:21 final size:21
Alignment explanation
Indices: 15556277--15556332 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
15556267 AACAGCGGTG
*
15556277 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
15556298 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
15556319 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
15556333 AACAGTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:15556461 original size:18 final size:19
Alignment explanation
Indices: 15556438--15556475 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15556428 ATAATAGAAG
*
15556438 TTTTTT-AAATTATTTAAA
1 TTTTTTAAAATTATTAAAA
15556456 TTTTTTAAAATTATTAAAA
1 TTTTTTAAAATTATTAAAA
15556475 T
1 T
15556476 ATGTGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTAAAATTATTAAAA
Found at i:15564472 original size:7 final size:7
Alignment explanation
Indices: 15564460--15564490 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15564450 CCTAATGATG
15564460 AAAAGAA
1 AAAAGAA
15564467 AAAAGAA
1 AAAAGAA
15564474 AAAAGAA
1 AAAAGAA
*
15564481 CAAAGAA
1 AAAAGAA
15564488 AAA
1 AAA
15564491 CAAAAGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Done.