Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 290 of 770
Found at i:88379704 original size:13 final size:13
Alignment explanation
Indices: 88379642--88379716 Score: 92
Period size: 13 Copynumber: 6.3 Consensus size: 13
88379632 TGGGCTATTT
88379642 ATATATGATACAC
1 ATATATGATACAC
*
88379655 AAATATGATAC-C
1 ATATATGATACAC
88379667 ATATATGATACAC
1 ATATATGATACAC
88379680 AT-TA--AT--AC
1 ATATATGATACAC
88379688 ATATATGATACAC
1 ATATATGATACAC
88379701 ATATATGATAC-C
1 ATATATGATACAC
88379713 ATAT
1 ATAT
88379717 CTATTTAGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.07
9 2 0.04
10 2 0.04
11 2 0.04
12 18 0.33
13 26 0.48
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (13 bp):
ATATATGATACAC
Found at i:88380771 original size:43 final size:43
Alignment explanation
Indices: 88380721--88380842 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 43
88380711 TCCCAAATGT
*
88380721 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAG
* * *
88380764 GGTCTTACATG-AA-CTCATATACAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGACAG
* *
88380806 GGTCTTACACGTAAATCACA-ATCGATGCCAACGTCCC
1 GGTCTTACATGT-AATCACATATCGATGCCAATGTCCC
88380843 TGATGTAGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.09
42 30 0.45
43 24 0.36
44 4 0.06
45 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:88381525 original size:13 final size:13
Alignment explanation
Indices: 88381507--88381533 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88381497 CACAAACAAT
88381507 AAAATTTTCACAC
1 AAAATTTTCACAC
88381520 AAAATTTTCACAC
1 AAAATTTTCACAC
88381533 A
1 A
88381534 TATCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:88387489 original size:43 final size:43
Alignment explanation
Indices: 88387441--88387595 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
88387431 CCGGCATTAC
*
88387441 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
88387484 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
88387527 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
88387570 GCCTGCTAGGCACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
88387596 TAATACCAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:88387636 original size:38 final size:38
Alignment explanation
Indices: 88387588--88387672 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
88387578 GGCACAAAGG
* * * * *
88387588 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACAGGATTTAA
**
88387626 CCCGGATATAATACCAGCACGAAGCCTATGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACAGGATTTAA
88387664 CCCGGATAT
1 CCCGGATAT
88387673 TTTACAAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACAGGATTTAA
Found at i:88387689 original size:38 final size:38
Alignment explanation
Indices: 88387618--88387690 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
88387608 TAGGCCTGCA
* * *
88387618 GGATTTATCCCGGATATAATACCAGCACGAAGCCTATG
1 GGATTTAACCCGGATATAATACAAGCACAAAGCCTATG
** *
88387656 GGATTTAACCCGGATATTTTACAAGCTCAAAGCCT
1 GGATTTAACCCGGATATAATACAAGCACAAAGCCT
88387691 GCGAGTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
GGATTTAACCCGGATATAATACAAGCACAAAGCCTATG
Found at i:88392388 original size:42 final size:43
Alignment explanation
Indices: 88392278--88392436 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
88392268 TTGTACAACA
* ** * * *
88392278 CCAACGTCCCAAACGTGGTCTTACATGTAA-TCACATATCGATG
1 CCAATGTCCCAAATATGGTCTTACACGAAACTCATATA-CGATG
* * * *
88392321 CCACTGTCCCAAACAGGGTCATACAC-AAACTCATATACGATG
1 CCAATGTCCCAAATATGGTCTTACACGAAACTCATATACGATG
* * * *
88392363 CCAATGTCCCAGATATGGTCTTACACGTAATTCATAAATCGATG
1 CCAATGTCCCAAATATGGTCTTACACGAAACTCATATA-CGATG
* * * *
88392407 CCAACGTCTCAAATGTGGTCTTACATGAAA
1 CCAATGTCCCAAATATGGTCTTACACGAAA
88392437 TCACATATCA
Statistics
Matches: 91, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 28 0.31
43 34 0.37
44 29 0.32
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAAATATGGTCTTACACGAAACTCATATACGATG
Found at i:88395610 original size:21 final size:21
Alignment explanation
Indices: 88395586--88395629 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
88395576 TTTTTAGTGA
88395586 GTATGTTCAATAAGGGAGTTG
1 GTATGTTCAATAAGGGAGTTG
88395607 GTATGTTCAATAAGGGAGTTG
1 GTATGTTCAATAAGGGAGTTG
88395628 GT
1 GT
88395630 GTCATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (21 bp):
GTATGTTCAATAAGGGAGTTG
Found at i:88397754 original size:39 final size:39
Alignment explanation
Indices: 88397673--88397835 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
88397663 TATGGTAACC
* *
88397673 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
88397713 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
88397752 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
88397791 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
88397830 CGCACA
1 CGCACA
88397836 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:88413138 original size:40 final size:40
Alignment explanation
Indices: 88413083--88413292 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
88413073 AACATTGGAA
88413083 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
88413123 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
88413163 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
88413203 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
88413242 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
88413283 CTATATCCGG
1 ATATATCCGG
88413293 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:88420449 original size:47 final size:47
Alignment explanation
Indices: 88420395--88420580 Score: 273
Period size: 47 Copynumber: 4.0 Consensus size: 47
88420385 TTAGGATTTT
** * *
88420395 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
88420442 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
88420489 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
88420536 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGTCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
88420581 TATGTGAAAT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:88420495 original size:22 final size:22
Alignment explanation
Indices: 88420424--88420495 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
88420414 GTATATATGA
88420424 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
88420446 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
88420471 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
88420493 GAT
1 GAT
88420496 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:88420544 original size:25 final size:25
Alignment explanation
Indices: 88420469--88420544 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
88420459 ATGCATATAT
88420469 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
88420494 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
88420516 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
88420541 GTGA
1 GTGA
88420545 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:88420760 original size:50 final size:48
Alignment explanation
Indices: 88420558--88420740 Score: 282
Period size: 47 Copynumber: 3.8 Consensus size: 48
88420548 TGAACATGCA
*
88420558 TATATGTGGTAAAGTCGAATGGCT-ATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
88420605 TATATGTGGTAAAGCC-AATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
88420652 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
88420702 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
88420741 GGCATGTGCG
Statistics
Matches: 124, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
46 7 0.06
47 54 0.44
48 17 0.14
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:88420993 original size:37 final size:37
Alignment explanation
Indices: 88420885--88420993 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
88420875 GGAAATATAT
*
88420885 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
88420922 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
88420959 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
88420994 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:88422385 original size:27 final size:27
Alignment explanation
Indices: 88422217--88422658 Score: 207
Period size: 27 Copynumber: 16.3 Consensus size: 27
88422207 CCAATTATTG
* * *
88422217 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
* * * * **
88422244 AAGTACCATCGATTTACATAATTACCG
1 AAATACCCTCGATTTATAAAATTACTA
*** * **
88422271 TTTTACCCTCGATTTATAGAATTACCG
1 AAATACCCTCGATTTATAAAATTACTA
*** *
88422298 TTTTACCCTCGATTTATAGAATTACTA
1 AAATACCCTCGATTTATAAAATTACTA
*** * * *
88422325 TTTTACCCTTGATTTATAGAATTACTG
1 AAATACCCTCGATTTATAAAATTACTA
*** *
88422352 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCTCGATTTATAAAATTACTA
* * * *
88422379 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
* * *
88422406 AAATACCCTC-AATCAGTAAAATTACCA
1 AAATACCCTCGATTTA-TAAAATTACTA
* * *
88422433 AAATACCCT-GGTTTGTAAAATTGCTA
1 AAATACCCTCGATTTATAAAATTACTA
* * *
88422459 AAATACCC-CTGGTTTGTAAAATTACCA
1 AAATACCCTC-GATTTATAAAATTACTA
* * *
88422486 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTATAAAATTACTA
* * * **
88422513 AAATACCACT-GGTTTGTGAAATTACGG
1 AAATACC-CTCGATTTATAAAATTACTA
* * *
88422540 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
*
88422567 AAATACCC-CTGATTTACAAAATTAC-A
1 AAATACCCTC-GATTTATAAAATTACTA
* *
88422593 GAAATACCCTTGACTTTCTAAAAATTA-TA
1 -AAATACCCTCGA-TTTAT-AAAATTACTA
* * * *
88422622 GAAATACCATTGGTTTACAAAATTACTA
1 -AAATACCCTCGATTTATAAAATTACTA
88422650 AAATACCCT
1 AAATACCCT
88422659 TGGTTTGTAG
Statistics
Matches: 337, Mismatches: 63, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
26 23 0.07
27 286 0.85
28 9 0.03
29 19 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTCGATTTATAAAATTACTA
Found at i:88422480 original size:80 final size:81
Alignment explanation
Indices: 88422369--88422576 Score: 269
Period size: 80 Copynumber: 2.6 Consensus size: 81
88422359 CTCGATTTAC
* **
88422369 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCAATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AATCAGTAAAATTACCA
88422433 AAATACC-CTGGTTTGT
65 AAATACCACTGGTTTGT
* * **
88422449 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATCAGTAAAATTACCAA
88422514 AATACCACTGGTTTGT
66 AATACCACTGGTTTGT
* ** **
88422530 GAAATTACGGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCT
88422577 GATTTACAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 63 0.56
81 49 0.44
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATCAGTAAAATTACCAA
AATACCACTGGTTTGT
Found at i:88422661 original size:27 final size:27
Alignment explanation
Indices: 88422355--88422687 Score: 235
Period size: 27 Copynumber: 12.3 Consensus size: 27
88422345 ATTACTGTTT
* * * *
88422355 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
88422382 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*** *
88422409 TACCC-TCAATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * *
88422436 TACCC-TGGTTTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
88422462 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
88422489 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * **
88422516 TACCAC-TGGTTTGTGAAATTACGGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** *
88422543 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
88422570 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * *
88422597 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * *
88422626 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
88422653 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
88422680 CACCCTTG
1 TACCCTTG
88422688 TAGGGTGAAA
Statistics
Matches: 249, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.09
27 198 0.80
28 9 0.04
29 19 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:88422748 original size:27 final size:27
Alignment explanation
Indices: 88422718--88422809 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
88422708 ACCCCTATTA
*
88422718 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
88422745 GGTAAAGTGACCGTAAAGCCCCTCTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
88422772 AGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
88422799 GGTAAAATGAC
1 GGTAAAATGAC
88422810 GAATATGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:88423723 original size:24 final size:25
Alignment explanation
Indices: 88423617--88423710 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
88423607 AGGAAGTGCT
*
88423617 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
88423642 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
88423667 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
88423691 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
88423711 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:88425465 original size:39 final size:39
Alignment explanation
Indices: 88425418--88425600 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
88425408 AATGTTCGAG
88425418 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
88425457 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
88425496 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
88425535 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
88425575 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
88425601 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:88429550 original size:31 final size:31
Alignment explanation
Indices: 88429512--88429651 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
88429502 GTTTACAGTA
88429512 AAGGCTTCGGCCCAGTGATATGATTTATAAT
1 AAGGCTTCGGCCCAGTGATATGATTTATAAT
*
88429543 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATAAT
* *
88429574 AAGGTTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATAAT
88429605 AAGGCTTCGGCCCAGTGATATGATTTATGAA-
1 AAGGCTTCGGCCCAGTGATATGATTTAT-AAT
*
88429636 AAGGCTTTGGCCCAGT
1 AAGGCTTCGGCCCAGT
88429652 ACCCGTTAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 102 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATAAT
Found at i:88430876 original size:25 final size:25
Alignment explanation
Indices: 88430825--88430878 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
88430815 CAATCCATTT
* * *
88430825 CTTGTGTGAGCATACCGATTTCTAG
1 CTTGTGAGAGCATACCAATTACTAG
88430850 CTTGTGAGAGCATACCAATCTAC-AG
1 CTTGTGAGAGCATACCAAT-TACTAG
88430875 CTTG
1 CTTG
88430879 AGTAATCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
CTTGTGAGAGCATACCAATTACTAG
Found at i:88435095 original size:61 final size:61
Alignment explanation
Indices: 88434995--88435116 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
88434985 ATGTGATTGC
* *
88434995 AGTAAGTTTATTTCATACGAGCTTACTGAGCTTTGTAGCTTACATCATTTAATTTTCTATG
1 AGTAAGTTTATTTCATACGAGCTTACTAAGCTTTATAGCTTACATCATTTAATTTTCTATG
*
88435056 AGTAAGTTTATTTCATACGAGTTTACTAAGCTTTATAGCTTACATCATTTAATTTTCTATG
1 AGTAAGTTTATTTCATACGAGCTTACTAAGCTTTATAGCTTACATCATTTAATTTTCTATG
88435117 TTTTATAGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (61 bp):
AGTAAGTTTATTTCATACGAGCTTACTAAGCTTTATAGCTTACATCATTTAATTTTCTATG
Found at i:88443067 original size:46 final size:46
Alignment explanation
Indices: 88443014--88443186 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
88443004 TTGGGCATCT
88443014 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* * * *
88443060 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCGTCC
* * * *
88443107 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* *
88443153 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88443187 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 63 0.59
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
Found at i:88443166 original size:93 final size:93
Alignment explanation
Indices: 88443007--88443179 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
88442997 GGGATATTTG
* * *
88443007 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
88443072 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
88443100 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
88443165 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
88443180 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88444631 original size:40 final size:40
Alignment explanation
Indices: 88444557--88444734 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
88444547 GAGTCACGTA
** *
88444557 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
88444596 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
88444636 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
88444676 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
88444716 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
88444735 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:88449429 original size:15 final size:15
Alignment explanation
Indices: 88449409--88449501 Score: 104
Period size: 15 Copynumber: 6.4 Consensus size: 15
88449399 GTATCTTGGG
*
88449409 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
* *
88449424 TCTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
88449439 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
88449454 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
88449467 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
88449482 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
88449496 TTTCTT
1 TTTCTT
88449502 GTTATCTTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
12 2 0.03
13 7 0.11
14 12 0.18
15 43 0.65
16 2 0.03
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:88449481 original size:28 final size:28
Alignment explanation
Indices: 88449407--88449497 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
88449397 TCGTATCTTG
* *
88449407 GGTTTCTTTATCCTGGATCTCTTTATTC
1 GGTTTCTTTATCTTGGATTTCTTTATTC
*
88449435 TAGATTTCTTTAT-TCTGGATTTCTTTATTC
1 --GGTTTCTTTATCT-TGGATTTCTTTATTC
*
88449465 GGTTTCTCTATCTTGGATTTCTTTATTC
1 GGTTTCTTTATCTTGGATTTCTTTATTC
88449493 GGTTT
1 GGTTT
88449498 TCTTGTTATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 29 0.54
29 1 0.02
30 24 0.44
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.57
Consensus pattern (28 bp):
GGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:88453361 original size:43 final size:43
Alignment explanation
Indices: 88453301--88453476 Score: 298
Period size: 43 Copynumber: 4.1 Consensus size: 43
88453291 GGGATGTTTT
* *
88453301 AGGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGT
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
88453344 AGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCATGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
88453387 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
88453430 AGGCTTCATGCCGGTAATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
88453473 AGGC
1 AGGC
88453477 GTAATGCCGG
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
Found at i:88453873 original size:45 final size:42
Alignment explanation
Indices: 88453806--88453913 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
88453796 TTGACTTGAT
* *
88453806 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGTCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
88453851 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTTGAGCCTAGCAAACTATAATGCCGGTGAAC
88453893 TGATATCGGGCC-TTGAGCCTA
1 T-AT-TCGGGCCTTTGAGCCTA
88453914 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (42 bp):
TATTCGGGCCTTTGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:88460763 original size:29 final size:29
Alignment explanation
Indices: 88460729--88460802 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
88460719 TAATCAACCA
*
88460729 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
*
88460758 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
88460787 CACACACTTAGTGCCA
1 CGCACACTTAGTGCCA
88460803 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:88465897 original size:40 final size:39
Alignment explanation
Indices: 88465844--88466035 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 39
88465834 GGATATAACG
* *
88465844 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
* *
88465884 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTC
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* *
88465924 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGG-TTTAGTA
* * * * *
88465963 ACTCGCACGAATGCCTTC-GGATTCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA--CTAAGCCCGG-TTTAGTA
* *
88466004 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTAAGCCCGG
88466036 ACATCATTCA
Statistics
Matches: 127, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
38 6 0.05
39 26 0.20
40 57 0.45
41 28 0.22
42 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:88465954 original size:79 final size:80
Alignment explanation
Indices: 88465818--88466036 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
88465808 GAATCGCGTA
* * **
88465818 CCTTCGGAAT-TTAA-CCGGATATA-ACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTC-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-
88465879 TAGTAACTCGCACGAATG
63 TAGTAACTCGCACGAATG
* *
88465897 CCTTCGGGA-CTTAACCCGGGTTTAGTCACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
88465960 TTAACTCGCACGAATG
65 GTAACTCGCACGAATG
** *
88465976 CCTTCGGATTCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGA-TCTTAACCCGGATATAGTCAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
88466037 CATCATTCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 40 0.34
80 56 0.47
81 20 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAATG
Found at i:88471820 original size:29 final size:29
Alignment explanation
Indices: 88471781--88471859 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
88471771 CTTAATAATC
*
88471781 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
88471811 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
88471840 AGCCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
88471860 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:88479818 original size:19 final size:19
Alignment explanation
Indices: 88479794--88479839 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
88479784 TGTAAATATA
88479794 CAAAAGTTTCATAATTTTG
1 CAAAAGTTTCATAATTTTG
88479813 CAAAAGTTTCATAATTTTG
1 CAAAAGTTTCATAATTTTG
*
88479832 CCAAAGTT
1 CAAAAGTT
88479840 AGAGTTAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
CAAAAGTTTCATAATTTTG
Found at i:88487585 original size:93 final size:93
Alignment explanation
Indices: 88487473--88487644 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88487463 CGCCCATAAG
* *
88487473 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88487538 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88487566 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88487631 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88487645 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88487641 original size:46 final size:46
Alignment explanation
Indices: 88487466--88487641 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88487456 TGTAACCCGC
* * *
88487466 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88487512 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88487562 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88487605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88487642 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88495139 original size:93 final size:93
Alignment explanation
Indices: 88495027--88495198 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88495017 CGCCCATAAG
* *
88495027 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88495092 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88495120 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88495185 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88495199 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88495195 original size:46 final size:46
Alignment explanation
Indices: 88495020--88495195 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88495010 TGTAACCCGC
* * *
88495020 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88495066 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88495116 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88495159 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88495196 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88497293 original size:14 final size:14
Alignment explanation
Indices: 88497276--88497302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88497266 CTGTGTTTAT
88497276 TATTTGTGAAATTA
1 TATTTGTGAAATTA
88497290 TATTTGTGAAATT
1 TATTTGTGAAATT
88497303 TTCGTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (14 bp):
TATTTGTGAAATTA
Found at i:88507024 original size:37 final size:36
Alignment explanation
Indices: 88506973--88507059 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
88506963 TACGAAGTCT
88506973 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
88507009 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
88507046 TCACCCGGAACATA
1 T-ACCCGG-ACATA
88507060 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:88507194 original size:49 final size:49
Alignment explanation
Indices: 88507128--88507574 Score: 792
Period size: 49 Copynumber: 9.1 Consensus size: 49
88507118 TTTACCACAT
88507128 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
88507177 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
88507226 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
88507275 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
88507324 ATATAT-TCATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
88507373 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
88507422 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
88507471 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
88507520 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
88507569 ATATAT
1 ATATAT
88507575 TGTGACAGCC
Statistics
Matches: 380, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
48 3 0.01
49 374 0.98
50 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:88509321 original size:40 final size:40
Alignment explanation
Indices: 88509248--88509455 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
88509238 CAATTGAATG
* * ** *
88509248 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
88509288 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
88509328 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
88509368 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
88509408 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
88509448 ATATCCGG
1 ATATCCGG
88509456 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:88509386 original size:80 final size:80
Alignment explanation
Indices: 88509250--88509455 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
88509240 ATTGAATGAT
* * ** * * * *
88509250 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
88509314 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
88509330 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
88509395 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
88509410 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88509456 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:88517333 original size:40 final size:40
Alignment explanation
Indices: 88517260--88517467 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
88517250 CAATTGAATG
* * ** *
88517260 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
88517300 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
88517340 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
88517380 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
88517420 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
88517460 ATATCCGG
1 ATATCCGG
88517468 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:88517398 original size:80 final size:80
Alignment explanation
Indices: 88517262--88517467 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
88517252 ATTGAATGAT
* * ** * * * *
88517262 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
88517326 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
88517342 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
88517407 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
88517422 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88517468 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:88526704 original size:29 final size:29
Alignment explanation
Indices: 88526671--88526744 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
88526661 CCTTCGAGCT
88526671 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
88526700 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
88526729 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
88526745 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:88526705 original size:58 final size:58
Alignment explanation
Indices: 88526612--88526744 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
88526602 ATACTCGATT
* * * * *
88526612 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
88526670 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
88526728 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
88526745 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:88533483 original size:29 final size:29
Alignment explanation
Indices: 88533397--88533523 Score: 229
Period size: 29 Copynumber: 4.4 Consensus size: 29
88533387 TGAATCCGCG
88533397 CACTTAGTGCTATATA-TTTCAGCTCGCA
1 CACTTAGTGCTATATATTTTCAGCTCGCA
88533425 CACTTAGTGCTATATAATTTTCAGCTCGCA
1 CACTTAGTGCTATAT-ATTTTCAGCTCGCA
88533455 CACTTAGTGCTATATATTTTCAGCTCGCA
1 CACTTAGTGCTATATATTTTCAGCTCGCA
*
88533484 CACTTAGTGCTATATATTTTCAGTTCGCA
1 CACTTAGTGCTATATATTTTCAGCTCGCA
88533513 CACTTAGTGCT
1 CACTTAGTGCT
88533524 GTACAATTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
28 15 0.16
29 54 0.56
30 27 0.28
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CACTTAGTGCTATATATTTTCAGCTCGCA
Found at i:88536783 original size:94 final size:94
Alignment explanation
Indices: 88536620--88536901 Score: 528
Period size: 94 Copynumber: 3.0 Consensus size: 94
88536610 AATGTGACCG
88536620 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
88536685 GAATTAAATGTCACTTTGGGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
88536714 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
88536779 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
88536808 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
88536873 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
88536902 GAATGTCGAT
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 183 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:88536962 original size:24 final size:24
Alignment explanation
Indices: 88536930--88536990 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
88536920 GAAAATTTCA
* *
88536930 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
88536954 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
88536978 AGCACTATGTGTG
1 GGCACTATGTGTG
88536991 TGAATTCGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:88538420 original size:20 final size:20
Alignment explanation
Indices: 88538395--88538433 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
88538385 GCACATGCCC
88538395 GTGTGCTTTAGGACACGCCT
1 GTGTGCTTTAGGACACGCCT
88538415 GTGTGCTTTAGGACACGCC
1 GTGTGCTTTAGGACACGCC
88538434 CATGTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (20 bp):
GTGTGCTTTAGGACACGCCT
Found at i:88539785 original size:42 final size:42
Alignment explanation
Indices: 88539738--88539875 Score: 102
Period size: 42 Copynumber: 3.1 Consensus size: 42
88539728 CCGTCCAGGC
88539738 TAAATCCTTTTCTACAACACATGCAAGATCTCAAGTCACATG
1 TAAATCCTTTTCTACAACACATGCAAGATCTCAAGTCACATG
* * ** * ** *
88539780 TAAATCATGGTTTCCTATATTTGAGAT-CAACGGAT-TACCCGTC-CAGG
1 TAAATCCT--TTT-CTACA--ACACATGCAA--GATCT-CAAGTCACATG
88539827 CTAAATCCTTTTCTACAACACATGCAAGATCTCAAGTCACATG
1 -TAAATCCTTTTCTACAACACATGCAAGATCTCAAGTCACATG
88539870 TAAATC
1 TAAATC
88539876 ATGGTTTATC
Statistics
Matches: 68, Mismatches: 16, Indels: 24
0.63 0.15 0.22
Matches are distributed among these distances:
42 20 0.29
43 7 0.10
44 6 0.09
45 8 0.12
46 6 0.09
47 7 0.10
48 14 0.21
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (42 bp):
TAAATCCTTTTCTACAACACATGCAAGATCTCAAGTCACATG
Found at i:88539854 original size:90 final size:90
Alignment explanation
Indices: 88539701--88539882 Score: 364
Period size: 90 Copynumber: 2.0 Consensus size: 90
88539691 GGCTAGATCC
88539701 TTCCTATATTTGAGATCAACGGATTACCCGTCCAGGCTAAATCCTTTTCTACAACACATGCAAGA
1 TTCCTATATTTGAGATCAACGGATTACCCGTCCAGGCTAAATCCTTTTCTACAACACATGCAAGA
88539766 TCTCAAGTCACATGTAAATCATGGT
66 TCTCAAGTCACATGTAAATCATGGT
88539791 TTCCTATATTTGAGATCAACGGATTACCCGTCCAGGCTAAATCCTTTTCTACAACACATGCAAGA
1 TTCCTATATTTGAGATCAACGGATTACCCGTCCAGGCTAAATCCTTTTCTACAACACATGCAAGA
88539856 TCTCAAGTCACATGTAAATCATGGT
66 TCTCAAGTCACATGTAAATCATGGT
88539881 TT
1 TT
88539883 ATCCATCGAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (90 bp):
TTCCTATATTTGAGATCAACGGATTACCCGTCCAGGCTAAATCCTTTTCTACAACACATGCAAGA
TCTCAAGTCACATGTAAATCATGGT
Found at i:88541867 original size:20 final size:20
Alignment explanation
Indices: 88541844--88541882 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88541834 AAACTATAAT
* *
88541844 TCGTTTATATAACCAGTAGA
1 TCGTCTATATAAACAGTAGA
*
88541864 TCGTCTGTATAAACAGTAG
1 TCGTCTATATAAACAGTAG
88541883 TTCATCAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
TCGTCTATATAAACAGTAGA
Found at i:88541919 original size:20 final size:20
Alignment explanation
Indices: 88541867--88541937 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
88541857 CAGTAGATCG
*
88541867 TCTGTATAAACAGTAGTTCA
1 TCTGTATAAACAGTAATTCA
* *
88541887 TCAGT-TTAACAGTAATTCA
1 TCTGTATAAACAGTAATTCA
*
88541906 TCTGTATCAACAGTAATTCA
1 TCTGTATAAACAGTAATTCA
**
88541926 TCCATATAAACA
1 TCTGTATAAACA
88541938 CATATCTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.38
20 26 0.62
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (20 bp):
TCTGTATAAACAGTAATTCA
Found at i:88549006 original size:39 final size:39
Alignment explanation
Indices: 88548952--88549029 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
88548942 AACATAGTAT
88548952 AACTATTAAGAACAAGACACAGCTGAGCAACTATTTCAA
1 AACTATTAAGAACAAGACACAGCTGAGCAACTATTTCAA
*
88548991 AACTATTAAGAACAAGACATAGCTGAGCAACTATTTCAA
1 AACTATTAAGAACAAGACACAGCTGAGCAACTATTTCAA
88549030 TTTAAATCTC
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:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (39 bp):
AACTATTAAGAACAAGACACAGCTGAGCAACTATTTCAA
Found at i:88566718 original size:49 final size:49
Alignment explanation
Indices: 88566650--88566772 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
88566640 TACATATATG
*
88566650 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
88566699 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
88566748 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
88566773 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:88575615 original size:79 final size:78
Alignment explanation
Indices: 88575515--88575738 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
88575505 GCTACTCGTT
* * *
88575515 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGG
*
88575580 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * *
88575595 CCAATGCCTTCTGG-CTTAGCCCGGAATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGG
88575658 AATTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
88575673 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
88575737 GA
63 GA
88575739 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.02
78 33 0.26
79 58 0.46
80 32 0.26
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTCGCA
Found at i:88575738 original size:40 final size:40
Alignment explanation
Indices: 88575496--88575738 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
88575486 CGGAATTTAA
** *
88575496 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88575536 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
88575576 CTGGATTTAGTAACTCGCACCAATGCCTTCTGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88575615 CCGGA-ATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88575654 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
88575694 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88575734 CCGGA
1 CCGGA
88575739 CATCATTCGA
Statistics
Matches: 175, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 68 0.39
40 93 0.53
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88583895 original size:40 final size:40
Alignment explanation
Indices: 88583654--88583895 Score: 284
Period size: 39 Copynumber: 6.1 Consensus size: 40
88583644 CGGAATTTAA
** *
88583654 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88583694 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88583734 CC-GATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88583772 CCGGA-ATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88583811 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
88583851 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88583891 CCGGA
1 CCGGA
88583896 CATCATTCGA
Statistics
Matches: 177, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 9 0.05
39 89 0.50
40 67 0.38
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88586514 original size:29 final size:28
Alignment explanation
Indices: 88586482--88586584 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
88586472 GTGACGAGAT
* *
88586482 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
88586511 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
88586540 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
88586569 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
88586585 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:88595705 original size:40 final size:40
Alignment explanation
Indices: 88595627--88595850 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
88595617 ACCCAAGTAT
* *
88595627 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
88595666 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88595706 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
88595746 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
88595789 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88595829 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
88595851 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88595823 original size:83 final size:80
Alignment explanation
Indices: 88595627--88595850 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
88595617 ACCCAAGTAT
* * * *
88595627 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
88595691 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
88595706 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
88595770 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
88595789 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
88595851 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:88603916 original size:40 final size:40
Alignment explanation
Indices: 88603838--88604060 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
88603828 ACCCAAGTAT
* *
88603838 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
88603877 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88603917 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88603957 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
88603999 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88604039 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
88604061 CATCCGAATA
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.01
39 20 0.12
40 108 0.65
41 1 0.01
42 28 0.17
43 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88604020 original size:82 final size:80
Alignment explanation
Indices: 88603838--88604060 Score: 310
Period size: 82 Copynumber: 2.8 Consensus size: 80
88603828 ACCCAAGTAT
* * *
88603838 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
88603901 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
88603917 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
88603980 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
88603999 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
88604061 CATCCGAATA
Statistics
Matches: 130, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 1 0.01
79 21 0.16
80 40 0.31
81 1 0.01
82 64 0.49
83 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:88604052 original size:122 final size:119
Alignment explanation
Indices: 88603838--88604060 Score: 349
Period size: 122 Copynumber: 1.8 Consensus size: 119
88603828 ACCCAAGTAT
* * *
88603838 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
88603903 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88603957 CTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
88604021 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
88604061 CATCCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
119 18 0.19
120 5 0.05
122 71 0.76
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88609128 original size:21 final size:21
Alignment explanation
Indices: 88609104--88609167 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
88609094 AGCCTTCAGG
*
88609104 CTTCCGTTTAGCACTTGTGTG
1 CTTCCGTTTAGCACTTGTGTA
* *
88609125 CTTCAG-TTAGC-CTT-CGTA
1 CTTCCGTTTAGCACTTGTGTA
88609143 CTTCCGTTTAGCACTTGTGTA
1 CTTCCGTTTAGCACTTGTGTA
88609164 CTTC
1 CTTC
88609168 AGGTAGCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.42
Consensus pattern (21 bp):
CTTCCGTTTAGCACTTGTGTA
Found at i:88609139 original size:39 final size:39
Alignment explanation
Indices: 88609085--88609224 Score: 169
Period size: 39 Copynumber: 3.6 Consensus size: 39
88609075 GCTCTGATGA
88609085 GCTTCAGTTAGCCTTC-AGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGA-GCTTCCGTTTAGCACTTGTGT
88609124 GCTTCAGTTAGCCTTCGTA-CTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCG-AGCTTCCGTTTAGCACTTGTGT
* * * *
88609163 ACTTCAGGTAGCCTTCGAGCTTCTAG-TTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTC-CGTTTAGCACTTGTGT
* * *
88609202 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGAGCTTC
88609225 AAATCACGAT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 86 0.97
40 1 0.01
41 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
Found at i:88612933 original size:68 final size:70
Alignment explanation
Indices: 88612861--88613058 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
88612851 ACACCCTGTA
* * * *
88612861 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
88612923 ATAAAT
65 ATAAAT
*
88612929 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
88612994 ATAAAT
65 ATAAAT
* *
88613000 GTAGCTAGGTCGCATGCATGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
88613059 AGTCAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:88612984 original size:71 final size:71
Alignment explanation
Indices: 88612895--88613058 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
88612885 GAGATGTATC
*
88612895 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
88612960 AGGACA
66 AGGACA
88612966 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
88613031 AGGACA
66 AGGACA
88613037 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88613059 AGTCAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
AGGACA
Found at i:88614960 original size:27 final size:27
Alignment explanation
Indices: 88614859--88614963 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
88614849 AGGAAGCGTC
*
88614859 CTGGTGGCTAC-GCCATAATTATCTG-AT
1 CTGGTGGCT-CTGCCA-CATTATCTGTAT
88614886 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
88614913 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
88614941 CTGGTGACTTTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
88614964 ATTGTGGCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.04
27 49 0.73
28 15 0.22
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:88624028 original size:40 final size:40
Alignment explanation
Indices: 88623970--88624277 Score: 435
Period size: 40 Copynumber: 7.6 Consensus size: 40
88623960 TATTCGGATG
88623970 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88624010 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
88624053 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
88624093 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88624133 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
88624176 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
88624216 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
88624256 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
88624278 TACTTGGGTT
Statistics
Matches: 244, Mismatches: 13, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
39 18 0.07
40 150 0.61
41 2 0.01
43 70 0.29
44 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88624113 original size:83 final size:80
Alignment explanation
Indices: 88623970--88624277 Score: 435
Period size: 83 Copynumber: 3.8 Consensus size: 80
88623960 TATTCGGATG
88623970 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAATCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CTATATCCGGGCTAAATCCCGAAGGC
88624034 ATTTGTGCGAGTAGTTG-CT
65 ATTTGTGC---TAG-TGACT
* *
88624053 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CTATATCCGGGCTAAATCCCGAAGGC
88624117 ATTTGTGCTAGTGACT
65 ATTTGTGCTAGTGACT
* * *
88624133 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCTATATCCGGGCTAAATCCCGAAG
88624198 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* * *
88624216 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGG
88624278 TACTTGGGTT
Statistics
Matches: 209, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
79 17 0.08
80 47 0.22
83 143 0.68
84 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:88624189 original size:123 final size:123
Alignment explanation
Indices: 88623970--88624277 Score: 548
Period size: 123 Copynumber: 2.5 Consensus size: 123
88623960 TATTCGGATG
88623970 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATCCCGAAGGCA
88624035 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
88624093 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATCCCGAAGGCA
88624158 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
88624216 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAATCCCGAAGG
88624278 TACTTGGGTT
Statistics
Matches: 177, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
122 14 0.08
123 161 0.91
124 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (123 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATCCCGAAGGCA
TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88626166 original size:27 final size:26
Alignment explanation
Indices: 88626125--88626236 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
88626115 AGGAAGCGTC
88626125 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
88626152 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
88626179 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
88626207 CTGGTGACTCTGTCACATTATATGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
88626233 CTGG
1 CTGG
88626237 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.11
27 49 0.67
28 16 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:88630826 original size:13 final size:13
Alignment explanation
Indices: 88630808--88630834 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88630798 GGAGTAATCG
88630808 CACACTGGCGTGT
1 CACACTGGCGTGT
88630821 CACACTGGCGTGT
1 CACACTGGCGTGT
88630834 C
1 C
88630835 CTTACTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CACACTGGCGTGT
Found at i:88632899 original size:40 final size:40
Alignment explanation
Indices: 88632854--88633020 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
88632844 CGGAATATAA
88632854 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88632894 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
88632934 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
88632974 CC-GATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
88633013 CCGGATAT
1 CCGGATAT
88633021 CATTCAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 30 0.29
40 72 0.71
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88638178 original size:20 final size:20
Alignment explanation
Indices: 88638153--88638190 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88638143 GTTTATTCGC
*
88638153 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
88638173 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
88638191 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:88647802 original size:17 final size:18
Alignment explanation
Indices: 88647760--88647808 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
88647750 AGTTGAAAAG
88647760 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
88647779 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
88647796 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
88647809 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:88648695 original size:40 final size:40
Alignment explanation
Indices: 88648629--88648779 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
88648619 AAATTGAATG
* * *
88648629 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
88648668 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
88648708 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
88648748 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
88648780 ACTTGATTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88648793 original size:40 final size:40
Alignment explanation
Indices: 88648665--88648795 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
88648655 TATGCTGGAA
* * * *
88648665 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
* *
88648705 GTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
88648745 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
88648785 ATTATATCCGG
1 ATTATATCCGG
88648796 TTATATTCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:88655333 original size:7 final size:7
Alignment explanation
Indices: 88655321--88655351 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
88655311 TAGTCTGCCA
88655321 TGTATGT
1 TGTATGT
88655328 TGTATGT
1 TGTATGT
88655335 TGTATG-
1 TGTATGT
88655341 TGTATGT
1 TGTATGT
88655348 TGTA
1 TGTA
88655352 CAAATCTCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (7 bp):
TGTATGT
Found at i:88655346 original size:13 final size:14
Alignment explanation
Indices: 88655321--88655351 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
88655311 TAGTCTGCCA
88655321 TGTATGTTGTATGT
1 TGTATGTTGTATGT
88655335 TGTATG-TGTATGT
1 TGTATGTTGTATGT
88655348 TGTA
1 TGTA
88655352 CAAATCTCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
TGTATGTTGTATGT
Found at i:88657424 original size:42 final size:42
Alignment explanation
Indices: 88657374--88657500 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
88657364 CTTCATTTTC
** * *
88657374 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* * *
88657417 T-GATGCCATAGCCCGGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
88657458 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
88657499 TC
1 TC
88657501 TCACTGATGC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 10 0.14
42 60 0.83
43 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:88657562 original size:47 final size:46
Alignment explanation
Indices: 88657459--88657585 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
88657449 ATTCATATAT
* * * * * *
88657459 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATAAGAAGCACATATCACAC
* * *
88657505 TGATGCCATATCCCAGATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATA-AGAAGCACATATCACAC
88657552 CGATGCCATATCCCAGATATGGTCTTATACAGAA
1 CGATGCCATATCCCAGATATGGTCTTATA-AGAA
88657586 ATCACTTGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 25 0.37
47 43 0.63
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATAAGAAGCACATATCACAC
Found at i:88657635 original size:31 final size:31
Alignment explanation
Indices: 88657600--88657779 Score: 220
Period size: 31 Copynumber: 5.8 Consensus size: 31
88657590 CTTGTCACTT
*
88657600 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
*** *
88657631 GTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
88657662 GTAGCCAGAGCTACCACTTTTCACTAATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
88657693 GTAGCCGGAA-CAACCACTTTTCACTGATCAG
1 GTAGCC-AAAGCTACCACTTTTCACTGATCAG
*
88657724 GTAG-CAGAAGCTACCACTTTTCACGGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
**
88657755 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCAAAGCTACCACTTTTCACT
88657780 TGTCATTTTT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
30 3 0.02
31 122 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:88657697 original size:62 final size:62
Alignment explanation
Indices: 88657600--88657779 Score: 263
Period size: 62 Copynumber: 2.9 Consensus size: 62
88657590 CTTGTCACTT
* * *
88657600 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* * * *
88657662 GTAGCCAGAGCTACCACTTTTCACTAATCAGGTAGCCGGAACAACCACTTTTCACTGATCAG
1 GTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* *
88657724 GTAG-CAGAAGCTACCACTTTTCACGGATCAGGTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCAG-AGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACT
88657780 TGTCATTTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
61 3 0.03
62 101 0.97
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (62 bp):
GTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
Found at i:88657854 original size:50 final size:51
Alignment explanation
Indices: 88657755--88657883 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
88657745 CACGGATCAG
* * * *
88657755 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTTTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTTTCATTGATCAGATAAGT
* *
88657806 GTAGTCGAAGCTATCACTTATCACTT-TCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTTTCATTGATCAGATAAGT
88657856 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
88657884 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTTTCATTGATCAGATAAGT
Found at i:88664903 original size:49 final size:49
Alignment explanation
Indices: 88664839--88665148 Score: 550
Period size: 49 Copynumber: 6.3 Consensus size: 49
88664829 TACATATATG
* *
88664839 TGTGATGGGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
88664888 TGTGATGAGGCCTAATGACCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
88664937 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGT-TA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
88664985 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
88665034 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATG
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
88665083 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
88665132 TGTGATGAGGCCTAATG
1 TGTGATGAGGCCTAATG
88665149 ACCAATGTAA
Statistics
Matches: 250, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 47 0.19
49 203 0.81
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
Found at i:88665016 original size:146 final size:147
Alignment explanation
Indices: 88664839--88665148 Score: 568
Period size: 146 Copynumber: 2.1 Consensus size: 147
88664829 TACATATATG
*
88664839 TGTGATGGGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
88664904 GACCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
66 GACCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
88664969 GTGAAAGTGTATGT-TA
131 GTGAAAGTGTATGTATA
88664985 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
* * * *
88665050 GGCCGATGTGATGAACGTGAAAGTGTATGTATGTGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GACCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
88665115 GTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATA
88665132 TGTGATGAGGCCTAATG
1 TGTGATGAGGCCTAATG
88665149 ACCAATGTAA
Statistics
Matches: 158, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
146 139 0.88
147 19 0.12
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (147 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
GACCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
GTGAAAGTGTATGTATA
Found at i:88665197 original size:146 final size:145
Alignment explanation
Indices: 88664839--88665198 Score: 418
Period size: 146 Copynumber: 2.5 Consensus size: 145
88664829 TACATATATG
* * * ** * * * * *
88664839 TGTGATGGGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGACCAATGT-GAAAACATGAAAGTGTATGCATATGTGATAAAGCCGAAT
*
88664904 GACCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
65 GGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
88664969 GTGAAAGTGTATGTTA
130 GTGAAAGTGTATGTTA
* * ** * * * * *
88664985 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGACCAATGT-GAAAACATGAAAGTGTATGCATATGTGATAAAGCCGAAT
* * *
88665050 GGCCGATGTGATGAACGTGAAAGTGTATGTATGTGTGATGAGGCCTAATGGCCGATGTGGTGAAT
65 GGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAC
88665115 GTGAAAGTGTATGTATA
130 GTGAAAGTGTATGT-TA
* ** *
88665132 TGTGATGAGGCCTAATGACCAATGT-AAAATAT-ATGTGTGATATGCATATGTGGTAAAGCCGAA
1 TGTGATGAGGCCTAATGACCAATGTGAAAACATGA-AAGTG-TATGCATATGTGATAAAGCCGAA
88665195 TGGC
64 TGGC
88665199 TAATGTGAAT
Statistics
Matches: 193, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
144 1 0.01
145 6 0.03
146 161 0.83
147 25 0.13
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.29
Consensus pattern (145 bp):
TGTGATGAGGCCTAATGACCAATGTGAAAACATGAAAGTGTATGCATATGTGATAAAGCCGAATG
GCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAACG
TGAAAGTGTATGTTA
Found at i:88665302 original size:37 final size:37
Alignment explanation
Indices: 88665259--88665336 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
88665249 GTTCCGGGCG
88665259 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
88665296 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
88665333 AGAC
1 AGAC
88665337 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:88667013 original size:28 final size:28
Alignment explanation
Indices: 88666943--88667015 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
88666933 TAATAAGCCC
* *
88666943 GCACACTTAGTGCT-TAATAGTCGAACTT
1 GCACACTTAGTGCTAT-ATAATCAAACTT
*
88666971 GCACACTTAATGCTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCAAACTT
88666999 GCACACTTAGTGCTATA
1 GCACACTTAGTGCTATA
88667016 CAATTTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTT
Found at i:88674674 original size:28 final size:29
Alignment explanation
Indices: 88674634--88674732 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
88674624 GTAATAAGCC
*
88674634 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
88674662 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
88674690 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
88674719 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88674733 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:88678284 original size:47 final size:47
Alignment explanation
Indices: 88678209--88678319 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
88678199 CCCCTCGGGA
* * *
88678209 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
88678256 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
88678303 CTTATCACATATATACA
1 CTTATCACTTATATACA
88678320 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:88678375 original size:46 final size:46
Alignment explanation
Indices: 88678323--88678504 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
88678313 ATATACATCT
* * *
88678323 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88678369 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88678415 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88678461 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
88678505 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:88681255 original size:40 final size:40
Alignment explanation
Indices: 88681206--88681310 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
88681196 GACTCGCTCG
* * *
88681206 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
88681246 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
88681286 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
88681311 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 52 0.95
41 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:88682019 original size:40 final size:40
Alignment explanation
Indices: 88681970--88682311 Score: 580
Period size: 40 Copynumber: 8.6 Consensus size: 40
88681960 CCAGCATGAT
* * *
88681970 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
88682010 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* ** *
88682050 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
88682090 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
88682130 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
88682170 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
88682210 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
88682249 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
88682288 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGAACTTAGCCCGGAT
88682312 CATCGTCGAG
Statistics
Matches: 292, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 78 0.27
40 214 0.73
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:88684104 original size:32 final size:32
Alignment explanation
Indices: 88684063--88684126 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
88684053 GAAAACGGAG
88684063 TAAGCATTTAATGCTTAGTAAGTTTTAAGCAA
1 TAAGCATTTAATGCTTAGTAAGTTTTAAGCAA
88684095 TAAGCATTTAATGCTTAGTAAGTTTTAAGCAA
1 TAAGCATTTAATGCTTAGTAAGTTTTAAGCAA
88684127 AACAAAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (32 bp):
TAAGCATTTAATGCTTAGTAAGTTTTAAGCAA
Found at i:88684978 original size:47 final size:46
Alignment explanation
Indices: 88684903--88685012 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 46
88684893 CCCCTCGGGA
* * *
88684903 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTC-GC
*
88684950 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGC
*
88684996 CTTATCACATATATACA
1 CTTATCACTTATATACA
88685013 TCTCATACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
46 20 0.35
47 37 0.65
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (46 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGC
Found at i:88685074 original size:46 final size:46
Alignment explanation
Indices: 88685016--88685197 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
88685006 ATATACATCT
* * *
88685016 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88685062 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88685108 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
88685154 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
88685198 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:88692395 original size:17 final size:18
Alignment explanation
Indices: 88692370--88692403 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
88692360 AAATATGTTG
88692370 AATTGAAAAAAAATTAAA
1 AATTGAAAAAAAATTAAA
88692388 AATT-AAAAAAAATTAA
1 AATTGAAAAAAAATTAA
88692404 TTCGTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AATTGAAAAAAAATTAAA
Found at i:88700898 original size:45 final size:46
Alignment explanation
Indices: 88700690--88701010 Score: 239
Period size: 46 Copynumber: 6.8 Consensus size: 46
88700680 AGGGTATAAT
* *
88700690 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCT-CATCCATC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTACAT-C-TCGAG
** * **
88700737 GTAGATGCCATGTCCCAAACATGGTCTTACACT-GACTATCAAAATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTA-C-ATCTCGAG
* * *
88700786 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-T
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG--CT-ACATCT-CGAG
* * *
88700836 GCTGATGCCATGTCCCAGACATGGTTTTACA-TTGAC-ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTACATCTCG-AG
88700882 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC-TACATCTCGAG
* * * *
88700928 GCCAATGCATGTCCCAGACAT-GTCTTACACTAGC-ACTCTTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTA--CATCTCGAG
*
88700974 GCCGACTCCATGTCCCAGACATGGTCTTACACTAGCT
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTAGCT
88701011 CACAGTAAGC
Statistics
Matches: 225, Mismatches: 29, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
44 9 0.04
45 19 0.08
46 63 0.28
47 46 0.20
48 16 0.07
49 33 0.15
50 33 0.15
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTACATCTCGAG
Found at i:88701001 original size:94 final size:96
Alignment explanation
Indices: 88700786--88701011 Score: 261
Period size: 94 Copynumber: 2.4 Consensus size: 96
88700776 CAAAATCGAG
* * **
88700786 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCTGATGCCATGTCC
1 GCCGACTCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGGGCCAATGCCATGTCC
* * *
88700851 CAGACATGGTTTTACATTGACACATCTCGTA
66 CAGACATGGTCTTACATAGACACATCTCATA
* *
88700882 GCCGA-TGCATGTCCCAGACAT-GTCTTACACTAGCT-T-ACATCT-CGAGGCCAATG-CATGTC
1 GCCGACTCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-GGCCAATGCCATGTC
* *
88700941 CCAGACAT-GTCTTACACTAGCACTCTTCTCA-A
65 CCAGACATGGTCTTACA-TAG-ACACATCTCATA
88700973 TGCCGACTCCATGTCCCAGACATGGTCTTACACTAGCTC
1 -GCCGACTCCATGTCCCAGACATGGTCTTACACTAGCTC
88701012 ACAGTAAGCA
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
90 7 0.06
91 19 0.17
92 22 0.20
93 16 0.14
94 28 0.25
95 14 0.13
96 5 0.05
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCGACTCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGGGCCAATGCCATGTCC
CAGACATGGTCTTACATAGACACATCTCATA
Found at i:88703171 original size:85 final size:85
Alignment explanation
Indices: 88702945--88703210 Score: 304
Period size: 85 Copynumber: 3.1 Consensus size: 85
88702935 TTCTAAAGGA
* * * * *
88702945 ACATTGACATC-TATCTGAGATATCGTGTAAGACCGTGTTTGGGACATAGGCCTCGATTGAGATT
1 ACATTGGCATCGTATCT--GATATCATGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATT
* * *
88703009 TACGTATAAGACCATGCCTAGG
64 TACATATAAGACCATGTCTGGG
* *
88703031 AAATTGGCATCGTATCTGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTA
1 ACATTGGCATCGTATCTGATATCATGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTA
88703096 CATATAAGACCATGTCTGGG
66 CATATAAGACCATGTCTGGG
* * * * **
88703116 ACATTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGGACAGAGGTATCGATATTGA-A-T
1 ACATTGGCATCGTATCTGATATCATGTAAGACCATGTCTGGGACACAGGCCTCG--ATTGAGATT
* *
88703179 TAAATGTAAGACCATGTCTGGG
64 TACATATAAGACCATGTCTGGG
*
88703201 ACGTTGGCAT
1 ACATTGGCAT
88703211 TGTACTTGTG
Statistics
Matches: 158, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 138 0.87
86 10 0.06
87 10 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATTGGCATCGTATCTGATATCATGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTA
CATATAAGACCATGTCTGGG
Found at i:88703197 original size:43 final size:42
Alignment explanation
Indices: 88702970--88703202 Score: 170
Period size: 43 Copynumber: 5.5 Consensus size: 42
88702960 TGAGATATCG
* * * * *
88702970 TGTAAGACCGTGTTTGGGACATAGGCCTCG-ATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
* * * * ** *
88703013 TATAAGACCATGCCTAGGAAATTGGCATCGTATCTG-A-TATCG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTAT-TGAATTA-CA
*
88703055 TGTAAGACCATGTCTGGGACACAGGCCTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
* ** *
88703098 TATAAGACCATGTCTGGGACATTGGCATCGTATTTG-ATTTCA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTA-TTGAATTACA
* * * *
88703140 TGTAAGACCCTGTCTGGGACAGAGGTATCGATATTGAATTAAA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTACA
88703183 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
88703203 GTTGGCATTG
Statistics
Matches: 150, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.01
41 4 0.03
42 58 0.39
43 76 0.51
44 5 0.03
45 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTACA
Found at i:88704762 original size:58 final size:56
Alignment explanation
Indices: 88704663--88704782 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 56
88704653 ATATGAAAAA
88704663 GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAG
1 GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAG
* ***
88704719 GAAAGAAAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAG
1 GAAA-AAAAGAAAAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAG
*
88704777 GGAAAA
1 GAAAAA
88704783 GGGGGAGGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 4 0.07
57 16 0.29
58 32 0.58
59 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (56 bp):
GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAG
Found at i:88706039 original size:40 final size:40
Alignment explanation
Indices: 88705973--88706139 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
88705963 AAATTGAATG
* * *
88705973 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
88706012 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
88706052 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
88706092 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
88706132 ATATCCGG
1 ATATCCGG
88706140 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88712773 original size:57 final size:57
Alignment explanation
Indices: 88712679--88712788 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 57
88712669 TGAAAAAGAA
88712679 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
88712736 AAAAGAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
88712789 GAAAAGGGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 2 0.04
57 41 0.89
58 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (57 bp):
AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:88714046 original size:40 final size:40
Alignment explanation
Indices: 88713980--88714146 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
88713970 AAATTGAATG
* * *
88713980 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
88714019 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
88714059 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
88714099 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
88714139 ATATCCGG
1 ATATCCGG
88714147 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88719368 original size:41 final size:41
Alignment explanation
Indices: 88719323--88719440 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
88719313 TGAAAGATAA
88719323 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
88719364 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88719394 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88719435 ATGTAG
1 ATGTAG
88719441 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:88719379 original size:71 final size:71
Alignment explanation
Indices: 88719291--88719454 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88719281 GAGATGTATC
88719291 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88719356 AGGACA
66 AGGACA
88719362 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88719427 AGGACA
66 AGGACA
88719433 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88719455 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88724239 original size:30 final size:30
Alignment explanation
Indices: 88724205--88724263 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
88724195 AAATAACACT
88724205 TGTCTCTAAAATAATAACAAAATTAACAAA
1 TGTCTCTAAAATAATAACAAAATTAACAAA
*
88724235 TGTCTTTAAAATAATAACAAAATTAACAA
1 TGTCTCTAAAATAATAACAAAATTAACAA
88724264 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
TGTCTCTAAAATAATAACAAAATTAACAAA
Found at i:88728427 original size:42 final size:42
Alignment explanation
Indices: 88728376--88728567 Score: 192
Period size: 42 Copynumber: 4.5 Consensus size: 42
88728366 TAAGACTATG
*
88728376 TGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCT
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCT
*
88728418 TGTAAGACCATATTTGGGATATGGCATCAATATGAGACTT-T
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCT
* * ** * * *
88728459 GTGTAAAACCATATCTAGGATATGGCATTGATGTGAGATTTCG
1 -TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCT
* * * * *
88728502 TGTAAGACTATAGT-TGGGCTACTGGCATCGATACGAGA-TCTCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCAATATGAGACT-TCT
*
88728545 TGTAAGAACATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
88728568 TCATTGGTAT
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 90 0.73
43 32 0.26
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCT
Found at i:88728509 original size:84 final size:85
Alignment explanation
Indices: 88728368--88728578 Score: 230
Period size: 84 Copynumber: 2.5 Consensus size: 85
88728358 AGGGTTACTA
* * ** * *
88728368 AGACTATGTGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCTTGTAAGACCATATTT
1 AGACTTTGTGTAAAACCATATCTAGGATATGGCATTGATATGAGACTTCGTGTAAGACCATAGTT
*
88728433 GGGATA-TGGCATCAATATG
66 GGGATACTGGCATCAATACG
* * *
88728452 AGACTTTGTGTAAAACCATATCTAGGATATGGCATTGATGTGAGATTTCGTGTAAGACTATAGTT
1 AGACTTTGTGTAAAACCATATCTAGGATATGGCATTGATATGAGACTTCGTGTAAGACCATAGTT
* *
88728517 GGGCTACTGGCATCGATACG
66 GGGATACTGGCATCAATACG
** * * *
88728537 AGA-TCTCATGTAAGAA-CATATCTGGGATATGTCATTGGTATG
1 AGACT-TTGTGTAA-AACCATATCTAGGATATGGCATTGATATG
88728579 GTACCATGTG
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
84 62 0.58
85 42 0.40
86 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (85 bp):
AGACTTTGTGTAAAACCATATCTAGGATATGGCATTGATATGAGACTTCGTGTAAGACCATAGTT
GGGATACTGGCATCAATACG
Found at i:88730501 original size:43 final size:42
Alignment explanation
Indices: 88730410--88730566 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
88730400 TAGGATTACC
** * * *
88730410 GTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATT
1 GTGATTATGTGTAAGACCATATCTGGGACATTGGCATCGTA-T
*
88730453 GTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 GTGATTATGTGTAAGACCATATCTGGGACATTGGCATCG-TAT
* * * * *
88730496 ATGATT-TCGTATAAGACCCTATCTAGGACAGTGGCATCGATAT
1 GTGATTAT-GTGTAAGACCATATCTGGGACATTGGCATCG-TAT
* **
88730539 GTGATAACATGTAAGACCATATCTGGGA
1 GTGATTATGTGTAAGACCATATCTGGGA
88730567 TATGACATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.97
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGATTATGTGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:88731376 original size:23 final size:23
Alignment explanation
Indices: 88731333--88731376 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
88731323 AGTTTGATGA
* *
88731333 TTTTGGCATATTGATTTGGTATG
1 TTTTGGCATATGGATTGGGTATG
88731356 TTTTGGC-TATGGAATTGGGTA
1 TTTTGGCATATGG-ATTGGGTA
88731377 GTTAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.18, C:0.05, G:0.30, T:0.48
Consensus pattern (23 bp):
TTTTGGCATATGGATTGGGTATG
Found at i:88731575 original size:15 final size:15
Alignment explanation
Indices: 88731543--88731571 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88731533 ATTTTCTGTG
88731543 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
88731558 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
88731572 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Done.