Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 286 of 410
Found at i:88016904 original size:17 final size:17
Alignment explanation
Indices: 88016839--88016904 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
88016829 AGAAAAATAT
* *
88016839 TAAAAACTATTAAAATAA
1 TAAAAAATA-TAAAATTA
88016857 T-AAAAATATATAAATT-
1 TAAAAAATATA-AAATTA
88016873 TCAAGAAAATA-AAAATTA
1 T-AA-AAAATATAAAATTA
88016891 TAAAAAATATAAAA
1 TAAAAAATATAAAA
88016905 AATTCGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 9 0.22
17 21 0.52
18 4 0.10
19 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAAAAATATAAAATTA
Found at i:88017262 original size:18 final size:17
Alignment explanation
Indices: 88017203--88017262 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
88017193 GACTTTTTTC
*
88017203 ATTTTCTATATATTTTTCT
1 ATTTT-TATA-ATTTTTAT
*
88017222 ATTTTTTTAATTTTTAAT
1 ATTTTTATAATTTTT-AT
*
88017240 TTTTTTATAATTTTTAT
1 ATTTTTATAATTTTTAT
88017257 GATTTT
1 -ATTTT
88017263 AAATAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 8 0.24
18 21 0.62
19 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTATAATTTTTAT
Found at i:88018802 original size:16 final size:18
Alignment explanation
Indices: 88018763--88018804 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
88018753 TAAGTTAATA
88018763 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
88018780 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
88018797 A-ATTTATA
1 ATATTTATA
88018805 ACATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:88024443 original size:2 final size:2
Alignment explanation
Indices: 88024436--88024460 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88024426 GTAAATCATA
88024436 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
88024461 AGGTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88025345 original size:21 final size:21
Alignment explanation
Indices: 88025321--88025360 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88025311 ATGTTTTTCA
*
88025321 ATTTTGAAAAAATAAAAAAAT
1 ATTTTCAAAAAATAAAAAAAT
* *
88025342 ATTTTCTAAAAATGAAAAA
1 ATTTTCAAAAAATAAAAAA
88025361 TGAAAAATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
ATTTTCAAAAAATAAAAAAAT
Found at i:88025361 original size:7 final size:7
Alignment explanation
Indices: 88025349--88025373 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88025339 AATATTTTCT
88025349 AAAAATG
1 AAAAATG
88025356 AAAAATG
1 AAAAATG
88025363 AAAAATG
1 AAAAATG
88025370 AAAA
1 AAAA
88025374 TAGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:88025366 original size:13 final size:15
Alignment explanation
Indices: 88025349--88025380 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
88025339 AATATTTTCT
88025349 AAAAATGAAAAAT-G
1 AAAAATGAAAAATAG
88025363 AAAAATG-AAAATAG
1 AAAAATGAAAAATAG
88025377 AAAA
1 AAAA
88025381 TATTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAATGAAAAATAG
Found at i:88026093 original size:15 final size:15
Alignment explanation
Indices: 88026073--88026102 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88026063 AAAAAATCAA
88026073 TTATTTTAATTTTTT
1 TTATTTTAATTTTTT
*
88026088 TTATTTTTATTTTTT
1 TTATTTTAATTTTTT
88026103 AAATACACGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTATTTTAATTTTTT
Found at i:88033423 original size:27 final size:27
Alignment explanation
Indices: 88033393--88033450 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
88033383 TATTGTGCTT
*
88033393 TGTTGCCCGACAAAGCTTACAGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
*
88033420 TGTTGCCCGACAAAGCTCACGGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
88033447 TGTT
1 TGTT
88033451 ACTAATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (27 bp):
TGTTGCCCGACAAAGCTCACAGTACAA
Found at i:88036108 original size:23 final size:23
Alignment explanation
Indices: 88036081--88036124 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
88036071 GATTAAGCGC
*
88036081 GCAAGTGATAGTGACACTACAGT
1 GCAAGTGAAAGTGACACTACAGT
*
88036104 GCAAGTGAAAGTGGCACTACA
1 GCAAGTGAAAGTGACACTACA
88036125 TGATGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (23 bp):
GCAAGTGAAAGTGACACTACAGT
Found at i:88036886 original size:34 final size:34
Alignment explanation
Indices: 88036843--88036912 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
88036833 GTGGTTGAAC
88036843 TCAAGAAGAAGCGCGAAGAAGACAATTTCACATG
1 TCAAGAAGAAGCGCGAAGAAGACAATTTCACATG
88036877 TCAAGAAGAAGCGCGAAGAAGACAATTTCACATG
1 TCAAGAAGAAGCGCGAAGAAGACAATTTCACATG
88036911 TC
1 TC
88036913 GAGGACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (34 bp):
TCAAGAAGAAGCGCGAAGAAGACAATTTCACATG
Found at i:88041562 original size:19 final size:18
Alignment explanation
Indices: 88041533--88041582 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
88041523 GTATATATTT
88041533 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
88041551 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
*
88041570 TAAGTTTTATTTA
1 TAA-ATTTATTTA
88041583 TATTCTAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 23 0.79
20 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:88041656 original size:42 final size:42
Alignment explanation
Indices: 88041597--88041685 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
88041587 CTAGGAATAT
* *
88041597 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGCGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
* * *
88041639 TTTTCTTTTATATTTTAGTCGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
88041681 TTTTC
1 TTTTC
88041686 CCAATTAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
Found at i:88045537 original size:19 final size:19
Alignment explanation
Indices: 88045491--88045538 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
88045481 GTATATATTT
88045491 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
88045509 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
88045528 TAAGTTTTATT
1 TAAATTTTATT
88045539 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:88045614 original size:42 final size:42
Alignment explanation
Indices: 88045555--88045643 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
88045545 CTAGGAATAT
* *
88045555 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGCGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
* *
88045597 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
88045639 TTTTC
1 TTTTC
88045644 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
Found at i:88047145 original size:31 final size:30
Alignment explanation
Indices: 88047084--88047144 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
88047074 ATGTGTCAGA
*
88047084 TGACATCACTTTTAAAAAAAATAAATTTTT
1 TGACATCAATTTTAAAAAAAATAAATTTTT
*
88047114 TGACATCAATTTTTAAAAAAATAAATTTTT
1 TGACATCAATTTTAAAAAAAATAAATTTTT
88047144 T
1 T
88047145 TCTTACCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (30 bp):
TGACATCAATTTTAAAAAAAATAAATTTTT
Found at i:88048435 original size:2 final size:2
Alignment explanation
Indices: 88048428--88048475 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
88048418 AATAAAAAGA
88048428 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
88048470 AG AG AG
1 AG AG AG
88048476 GTTTATTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88048529 original size:14 final size:14
Alignment explanation
Indices: 88048510--88048549 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
88048500 TGGTTCAACT
88048510 ATCTTATCATTTTC
1 ATCTTATCATTTTC
88048524 ATCTTATCATTTTC
1 ATCTTATCATTTTC
88048538 A--TTATCATTTTC
1 ATCTTATCATTTTC
88048550 TTGTTCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.42
14 15 0.58
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
ATCTTATCATTTTC
Found at i:88053411 original size:14 final size:12
Alignment explanation
Indices: 88053392--88053428 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
88053382 ACGTTGGTCT
88053392 TTATCATTTTCA
1 TTATCATTTTCA
88053404 TCTTATCATTTTCA
1 --TTATCATTTTCA
88053418 TTATCATTTTC
1 TTATCATTTTC
88053429 TTGTTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATCATTTTCA
Found at i:88060309 original size:15 final size:16
Alignment explanation
Indices: 88060289--88060318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88060279 TGTAGTGTTT
88060289 ATTG-TTATTTTTTTA
1 ATTGTTTATTTTTTTA
88060304 ATTGTTTATTTTTTT
1 ATTGTTTATTTTTTT
88060319 TGTTTAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (16 bp):
ATTGTTTATTTTTTTA
Found at i:88060312 original size:22 final size:21
Alignment explanation
Indices: 88060257--88060325 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
88060247 GGTAATATTT
* *
88060257 TTTAATTATTTAATTTTTTTAG
1 TTTAATTGTTT-ATTTTTTTTG
* *
88060279 TGT-AGTGTTTATTGTTATTTT-
1 TTTAATTGTTTATT-TT-TTTTG
88060300 TTTAATTGTTTATTTTTTTTG
1 TTTAATTGTTTATTTTTTTTG
88060321 TTTAA
1 TTTAA
88060326 GGAGAAGAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
20 7 0.19
21 16 0.43
22 14 0.38
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (21 bp):
TTTAATTGTTTATTTTTTTTG
Found at i:88064063 original size:21 final size:22
Alignment explanation
Indices: 88064032--88064072 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
88064022 GAATGTATTG
*
88064032 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
88064054 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
88064073 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:88074385 original size:47 final size:48
Alignment explanation
Indices: 88074314--88074585 Score: 160
Period size: 46 Copynumber: 5.8 Consensus size: 48
88074304 AGGGTATAAT
*
88074314 GCCGATGCCATGTCCCACACATGGTCTTACACAGGCTCATC-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCATCACATCAA
* * * * *
88074361 GTCGATGCCATGTCCCAGACATGGTCTTACA-ATGACT-ATCAAAATTTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACA-GGCTCATC-ACA-TCAA
* * * * * * * *
88074410 GCCGACGCCATGTCCCAGACAAGGTGTTACACTGACACATCTCGT--A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCATCACATCAA
* * * *
88074456 GCCAATG-CATGTCTCAGACAT-GTCTTACACTGGCT--T-ACGTCACGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCATCACATCA--A
* *
88074501 GGTCGATG-CATGTCCCAGACAT-GTCTTACACTA-GCTC-TCGTC-TCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCTCATC-ACATCAA
* *
88074547 TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTC
88074586 TCATAATGTG
Statistics
Matches: 174, Mismatches: 33, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
44 11 0.06
45 13 0.07
46 46 0.26
47 46 0.26
48 18 0.10
49 33 0.19
50 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCATCACATCAA
Found at i:88074513 original size:46 final size:46
Alignment explanation
Indices: 88074460--88074626 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 46
88074450 CTCGTAGCCA
* * *
88074460 ATGCATGTCTCAGACATGTCTTACACTGGCT-TACGTCACGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCACAAGGCCG
* * *
88074506 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACAAGGCCG
* * * *** *
88074552 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCACAAGGCCG
*
88074600 ATGCATGTGCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
88074627 AGCACATAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
46 51 0.51
47 26 0.26
48 23 0.23
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACAAGGCCG
Found at i:88074670 original size:12 final size:12
Alignment explanation
Indices: 88074653--88074677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88074643 AAATGTCATG
88074653 GCATGAATATCT
1 GCATGAATATCT
88074665 GCATGAATATCT
1 GCATGAATATCT
88074677 G
1 G
88074678 ATTTGTTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GCATGAATATCT
Found at i:88083371 original size:16 final size:16
Alignment explanation
Indices: 88083350--88083381 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88083340 GTCAATAAGT
*
88083350 AAAGGCCAAGCACCAA
1 AAAGGCCAAACACCAA
88083366 AAAGGCCAAACACCAA
1 AAAGGCCAAACACCAA
88083382 GTACCTTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.31, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGGCCAAACACCAA
Found at i:88084030 original size:125 final size:125
Alignment explanation
Indices: 88083808--88084062 Score: 456
Period size: 125 Copynumber: 2.0 Consensus size: 125
88083798 CTTTAGTCGA
* * **
88083808 ATTTGCTTAGAATAACAGTTTTCAGTTGAGTATAAAGATCGCACCGTACAAGGCATTCTATGGTC
1 ATTTGCTTAGAATAACAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATCATC
88083873 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
66 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
*
88083933 ATTTGCTTAGAATAACAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGTATTCTATCATC
1 ATTTGCTTAGAATAACAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATCATC
*
88083998 GTAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
66 GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
88084058 ATTTG
1 ATTTG
88084063 GTTAAAGAAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (125 bp):
ATTTGCTTAGAATAACAGTTTTCAGTCGAGTATAAAGATCGCACCATACAAGGCATTCTATCATC
GCAAGTGTCAAACTCTATTGTACTAGACCGAGCTCAGTGGGAGACAAATTCACGGGGTTG
Found at i:88093183 original size:13 final size:13
Alignment explanation
Indices: 88093151--88093191 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
88093141 TTTTATACTT
88093151 AGGAATTAACACATG
1 AGGAATTAACAC--G
88093166 AGGAATTAACACG
1 AGGAATTAACACG
88093179 AGGAATTAACACG
1 AGGAATTAACACG
88093192 GCCTGGACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 14 0.54
15 12 0.46
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (13 bp):
AGGAATTAACACG
Found at i:88093222 original size:13 final size:13
Alignment explanation
Indices: 88093204--88093231 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88093194 CTGGACTTCC
88093204 TCACACGGCCGTG
1 TCACACGGCCGTG
88093217 TCACACGGCCGTG
1 TCACACGGCCGTG
88093230 TC
1 TC
88093232 TCTTTGCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.39, G:0.29, T:0.18
Consensus pattern (13 bp):
TCACACGGCCGTG
Found at i:88105658 original size:25 final size:25
Alignment explanation
Indices: 88105604--88105658 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
88105594 AAACATTAAA
*
88105604 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
88105629 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
88105653 TATTAA
1 T-TTAA
88105659 GATAAGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:88107357 original size:20 final size:20
Alignment explanation
Indices: 88107332--88107371 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88107322 ACAAAAGACA
*
88107332 TAATAGTGAAATTTGAAATT
1 TAATAGTGAAATGTGAAATT
88107352 TAATAGTGAAATGTGAAATT
1 TAATAGTGAAATGTGAAATT
88107372 AACTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (20 bp):
TAATAGTGAAATGTGAAATT
Found at i:88118810 original size:2 final size:2
Alignment explanation
Indices: 88118803--88118832 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88118793 GTATAATAAC
88118803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88118833 CGATTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88119041 original size:17 final size:18
Alignment explanation
Indices: 88119001--88119042 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
88118991 GATCTAAATT
* *
88119001 AATAATTTCATTCAATAT
1 AATAATTTCATACAATAA
*
88119019 ATTAATTT-ATACAATAA
1 AATAATTTCATACAATAA
88119036 AATAATT
1 AATAATT
88119043 CATTTCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCATACAATAA
Found at i:88119052 original size:22 final size:22
Alignment explanation
Indices: 88119014--88119055 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
88119004 AATTTCATTC
88119014 AATATATTAATTTATACAATAA
1 AATATATTAATTTATACAATAA
*
88119036 AATA-ATTCATTTCATACAAT
1 AATATATTAATTT-ATACAAT
88119056 TTGGTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATATTAATTTATACAATAA
Found at i:88126163 original size:38 final size:38
Alignment explanation
Indices: 88126112--88126188 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
88126102 GATGAGAATG
88126112 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
1 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
*
88126150 AATCATTGTCTCTGAATCCTATTCTAGAGAAGTTGGTT
1 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
88126188 A
1 A
88126189 TGGGGTGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (38 bp):
AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
Found at i:88127189 original size:24 final size:23
Alignment explanation
Indices: 88127141--88127200 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
88127131 CATAAACCTT
*
88127141 AAACCCTAAACCTAATAAAATAA
1 AAACCCTAACCCTAATAAAATAA
*
88127164 AAACCCTAACCCTAA-ATAATTAA
1 AAACCCTAACCCTAATA-AAATAA
*
88127187 AAATCTCTAACCCT
1 AAA-CCCTAACCCT
88127201 GGAGAGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 22 0.69
24 9 0.28
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (23 bp):
AAACCCTAACCCTAATAAAATAA
Found at i:88127833 original size:14 final size:14
Alignment explanation
Indices: 88127814--88127869 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
88127804 AACTTTCAAC
*
88127814 TTAAAATATAAAAT
1 TTAAAAAATAAAAT
*
88127828 TTAAAAAATCAAAT
1 TTAAAAAATAAAAT
88127842 TTATAAAAATAAGAAT
1 TTA-AAAAATAA-AAT
* *
88127858 ATAAAAATTAAA
1 TTAAAAAATAAA
88127870 TTTCAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 16 0.46
15 14 0.40
16 5 0.14
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
TTAAAAAATAAAAT
Found at i:88130366 original size:14 final size:15
Alignment explanation
Indices: 88130347--88130376 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88130337 TTCTTTCTTC
88130347 TTCTTTT-TTTATAT
1 TTCTTTTCTTTATAT
88130361 TTCTTTTCTTTATAT
1 TTCTTTTCTTTATAT
88130376 T
1 T
88130377 ATTTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTTCTTTATAT
Found at i:88130388 original size:18 final size:18
Alignment explanation
Indices: 88130358--88130400 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
88130348 TCTTTTTTTA
88130358 TATTTCTTTTCTTT-ATAT
1 TATTT-TTTTCTTTAATAT
*
88130376 TATTTTTTATCTTTAATTT
1 TATTTTTT-TCTTTAATAT
88130395 TATTTT
1 TATTTT
88130401 ATAAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTCTTTAATAT
Found at i:88130617 original size:22 final size:22
Alignment explanation
Indices: 88130589--88130644 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
88130579 AAACATTTTT
88130589 ATTTTTTAAAATAATTATTATA
1 ATTTTTTAAAATAATTATTATA
88130611 ATTTTTTAAAATAATTATTATA
1 ATTTTTTAAAATAATTATTATA
*
88130633 GTTTTTTAAAAT
1 ATTTTTTAAAAT
88130645 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAAATAATTATTATA
Found at i:88130776 original size:8 final size:9
Alignment explanation
Indices: 88130757--88130807 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
88130747 TAAAACGCAC
88130757 AAATTAAAA
1 AAATTAAAA
88130766 AAATTAAAA
1 AAATTAAAA
*
88130775 AAGATGAAAA
1 AA-ATTAAAA
*
88130785 AAATAAAAA
1 AAATTAAAA
*
88130794 AAACTAAAA
1 AAATTAAAA
*
88130803 TAATT
1 AAATT
88130808 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (9 bp):
AAATTAAAA
Found at i:88131166 original size:20 final size:19
Alignment explanation
Indices: 88131143--88131192 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
88131133 ATTACAAAAT
88131143 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
88131163 AATTCAAAATCATTTTTAA
1 AATTCAAAATAATTTTAAA
88131182 AATTCAAAATA
1 AATTCAAAATA
88131193 TTTATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:88134733 original size:29 final size:29
Alignment explanation
Indices: 88134691--88134772 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 29
88134681 GCTGGCATAT
*
88134691 AGGCGTGTGTCCAGCCCGTGTGGTTACAC
1 AGGCGTGTGCCCAGCCCGTGTGGTTACAC
* * *
88134720 AGGCGTGTGCCCAGCCTGTATAGGTTACAT
1 AGGCGTGTGCCCAGCCCGTGT-GGTTACAC
* *
88134750 GGGTGTGTGCCCAGCCCGTGTGG
1 AGGCGTGTGCCCAGCCCGTGTGG
88134773 CTCTTGAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (29 bp):
AGGCGTGTGCCCAGCCCGTGTGGTTACAC
Found at i:88138085 original size:16 final size:15
Alignment explanation
Indices: 88138060--88138089 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88138050 AAATGATGCA
88138060 TAAGAATAATAAGAC
1 TAAGAATAATAAGAC
88138075 TAAGTAATAATAAGA
1 TAAG-AATAATAAGA
88138090 AGAAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
TAAGAATAATAAGAC
Found at i:88138197 original size:21 final size:21
Alignment explanation
Indices: 88138173--88138215 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
88138163 GTTAAATAAC
88138173 ATAACAAAAATAAAAATAAAA
1 ATAACAAAAATAAAAATAAAA
* * *
88138194 ATAATAAACATAATAATAAAA
1 ATAACAAAAATAAAAATAAAA
88138215 A
1 A
88138216 CAAATAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAACAAAAATAAAAATAAAA
Found at i:88138199 original size:15 final size:15
Alignment explanation
Indices: 88138181--88138305 Score: 54
Period size: 16 Copynumber: 7.8 Consensus size: 15
88138171 ACATAACAAA
88138181 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
* *
88138196 AATAAACATAATAAT
1 AATAAAAATAAAAAT
* * *
88138211 AAAAACAAATAGAAAG
1 AATAA-AAATAAAAAT
*
88138227 AA-AAATAAGAAAAAGT
1 AATAAA-AATAAAAA-T
** *
88138243 GTTAATAAATAGAATAAA
1 AATAA-AAATA-AA-AAT
*
88138261 AATAAATAATTAAAAT
1 AATAAA-AATAAAAAT
* *
88138277 AATAATAATTAAAATAA
1 AATAA-AAATAAAA-AT
88138294 AATAAAAATAAA
1 AATAAAAATAAA
88138306 GAGCAAGGGT
Statistics
Matches: 78, Mismatches: 22, Indels: 19
0.66 0.18 0.16
Matches are distributed among these distances:
14 1 0.01
15 25 0.32
16 26 0.33
17 15 0.19
18 9 0.12
19 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:88142036 original size:15 final size:16
Alignment explanation
Indices: 88141999--88142055 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
88141989 AATTAGAATG
88141999 TAAAAATTAAACTAAAA
1 TAAAAA-TAAACTAAAA
88142016 -ACAAAATAAAC-AAAA
1 TA-AAAATAAACTAAAA
* *
88142031 TAAAAAT-GACTAAAT
1 TAAAAATAAACTAAAA
88142046 TAAAAATAAA
1 TAAAAATAAA
88142056 GTCTTCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.06
15 19 0.58
16 8 0.24
17 4 0.12
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (16 bp):
TAAAAATAAACTAAAA
Found at i:88146419 original size:15 final size:16
Alignment explanation
Indices: 88146399--88146431 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
88146389 CATAAGTTTT
88146399 AAGAAAAAT-AAATAA
1 AAGAAAAATAAAATAA
88146414 AAGAAAAATAAAATAA
1 AAGAAAAATAAAATAA
88146430 AA
1 AA
88146432 ATAAATGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAGAAAAATAAAATAA
Found at i:88147961 original size:15 final size:16
Alignment explanation
Indices: 88147929--88147970 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
88147919 ACTCAAAATC
*
88147929 AAAATAATAAACACAA
1 AAAAAAATAAACACAA
88147945 AAAAAAATAAACA-AA
1 AAAAAAATAAACACAA
*
88147960 AAATAAATAAA
1 AAAAAAATAAA
88147971 GTAAAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAAATAAACACAA
Found at i:88147987 original size:18 final size:18
Alignment explanation
Indices: 88147964--88148006 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88147954 AACAAAAAAT
88147964 AAATAAAGT-AAAATACAA
1 AAATAAAGTGAAAATA-AA
88147982 AAATAAAGTGAAAATAAA
1 AAATAAAGTGAAAATAAA
*
88148000 AATTAAA
1 AAATAAA
88148007 AATAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (18 bp):
AAATAAAGTGAAAATAAA
Found at i:88151607 original size:21 final size:21
Alignment explanation
Indices: 88151583--88151627 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
88151573 AAAATTTAGT
88151583 AATT-AAAAAAAAACAAAAATA
1 AATTGAAAAAAAAACAAAAA-A
* *
88151604 AATTGCAATAAAAACAAAAAA
1 AATTGAAAAAAAAACAAAAAA
88151625 AAT
1 AAT
88151628 GGCTAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (21 bp):
AATTGAAAAAAAAACAAAAAA
Found at i:88155794 original size:18 final size:18
Alignment explanation
Indices: 88155771--88155805 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
88155761 ACTAAAATTT
88155771 TATTTT-AATTTACTTATA
1 TATTTTAAATTTA-TTATA
88155789 TATTTTAAATTTATTAT
1 TATTTTAAATTTATTAT
88155806 GTATACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTAAATTTATTATA
Found at i:88156411 original size:12 final size:13
Alignment explanation
Indices: 88156396--88156428 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
88156386 TTTGTAATAT
88156396 TTTTATTTTTC-A
1 TTTTATTTTTCTA
88156408 TTTTATTTTTCTA
1 TTTTATTTTTCTA
*
88156421 TTTAATTT
1 TTTTATTT
88156429 CTAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCTA
Found at i:88160752 original size:32 final size:32
Alignment explanation
Indices: 88160711--88160774 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
88160701 ACTTACTGAG
88160711 AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
1 AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
88160743 AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
1 AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
88160775 TACAGGTTCA
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:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (32 bp):
AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
Found at i:88169929 original size:18 final size:21
Alignment explanation
Indices: 88169906--88169943 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
88169896 TGGGTGTAAA
88169906 TTTAGG-TTT-TA-TTAAATT
1 TTTAGGATTTGTAGTTAAATT
88169924 TTTAGGATTTGTAGTTAAAT
1 TTTAGGATTTGTAGTTAAAT
88169944 CGTGGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTAGGATTTGTAGTTAAATT
Found at i:88170920 original size:27 final size:26
Alignment explanation
Indices: 88170890--88170949 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
88170880 AGTGGGCCAA
* *
88170890 AGCCCATTACA-ATATCATTTGGGTCAT
1 AGCCCATAACAGA-ATCAATTGGG-CAT
*
88170917 AGCCCATAACAGAATCAATTGGGCCT
1 AGCCCATAACAGAATCAATTGGGCAT
88170943 AGCCCAT
1 AGCCCAT
88170950 CTCATTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
AGCCCATAACAGAATCAATTGGGCAT
Found at i:88171764 original size:27 final size:27
Alignment explanation
Indices: 88171720--88171781 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
88171710 CAAAAAAATC
* * * *
88171720 ATTTTACCCTATAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
88171747 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
88171774 ATTTTACA
1 ATTTTACA
88171782 AGCTGGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:88171791 original size:27 final size:27
Alignment explanation
Indices: 88171733--88171815 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
88171723 TTACCCTATA
* * *
88171733 GGGGTATTTCGGTAATTTTACACTAC-A
1 GGGGTATTTCGATAATTTTACA-AACTG
* *
88171760 AGGGTATTTCGATAATTTTACAAGCTG
1 GGGGTATTTCGATAATTTTACAAACTG
* * *
88171787 GGGGTATTTTGGTAGTTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAACTG
88171814 GG
1 GG
88171816 TCTTAACGAC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTACAAACTG
Found at i:88178601 original size:26 final size:26
Alignment explanation
Indices: 88178571--88178622 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
88178561 AATAGTAGTT
88178571 AAATGTTA-AATATATATGTTGTTATG
1 AAATGTTAGAATATATAT-TTGTTATG
*
88178597 AAATGTTAGAATTTATATTTGTTATG
1 AAATGTTAGAATATATATTTGTTATG
88178623 GTCGAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (26 bp):
AAATGTTAGAATATATATTTGTTATG
Found at i:88190129 original size:28 final size:29
Alignment explanation
Indices: 88190089--88190200 Score: 122
Period size: 29 Copynumber: 3.9 Consensus size: 29
88190079 CTGTATCTGG
* *
88190089 CCCATTAGGCCC-ATTCATATTCATATGA
1 CCCATTAGGCCCAAATCACATTCATATGA
* *
88190117 CCCATTAGGCCCAAATCACCTGT-ATATGG
1 CCCATTAGGCCCAAATCACAT-TCATATGA
* *
88190146 CCCATTAGGCCCAAACCACATTTATATGA
1 CCCATTAGGCCCAAATCACATTCATATGA
* *
88190175 CCCGTTAGGCCC-AGTCACATTCATAT
1 CCCATTAGGCCCAAATCACATTCATAT
88190201 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 24 0.34
29 45 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTCATATGA
Found at i:88190140 original size:57 final size:58
Alignment explanation
Indices: 88190077--88190187 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
88190067 AAATTCACAT
* ** *
88190077 ACCTGTATCTGGCCCATTAGGCCC-ATTCATATTCATATGACCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAACCACATTCATATGACCCATTAGGCCCAAATC
* *
88190134 ACCTGTATATGGCCCATTAGGCCCAAACCACATTTATATGACCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAGGCCCAAACCACATTCATATGACCCATTAGGCCCA
88190188 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAGGCCCAAACCACATTCATATGACCCATTAGGCCCAAATC
Found at i:88192049 original size:13 final size:13
Alignment explanation
Indices: 88192031--88192056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88192021 ACCTACACTA
88192031 CAATTCAAAGCAT
1 CAATTCAAAGCAT
88192044 CAATTCAAAGCAT
1 CAATTCAAAGCAT
88192057 AATAGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CAATTCAAAGCAT
Found at i:88194076 original size:21 final size:17
Alignment explanation
Indices: 88194037--88194068 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88194027 TAAGGTTCTA
88194037 TAGCTATTAGACACATT
1 TAGCTATTAGACACATT
88194054 TAGCTATTAGA-ACAT
1 TAGCTATTAGACACAT
88194069 CACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (17 bp):
TAGCTATTAGACACATT
Found at i:88195302 original size:25 final size:25
Alignment explanation
Indices: 88195268--88195318 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
88195258 ATCGGGCATG
88195268 TGATTGTTTCATACATCCATAACAT
1 TGATTGTTTCATACATCCATAACAT
88195293 TGATTGTTTCATACATCCATAACAT
1 TGATTGTTTCATACATCCATAACAT
88195318 T
1 T
88195319 CATATAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (25 bp):
TGATTGTTTCATACATCCATAACAT
Found at i:88197043 original size:24 final size:24
Alignment explanation
Indices: 88196992--88197180 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
88196982 GCTTTATCAT
*
88196992 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
88197017 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88197041 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88197064 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
88197087 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
88197111 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
88197135 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88197158 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
88197181 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 68 0.44
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:88197067 original size:23 final size:23
Alignment explanation
Indices: 88197013--88197179 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
88197003 CCTAGCCTCT
*
88197013 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88197036 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
88197060 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88197083 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
88197106 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
88197130 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
88197154 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88197177 TTT
1 TTT
88197180 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:88197181 original size:47 final size:47
Alignment explanation
Indices: 88197013--88197180 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
88197003 CCTAGCCTCT
*
88197013 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
88197060 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
88197106 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
88197154 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
88197181 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
46 23 0.20
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:88197252 original size:9 final size:9
Alignment explanation
Indices: 88197238--88197294 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
88197228 ATCTCATGTG
88197238 CATATCATA
1 CATATCATA
*
88197247 CATATCATGTG
1 CATATCA--TA
88197258 CATATCATA
1 CATATCATA
* *
88197267 CATGTCATGTG
1 CATATCA--TA
88197278 CATATCATA
1 CATATCATA
88197287 CATATCAT
1 CATATCAT
88197295 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:88197254 original size:20 final size:20
Alignment explanation
Indices: 88197226--88197296 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
88197216 GCATTTATGA
*
88197226 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
88197246 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
88197266 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
88197286 ACATATCATGT
1 ACATATCATGT
88197297 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:88197261 original size:11 final size:11
Alignment explanation
Indices: 88197231--88197285 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
88197221 TATGAACATC
88197231 TCATGTGCATA
1 TCATGTGCATA
*
88197242 TCA--TACATA
1 TCATGTGCATA
88197251 TCATGTGCATA
1 TCATGTGCATA
* *
88197262 TCA--TACATG
1 TCATGTGCATA
88197271 TCATGTGCATA
1 TCATGTGCATA
88197282 TCAT
1 TCAT
88197286 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:88197361 original size:25 final size:25
Alignment explanation
Indices: 88197333--88197380 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88197323 ATACATAAAC
* *
88197333 CCTAGGGGTATAACAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
*
88197358 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
88197381 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:88198641 original size:27 final size:27
Alignment explanation
Indices: 88198621--88199204 Score: 665
Period size: 27 Copynumber: 21.6 Consensus size: 27
88198611 AGGGTATTTT
*
88198621 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
88198648 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
88198675 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
88198702 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
88198729 GGTAATTCTGTAAATCCAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
88198756 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * **
88198783 GGTAATTATGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
88198810 GGTAATTTTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
88198837 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
88198864 GGTAATTCTGTAAATCGAGAGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
88198891 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
88198918 -GATAATTTTATAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
88198945 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
88198972 AATAATTCTGTAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
88198999 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
88199026 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
88199053 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
88199080 GGTAATTTTACAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
88199107 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
88199134 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
88199161 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
88199188 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
88199205 GGAGTACTTT
Statistics
Matches: 485, Mismatches: 62, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 475 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:88198707 original size:81 final size:81
Alignment explanation
Indices: 88198622--88199204 Score: 753
Period size: 81 Copynumber: 7.2 Consensus size: 81
88198612 GGGTATTTTA
* * *
88198622 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
88198687 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
88198703 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCCAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
*
88198767 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* ** * * * *
88198784 GTAATTATGTAAATTAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
88198849 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
* * ** *
88198865 GTAATTCTGTAAATCGAGAGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC-GATAATTTTAT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
*
88198929 AAATCGAGGGTAAAATA
65 AAATCGAGGGTAAAATG
* ** * ** *
88198946 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
88199011 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATG
* * *
88199027 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
88199091 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * **
88199108 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
88199173 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
88199189 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
88199205 GGAGTACTTT
Statistics
Matches: 438, Mismatches: 55, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
80 5 0.01
81 429 0.98
82 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:88212326 original size:59 final size:58
Alignment explanation
Indices: 88212249--88212481 Score: 189
Period size: 59 Copynumber: 3.9 Consensus size: 58
88212239 TTTTAGATAC
* * *
88212249 CCAACAAAGGTTTTCCTTTCATATATTTGCCACAAATGAATCCCTTTCTTTCAGTACTCA
1 CCAA-AAAGGCTTTCCTTTCAAATATTTGCCACAAA-GAATCCTTTTCTTTCAGTACTCA
* * * * * **
88212309 CCAAAAAAGCTTTCCTTTCAGATATTCGCGACAAAAACATCCTTTTCTTTCAGTACTTG
1 CCAAAAAGGCTTTCCTTTCAAATATTTGCCACAAAGA-ATCCTTTTCTTTCAGTACTCA
* * * * * * *
88212368 CCATAAAGGCTTTCCTTTCAAAAATTTACTATGAAAGCATCCTTTTGATTT-AGTACTCA
1 CCAAAAAGGCTTTCCTTTCAAATATTTGCCA-CAAAGAATCCTTTT-CTTTCAGTACTCA
* * * * * * *
88212427 CCAAAAAGGCTTTCCTTTTAGAGATTTTCAATAAAGGAATTCTTTTCTTTCAGTA
1 CCAAAAAGGCTTTCCTTTCAAATATTTGCCACAAA-GAATCCTTTTCTTTCAGTA
88212482 TTGGATGCAA
Statistics
Matches: 136, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
58 7 0.05
59 119 0.88
60 10 0.07
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (58 bp):
CCAAAAAGGCTTTCCTTTCAAATATTTGCCACAAAGAATCCTTTTCTTTCAGTACTCA
Found at i:88212694 original size:50 final size:50
Alignment explanation
Indices: 88212613--88212710 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
88212603 TACCTTTAAT
* * ***
88212613 TCTTTCCATATGATACCATAACAGACTAGTTATGGTCTTACACGATATAG
1 TCTTTCCATATGACACCATAACAGACCAGTTACAATCTTACACGATATAG
* * **
88212663 TCTTTCCATATGACGCCATAGCCTACCAGTTACAATCTTACACGATAT
1 TCTTTCCATATGACACCATAACAGACCAGTTACAATCTTACACGATAT
88212711 GGTGCCATGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
TCTTTCCATATGACACCATAACAGACCAGTTACAATCTTACACGATATAG
Found at i:88223519 original size:53 final size:53
Alignment explanation
Indices: 88223461--88223607 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 53
88223451 TTTTCCTTTT
* * * * *
88223461 TGAACTTACCATTGTCATGTCTTGACATGGTCTTGCGTGGTATCC-TTGCCTTA
1 TGAACTCACCAATGTCATGTCTTGACATGGTCTTACATGGGA-CCTTTGCCTTA
* *
88223514 TGAACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA
1 TGAACTCACCAATGTCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTA
* * *
88223567 TAATAACTCATCAATGGCATGTCTTGACATGGTCTTACATG
1 T--GAACTCACCAATGTCATGTCTTGACATGGTCTTACATG
88223608 ATATCTTTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.03
53 44 0.56
55 33 0.42
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGTCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTA
Found at i:88223668 original size:47 final size:47
Alignment explanation
Indices: 88223593--88223715 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
88223583 GCATGTCTTG
* * * *
88223593 ACATGGTCTTACATGATATCTTTATCTTACCGAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
* * * *
88223640 GCATGGTTTTAGATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
88223687 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
88223716 GTGCTAATGC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
Found at i:88229821 original size:54 final size:54
Alignment explanation
Indices: 88229638--88229831 Score: 203
Period size: 55 Copynumber: 3.6 Consensus size: 54
88229628 TTACCATTGT
* * * * * * *
88229638 CATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
* * **
88229691 CTTGCCTTGGTATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTTCCTTATAG-AACTCATCAATGC
* * * * *
88229746 CATGTCTTGTCATGGTTTTACATGATTTCCTTTCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
*
88229800 CATACCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
88229832 ATCTTACCAA
Statistics
Matches: 114, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 40 0.35
55 42 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
Found at i:88229864 original size:47 final size:47
Alignment explanation
Indices: 88229810--88229931 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
88229800 CATACCTTGG
*
88229810 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
88229857 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
* **
88229904 CTTGGTCTTACATGGGATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
88229932 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:88232800 original size:39 final size:39
Alignment explanation
Indices: 88232746--88232962 Score: 256
Period size: 39 Copynumber: 5.4 Consensus size: 39
88232736 CGGATGATAC
88232746 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* *
88232785 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATA-T
* *
88232828 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
** * *
88232867 CCGGGCTAAGTCCCGAAGGCA-TTCAGCTAGTGACTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
88232906 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* *
88232946 CCGGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
88232963 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 77 0.50
40 42 0.27
42 9 0.06
43 27 0.17
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:88240861 original size:40 final size:40
Alignment explanation
Indices: 88240805--88241023 Score: 269
Period size: 40 Copynumber: 5.4 Consensus size: 40
88240795 GGATGATACT
*
88240805 CGGGCTAAGTTCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* * *
88240845 AGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATC
* * *
88240888 CGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
** * *
88240928 CGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* * *
88240968 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
*
88241008 C-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
88241024 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 106 0.68
41 1 0.01
43 35 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
Found at i:88240944 original size:83 final size:79
Alignment explanation
Indices: 88240800--88241023 Score: 265
Period size: 83 Copynumber: 2.8 Consensus size: 79
88240790 TATTCGGATG
* * *
88240800 ATACTCGGGCTAAGTTCCGAAGGCATTTGTGCAAGTTACTATATCAGGGCTAAGTCCCGAAGGCA
1 ATACCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
**
88240865 TTTGTGCGAGTAGTTG-CT
65 TTCATGC---TAG-TGACT
*
88240883 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATACCCGGGCTAAGTCC-GAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
88240948 TTCATGCTAGTGACT
65 TTCATGCTAGTGACT
* * * *
88240963 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATACCCGGGCTAAG-TCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
88241024 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 16 0.13
80 42 0.33
81 4 0.03
82 3 0.02
83 62 0.49
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATACCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TCATGCTAGTGACT
Found at i:88249008 original size:26 final size:26
Alignment explanation
Indices: 88248946--88249054 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88248936 TGATACAAAT
88248946 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
88248971 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
88248997 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
88249023 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
88249049 TGATAA
1 TGATAA
88249055 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:88251089 original size:137 final size:136
Alignment explanation
Indices: 88250844--88251129 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
88250834 GAGTAGTCTC
88250844 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTATGGGCCATACT
88250909 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
88250974 CTGTTA
131 CTGTTA
*
88250980 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGG-CTATGGGCCATAC
* *
88251045 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGTCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
88251110 ACTGTTA
130 ACTGTTA
**
88251117 CCTGAATGGGCTT
1 CCCAAATGGGCTT
88251130 TGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 51 0.35
137 93 0.65
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
CTGTTA
Found at i:88254884 original size:26 final size:25
Alignment explanation
Indices: 88254822--88254929 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
88254812 TGATACAAAT
88254822 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
88254847 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
* *
88254873 TGATAATGGGTTAGGTAAATGTTTA
1 TGATAATAGGTTAGGTAAATGTTCA
*
88254898 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
88254924 TGATAA
1 TGATAA
88254930 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 45 0.58
26 33 0.42
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:88254885 original size:51 final size:51
Alignment explanation
Indices: 88254822--88254929 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
88254812 TGATACAAAT
88254822 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
* * * *
88254873 TGATAATGGGTTAGGTAAATGTTTATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
88254924 TGATAA
1 TGATAA
88254930 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:88257036 original size:136 final size:135
Alignment explanation
Indices: 88256713--88256997 Score: 430
Period size: 137 Copynumber: 2.1 Consensus size: 135
88256703 GAGTAGTCTC
* * * *
88256713 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
88256778 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
88256843 ACTGTTA
129 ACTGTTA
* * * *
88256850 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
88256915 TGTTA-CTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
88256978 ACTGTTA
129 ACTGTTA
**
88256985 CCTGAATGGGCTT
1 CCCAAATGGGCTT
88256998 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 26 0.18
136 50 0.34
137 70 0.48
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATAGGTTGACTGATCTTGAGTACTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:88264494 original size:39 final size:39
Alignment explanation
Indices: 88264440--88264583 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
88264430 GAATGTTCGA
88264440 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
88264479 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
88264518 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
88264557 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
88264584 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:88264530 original size:78 final size:79
Alignment explanation
Indices: 88264441--88264597 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 79
88264431 AATGTTCGAG
88264441 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
88264505 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
88264519 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
88264584 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
88264598 CCATAACTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
78 53 0.73
79 20 0.27
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:88268667 original size:28 final size:28
Alignment explanation
Indices: 88268636--88268736 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
88268626 AAATATGGTG
88268636 CTTAGTGTACGAAATATTGAGAATGGCA
1 CTTAGTGTACGAAATATTGAGAATGGCA
88268664 CTTAGTGTACGAAATATTGAGAATGGCA
1 CTTAGTGTACGAAATATTGAGAATGGCA
* * *
88268692 CTTAGTGTGCGAGATATTGAGAATGACA
1 CTTAGTGTACGAAATATTGAGAATGGCA
* *
88268720 CTTAGTGTGCAAAATAT
1 CTTAGTGTACGAAATAT
88268737 CGAATGATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
CTTAGTGTACGAAATATTGAGAATGGCA
Found at i:88279184 original size:7 final size:7
Alignment explanation
Indices: 88279172--88279199 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
88279162 TTTAAATGAT
88279172 CACATTC
1 CACATTC
88279179 CACATTC
1 CACATTC
88279186 CACATTC
1 CACATTC
88279193 CACATTC
1 CACATTC
88279200 GCTCCAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
CACATTC
Found at i:88292140 original size:16 final size:16
Alignment explanation
Indices: 88292119--88292158 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
88292109 ATTCTAGCAT
88292119 AAAGCCTGCTAGGCAC
1 AAAGCCTGCTAGGCAC
*
88292135 AAAGCCTGCTATGCAC
1 AAAGCCTGCTAGGCAC
88292151 AAAGCCTG
1 AAAGCCTG
88292159 ATATACTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.15
Consensus pattern (16 bp):
AAAGCCTGCTAGGCAC
Found at i:88292548 original size:45 final size:45
Alignment explanation
Indices: 88292391--88292549 Score: 185
Period size: 45 Copynumber: 3.5 Consensus size: 45
88292381 TTGCTATAGT
* * * * * * *
88292391 GTCTTTCAACTATGGTCTTATTTGTTTG-ATTCGTGATGCTATAGC
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATT-GTGATGCCATAAC
* ** * *
88292436 GTCTTTCAGCCATGGTCTTACTAAATAAAATCGTGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
*
88292481 ATCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
88292526 GTCTTTCAGCTATGGTCTTACTCG
1 GTCTTTCAGCTATGGTCTTACTCG
88292550 TTTCTAGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
45 93 0.98
46 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
Found at i:88292566 original size:45 final size:45
Alignment explanation
Indices: 88292424--88292589 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 45
88292414 GTTTGATTCG
* * * ** * *
88292424 TGATGCTATAGCGTCTTTCAGCCATGGTCTTACTAAATA-AAATCG
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAAGT-A
* * * *
88292469 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGATAGAATTG
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAAGTA
* * *
88292514 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTTCTAGTA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAAGTA
* ** * *
88292559 TGGTGCCATAGTGTCTTTCAACTACGGTCTT
1 TGATGCCATAACGTCTTTCAGCTATGGTCTT
88292590 TTTTTATTTC
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
45 98 0.97
46 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAAGTA
Found at i:88301684 original size:74 final size:74
Alignment explanation
Indices: 88301545--88301686 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
88301535 AGGACTAACT
* *
88301545 AAATAGAAGTTTGAACCCCTTTAGACTTAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
1 AAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
88301610 AGACTATTC
66 AGACTATTC
* * *
88301619 AAATAGAAGTTTAAACCCCTTTAGACTAAATAACTATTTTTC-TAGTTTTTCATACCTAAGTAAA
1 AAATAGAAGTTTAAACCCCTTTAGACTAAATAA--ATATTTCGTAATTTTTCATACCTAAGTCAA
88301683 AAAG
64 AAAG
88301687 GGGTATCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
74 31 0.51
75 24 0.39
76 6 0.10
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (74 bp):
AAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
AGACTATTC
Found at i:88304167 original size:6 final size:6
Alignment explanation
Indices: 88304156--88304189 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
88304146 AGGATTGCAA
* *
88304156 ATTTCC ATTTCC GTTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
88304190 TTAGAAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:88304179 original size:18 final size:18
Alignment explanation
Indices: 88304156--88304190 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88304146 AGGATTGCAA
*
88304156 ATTTCCATTTCCGTTTTC
1 ATTTCCATTTCCATTTTC
88304174 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
88304191 TAGAAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.26, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:88304290 original size:37 final size:37
Alignment explanation
Indices: 88304249--88304320 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
88304239 AAAACCATAA
88304249 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
1 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
*
88304286 CATTCCTGAATGTTTCCTATTTCTCTTTTTCTATT
1 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATT
88304321 CATTTTGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.15, C:0.25, G:0.06, T:0.54
Consensus pattern (37 bp):
CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
Found at i:88308053 original size:2 final size:2
Alignment explanation
Indices: 88308046--88308073 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
88308036 TGGGGTAAGA
88308046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88308074 GAAGAGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88311067 original size:40 final size:40
Alignment explanation
Indices: 88310984--88311136 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
88310974 TCGAATGATG
* *
88310984 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
88311024 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
88311064 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
88311105 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88311137 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:88314888 original size:31 final size:31
Alignment explanation
Indices: 88314839--88314924 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
88314829 TCAAACTCAG
88314839 CATAT-ACTGGGCCGAAGCCTTTACATTACT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
* * * *
88314869 CATATCACTAGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
* *
88314900 CATGTCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
88314925 TGTAACAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTACT
Found at i:88315157 original size:25 final size:26
Alignment explanation
Indices: 88315142--88315236 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
88315132 CTCTTTTAAT
88315142 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
88315168 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
88315194 AACTGGGGC-AAAGCCCTTTT-GGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
88315217 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
88315237 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
23 19 0.28
24 3 0.04
25 11 0.16
26 35 0.51
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:88321630 original size:40 final size:40
Alignment explanation
Indices: 88321571--88321763 Score: 215
Period size: 40 Copynumber: 4.8 Consensus size: 40
88321561 CAATTGAATG
* * * *
88321571 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
88321611 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88321651 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88321691 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
88321731 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
88321764 CGTGGTTACA
Statistics
Matches: 130, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:88321709 original size:80 final size:80
Alignment explanation
Indices: 88321572--88321778 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
88321562 AATTGAATGA
* * ** * * * *
88321572 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
88321637 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* *
88321650 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* *
88321715 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* * *
88321732 TATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTACATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
88321779 TTGTATTCTG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:88326238 original size:31 final size:31
Alignment explanation
Indices: 88326195--88326280 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
88326185 TCAATCTCAG
88326195 CATAT-ACTGGGCCGAAGCCTTTACATTACT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
* *
88326225 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
*
88326256 CATATCATTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
88326281 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTACT
Found at i:88326588 original size:24 final size:25
Alignment explanation
Indices: 88326498--88326593 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 25
88326488 CTCTTTTAAT
* * *
88326498 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGC-AAAGCCCTTTTCGGTA
** *
88326524 AACTAGAGAAAAATCCCTTTTCGGTA
1 AACTAG-GGCAAAGCCCTTTTCGGTA
88326550 AACTAGGGCAAAGCCCTTTTCGGT-
1 AACTAGGGCAAAGCCCTTTTCGGTA
* * *
88326574 AATTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
88326594 ACACTTCCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
24 17 0.30
25 15 0.26
26 24 0.42
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:88326754 original size:25 final size:25
Alignment explanation
Indices: 88326726--88326773 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
88326716 ATAATTAAAC
* *
88326726 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
88326751 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
88326774 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:88334084 original size:13 final size:13
Alignment explanation
Indices: 88334046--88334075 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88334036 CATGCAAATT
*
88334046 AAAAGAAAGGAAG
1 AAAAGAAAGAAAG
88334059 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
88334072 AAAA
1 AAAA
88334076 TAGAGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:88335269 original size:19 final size:19
Alignment explanation
Indices: 88335236--88335283 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
88335226 AATGGAAAGG
*
88335236 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
88335254 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
88335273 TGATGAAATGA
1 TGA-GAAATGA
88335284 GATGTGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:88335278 original size:27 final size:27
Alignment explanation
Indices: 88335248--88335302 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
88335238 AGAAATGAAT
*
88335248 ATGAGATGAGAAATGAAA-TATGAAATG
1 ATGAAATGAGAAATGAAACT-TGAAATG
**
88335275 ATGAAATGAGATGTGAAACTTGAAATG
1 ATGAAATGAGAAATGAAACTTGAAATG
88335302 A
1 A
88335303 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.25, T:0.24
Consensus pattern (27 bp):
ATGAAATGAGAAATGAAACTTGAAATG
Found at i:88344549 original size:93 final size:93
Alignment explanation
Indices: 88344387--88344557 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
88344377 AGGATATTTG
* ** **
88344387 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATGTCCGAGCTCGTTGAA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAATACCCGAGCTCGTTGAA
88344452 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
88344480 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATACCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAATACCCGAGCTCGTTGAA
*
88344545 TTGAGTCTGAGTT
66 TTGAGTCCGAGTT
88344558 TGCTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAATACCCGAGCTCGTTGAA
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88344564 original size:46 final size:46
Alignment explanation
Indices: 88344394--88344566 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
88344384 TTGGGCATCT
* * **
88344394 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATGTCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCC
* * * *
88344440 GAGCTCGTTGAATTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TA--C--CC
*
88344487 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATACCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCC
* **
88344533 GAGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88344567 GCGAGTTACA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
50 6 0.06
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCC
Found at i:88347597 original size:24 final size:24
Alignment explanation
Indices: 88347553--88347598 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
88347543 TTACATGGGA
* *
88347553 ATATACTCATTAAGCTTTAATTTC
1 ATATACTCATTAACCTCTAATTTC
88347577 ATAT-CTCATTCAACCTCTAATT
1 ATATACTCATT-AACCTCTAATT
88347599 AAATTTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATACTCATTAACCTCTAATTTC
Found at i:88350171 original size:46 final size:46
Alignment explanation
Indices: 88350119--88350294 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
88350109 TATTTAGGCA
88350119 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
88350165 TCTGAGCTCGTTGTGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
88350210 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
88350258 -CTCGAGCTAGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 TCT-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88350295 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 56 0.55
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (46 bp):
TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88351309 original size:19 final size:17
Alignment explanation
Indices: 88351277--88351319 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
88351267 CTACTTGTGC
*
88351277 ATTTATGTTCTGAACTTG
1 ATTTATGTTATGAA-TTG
88351295 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
88351313 AATTATG
1 ATTTATG
88351320 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:88358897 original size:19 final size:17
Alignment explanation
Indices: 88358865--88358907 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
88358855 CTACTTGTGC
*
88358865 ATTTATGTTTTGAACTTG
1 ATTTATGTTATGAA-TTG
88358883 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
88358901 AATTATG
1 ATTTATG
88358908 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:88364470 original size:7 final size:7
Alignment explanation
Indices: 88364458--88364488 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
88364448 GTAATGATTG
88364458 AAAATTT
1 AAAATTT
88364465 AAAATTT
1 AAAATTT
*
88364472 AAAATAT
1 AAAATTT
88364479 AAAATTT
1 AAAATTT
88364486 AAA
1 AAA
88364489 TCCACAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AAAATTT
Found at i:88378382 original size:54 final size:54
Alignment explanation
Indices: 88378300--88378407 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
88378290 TATTAATGAG
* *
88378300 TCTGTCTTCAAGAGAAACAATCAAAAACATCATTTGAATCCCGTACTAAGAGAT
1 TCTGTCTTCAAGAGAAACAAACAAAAACATCATCTGAATCCCGTACTAAGAGAT
88378354 TCTGTCTTCAAGAGAAACAAACAAAAACATCATCTGAATCCCGTACTAAGAGAT
1 TCTGTCTTCAAGAGAAACAAACAAAAACATCATCTGAATCCCGTACTAAGAGAT
88378408 AATTAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (54 bp):
TCTGTCTTCAAGAGAAACAAACAAAAACATCATCTGAATCCCGTACTAAGAGAT
Found at i:88379244 original size:3 final size:3
Alignment explanation
Indices: 88379230--88379284 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
88379220 TATATGTTAT
* * * *
88379230 TAA TAA TTA TAA TAA TAA TAA GTAA AAA GAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
*
88379276 TTA TAA TAA
1 TAA TAA TAA
88379285 CATTATCATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:88379890 original size:36 final size:36
Alignment explanation
Indices: 88379849--88379923 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
88379839 CATACGAAGG
*
88379849 AAAAAAATAAAAAATTGTAAAATAGTCCCAACGAAC
1 AAAAAAAGAAAAAATTGTAAAATAGTCCCAACGAAC
* *
88379885 AAAAAAAGAGAAAATTGTAAAATAGTCCCAATGAAC
1 AAAAAAAGAAAAAATTGTAAAATAGTCCCAACGAAC
88379921 AAA
1 AAA
88379924 TTTGCTTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.61, C:0.12, G:0.11, T:0.16
Consensus pattern (36 bp):
AAAAAAAGAAAAAATTGTAAAATAGTCCCAACGAAC
Done.