Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 100 of 135
Found at i:37154169 original size:10 final size:11
Alignment explanation
Indices: 37154140--37154174 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37154130 TTTTCAATGA
37154140 AAATGAAAAAT
1 AAATGAAAAAT
37154151 AAATGAAAAAT
1 AAATGAAAAAT
*
37154162 ATAT-AAAAAT
1 AAATGAAAAAT
37154172 AAA
1 AAA
37154175 AAATCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
AAATGAAAAAT
Found at i:37169172 original size:30 final size:30
Alignment explanation
Indices: 37169138--37169354 Score: 161
Period size: 30 Copynumber: 7.2 Consensus size: 30
37169128 TCATTGACTA
* * * *
37169138 ATGAAAATGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAGTT
* * * ** * *
37169168 ATGAAAAGGGAT-GGTGACGACCATTAAATA
1 ATGAAAAGGGATAGCT-TCGACTATCGAGTT
* *
37169198 ATGAAAAGGGCTAGCTTC-AGGTATCGAGTT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAGTT
* * **
37169228 ACGAAAAGCGATAGCTTCGACTATCGAGCC
1 ATGAAAAGGGATAGCTTCGACTATCGAGTT
* *
37169258 ACGAAAAGGGATAGCTTC-AGCTATCGAGCT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAGTT
* **
37169288 ATGAAAATGGATAGCTTCGACTATCGAGCC
1 ATGAAAAGGGATAGCTTCGACTATCGAGTT
* **
37169318 ACGAAAAGGGATAGCTTCGACTATCGAGCC
1 ATGAAAAGGGATAGCTTCGACTATCGAGTT
37169348 ATGAAAA
1 ATGAAAA
37169355 AGGTTGGAAT
Statistics
Matches: 151, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
29 4 0.03
30 143 0.95
31 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAGTT
Found at i:37169265 original size:60 final size:60
Alignment explanation
Indices: 37169200--37169346 Score: 226
Period size: 60 Copynumber: 2.5 Consensus size: 60
37169190 ATTAAATAAT
* * *
37169200 GAAAAGGGCTAGCTTCAGGTATCGAGTTACGAAAA-GCGATAGCTTCGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGCTATCGAGCTACGAAAATG-GATAGCTTCGACTATCGAGCCAC
*
37169260 GAAAAGGGATAGCTTCAGCTATCGAGCTATGAAAATGGATAGCTTCGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGCTATCGAGCTACGAAAATGGATAGCTTCGACTATCGAGCCAC
37169320 GAAAAGGGATAGCTTC-GACTATCGAGC
1 GAAAAGGGATAGCTTCAG-CTATCGAGC
37169347 CATGAAAAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.98
61 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (60 bp):
GAAAAGGGATAGCTTCAGCTATCGAGCTACGAAAATGGATAGCTTCGACTATCGAGCCAC
Found at i:37182928 original size:37 final size:37
Alignment explanation
Indices: 37182887--37182963 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
37182877 TATCATTTTT
* * *
37182887 TAAAATTAAATTGATATAGTATTATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
37182924 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
37182961 TAA
1 TAA
37182964 TCATAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (37 bp):
TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
Found at i:37185508 original size:30 final size:30
Alignment explanation
Indices: 37185473--37185545 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
37185463 AATATATAGA
37185473 AAATTTTAATTTAA-TTAAATTTGATT-TTT
1 AAATTTTAATTTAATTTAAATTT-ATTATTT
*
37185502 ATAA-TTTAATTTAATTTAAATTTTTTATTT
1 A-AATTTTAATTTAATTTAAATTTATTATTT
37185532 AAATTTTAATTTAA
1 AAATTTTAATTTAA
37185546 ACGTGTCATG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
AAATTTTAATTTAATTTAAATTTATTATTT
Found at i:37185525 original size:24 final size:23
Alignment explanation
Indices: 37185476--37185546 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
37185466 ATATAGAAAA
* * *
37185476 TTTTAATTTAATTAAATTTGATT
1 TTTTAATTTAATTTAATTTAAAT
37185499 TTTATAATTTAATTTAATTTAAAT
1 TTT-TAATTTAATTTAATTTAAAT
*
37185523 TTTTTATTTAAATTTTAATTTAAA
1 TTTTAATTT-AA-TTTAATTTAAA
37185547 CGTGTCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.20
24 22 0.54
25 11 0.27
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (23 bp):
TTTTAATTTAATTTAATTTAAAT
Found at i:37194494 original size:38 final size:38
Alignment explanation
Indices: 37194378--37194528 Score: 160
Period size: 38 Copynumber: 4.0 Consensus size: 38
37194368 ATTTTGAATA
* * * * *
37194378 TTGTCAGATTCACTGACTAGTGATGGTCACACACATAT
1 TTGTCAGATTCACCGACCAGTGTTGGGCACACATATAT
* * * *
37194416 TTATTAAATTCACCGACCAGTGCTGGGCACACATATAT
1 TTGTCAGATTCACCGACCAGTGTTGGGCACACATATAT
*
37194454 TTGTCAGATTCACTGACCAGTGTTGGGCACACATATAT
1 TTGTCAGATTCACCGACCAGTGTTGGGCACACATATAT
* * * *
37194492 TTGTCGGGTAT-ACCGACAAGTGTTGGGCATACATATA
1 TTGTCAGAT-TCACCGACCAGTGTTGGGCACACATATA
37194529 ATTTCCGATT
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 93 0.99
39 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (38 bp):
TTGTCAGATTCACCGACCAGTGTTGGGCACACATATAT
Found at i:37194507 original size:76 final size:76
Alignment explanation
Indices: 37194378--37194528 Score: 178
Period size: 76 Copynumber: 2.0 Consensus size: 76
37194368 ATTTTGAATA
* * * *
37194378 TTGTCAGATTCACTGACTAGTGATGGTCACACACATATTTATTAAATTCACCGACCAGTGCTGGG
1 TTGTCAGATTCACTGACCAGTGATGGGCACACACATATTTATCAAATTCACCGACAAGTGCTGGG
37194443 CACACATATAT
66 CACACATATAT
* * * *** *
37194454 TTGTCAGATTCACTGACCAGTGTTGGGCACACATATATTTGTCGGGTAT-ACCGACAAGTGTTGG
1 TTGTCAGATTCACTGACCAGTGATGGGCACACACATATTTATCAAAT-TCACCGACAAGTGCTGG
*
37194518 GCATACATATA
65 GCACACATATA
37194529 ATTTCCGATT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
76 61 0.98
77 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (76 bp):
TTGTCAGATTCACTGACCAGTGATGGGCACACACATATTTATCAAATTCACCGACAAGTGCTGGG
CACACATATAT
Found at i:37196312 original size:5 final size:5
Alignment explanation
Indices: 37196302--37196326 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37196292 ATTATATGTA
37196302 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
37196327 CCCTTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:37200796 original size:5 final size:5
Alignment explanation
Indices: 37200780--37200810 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
37200770 ATTATGTGCA
37200780 ATTTT AATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
37200811 CCCTTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:37204462 original size:23 final size:23
Alignment explanation
Indices: 37204411--37204465 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
37204401 AATAGTGATC
37204411 ATATAACCAGAATGACACAAATT
1 ATATAACCAGAATGACACAAATT
* * * *
37204434 ACATAACTAGAATGACATAGATT
1 ATATAACCAGAATGACACAAATT
*
37204457 GTATAACCA
1 ATATAACCA
37204466 AAACAGAACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (23 bp):
ATATAACCAGAATGACACAAATT
Found at i:37204557 original size:13 final size:13
Alignment explanation
Indices: 37204539--37204565 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37204529 AACAAGATAG
37204539 AACAAAACAGAGC
1 AACAAAACAGAGC
37204552 AACAAAACAGAGC
1 AACAAAACAGAGC
37204565 A
1 A
37204566 GAACGGAACA
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:0.63, C:0.22, G:0.15, T:0.00
Consensus pattern (13 bp):
AACAAAACAGAGC
Found at i:37208609 original size:28 final size:28
Alignment explanation
Indices: 37208577--37208634 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
37208567 CATCATTTTG
37208577 TATCACAAATTATCTATCATTTATATCA
1 TATCACAAATTATCTATCATTTATATCA
*
37208605 TATCACAAATTATTTATCATTTATATCA
1 TATCACAAATTATCTATCATTTATATCA
37208633 TA
1 TA
37208635 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.45
Consensus pattern (28 bp):
TATCACAAATTATCTATCATTTATATCA
Found at i:37209594 original size:20 final size:20
Alignment explanation
Indices: 37209569--37209608 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37209559 CGTAAAATGA
*
37209569 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
37209589 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
37209609 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:37209598 original size:34 final size:35
Alignment explanation
Indices: 37209554--37209620 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37209544 CAGTAAAATA
*
37209554 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
37209588 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
37209621 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:37209624 original size:14 final size:15
Alignment explanation
Indices: 37209548--37209624 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37209538 GATTGCCAGT
* *
37209548 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
37209562 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
37209576 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
37209596 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
37209611 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
37209625 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:37210668 original size:22 final size:23
Alignment explanation
Indices: 37210629--37210677 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
37210619 GTAATTAAAC
37210629 TTAGTTAATCATGATTAC-TTAT
1 TTAGTTAATCATGATTACATTAT
*
37210651 TTAGTTAATC-TTATTTACATTTAT
1 TTAGTTAATCATGA-TTACA-TTAT
37210675 TTA
1 TTA
37210678 ATTTGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.09
22 14 0.61
24 7 0.30
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTAGTTAATCATGATTACATTAT
Found at i:37211332 original size:30 final size:29
Alignment explanation
Indices: 37211291--37211350 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
37211281 AGGCTAAATA
*
37211291 AGGCTTATAGGCCCATTTTGAAATTTATTT
1 AGGCTTATAGGCCCATTTT-AAAATTATTT
* **
37211321 AGGCTTTTAGGCCGGTTTTAAAATTATTT
1 AGGCTTATAGGCCCATTTTAAAATTATTT
37211350 A
1 A
37211351 AGGAAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (29 bp):
AGGCTTATAGGCCCATTTTAAAATTATTT
Found at i:37211920 original size:29 final size:29
Alignment explanation
Indices: 37211887--37211949 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
37211877 ATATATAAAG
*
37211887 AAAAATATATAATTA-AAATATAAAAATTA
1 AAAAATATATAATTATAAAT-TAAAAATAA
* *
37211916 AAAAATATATATTTATTAATTAAAAATAA
1 AAAAATATATAATTATAAATTAAAAATAA
37211945 AAAAA
1 AAAAA
37211950 CTTGAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATATATAATTATAAATTAAAAATAA
Found at i:37213379 original size:21 final size:21
Alignment explanation
Indices: 37213355--37213395 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37213345 TAAAGCGTCT
37213355 GTTCTTCTTCTTCTTCTTTTG
1 GTTCTTCTTCTTCTTCTTTTG
* *
37213376 GTTCTTTTTCTTTTTCTTTT
1 GTTCTTCTTCTTCTTCTTTT
37213396 TGATAACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (21 bp):
GTTCTTCTTCTTCTTCTTTTG
Found at i:37214074 original size:63 final size:63
Alignment explanation
Indices: 37213905--37214095 Score: 217
Period size: 63 Copynumber: 3.0 Consensus size: 63
37213895 CACAAGGCCG
* * * **
37213905 TGTAACTCATTATTTTGGAATTAGAGTCACACGAGCTAGAGACACGAGCGTGTGTCCAGGCTG
1 TGTAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGAGCGTGTGTCCAAGCCA
* * * * * *
37213968 TGTAACTTACTGTTTTGGAATTAGAA-TCACACGGGCCAAAGACACGGGCGTGTGTCCAAGCCA
1 TGTAACTCATTGTTTTGGAATTA-AAGTCACACGAGCTAGAGACACGAGCGTGTGTCCAAGCCA
* * *
37214031 TGTAACTCATTGTTTTGGAATTAAAGTCACACAAGCTAGAGACA-AAGACGTGTG-CTAAGCCA
1 TGTAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGAG-CGTGTGTCCAAGCCA
37214093 TGT
1 TGT
37214096 GGACCACACA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
62 13 0.12
63 91 0.87
64 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (63 bp):
TGTAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGAGCGTGTGTCCAAGCCA
Found at i:37216512 original size:26 final size:26
Alignment explanation
Indices: 37216462--37216512 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
37216452 AGTTCTTCAT
* * *
37216462 TACTTTTTAGAAGTGTTGTTGAAAAG
1 TACTTTTGAGAAGTATTGTTAAAAAG
*
37216488 TACTTTTGAGAAGTATTTTTAAAAA
1 TACTTTTGAGAAGTATTGTTAAAAA
37216513 ATTTGAGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (26 bp):
TACTTTTGAGAAGTATTGTTAAAAAG
Found at i:37221379 original size:21 final size:22
Alignment explanation
Indices: 37221346--37221392 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
37221336 TTTTCATCAT
37221346 ATTACTAAATTAATTTAAAATA
1 ATTACTAAATTAATTTAAAATA
* * *
37221368 ATTA-TAATTTAATTTAGAATT
1 ATTACTAAATTAATTTAAAATA
37221389 ATTA
1 ATTA
37221393 GTTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTACTAAATTAATTTAAAATA
Found at i:37222733 original size:27 final size:27
Alignment explanation
Indices: 37222673--37222734 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
37222663 TAATACATAG
*
37222673 TATTCGTGCCTATCTCAGAGGCGCCAA
1 TATTGGTGCCTATCTCAGAGGCGCCAA
** ** *
37222700 TGGTGGTGCCTATCTGGGAGGCGCCAT
1 TATTGGTGCCTATCTCAGAGGCGCCAA
37222727 TATTGGTG
1 TATTGGTG
37222735 TCATACTGAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (27 bp):
TATTGGTGCCTATCTCAGAGGCGCCAA
Found at i:37222848 original size:18 final size:19
Alignment explanation
Indices: 37222813--37222863 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
37222803 TAGAGAAACG
37222813 GAAGAAATAAAAAGGAAGCA
1 GAAGAAA-AAAAAGGAAGCA
*
37222833 GAAGAAAAAAAA-GAAGGA
1 GAAGAAAAAAAAGGAAGCA
*
37222851 AAAGAAGAAAAAA
1 GAAGAA-AAAAAA
37222864 AAGGTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.36
19 11 0.39
20 7 0.25
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
GAAGAAAAAAAAGGAAGCA
Found at i:37222867 original size:18 final size:19
Alignment explanation
Indices: 37222813--37222867 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
37222803 TAGAGAAACG
*
37222813 GAAGAAATAAAAAGGAAGCA
1 GAAGAAA-AAAAAGGAAGAA
37222833 GAAGAAAAAAAA-GAAGGAAAA
1 GAAGAAAAAAAAGGAA-G--AA
37222854 GAAGAAAAAAAAGG
1 GAAGAAAAAAAAGG
37222868 TATTTTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 7 0.23
21 13 0.43
22 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (19 bp):
GAAGAAAAAAAAGGAAGAA
Found at i:37225838 original size:27 final size:27
Alignment explanation
Indices: 37225808--37225874 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
37225798 GCAAAATAAA
37225808 AAAAAAACATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
*
37225835 AAAAAACCATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
37225862 AAAAAAATCATTA
1 AAAAAAA-CATTA
37225875 CATAAATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 32 0.86
28 5 0.14
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAACATTATAATTTTATTTACAT
Found at i:37226040 original size:27 final size:26
Alignment explanation
Indices: 37226009--37226129 Score: 114
Period size: 22 Copynumber: 4.9 Consensus size: 26
37225999 CCTCAACAGT
37226009 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAA
* *
37226036 ATTACAATATTCGTAC--AA--AAAT
1 ATTACAATATTCATACAAAATTAAAA
* * *
37226058 ATTGCAATATTCATATAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAA
*
37226085 ATTACAATATCCATAC--AA--AAAA
1 ATTACAATATTCATACAAAATTAAAA
37226107 ATTACAATATTCATACAAAATTA
1 ATTACAATATTCATACAAAATTA
37226130 CGATATTCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
22 32 0.43
23 2 0.03
24 4 0.05
25 4 0.05
26 2 0.03
27 31 0.41
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAA
Found at i:37226070 original size:49 final size:49
Alignment explanation
Indices: 37226008--37226167 Score: 185
Period size: 49 Copynumber: 3.4 Consensus size: 49
37225998 TCCTCAACAG
* *
37226008 TATTACAATATTCATACAAAATTACAAAATTACAATATTCGTACAAAAA
1 TATTACAATATTCATACAAAATTACAAAATTACAATATCCATACAAAAA
* * * *
37226057 TATTGCAATATTCATATAAAATTATAATATTACAATATCCATACAAAAA
1 TATTACAATATTCATACAAAATTACAAAATTACAATATCCATACAAAAA
* *
37226106 AATTACAATATTCATACAAAATTAC--GA-T---AT-T-CATACAAAAA
1 TATTACAATATTCATACAAAATTACAAAATTACAATATCCATACAAAAA
37226147 -ATTACAATATTCATACAAAAT
1 TATTACAATATTCATACAAAAT
37226168 ACTAATCCAA
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 21 0.21
41 10 0.10
42 1 0.01
43 2 0.02
46 1 0.01
47 1 0.01
49 64 0.64
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (49 bp):
TATTACAATATTCATACAAAATTACAAAATTACAATATCCATACAAAAA
Found at i:37226148 original size:21 final size:21
Alignment explanation
Indices: 37226033--37226268 Score: 136
Period size: 19 Copynumber: 11.1 Consensus size: 21
37226023 ACAAAATTAC
*
37226033 AAAATTACAATATTCGTACAA
1 AAAATTACAATATTCATACAA
* *
37226054 AAATATTGCAATATTCAT--AT
1 AAA-ATTACAATATTCATACAA
*
37226074 AAAATTATAATATTACAATATCCATACA
1 AAAATTACAATATT-C-ATA--C--A-A
37226102 AAAAAATTACAATATTCATAC--
1 AAA--ATTACAATATTCATACAA
*
37226123 AAAATTACGATATTCATACAA
1 AAAATTACAATATTCATACAA
37226144 AAAATTACAATATTCATAC--
1 AAAATTACAATATTCATACAA
* * * *
37226163 AAAA-TACTA-ATCCAAAACTA
1 AAAATTACAATATTC-ATACAA
* * *
37226183 TAAA-TACAA-ATTTAATTATAA
1 AAAATTACAATA-TTCA-TACAA
37226204 AATAATTACAATATTCAT--AA
1 AA-AATTACAATATTCATACAA
37226224 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATAC-AA
*
37226246 AAAATTAGAATATTCATACAA
1 AAAATTACAATATTCATACAA
37226267 AA
1 AA
37226269 TTCTAATCCA
Statistics
Matches: 168, Mismatches: 22, Indels: 50
0.70 0.09 0.21
Matches are distributed among these distances:
17 3 0.02
18 7 0.04
19 43 0.26
20 18 0.11
21 34 0.20
22 35 0.21
23 8 0.05
24 1 0.01
26 1 0.01
27 1 0.01
28 6 0.04
29 1 0.01
30 10 0.06
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:37226228 original size:101 final size:101
Alignment explanation
Indices: 37226101--37226287 Score: 313
Period size: 101 Copynumber: 1.9 Consensus size: 101
37226091 ATATCCATAC
* *
37226101 AAAAAAATTACAATATTCATACAAAATTACGATATTCATAC-AAAAAATTACAATATTCATACAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAA
37226165 AATACTAATCCAAAACTATAAATACAAATTTAATTAT
66 AATACTAATCC-AAACTATAAATACAAATTTAATTAT
* *
37226202 AAAATAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAATTAGAATATTCATACAA
1 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAA
*
37226267 AATTCTAATCCAAACTATAAA
66 AATACTAATCCAAACTATAAA
37226288 CACTAAATAG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 48 0.60
102 32 0.40
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.29
Consensus pattern (101 bp):
AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAA
AATACTAATCCAAACTATAAATACAAATTTAATTAT
Found at i:37226252 original size:41 final size:41
Alignment explanation
Indices: 37226009--37226270 Score: 130
Period size: 41 Copynumber: 6.1 Consensus size: 41
37225999 CCTCAACAGT
*
37226009 ATTACAATATTCATACAAAATTACAAAATTACAATATTCGTACAAAAA
1 ATTACAATATTCATAC--AA--A-AAAATTACAATATTC--ATAAAAA
* * *
37226057 TATTGCAATATTCATATAAAATTATAATATTACAATATCCATACAAAAAA
1 -ATTACAATATTCATA-CAAA--A-AA-ATTACAATATTCAT---AAAAA
*
37226107 ATTACAATATTCATAC---AAAATTACGATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCAT--AAAAA
* *
37226147 ATTACAATATTCATAC---AAAA-TACTA-ATCCA-AAACTATA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAAA--A-A
* * * *
37226185 AATACAA-ATTTAATTATAAAATAATTACAATATTCATAAAAA
1 ATTACAATA-TTCA-TACAAAAAAATTACAATATTCATAAAAA
* *
37226227 ATTACAATATTCATACAAAAAAATTAGAATATTCATACAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
37226268 ATT
1 ATT
37226271 CTAATCCAAA
Statistics
Matches: 169, Mismatches: 25, Indels: 46
0.70 0.10 0.19
Matches are distributed among these distances:
35 3 0.02
37 2 0.01
38 14 0.08
39 6 0.04
40 25 0.15
41 39 0.23
42 15 0.09
43 7 0.04
44 4 0.02
45 3 0.02
46 1 0.01
47 2 0.01
48 4 0.02
49 39 0.23
50 5 0.03
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
Found at i:37226328 original size:102 final size:98
Alignment explanation
Indices: 37226123--37226339 Score: 260
Period size: 102 Copynumber: 2.1 Consensus size: 98
37226113 ATATTCATAC
* *
37226123 AAAATTACGATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAAT
1 AAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAAC
* *
37226188 ACAAATTTAATTATAAAATAATTACAATATTCATAA
66 ACAAATATAATTATAAAATAATTA-AATA-T-ACAA
* *
37226224 AAAATTACAATATTCATACAAAAAAATTAGAATATTCATACAAAATTCTAATCC-AAACTATAAA
1 AAAATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAA
37226288 CACTAAATAGATAATTTATAATTAATAATT-AATA-ACAA
65 CAC-AAAT--ATAA-TTATAA--AATAATTAAATATACAA
37226326 AAAATTCACAATAT
1 AAAATT-ACAATAT
37226340 CTTTTAAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
101 30 0.29
102 45 0.44
103 7 0.07
104 3 0.03
105 10 0.10
107 7 0.07
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.30
Consensus pattern (98 bp):
AAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAAC
ACAAATATAATTATAAAATAATTAAATATACAA
Found at i:37226443 original size:3 final size:3
Alignment explanation
Indices: 37226435--37226472 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
37226425 TTTTCTTTGT
*
37226435 TTC TTC TTC TTC TTC -TC TTT TTC TTC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
37226473 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:37226453 original size:14 final size:14
Alignment explanation
Indices: 37226436--37226472 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
37226426 TTTCTTTGTT
37226436 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTTC
*
37226450 TCTTTTTCTTCTTC
1 TCTTCTTCTTCTTC
37226464 TCTTCTTCT
1 TCTTCTTCT
37226473 CCTTTCTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TCTTCTTCTTCTTC
Found at i:37227554 original size:220 final size:221
Alignment explanation
Indices: 37227161--37227601 Score: 875
Period size: 220 Copynumber: 2.0 Consensus size: 221
37227151 ATTTATATTT
37227161 AATAAAAATTAATAATAAATTTTAAATTATACAAGTACAAAATTAAATATTAAAAGTTCAAAGAG
1 AATAAAAATTAATAATAAATTTTAAATTATACAAGTACAAAATTAAATATTAAAAGTTCAAAGAG
37227226 TGTATGGATTAAGAGAAAAATAAAAACCTAAAAAGATTAATTTAATTTTAATTTTCTTCGCTTTC
66 TGTATGGATTAAGAGAAAAATAAAAACCTAAAAAGATTAATTTAATTTTAATTTTCTTCGCTTTC
37227291 TTTTAAAACATCTCATTTATTACTTTGCAATGTTACTTTTTTTTCAGAAAAGAACCCTTTATATG
131 TTTTAAAACATCTCATTTATTACTTTGCAATGTTACTTTTTTTTCAGAAAAGAACCCTTTATATG
37227356 ATTTAATTATTTTAAATTTGTGTTAA
196 ATTTAATTATTTTAAATTTGTGTTAA
37227382 AATAAAAATT-ATAATAAATTTTAAATTATACAAGTACAAAATTAAATATTAAAAGTTCAAAGAG
1 AATAAAAATTAATAATAAATTTTAAATTATACAAGTACAAAATTAAATATTAAAAGTTCAAAGAG
37227446 TGTATGGATTAAGAGAAAAATAAAAACCTAAAAAGATTAATTTAATTTTAATTTTCTTCGCTTTC
66 TGTATGGATTAAGAGAAAAATAAAAACCTAAAAAGATTAATTTAATTTTAATTTTCTTCGCTTTC
37227511 TTTTAAAACATCTCATTTATTACTTTGCAATGTTACTTTTTTTTCAGAAAAGAACCCTTTATATG
131 TTTTAAAACATCTCATTTATTACTTTGCAATGTTACTTTTTTTTCAGAAAAGAACCCTTTATATG
37227576 ATTTAATTATTTTAAATTTGTGTTAA
196 ATTTAATTATTTTAAATTTGTGTTAA
37227602 GAAATCAAGG
Statistics
Matches: 220, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 210 0.95
221 10 0.05
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (221 bp):
AATAAAAATTAATAATAAATTTTAAATTATACAAGTACAAAATTAAATATTAAAAGTTCAAAGAG
TGTATGGATTAAGAGAAAAATAAAAACCTAAAAAGATTAATTTAATTTTAATTTTCTTCGCTTTC
TTTTAAAACATCTCATTTATTACTTTGCAATGTTACTTTTTTTTCAGAAAAGAACCCTTTATATG
ATTTAATTATTTTAAATTTGTGTTAA
Found at i:37236567 original size:20 final size:19
Alignment explanation
Indices: 37236519--37236568 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
37236509 ATTTTGTCCT
*
37236519 CAAT-AAAATGAAATAAAG
1 CAATAAAAAGGAAATAAAG
*
37236537 GAA-AAATAAGGAAATAAAAG
1 CAATAAA-AAGGAAAT-AAAG
37236557 CAATAAAAAGGA
1 CAATAAAAAGGA
37236569 GGTGAAGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 11 0.44
21 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.16, T:0.12
Consensus pattern (19 bp):
CAATAAAAAGGAAATAAAG
Found at i:37237714 original size:41 final size:41
Alignment explanation
Indices: 37237669--37237750 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
37237659 TTGAATAAGT
*
37237669 GAAACTATGAAAAATATAATTTTTTATAGAAACAAGGACTA
1 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
37237710 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
1 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
37237751 AATTGAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.28
Consensus pattern (41 bp):
GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
Found at i:37237814 original size:43 final size:43
Alignment explanation
Indices: 37237766--37237851 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
37237756 AAAGACTTAA
37237766 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
1 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
37237809 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
1 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
37237852 CCAAACTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (43 bp):
AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
Found at i:37239317 original size:34 final size:34
Alignment explanation
Indices: 37239263--37239346 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
37239253 ACCCACTCAA
* * *
37239263 ATATATTATACATATAACACCCATGCACGTAAAT
1 ATATATTATATATATTACACCCATGCACGCAAAT
* * *
37239297 TTATATTATATATATTACACCCATGCATGCATAT
1 ATATATTATATATATTACACCCATGCACGCAAAT
37239331 ATATATTAT-TATATTA
1 ATATATTATATATATTA
37239347 ATAACACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 7 0.16
34 36 0.84
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.39
Consensus pattern (34 bp):
ATATATTATATATATTACACCCATGCACGCAAAT
Found at i:37240439 original size:12 final size:12
Alignment explanation
Indices: 37240422--37240446 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37240412 AGGTGAAATG
37240422 TGTTTATTTTGA
1 TGTTTATTTTGA
37240434 TGTTTATTTTGA
1 TGTTTATTTTGA
37240446 T
1 T
37240447 TTTTTATGAT
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TGTTTATTTTGA
Found at i:37243420 original size:203 final size:203
Alignment explanation
Indices: 37243071--37243476 Score: 796
Period size: 203 Copynumber: 2.0 Consensus size: 203
37243061 ATTTACCCTC
37243071 TAAGTCCTCTCCTATTTCTCCCTTATTCTAATAACTCCCTTTTTAACAACTAGTCTTAATTTACA
1 TAAGTCCTCTCCTATTTCTCCCTTATTCTAATAACTCCCTTTTTAACAACTAGTCTTAATTTACA
37243136 CATTTAACCTATACTTTAACCACTATTCCAAATTAGTCTCTATTAATTTTTACTAATGCCCCAAT
66 CATTTAACCTATACTTTAACCACTATTCCAAATTAGTCTCTATTAATTTTTACTAATGCCCCAAT
37243201 TATTAATATCATTATTATTTTATTT-AATTATTATTTTTACTATTATTAACTAATTATTTATTTT
131 TATTAATATCATTATTATTTTATTTAAATTATTA-TTTTACTATTATTAACTAATTATTTATTTT
37243265 ATCCTATTT
195 ATCCTATTT
37243274 TAAGTCCTCTCCTATTTCTCCCTTATTCTAATAACTCCCTTTTTAACAACTAGTCTTAATTTACA
1 TAAGTCCTCTCCTATTTCTCCCTTATTCTAATAACTCCCTTTTTAACAACTAGTCTTAATTTACA
37243339 CATTTAACCTATACTTTAACCACTATTCCAAATTAGTCTCTATTAATTTTTACTAATGCCCCAAT
66 CATTTAACCTATACTTTAACCACTATTCCAAATTAGTCTCTATTAATTTTTACTAATGCCCCAAT
37243404 TATTAATATCATTATTATTTTATTTAAATTATTATTTTACTATTATTAACTAATTATTTATTTTA
131 TATTAATATCATTATTATTTTATTTAAATTATTATTTTACTATTATTAACTAATTATTTATTTTA
37243469 TCCTATTT
196 TCCTATTT
37243477 CAGCTTCTAT
Statistics
Matches: 202, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
203 194 0.96
204 8 0.04
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (203 bp):
TAAGTCCTCTCCTATTTCTCCCTTATTCTAATAACTCCCTTTTTAACAACTAGTCTTAATTTACA
CATTTAACCTATACTTTAACCACTATTCCAAATTAGTCTCTATTAATTTTTACTAATGCCCCAAT
TATTAATATCATTATTATTTTATTTAAATTATTATTTTACTATTATTAACTAATTATTTATTTTA
TCCTATTT
Found at i:37257937 original size:18 final size:19
Alignment explanation
Indices: 37257897--37257949 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
37257887 CTTAAAAAAT
*
37257897 GATATGCAATCTTAGATAG
1 GATATGCAATCTTAGATAA
37257916 GATATGCAATCTT-GATAA
1 GATATGCAATCTTAGATAA
37257934 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37257950 AGATAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:37258162 original size:18 final size:19
Alignment explanation
Indices: 37258136--37258175 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
37258126 AAATTTCTCC
37258136 TTCTCTGGC-GTTCTTATT
1 TTCTCTGGCTGTTCTTATT
*
37258154 TTCTGTGGCTTGTTCTTATT
1 TTCTCTGGC-TGTTCTTATT
37258174 TT
1 TT
37258176 GTTTTTCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.05, C:0.17, G:0.17, T:0.60
Consensus pattern (19 bp):
TTCTCTGGCTGTTCTTATT
Found at i:37259303 original size:70 final size:71
Alignment explanation
Indices: 37259190--37259326 Score: 231
Period size: 70 Copynumber: 1.9 Consensus size: 71
37259180 TTCAAACTCC
* *
37259190 AGTTTTAAACGATCTTGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGAT-CCTTTT
1 AGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTT
37259254 TTCTCA
66 TTCTCA
**
37259260 AGTTTTAAATTATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTT
1 AGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTT
37259325 TT
66 TT
37259327 AAATCCGAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 54 0.87
71 8 0.13
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (71 bp):
AGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTT
TTCTCA
Found at i:37260387 original size:16 final size:16
Alignment explanation
Indices: 37260362--37260396 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37260352 TTATGTTTTG
*
37260362 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
37260378 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
37260394 TTT
1 TTT
37260397 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:37262971 original size:21 final size:21
Alignment explanation
Indices: 37262946--37262985 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37262936 AAAAAATTTA
37262946 AAAATAAAAAAT-ATGAAAATG
1 AAAAT-AAAAATGATGAAAATG
*
37262967 AAAATGAAAATGATGAAAA
1 AAAATAAAAATGATGAAAA
37262986 AAGAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (21 bp):
AAAATAAAAATGATGAAAATG
Found at i:37262996 original size:21 final size:22
Alignment explanation
Indices: 37262953--37263019 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 22
37262943 TTAAAAATAA
* *
37262953 AAAAT-ATG-AAAATGAAAATG
1 AAAATGATGAAAAAAGAAAAGG
37262973 AAAATGATGAAAAAAGAAAA-G
1 AAAATGATGAAAAAAGAAAAGG
**
37262994 AAAATGAAAAAAAAAGAAAAGG
1 AAAATGATGAAAAAAGAAAAGG
37263016 AAAA
1 AAAA
37263020 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 5 0.12
21 22 0.54
22 14 0.34
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.10
Consensus pattern (22 bp):
AAAATGATGAAAAAAGAAAAGG
Found at i:37263003 original size:16 final size:16
Alignment explanation
Indices: 37262984--37263020 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
37262974 AAATGATGAA
*
37262984 AAAAGAAAAGAAAATG
1 AAAAGAAAAGAAAAGG
*
37263000 AAAAAAAAAGAAAAGG
1 AAAAGAAAAGAAAAGG
37263016 AAAAG
1 AAAAG
37263021 GAGAGGCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAGAAAAGG
Found at i:37265437 original size:46 final size:46
Alignment explanation
Indices: 37265363--37265602 Score: 291
Period size: 46 Copynumber: 5.1 Consensus size: 46
37265353 TGCAGTGGAA
* *
37265363 TAGATTGAAGCTGTGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
1 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
* *
37265409 TAGATTAAAGCTGAGGGCAACGAGTCTCATTTCCATGGCGTCGTAG
1 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
* * *
37265455 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGACATCGTAA
1 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
* * * *
37265501 TAGATTAAAGCTGAGGGCTGTGAATCTCATTTCCTTGGCGTTGCAGTGGAA
1 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCG-T-C-GT--AG
* * * * *
37265552 TAAATTGAAGCTGAGGGCAGCGAATTTTATTTCCATGGCGTCATAG
1 TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
37265598 TAGAT
1 TAGAT
37265603 AGCAACGAAT
Statistics
Matches: 165, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
46 123 0.75
47 1 0.01
48 2 0.01
49 3 0.02
50 1 0.01
51 35 0.21
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (46 bp):
TAGATTAAAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAG
Found at i:37265876 original size:21 final size:21
Alignment explanation
Indices: 37265852--37265891 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37265842 CTAGCTTTGC
*
37265852 AGTGGAATGGGTTAAAGCTGA
1 AGTGGAATGGATTAAAGCTGA
*
37265873 AGTGGAGTGGATTAAAGCT
1 AGTGGAATGGATTAAAGCT
37265892 AAATATAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.25
Consensus pattern (21 bp):
AGTGGAATGGATTAAAGCTGA
Found at i:37266350 original size:19 final size:19
Alignment explanation
Indices: 37266326--37266381 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
37266316 TACTTGAAAA
37266326 AGGATATGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
37266345 AGGATATGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
*
37266364 AAGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
37266382 AGATAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (19 bp):
AGGATATGCAATCTTAGAT
Found at i:37266407 original size:22 final size:22
Alignment explanation
Indices: 37266328--37266404 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
37266318 CTTGAAAAAG
*
37266328 GATATGCAATCTT---AGATAG
1 GATATGCAATCTTAGAAGATAA
37266347 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
37266366 GATATGCAATCTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
37266388 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
37266405 GATTTAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.61
22 8 0.16
23 12 0.24
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:37267278 original size:24 final size:24
Alignment explanation
Indices: 37267248--37267497 Score: 157
Period size: 24 Copynumber: 10.7 Consensus size: 24
37267238 GTGTATTGTA
*
37267248 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
37267272 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
37267295 TATTATTATTTTAAATTTAT--TG
1 TATTATTATTTTAAATTTATCATG
**
37267317 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
37267342 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
37267365 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
37267387 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
37267411 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
37267434 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
37267456 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
37267480 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
37267498 ATCCAATTCA
Statistics
Matches: 173, Mismatches: 34, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.08
23 48 0.28
24 77 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:37267330 original size:70 final size:69
Alignment explanation
Indices: 37267241--37267413 Score: 190
Period size: 70 Copynumber: 2.5 Consensus size: 69
37267231 TATCTAAGTG
* * * ** *
37267241 TATTGTATATTATTATTTTAGATTTATCATGTTTTAT-TATTTGTAATTTATCAATATTATTATT
1 TATTATATACTATTATTTTAGATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TT
37267305 TTAAATT
63 TTAAATT
* * *
37267312 TATTGT-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTT
1 TATTATAT-ACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTT
37267375 AAATT
65 AAATT
* *
37267380 TATTATATACTATTATTTTGGATTTATCACGTAT
1 TATTATATACTATTATTTTAGATTTATCATGTAT
37267414 GATTATTCTA
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
68 16 0.18
69 26 0.30
70 38 0.44
71 7 0.08
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (69 bp):
TATTATATACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTA
AATT
Found at i:37267337 original size:11 final size:11
Alignment explanation
Indices: 37267300--37267337 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
37267290 ATCAATATTA
37267300 TTATTTTAAAT
1 TTATTTTAAAT
37267311 TTATTGTTAACA-
1 TTATT-TTAA-AT
37267323 TTATTTTAAAT
1 TTATTTTAAAT
37267334 TTAT
1 TTAT
37267338 CATGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 9 0.38
13 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:37267431 original size:69 final size:68
Alignment explanation
Indices: 37267207--37267488 Score: 206
Period size: 69 Copynumber: 4.1 Consensus size: 68
37267197 TTATACTTAT
* * * * * * *
37267207 TATTA-TTA-AATTAATCATTAAAATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTAGAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
37267270 TGTTT
65 TG-TA
* * * *
37267275 TATTATTT-GTAATTTATCAATATTATTATTTTAAATTTATTGT-TAAC-ATTATTTTAAATTTA
1 TATTATTTAG-AATTTATCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTA
37267337 TCATGTA
62 TCATGTA
*
37267344 TATCTATTTCA-AATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATC
1 TAT-TATTT-AGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATC
*
37267408 ACGTA
64 ATGTA
* * * * * *
37267413 TGATTATTCTAGAA-TTATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT
1 T-ATTATT-TAGAATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTAT
*
37267476 --TATA
63 CATGTA
37267480 TATTATTTA
1 TATTATTTA
37267489 TTGTAAATTA
Statistics
Matches: 174, Mismatches: 25, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
65 2 0.01
66 6 0.03
67 3 0.02
68 22 0.13
69 73 0.42
70 54 0.31
71 13 0.07
72 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
TATTATTTAGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCAT
GTA
Found at i:37267573 original size:23 final size:23
Alignment explanation
Indices: 37267546--37267590 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
37267536 AATTGTACAT
*
37267546 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
37267569 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
37267591 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:37283691 original size:29 final size:29
Alignment explanation
Indices: 37283658--37283720 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
37283648 ATTGTTCCAC
* *
37283658 AAGTAGAAAGCATAGTTTAATGTTAGACT
1 AAGTAGAAAGCATAGTTCAATGTCAGACT
37283687 AAGTAGAAAGCATAGTTCAATGTCAGACT
1 AAGTAGAAAGCATAGTTCAATGTCAGACT
37283716 AAGTA
1 AAGTA
37283721 TCACAGTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.27
Consensus pattern (29 bp):
AAGTAGAAAGCATAGTTCAATGTCAGACT
Found at i:37284720 original size:20 final size:21
Alignment explanation
Indices: 37284697--37284742 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
37284687 GAAAGGGAAG
37284697 CAGTAATAAGG-AAAAAAAGA
1 CAGTAATAAGGAAAAAAAAGA
37284717 CAGTAATAAGGAAAAAAAAGA
1 CAGTAATAAGGAAAAAAAAGA
37284738 CAGTA
1 CAGTA
37284743 TGGAAGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.11
Consensus pattern (21 bp):
CAGTAATAAGGAAAAAAAAGA
Found at i:37289168 original size:21 final size:20
Alignment explanation
Indices: 37289131--37289170 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37289121 CCTTACAGTT
* *
37289131 TGAAAAACTTTAAGTTTTTC
1 TGAAAAAATTAAAGTTTTTC
37289151 TGAAAAAATTAAATGTTTTT
1 TGAAAAAATTAAA-GTTTTT
37289171 GATTTAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
TGAAAAAATTAAAGTTTTTC
Found at i:37293529 original size:490 final size:490
Alignment explanation
Indices: 37292609--37293582 Score: 1813
Period size: 490 Copynumber: 2.0 Consensus size: 490
37292599 ATGAGCCTAA
*
37292609 TTTTATTAAGGTTGAACGTGAATCCACAAGGTTTGGTTGTCTCCACAATACAGATCTCTCAAAAT
1 TTTTATTAAGGTTGAACGTGAATCCACAAGGTTTGATTGTCTCCACAATACAGATCTCTCAAAAT
*
37292674 AGAACAAGAATTAATGAAAATAATTCTAACCTAAGAAAAGAAAAAACTAAATTGAAATTAAAAGT
66 AGAACAAGAATTAATGAAAATAAATCTAACCTAAGAAAAGAAAAAACTAAATTGAAATTAAAAGT
*
37292739 GTAATTCTTGGCTAAGTGAATTGTGTCCATTTACATGTGACAAAGGAGCCTATTTATAGATCTCA
131 GCAATTCTTGGCTAAGTGAATTGTGTCCATTTACATGTGACAAAGGAGCCTATTTATAGATCTCA
*
37292804 GGTGTTCATCATCCTTAACCCTAGGTTAGCTGGCGTTCCTGAGCTTTAAGTTTGATTGTACAAAC
196 GGTGTTCATCATCCTTAACCCTAGGTTAGCTGGCGTTCCCGAGCTTTAAGTTTGATTGTACAAAC
* *
37292869 CAAAACACCCCTTGACTTGTGTTTACTTCTCGTCCAAAGTCGAAGTCGTGACACACCAGGTCCTA
261 CAAAACACCCCTTGACTCGTGTTTACTTCTCGTCCAAAGTCGAAGTCATGACACACCAGGTCCTA
37292934 TGTCGCGACATAGCAGTCAGTGTACTCCCCTTGGGATATCTTCATGGGTATGTCACAACACCCTT
326 TGTCGCGACATAGCAGTCAGTGTACTCCCCTTGGGATATCTTCATGGGTATGTCACAACACCCTT
*
37292999 AGGCTGTGTCGCGATATTGAAGGCAGTTTCATGATTTCTCCACTCTGCTCCCTATGTTGCAACAT
391 AGGCTGTGTCACGATATTGAAGGCAGTTTCATGATTTCTCCACTCTGCTCCCTATGTTGCAACAT
37293064 CAACCATTCAGTGTTGTGACATAGAAACCGCAAGG
456 CAACCATTCAGTGTTGTGACATAGAAACCGCAAGG
37293099 TTTTATTAAGGTTGAACGTGAATCCACAAGGTTTGATTGTCTCCACAATACAGATCTCTCAAAAT
1 TTTTATTAAGGTTGAACGTGAATCCACAAGGTTTGATTGTCTCCACAATACAGATCTCTCAAAAT
37293164 AGAACAAGAATTAATGAAAATAAATCTAACCTAAGAAAAGAAAAAACTAAATTGAAATTAAAAGT
66 AGAACAAGAATTAATGAAAATAAATCTAACCTAAGAAAAGAAAAAACTAAATTGAAATTAAAAGT
37293229 GCAATTCTTGGCTAAGTGAATTGTGTCCATTTACATGTGACAAAGGAGCCTATTTATAGATCTCA
131 GCAATTCTTGGCTAAGTGAATTGTGTCCATTTACATGTGACAAAGGAGCCTATTTATAGATCTCA
37293294 GGTGTTCATCATCCTTAACCCTAGGTTAGCTGGCGTTCCCGAGCTTTAAGTTTGATTGTACAAAC
196 GGTGTTCATCATCCTTAACCCTAGGTTAGCTGGCGTTCCCGAGCTTTAAGTTTGATTGTACAAAC
* * * * *
37293359 CAAAACACCCCTTGACTCGTGTTTACTTCTCGTCTAGATTCGATGTCATGACACAGCAGGTCCTA
261 CAAAACACCCCTTGACTCGTGTTTACTTCTCGTCCAAAGTCGAAGTCATGACACACCAGGTCCTA
* *
37293424 TGTCGCGACATAGTAGTCAGTGTACTCCCCTTGGGATATCTTCATGGGTATGTCACGACACCCTT
326 TGTCGCGACATAGCAGTCAGTGTACTCCCCTTGGGATATCTTCATGGGTATGTCACAACACCCTT
37293489 AGGCTGTGTCACGATATTGAAGGCAGTTTCATGATTTCTCCACTCTGCTCCCTATGTTGCAACAT
391 AGGCTGTGTCACGATATTGAAGGCAGTTTCATGATTTCTCCACTCTGCTCCCTATGTTGCAACAT
*
37293554 CAAGCATTCAGTGTTGTGACATAGAAACC
456 CAACCATTCAGTGTTGTGACATAGAAACC
37293583 ATTATCGGTT
Statistics
Matches: 469, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
490 469 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (490 bp):
TTTTATTAAGGTTGAACGTGAATCCACAAGGTTTGATTGTCTCCACAATACAGATCTCTCAAAAT
AGAACAAGAATTAATGAAAATAAATCTAACCTAAGAAAAGAAAAAACTAAATTGAAATTAAAAGT
GCAATTCTTGGCTAAGTGAATTGTGTCCATTTACATGTGACAAAGGAGCCTATTTATAGATCTCA
GGTGTTCATCATCCTTAACCCTAGGTTAGCTGGCGTTCCCGAGCTTTAAGTTTGATTGTACAAAC
CAAAACACCCCTTGACTCGTGTTTACTTCTCGTCCAAAGTCGAAGTCATGACACACCAGGTCCTA
TGTCGCGACATAGCAGTCAGTGTACTCCCCTTGGGATATCTTCATGGGTATGTCACAACACCCTT
AGGCTGTGTCACGATATTGAAGGCAGTTTCATGATTTCTCCACTCTGCTCCCTATGTTGCAACAT
CAACCATTCAGTGTTGTGACATAGAAACCGCAAGG
Found at i:37294637 original size:156 final size:157
Alignment explanation
Indices: 37294352--37294664 Score: 556
Period size: 156 Copynumber: 2.0 Consensus size: 157
37294342 AGAAATCATA
*
37294352 GCATAACAAAGTAACTACGGCTAGCCTATGAGTTTTTGTGAACTAATGAACAAGTTTTTCTTATG
1 GCATAACAAAGTAACTACGGCTAGCCTATGAGTTTCTGTGAACTAATGAACAAGTTTTTCTTATG
** * *
37294417 CCTGTGACTTTATCACTTTTCTATTTTCCAATGCATCTCACTCATGAATTTTTTTTGTTGTCTCA
66 CCTGTGACTTTATCACTTTTCTATTTTCCAATAAATCTCACTCATGAATTTTTTTTGCTATCTCA
37294482 AGACTTTTTCTACTCATACTAC-TTTT
131 AGACTTTTTCTACTCATACTACATTTT
37294508 GCATAACAAAGTAACTACGGCTAGCCTATGAGTTTCTGTGAACTAATGAACAAGTTTTTCTTATG
1 GCATAACAAAGTAACTACGGCTAGCCTATGAGTTTCTGTGAACTAATGAACAAGTTTTTCTTATG
*
37294573 CCTGTGACTTTATCACTTTTCTATTTTTCAATAAATCTCACTCATGAATTTTTTTTGCTATCTCA
66 CCTGTGACTTTATCACTTTTCTATTTTCCAATAAATCTCACTCATGAATTTTTTTTGCTATCTCA
*
37294638 AGACTTTTTCTACTCGTACTACATTTT
131 AGACTTTTTCTACTCATACTACATTTT
37294665 CTTTTTGATT
Statistics
Matches: 149, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 145 0.97
157 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (157 bp):
GCATAACAAAGTAACTACGGCTAGCCTATGAGTTTCTGTGAACTAATGAACAAGTTTTTCTTATG
CCTGTGACTTTATCACTTTTCTATTTTCCAATAAATCTCACTCATGAATTTTTTTTGCTATCTCA
AGACTTTTTCTACTCATACTACATTTT
Found at i:37300663 original size:42 final size:42
Alignment explanation
Indices: 37300617--37300721 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
37300607 CTGAGTAGGG
* *
37300617 TCACACGGCCATGTG-CTAGGCCATATAACTCTCAAAATTGCC
1 TCACACGCCCATGTGTC-AGGCCATATAACTCTCAAAATTACC
* * * *
37300659 TCACACACCCATGTGTCCGGCCATGTTACTCTCAAAATTACC
1 TCACACGCCCATGTGTCAGGCCATATAACTCTCAAAATTACC
* *
37300701 TTACATGCCCATGTGTCAGGC
1 TCACACGCCCATGTGTCAGGC
37300722 TATGTGTTAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 51 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (42 bp):
TCACACGCCCATGTGTCAGGCCATATAACTCTCAAAATTACC
Found at i:37306391 original size:21 final size:21
Alignment explanation
Indices: 37306365--37306405 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37306355 ACCATATAAA
37306365 TTATAACTCA-TAATTATTTTT
1 TTATAA-TCATTAATTATTTTT
*
37306386 TTATAATTATTAATTATTTT
1 TTATAATCATTAATTATTTT
37306406 CCAAAATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATAATCATTAATTATTTTT
Found at i:37306982 original size:50 final size:50
Alignment explanation
Indices: 37306803--37307001 Score: 213
Period size: 51 Copynumber: 3.9 Consensus size: 50
37306793 ATTAATGACA
* * * *
37306803 CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TAT
* * * * * *
37306854 CCGATACATGTATTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCATAT
* * *
37306905 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAT-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATAT
* *
37306955 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
37307002 CTTTCACTTT
Statistics
Matches: 120, Mismatches: 24, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 42 0.35
51 71 0.59
52 1 0.01
53 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCATAT
Found at i:37307019 original size:101 final size:102
Alignment explanation
Indices: 37306803--37306995 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 102
37306793 ATTAATGACA
* * *
37306803 CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGTGACCATCACTATCCGATACATGTATT
1 CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGCGACCATCACTATCCGATACACGTAGT
*
37306868 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACACGTGATCCAAGCTAT
* * * * * *
37306905 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGCGACC-ATCACTATCCGATACACGTAG
37306968 TAGCCTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTACACACGTGA
37306996 CCATCACTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 38 0.47
102 39 0.48
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACACACGTGATCCAAGCTAT
Found at i:37307288 original size:30 final size:30
Alignment explanation
Indices: 37307230--37307288 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
37307220 CAAAAATCAT
* *
37307230 AGTTTGGCAAAATTACATTTTTGGCCCTAA
1 AGTTTCGCAAAATTACATTTTTGCCCCTAA
*
37307260 AGTTTCGCAAAATTATGATTTTT-CCCCTA
1 AGTTTCGCAAAATTA-CATTTTTGCCCCTA
37307289 GGCTAGGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (30 bp):
AGTTTCGCAAAATTACATTTTTGCCCCTAA
Found at i:37309796 original size:42 final size:42
Alignment explanation
Indices: 37309716--37309797 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37309706 CGTTTTCTCT
* **
37309716 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
37309758 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
37309798 CGCACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:37312600 original size:16 final size:16
Alignment explanation
Indices: 37312579--37312610 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37312569 GTTTTGTTGC
*
37312579 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37312595 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
37312611 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37313004 original size:50 final size:50
Alignment explanation
Indices: 37312828--37313026 Score: 204
Period size: 51 Copynumber: 3.9 Consensus size: 50
37312818 ATTAATGACA
* * * *
37312828 CCGGTTCACATAGTAGCCTGCACATAGTACTACAGATGTGACCATCATTAT
1 CCGGTACACGTAGTAACCTGCACATAGTACTACACATGTGACCATCA-TAT
* * * * * * *
37312879 CCGATACATGTATTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TAT
1 CCGGTACACGTAGTAACCTGCACATAGTACTACACATGTGA-C-CATCATAT
* * *
37312930 CCGGTACGCATAGTAACCTGCACATAGTACTACACATGCGACCTATCAT-T
1 CCGGTACACGTAGTAACCTGCACATAGTACTACACATGTGACC-ATCATAT
* *
37312980 CTGGTACACGTAGTAACCTGCACATAGTACTACACACGTGACCATCA
1 CCGGTACACGTAGTAACCTGCACATAGTACTACACATGTGACCATCA
37313027 CTTTCACTTT
Statistics
Matches: 120, Mismatches: 24, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 42 0.35
51 71 0.59
52 1 0.01
53 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CCGGTACACGTAGTAACCTGCACATAGTACTACACATGTGACCATCATAT
Found at i:37313044 original size:101 final size:102
Alignment explanation
Indices: 37312828--37313020 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 102
37312818 ATTAATGACA
* * * * *
37312828 CCGGTTCACATAGTAGCCTGCACATAGTACTACAGATGTGACCATCATTATCCGATACATGTATT
1 CCGGTTCACATAGTAACCTGCACATAGTACTACACATGCGACCATCATTATCCGATACACGTAGT
* *
37312893 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AACCTGCACATAGTACTACACACGTGATCCAAGCTAT
* * * *
37312930 CCGGTACGCATAGTAACCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAACCTGCACATAGTACTACACATGCGACC-ATCATTATCCGATACACGTAG
37312993 TAACCTGCACATAGTACTACACACGTGA
65 TAACCTGCACATAGTACTACACACGTGA
37313021 CCATCACTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
101 37 0.46
102 39 0.49
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CCGGTTCACATAGTAACCTGCACATAGTACTACACATGCGACCATCATTATCCGATACACGTAGT
AACCTGCACATAGTACTACACACGTGATCCAAGCTAT
Found at i:37317461 original size:43 final size:44
Alignment explanation
Indices: 37317382--37317466 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 44
37317372 GCCAATGCAA
* *
37317382 TTTTCGAAGTTGGGTCACATGACCAAACCACGTGCCCATGTAAC
1 TTTTCGAAGTTGGGTCACACGACCAAACCACATGCCCATGTAAC
* * * *
37317426 TTTT-GAAGTTGGGTCACACGGCTAAGCCACATGCCCTTGTA
1 TTTTCGAAGTTGGGTCACACGACCAAACCACATGCCCATGTA
37317467 CCAGGCCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (44 bp):
TTTTCGAAGTTGGGTCACACGACCAAACCACATGCCCATGTAAC
Found at i:37332092 original size:23 final size:22
Alignment explanation
Indices: 37332039--37332097 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
37332029 TAAATATTAG
*
37332039 TTTATTAATATTTTAATTTGAT
1 TTTATTAATATATTAATTTGAT
* *
37332061 TTTTTTAATGATATT-ATTTTAT
1 TTTATTAAT-ATATTAATTTGAT
*
37332083 TGTTATTAATTTATT
1 T-TTATTAATATATT
37332098 TAGTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATTAATATATTAATTTGAT
Found at i:37334204 original size:75 final size:76
Alignment explanation
Indices: 37334068--37334230 Score: 247
Period size: 75 Copynumber: 2.2 Consensus size: 76
37334058 TTAATTAAAT
* * * * *
37334068 AATACAAAGTTTATTATTTAAATTGTAAAAAAAACCCTAAAATTAATAATTGAAGTGGCAAAAAA
1 AATACAAAGTTAACTATTTAAATTGTAAAAAAAACCCTAAAATTAATAACTAAAATGGCAAAAAA
37334133 GTCATTACATA
66 GTCATTACATA
* *
37334144 AATACAAAGTTAACTATTTAAATTG-CAAAAAACCCCTAAAATTAATAACTAAAATGGCAAAAAA
1 AATACAAAGTTAACTATTTAAATTGTAAAAAAAACCCTAAAATTAATAACTAAAATGGCAAAAAA
37334208 GTCATTACATA
66 GTCATTACATA
*
37334219 AATATAAAGTTA
1 AATACAAAGTTA
37334231 TTTAAATTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 56 0.71
76 23 0.29
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (76 bp):
AATACAAAGTTAACTATTTAAATTGTAAAAAAAACCCTAAAATTAATAACTAAAATGGCAAAAAA
GTCATTACATA
Found at i:37339905 original size:29 final size:26
Alignment explanation
Indices: 37339873--37339933 Score: 61
Period size: 29 Copynumber: 2.2 Consensus size: 26
37339863 AAATATCTTA
37339873 ATATTATTA-ATAATTTGATAAACTTTAAT
1 ATATTATTATATAATTT-AT-AA-TTT-AT
* *
37339902 ATATAATTATATTATTTATAATTTAT
1 ATATTATTATATAATTTATAATTTAT
37339928 ATATTA
1 ATATTA
37339934 ATTTTTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 7 0.25
27 3 0.11
28 2 0.07
29 10 0.36
30 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATATTATTATATAATTTATAATTTAT
Found at i:37339923 original size:22 final size:21
Alignment explanation
Indices: 37339898--37339941 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
37339888 TGATAAACTT
37339898 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
37339920 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
37339941 T
1 T
37339942 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:37345672 original size:51 final size:49
Alignment explanation
Indices: 37345612--37345784 Score: 136
Period size: 51 Copynumber: 3.4 Consensus size: 49
37345602 CGGTGGTTTG
* *
37345612 CACATAGTACCACCCGTGTAATTATTATCATTCGATACACGTAGTAGCCTT
1 CACATAGTACCACACGTGTAA--ATTATCATTCGATACACGTAGTAGCCTA
* * *
37345663 CACATAGTACTACACACGTGATCAAACT-T--TTCGGTTCACGTAGTAGCCTA
1 CACATAGTAC--CACACGTG-T-AAATTATCATTCGATACACGTAGTAGCCTA
* * * * *
37345713 CACATAGTACTACACATGTGACCATTATCAATCGATACACGTAGTAGCCTG
1 CACATAGTACCACACGTGT-A-AATTATCATTCGATACACGTAGTAGCCTA
*
37345764 CACTTAGTACTACACACGTGT
1 CACATAGTAC--CACACGTGT
37345785 TTATAAGCAC
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
47 2 0.02
48 8 0.08
49 1 0.01
50 28 0.29
51 36 0.38
52 1 0.01
53 16 0.17
54 1 0.01
55 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (49 bp):
CACATAGTACCACACGTGTAAATTATCATTCGATACACGTAGTAGCCTA
Found at i:37345708 original size:50 final size:51
Alignment explanation
Indices: 37345638--37345783 Score: 170
Period size: 50 Copynumber: 2.9 Consensus size: 51
37345628 TGTAATTATT
* * *
37345638 ATCATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-A
1 ATCAATCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATA
** * * * *
37345688 A-CTTTTCGGTTCACGTAGTAGCCTACACATAGTACTACACATGTGACCATT
1 ATC-AATCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATA
* *
37345739 ATCAATCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCAATCGATACACGTAGTAGCCTACACATAGTACTACACACGTG
37345784 TTTATAAGCA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 41 0.52
51 36 0.46
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (51 bp):
ATCAATCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATA
Found at i:37351600 original size:27 final size:28
Alignment explanation
Indices: 37351570--37351623 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
37351560 TCAAAATTCA
*
37351570 CACTTGAATTA-TAAAATAATTAATTTG
1 CACTTAAATTATTAAAATAATTAATTTG
*
37351597 CACTTAAATTATTAAAATATTTAATTT
1 CACTTAAATTATTAAAATAATTAATTT
37351624 TAATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (28 bp):
CACTTAAATTATTAAAATAATTAATTTG
Found at i:37362699 original size:21 final size:21
Alignment explanation
Indices: 37362673--37362721 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
37362663 AGTTACAGCG
*
37362673 ATGTCGCGACACAAGGGTTTC
1 ATGTCGCGACACAAGGGTTCC
*
37362694 ATGTCGCGACACAGGGGTTCC
1 ATGTCGCGACACAAGGGTTCC
*
37362715 GTGTCGC
1 ATGTCGC
37362722 AACATATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (21 bp):
ATGTCGCGACACAAGGGTTCC
Found at i:37363012 original size:26 final size:26
Alignment explanation
Indices: 37362983--37363033 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37362973 TACAACAGTT
37362983 AAGCAATCCAAACATTTTTAAGTTTC
1 AAGCAATCCAAACATTTTTAAGTTTC
*
37363009 AAGCAATTCAAACATTTTTAAGTTT
1 AAGCAATCCAAACATTTTTAAGTTT
37363034 TACTATCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (26 bp):
AAGCAATCCAAACATTTTTAAGTTTC
Found at i:37370834 original size:35 final size:35
Alignment explanation
Indices: 37370731--37370840 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
37370721 CACAACAACA
* **
37370731 AGTCCAACCGAAAG-ACGCCAATGCTCAGAAGAGAA
1 AGTCCAACCG-AAGCACGCCAATGCTCATAAGAGCT
* * *
37370766 AGTCCAACAGAACCACACCAATGCTCATAAGAGCT
1 AGTCCAACCGAAGCACGCCAATGCTCATAAGAGCT
*
37370801 AGTCCAACCGAAGCACGTCAATGCTCATAAGAGCT
1 AGTCCAACCGAAGCACGCCAATGCTCATAAGAGCT
37370836 AGTCC
1 AGTCC
37370841 CTCCGAAACA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 2 0.03
35 62 0.97
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (35 bp):
AGTCCAACCGAAGCACGCCAATGCTCATAAGAGCT
Found at i:37370853 original size:70 final size:69
Alignment explanation
Indices: 37370680--37370856 Score: 169
Period size: 70 Copynumber: 2.5 Consensus size: 69
37370670 AACACACCAG
* *
37370680 ATGCTCATACGAGGCAATCCCTCC-AAATCACACCAGATGCTCACAACAACAAGTCCAACCGAAA
1 ATGCTCATAAGA-GCAGTCCCTCCGAAA-CACACCA-ATGCTCACAACAACAAGTCCAACCGAAA
37370744 GACGCCA
63 GACGCCA
* * ** * * * * * *
37370751 ATGCTCAGAAGAGAAAGTCCAACAGAACCACACCAATGCTCATAAGAGCTAGTCCAACCG-AAGC
1 ATGCTCATAAGAG-CAGTCCCTCCGAAACACACCAATGCTCACAACAACAAGTCCAACCGAAAG-
*
37370815 ACGTCA
64 ACGCCA
37370821 ATGCTCATAAGAGCTAGTCCCTCCGAAACACACCAA
1 ATGCTCATAAGAGC-AGTCCCTCCGAAACACACCAA
37370857 ATAGATAGTA
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
69 3 0.04
70 56 0.67
71 22 0.27
72 2 0.02
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (69 bp):
ATGCTCATAAGAGCAGTCCCTCCGAAACACACCAATGCTCACAACAACAAGTCCAACCGAAAGAC
GCCA
Found at i:37373048 original size:30 final size:31
Alignment explanation
Indices: 37373012--37373079 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
37373002 TTGCCCAATA
** * **
37373012 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
37373042 GTAAATACGAAAAATTTGAAGGACCAATAGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
37373073 GTAAATA
1 GTAAATA
37373080 TTTGAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACCAATAGT
Found at i:37381425 original size:9 final size:9
Alignment explanation
Indices: 37381411--37381450 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
37381401 GTAGTGATTC
*
37381411 AATTCGGTT
1 AATTCGGGT
37381420 AATTCGGGT
1 AATTCGGGT
37381429 AATTCGGGT
1 AATTCGGGT
*
37381438 AATTCGGTT
1 AATTCGGGT
37381447 AATT
1 AATT
37381451 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:37381544 original size:29 final size:29
Alignment explanation
Indices: 37381511--37381591 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
37381501 CCGAATTAAC
*
37381511 TGAAAAAATTTCGGTTCGGTTCATTTTTT
1 TGAAAAAATTTCGGTTCGGTTAATTTTTT
37381540 TGAAAAAATTTCGGTTCGGTTAATTTTTT
1 TGAAAAAATTTCGGTTCGGTTAATTTTTT
*
37381569 TGAAAAAATTTCGGTTCGATTAA
1 TGAAAAAATTTCGGTTCGGTTAA
37381592 CGGTTAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (29 bp):
TGAAAAAATTTCGGTTCGGTTAATTTTTT
Found at i:37384308 original size:30 final size:32
Alignment explanation
Indices: 37384261--37384321 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
37384251 AACCTCCTTA
37384261 CTTTCCCCTAAAAACTTTTACT-CCCTCCCAC
1 CTTTCCCCTAAAAACTTTTACTCCCCTCCCAC
*
37384292 CTTTCCCC-AGAAACTTTTACTCCCCTCCCA
1 CTTTCCCCTAAAAACTTTTACTCCCCTCCCA
37384322 TCCCACCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.21, C:0.46, G:0.02, T:0.31
Consensus pattern (32 bp):
CTTTCCCCTAAAAACTTTTACTCCCCTCCCAC
Found at i:37384888 original size:19 final size:19
Alignment explanation
Indices: 37384864--37384900 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37384854 AGCTAATAAT
*
37384864 AAATTTGATTACGGTGGGC
1 AAATTTGATTACAGTGGGC
37384883 AAATTTGATTACAGTGGG
1 AAATTTGATTACAGTGGG
37384901 TGACAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (19 bp):
AAATTTGATTACAGTGGGC
Found at i:37391714 original size:18 final size:20
Alignment explanation
Indices: 37391691--37391733 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37391681 TGTTTTAAAG
37391691 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTTAT
*
37391709 TTTATAGTTATTAATTTTTT
1 TTTATAGTTATTAATTTTAT
37391729 TTTAT
1 TTTAT
37391734 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTATAGTTATTAATTTTAT
Found at i:37394276 original size:18 final size:19
Alignment explanation
Indices: 37394234--37394286 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
37394224 ATTTCTTTCT
37394234 AATTTATTTTTATTTATGA
1 AATTTATTTTTATTTATGA
*
37394253 AA-TTATTTTTATTT-TTA
1 AATTTATTTTTATTTATGA
37394270 AATTTATTGTTT-TTTAT
1 AATTTATT-TTTATTTAT
37394287 TATCTCGGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 20 0.67
19 6 0.20
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
AATTTATTTTTATTTATGA
Found at i:37400122 original size:25 final size:25
Alignment explanation
Indices: 37400093--37400149 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
37400083 AGAAGAATGA
*
37400093 AAAATAATAATCAGATATAAAACAT
1 AAAATAATAATCAGATAGAAAACAT
37400118 AAAATAATAATCAGATAGAAAACAT
1 AAAATAATAATCAGATAGAAAACAT
*
37400143 TAAATAA
1 AAAATAA
37400150 AAGAAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (25 bp):
AAAATAATAATCAGATAGAAAACAT
Found at i:37401064 original size:7 final size:7
Alignment explanation
Indices: 37401054--37401078 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37401044 ACATAAAATA
37401054 AAAATTT
1 AAAATTT
37401061 AAAATTT
1 AAAATTT
37401068 AAAATTT
1 AAAATTT
37401075 AAAA
1 AAAA
37401079 GGAGACTAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:37401263 original size:16 final size:16
Alignment explanation
Indices: 37401242--37401275 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37401232 AAGAAAATAC
37401242 AATTTGACAATTTTTA
1 AATTTGACAATTTTTA
37401258 AATTTGACAATTTTTA
1 AATTTGACAATTTTTA
37401274 AA
1 AA
37401276 GCATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
AATTTGACAATTTTTA
Found at i:37406564 original size:9 final size:9
Alignment explanation
Indices: 37406529--37406556 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
37406519 ATTTTACAAT
37406529 TAGAATAAC
1 TAGAATAAC
37406538 TAGAATAAC
1 TAGAATAAC
37406547 TAGAATAAC
1 TAGAATAAC
37406556 T
1 T
37406557 CAAATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (9 bp):
TAGAATAAC
Found at i:37406658 original size:20 final size:20
Alignment explanation
Indices: 37406633--37406707 Score: 116
Period size: 20 Copynumber: 3.7 Consensus size: 20
37406623 TCTTTCAACA
*
37406633 AAAAAATTCAAAATAAATTT
1 AAAAAATTCAAAATAATTTT
37406653 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
37406673 AAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
37406693 AAAAAATTCTAAAAT
1 AAAAAATTC-AAAAT
37406708 TTCATTTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 4 0.08
20 43 0.83
21 5 0.10
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:37406954 original size:126 final size:127
Alignment explanation
Indices: 37406795--37407052 Score: 502
Period size: 126 Copynumber: 2.0 Consensus size: 127
37406785 AATTGTAAAA
37406795 ATTT-TCCAAAATAATAATTTTAATGACCTAAACAAGTAAATTGCCCATTAAAGTTTATAATACT
1 ATTTATCCAAAATAATAATTTTAATGACCTAAACAAGTAAATTGCCCATTAAAGTTTATAATACT
37406859 AAAGTATTTTTTTCTCTTATTTTACTTTGAAAGTGTTTTCAAATATATACTAACATAGAATT
66 AAAGTATTTTTTTCTCTTATTTTACTTTGAAAGTGTTTTCAAATATATACTAACATAGAATT
37406921 ATTTATCCAAAATAATAA-TTTAATGACCTAAACAAGTAAATTGCCCATTAAAGTTTATAATACT
1 ATTTATCCAAAATAATAATTTTAATGACCTAAACAAGTAAATTGCCCATTAAAGTTTATAATACT
37406985 AAAGTATTTTTTTCTCTTATTTTACTTTGAAAGTGTTTTCAAATATATACTAACATAGAATT
66 AAAGTATTTTTTTCTCTTATTTTACTTTGAAAGTGTTTTCAAATATATACTAACATAGAATT
37407047 ATTTAT
1 ATTTAT
37407053 ATTGTAACAA
Statistics
Matches: 131, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 118 0.90
127 13 0.10
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (127 bp):
ATTTATCCAAAATAATAATTTTAATGACCTAAACAAGTAAATTGCCCATTAAAGTTTATAATACT
AAAGTATTTTTTTCTCTTATTTTACTTTGAAAGTGTTTTCAAATATATACTAACATAGAATT
Found at i:37407777 original size:72 final size:72
Alignment explanation
Indices: 37407649--37408313 Score: 877
Period size: 72 Copynumber: 9.2 Consensus size: 72
37407639 TAAAAATTGA
* * *
37407649 GCATTAGCGGCGATTCTGTAGAAA-CGCAGCAAACAAATAATCCAAACGCATCGTTTTGATTTGA
1 GCATTAGCGGCGCTTCTGTA-AAAGCGCCGCAAA-AAATAATCAAAACGCATCGTTTTGATTTGA
*
37407713 GATGCAGTG
64 GATGTAGTG
** *
37407722 GCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTGATTTGAGA
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
37407787 TGTAGTG
66 TGTAGTG
* * * * * * * *
37407794 GCATTAGCGGCGATTCCGTAAAAACGCTGCAAAAAAATAACCCAAACGCTTCATTTTGATTTGAG
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGC-AAAAAATAATCAAAACGCATCGTTTTGATTTGAG
*
37407859 ATGTTGTG
65 ATGTAGTG
* ** *
37407867 GCACTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTGATTTGAGA
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
*
37407932 TGCAGTG
66 TGTAGTG
** *
37407939 GCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTGATTTGAGA
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
37408004 TGTAGTG
66 TGTAGTG
* * * *
37408011 GCATTAGTGGCGCTTCTGTAAAAGCGCCACAAAAAA-AACCAAAACGCATCGTTTTGATTGGAGA
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
37408075 TGTAGTG
66 TGTAGTG
* * * *
37408082 GCGTTAGCGGCGCTTCTGTAAAAGCGCCACAAAAAAAAACCAAAACGCATCGTTTTGATTTGAGA
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
37408147 TGTAGTG
66 TGTAGTG
* * * * * **
37408154 GCATTAGCGGCACTTCTGTAAAAGCACCACAAGAAAAAAACCAAAACGCATCAATTTGATTTGAG
1 GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAA-AAAATAATCAAAACGCATCGTTTTGATTTGAG
37408219 ATGTAGTG
65 ATGTAGTG
* *
37408227 GCATTAGCGGCACTTCTGTGAAAA-CGCCGTAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
1 GCATTAGCGGCGCTTCTGT-AAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
*
37408291 ATGCAGTG
65 ATGTAGTG
*
37408299 GTATTAGCGGCGCTT
1 GCATTAGCGGCGCTT
37408314 TTCTGGAAAA
Statistics
Matches: 531, Mismatches: 56, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
71 66 0.12
72 313 0.59
73 148 0.28
74 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (72 bp):
GCATTAGCGGCGCTTCTGTAAAAGCGCCGCAAAAAATAATCAAAACGCATCGTTTTGATTTGAGA
TGTAGTG
Found at i:37407912 original size:145 final size:145
Alignment explanation
Indices: 37407649--37408313 Score: 872
Period size: 145 Copynumber: 4.6 Consensus size: 145
37407639 TAAAAATTGA
* * * *
37407649 GCATTAGCGGCGATTCTGTAGAAACGCAGCAAACAAATAATCCAAACGCATCGTTTTGATTTGAG
1 GCATTAGCGGCGATTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
* * *
37407714 ATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTG
66 ATGTAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAATAACCAAAACACATCGTTTTG
37407779 ATTTGAGATGTAGTG
131 ATTTGAGATGTAGTG
* * * * * *
37407794 GCATTAGCGGCGATTCCGTAAAAACGCTGCAAAAAAATAACCCAAACGCTTCATTTTGATTTGAG
1 GCATTAGCGGCGATTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
* * * *
37407859 ATGTTGTGGCACTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTG
66 ATGTAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAATAACCAAAACACATCGTTTTG
*
37407924 ATTTGAGATGCAGTG
131 ATTTGAGATGTAGTG
* ** * *
37407939 GCATTAGCGGCGCTTCCATAAAAGCGCCGC-AAAAAATAATCAAAACACATCGTTTTGATTTGAG
1 GCATTAGCGGCGATTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
* ** *
37408003 ATGTAGTGGCATTAGTGGCGCTTCTGTAAAAGCGCCACAAAAAA-AACCAAAACGCATCGTTTTG
66 ATGTAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAATAACCAAAACACATCGTTTTG
*
37408067 ATTGGAGATGTAGTG
131 ATTTGAGATGTAGTG
* * * * *
37408082 GCGTTAGCGGCGCTTCTGTAAAAGCGCCACAAAAAAA-AACCAAAACGCATCGTTTTGATTTGAG
1 GCATTAGCGGCGATTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
* ** * * * **
37408146 ATGTAGTGGCATTAGCGGCACTTCTGTAAAAGCACCACAAGAAAAAAACCAAAACGCATCAATTT
66 ATGTAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAA-AAAATAACCAAAACACATCGTTTT
37408211 GATTTGAGATGTAGTG
130 GATTTGAGATGTAGTG
* *
37408227 GCATTAGCGGC-ACTTCTGTGAAAACGCCG-TAAAAAATAATCAAAACGCATCGTTTTGATTTGA
1 GCATTAGCGGCGA-TTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGA
* *
37408290 GATGCAGTGGTATTAGCGGCGCTT
65 GATGTAGTGGCATTAGCGGCGCTT
37408314 TTCTGGAAAA
Statistics
Matches: 463, Mismatches: 52, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
143 119 0.26
144 83 0.18
145 261 0.56
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (145 bp):
GCATTAGCGGCGATTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAG
ATGTAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAATAACCAAAACACATCGTTTTG
ATTTGAGATGTAGTG
Found at i:37408214 original size:360 final size:362
Alignment explanation
Indices: 37407649--37408313 Score: 977
Period size: 360 Copynumber: 1.8 Consensus size: 362
37407639 TAAAAATTGA
*
37407649 GCATTAGCGGCGATTCTGTAGAAACGCAGCAAACAAATAATCCAAACGCATCGTTTTGATTTGAG
1 GCATTAGCGGCGATTCTGTAGAAACGCAGCAAACAAATAATCCAAACGCATCGTTTTGATTGGAG
* * *
37407714 ATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAAAATAATCAAAACACATCGTTTTG
66 ATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAAAAACCAAAACACATCGTTTTG
* ** * *
37407779 ATTTGAGATGTAGTGGCATTAGCGGCGATTCCGTAAAAACGCTGCAAAAAAATAACCCAAACGCT
131 ATTTGAGATGTAGTGGCATTAGCGGCGATTCCGTAAAAACACCACAAAAAAATAACCAAAACGCA
* * *
37407844 TCATTTTGATTTGAGATGTTGTGGCACTAGCGGCGCTTCCAT-AAAAGCGCCGCAAAAAATAATC
196 TCAATTTGATTTGAGATGTAGTGGCACTAGCGGCACTTCCATGAAAA-CGCCGCAAAAAATAATC
37407908 AAAACACATCGTTTTGATTTGAGATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAA
260 AAAACACATCGTTTTGATTTGAGATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAA
37407973 AATAATCAAAACACATCGTTTTGATTTGAGATGTAGTG
325 AATAATCAAAACACATCGTTTTGATTTGAGATGTAGTG
* *
37408011 GCATTAGTGGCGCTTCTGTA-AAAGCGCCA-CAAA-AAA-AA-CCAAAACGCATCGTTTTGATTG
1 GCATTAGCGGCGATTCTGTAGAAA-CG-CAGCAAACAAATAATCC-AAACGCATCGTTTTGATTG
* * ** *
37408071 GAGATGTAGTGGCGTTAGCGGCGCTTCTGTAAAAGCGCCACAAAAAAAAACCAAAACGCATCGTT
63 GAGATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAAAAACCAAAACACATCGTT
* *
37408136 TTGATTTGAGATGTAGTGGCATTAGCGGC-ACTTCTGTAAAAGCACCACAAGAAAAA-AACCAAA
128 TTGATTTGAGATGTAGTGGCATTAGCGGCGA-TTCCGTAAAAACACCACAA-AAAAATAACCAAA
* ** *
37408199 ACGCATCAATTTGATTTGAGATGTAGTGGCATTAGCGGCACTTCTGTGAAAACGCCGTAAAAAAT
191 ACGCATCAATTTGATTTGAGATGTAGTGGCACTAGCGGCACTTCCATGAAAACGCCGCAAAAAAT
* *
37408264 AATCAAAACGCATCGTTTTGATTTGAGATGCAGTGGTATTAGCGGCGCTT
256 AATCAAAACACATCGTTTTGATTTGAGATGCAGTGGCATTAGCGGCGCTT
37408314 TTCTGGAAAA
Statistics
Matches: 270, Mismatches: 27, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
359 3 0.01
360 226 0.84
361 15 0.06
362 24 0.09
363 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (362 bp):
GCATTAGCGGCGATTCTGTAGAAACGCAGCAAACAAATAATCCAAACGCATCGTTTTGATTGGAG
ATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCACAAAAAAAAACCAAAACACATCGTTTTG
ATTTGAGATGTAGTGGCATTAGCGGCGATTCCGTAAAAACACCACAAAAAAATAACCAAAACGCA
TCAATTTGATTTGAGATGTAGTGGCACTAGCGGCACTTCCATGAAAACGCCGCAAAAAATAATCA
AAACACATCGTTTTGATTTGAGATGCAGTGGCATTAGCGGCGCTTCCATAAAAGCGCCGCAAAAA
ATAATCAAAACACATCGTTTTGATTTGAGATGTAGTG
Found at i:37409668 original size:147 final size:146
Alignment explanation
Indices: 37409517--37409944 Score: 420
Period size: 147 Copynumber: 2.9 Consensus size: 146
37409507 TGTAATTATG
* * * * * *
37409517 TTTATTGATATGTTGTCGTTTTGTCTATGGTATTAGTGGTGTTTTTCTAGAATCGCCACAAGCTT
1 TTTATTGATACGATG-CGTTTTGTCTATGTTATTAGTGGCGTTTTTCTAGAATCGCCACAGGTTT
* ** *
37409582 GAGTTAACTGTTGGGGAAACGACCT-CG-TTTGAACTTATAGTTAATGGCGCTTTACTTAAAACG
65 GAGCTAACTGTTGATGAAACGA-CTGCGTTTTG-ACTTATAGTTAGTGGCGCTTTACTTAAAACG
*
37409645 CCGCAAAATTGTTCTAACA
128 CCGCAAAAATGTTCTAACA
* * * ** * * * *
37409664 TTTATAGAAACGATGCCGTTTTTTAAATGTTATTAGTGGCGTTTTT-TCGAAAACGTCACGGGTT
1 TTTATTGATACGATG-CGTTTTGTCTATGTTATTAGTGGCGTTTTTCTAG-AATCGCCACAGGTT
* * * * * * *
37409728 TGAGGTAAGTGTTGATGAAGCGATTGCGTTTTGACTTATAGTTAGTGGTGCTTTGCTTAAAATGC
64 TGAGCTAACTGTTGATGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGC
* *
37409793 CGTAAAAATGTTTTAACA
129 CGCAAAAATGTTCTAACA
* * *
37409811 TTTATTGATACGATGCTGTTTTG-CTATATTATTAGTGGCGTTTATTCAAAAAT-GCCACAGGTT
1 TTTATTGATACGATGC-GTTTTGTCTATGTTATTAGTGGCGTTT-TTCTAGAATCGCCACAGGTT
**
37409874 TGAGCTATTTGTTGATGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGC-TTA-TATATAAAC
64 TGAGCTAACTGTTGATGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACT-TA-AAAC
37409937 GCCGCAAA
127 GCCGCAAA
37409945 TGGTTAATTT
Statistics
Matches: 223, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
144 1 0.00
145 4 0.02
146 84 0.38
147 130 0.58
148 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (146 bp):
TTTATTGATACGATGCGTTTTGTCTATGTTATTAGTGGCGTTTTTCTAGAATCGCCACAGGTTTG
AGCTAACTGTTGATGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCG
CAAAAATGTTCTAACA
Found at i:37411132 original size:44 final size:44
Alignment explanation
Indices: 37411069--37411595 Score: 923
Period size: 44 Copynumber: 12.0 Consensus size: 44
37411059 NNNNNNNNNN
37411069 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
37411113 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
37411157 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
37411201 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
37411245 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
37411289 CATAACGTACATAATACATAATACACATAACTTAATTAATATTA--
1 CATAACGTACATAATACATAATACAC--AACTTAATTAATATTATC
* *
37411333 AATAACGTACATAATACATAATACACAACTTAATTAATATTATT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
* *
37411377 CATAACGTACATAATACATATTACACAACTTAATTAATATTATT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
* *
37411421 CATAACGTACATAATACATATTACACAACTTAATTAATATTATT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
* *
37411465 CATAACGTACATAATACATATTACACAACTTAATTAATATTATT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
* *
37411509 CATAACGTACATAATACATATTACACAACTTAATTAATATTATT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
*
37411553 CATAACGTACATAATACATATTACACAACTTAATTAATATTAT
1 CATAACGTACATAATACATAATACACAACTTAATTAATATTAT
37411596 ATGTGCTGTT
Statistics
Matches: 476, Mismatches: 3, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
42 16 0.03
44 444 0.93
46 16 0.03
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (44 bp):
CATAACGTACATAATACATAATACACAACTTAATTAATATTATC
Found at i:37413843 original size:44 final size:43
Alignment explanation
Indices: 37413712--37413876 Score: 208
Period size: 43 Copynumber: 3.8 Consensus size: 43
37413702 ATCAAACAAG
** *
37413712 AGCGGCGTTTCTT-AGGGAAGCGCCGCTAAAGAACATGACCTTT
1 AGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGAACATGACGTTT
* * * *
37413755 AGCGGCGTTTTTGAGAAAGGCGTCGCTAAAGAACAAG-GGTTTT
1 AGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGAACATGACG-TTT
*
37413798 AGCGGCGTTTTTGAGAAAAACCGCCGCTAAAGAACATGACGTTT
1 AGCGGCGTTTTTGAG-AAAAGCGCCGCTAAAGAACATGACGTTT
*
37413842 AGTGGCGTTTTTGAGAAAAGCGCCGCTAAAGAACA
1 AGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGAACA
37413877 AGGGCGTTTG
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 66 0.63
44 35 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (43 bp):
AGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGAACATGACGTTT
Found at i:37414656 original size:20 final size:20
Alignment explanation
Indices: 37414631--37414679 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
37414621 CTGTTGCCTC
*
37414631 TGTCCCTTCCACCATGG-TGT
1 TGTCCCTTCCACCA-GGCTAT
37414651 TGTCCCTTCCACCAGGCTAT
1 TGTCCCTTCCACCAGGCTAT
37414671 TGTCCCTTC
1 TGTCCCTTC
37414680 AATGGGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.10, C:0.39, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTCCCTTCCACCAGGCTAT
Found at i:37414761 original size:11 final size:10
Alignment explanation
Indices: 37414745--37414799 Score: 60
Period size: 11 Copynumber: 5.4 Consensus size: 10
37414735 GTATCAATTG
37414745 GAAAAGAGAAA
1 GAAAAGAG-AA
37414756 GAAAAGAG-A
1 GAAAAGAGAA
37414765 GAAAAGAGAA
1 GAAAAGAGAA
*
37414775 GAAGAGAAGAA
1 GAAAAG-AGAA
37414786 GAAGAAGA-AA
1 GAA-AAGAGAA
37414796 GAAA
1 GAAA
37414800 GAAAGAAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 10 0.26
10 11 0.28
11 16 0.41
12 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:37414781 original size:8 final size:8
Alignment explanation
Indices: 37414762--37414807 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
37414752 GAAAGAAAAG
37414762 AGAGAA-A
1 AGAGAAGA
37414769 AGAGAAGA
1 AGAGAAGA
37414777 AGAGAAGA
1 AGAGAAGA
37414785 AGAAGAAGA
1 AG-AGAAGA
37414794 A-AGAAAGA
1 AGAG-AAGA
37414802 A-AGAAG
1 AGAGAAG
37414808 GTAATGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.31
8 18 0.50
9 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (8 bp):
AGAGAAGA
Found at i:37414802 original size:14 final size:13
Alignment explanation
Indices: 37414751--37414798 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
37414741 ATTGGAAAAG
37414751 AGAAAGAA-AAGA
1 AGAAAGAAGAAGA
37414763 GAGAAA-AGAGAAGA
1 -AGAAAGA-AGAAGA
37414777 AGAGAAGAAGAAGA
1 AGA-AAGAAGAAGA
37414791 AGAAAGAA
1 AGAAAGAA
37414799 AGAAAGAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 1 0.03
13 14 0.45
14 15 0.48
15 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAGA
Found at i:37417750 original size:12 final size:12
Alignment explanation
Indices: 37417729--37417767 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37417719 TAACAAAATT
37417729 AATAACCTAACAA
1 AATAA-CTAACAA
*
37417742 AATAACTAATAA
1 AATAACTAACAA
*
37417754 AATTACTAACAA
1 AATAACTAACAA
37417766 AA
1 AA
37417768 CTCTACATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAACTAACAA
Found at i:37426251 original size:15 final size:14
Alignment explanation
Indices: 37426228--37426264 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
37426218 CGAAATAAAC
37426228 AGAAAGAAAAAAAG
1 AGAAAGAAAAAAAG
*
37426242 AGAGAAGAAAATAAG
1 AGA-AAGAAAAAAAG
37426257 AGAAAGAA
1 AGAAAGAA
37426265 TGAACCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (14 bp):
AGAAAGAAAAAAAG
Found at i:37435719 original size:15 final size:16
Alignment explanation
Indices: 37435693--37435722 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37435683 TGAATATCTA
37435693 CTTATCCTTTATTGGT
1 CTTATCCTTTATTGGT
37435709 CTTAT-CTTTATTGG
1 CTTATCCTTTATTGG
37435723 ATGCACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (16 bp):
CTTATCCTTTATTGGT
Found at i:37447365 original size:13 final size:13
Alignment explanation
Indices: 37447347--37447374 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37447337 AGACATGGTC
37447347 TTACATGGGATGT
1 TTACATGGGATGT
37447360 TTACATGGGATGT
1 TTACATGGGATGT
37447373 TT
1 TT
37447375 CTTATACTGT
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:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (13 bp):
TTACATGGGATGT
Found at i:37447457 original size:50 final size:50
Alignment explanation
Indices: 37447389--37447515 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
37447379 TACTGTCAAT
* * * ** * *
37447389 GCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
* ** * *
37447439 GCCATGT-CTAAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAA-ACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
37447489 GCCATGTCCCAAACATGGTCTTACATG
1 GCCATGTCCCAAACATGGTCTTACATG
37447516 GGATCTCATT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
49 2 0.03
50 55 0.92
51 3 0.05
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
Found at i:37458097 original size:13 final size:13
Alignment explanation
Indices: 37458079--37458144 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
37458069 AATTTTGTAT
37458079 TATTTAGTGATAA
1 TATTTAGTGATAA
*
37458092 TATTTA--GA-AT
1 TATTTAGTGATAA
37458102 TATTTAGTGATAA
1 TATTTAGTGATAA
37458115 TATTTAG-GAT--
1 TATTTAGTGATAA
37458125 TATTTAGTGATAA
1 TATTTAGTGATAA
37458138 TATTTAG
1 TATTTAG
37458145 GAAAAATCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 14 0.31
11 5 0.11
12 5 0.11
13 21 0.47
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:37458145 original size:23 final size:23
Alignment explanation
Indices: 37458077--37458146 Score: 131
Period size: 23 Copynumber: 3.0 Consensus size: 23
37458067 CAAATTTTGT
*
37458077 ATTATTTAGTGATAATATTTAGA
1 ATTATTTAGTGATAATATTTAGG
37458100 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
37458123 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
37458146 A
1 A
37458147 AAAATCTAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:37459053 original size:5 final size:5
Alignment explanation
Indices: 37459043--37459069 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37459033 TTGAATTTGT
37459043 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
37459070 ACACTTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:37462541 original size:4 final size:4
Alignment explanation
Indices: 37462532--37462556 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37462522 AGTACTCGTT
37462532 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
37462557 TTGCTAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:37463543 original size:23 final size:23
Alignment explanation
Indices: 37463517--37463568 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
37463507 TTATTTTTAA
*
37463517 ATTTTGAATTATTTAGTGATAAC
1 ATTTAGAATTATTTAGTGATAAC
* *
37463540 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAC
37463563 ATTTAG
1 ATTTAG
37463569 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAC
Found at i:37463545 original size:13 final size:13
Alignment explanation
Indices: 37463526--37463568 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
37463516 AATTTTGAAT
37463526 TATTTAGTGATAA
1 TATTTAGTGATAA
*
37463539 CATTTAG-GAT--
1 TATTTAGTGATAA
37463549 TATTTAGTGATAA
1 TATTTAGTGATAA
37463562 TATTTAG
1 TATTTAG
37463569 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:37463569 original size:23 final size:23
Alignment explanation
Indices: 37463524--37463570 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
37463514 TAAATTTTGA
37463524 ATTATTTAGTGATAACATTTAGG
1 ATTATTTAGTGATAACATTTAGG
*
37463547 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAACATTTAGG
37463570 A
1 A
37463571 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (23 bp):
ATTATTTAGTGATAACATTTAGG
Found at i:37465092 original size:20 final size:20
Alignment explanation
Indices: 37465067--37465120 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
37465057 TGAACCCTTC
*
37465067 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCAGTG
*
37465087 CATTTACTTACTTTTCAGTG
1 CATTTACTTACTTTCCAGTG
37465107 CATTTACTTACTTT
1 CATTTACTTACTTT
37465121 AGCTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (20 bp):
CATTTACTTACTTTCCAGTG
Done.