Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 129 of 172
Found at i:36919673 original size:25 final size:24
Alignment explanation
Indices: 36919627--36919717 Score: 56
Period size: 25 Copynumber: 3.7 Consensus size: 24
36919617 ATGGCTCTCT
* * **
36919627 TGAACTTCCCAATTTATGGCTCATA
1 TGAACTTCCCGATATACAGCTCA-A
*
36919652 TGAACTTCCCGATATACAGCTCGAG
1 TGAACTTCCCGATATACAGCTC-AA
* * *
36919677 TGAGCTTCCCGTTATACAACTCACA
1 TGAACTTCCCGATATACAGCTCA-A
* * *
36919702 CGAGCTTCCCGTTATA
1 TGAACTTCCCGATATA
36919718 TGGCTTAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (24 bp):
TGAACTTCCCGATATACAGCTCAA
Found at i:36921617 original size:27 final size:27
Alignment explanation
Indices: 36921587--36921640 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
36921577 ACTTTTTATA
*
36921587 TTTTATATTTTAATTTTTAAATTATTT
1 TTTTATATTTTAATTTTCAAATTATTT
* *
36921614 TTTTATTTTTTTATTTTCAAATTATTT
1 TTTTATATTTTAATTTTCAAATTATTT
36921641 GTTGACTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTATATTTTAATTTTCAAATTATTT
Found at i:36922731 original size:18 final size:18
Alignment explanation
Indices: 36922705--36922740 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36922695 GATATTTTTA
*
36922705 TTTTCATTTAATTGAATT
1 TTTTAATTTAATTGAATT
*
36922723 TTTTAATTTAATTTAATT
1 TTTTAATTTAATTGAATT
36922741 AAAATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTAATTTAATTGAATT
Found at i:36929391 original size:15 final size:16
Alignment explanation
Indices: 36929361--36929392 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36929351 TTATATTATA
36929361 AAAATATTATTAAATT
1 AAAATATTATTAAATT
36929377 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
36929392 A
1 A
36929393 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:36929396 original size:25 final size:26
Alignment explanation
Indices: 36929353--36929405 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
36929343 TTCTTGATTT
36929353 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
36929380 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
36929404 AT
1 AT
36929406 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:36929413 original size:25 final size:22
Alignment explanation
Indices: 36929363--36929420 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
36929353 ATATTATAAA
**
36929363 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
36929387 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
36929412 AATATATTA
1 AATATATTA
36929421 TAAGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:36929420 original size:28 final size:27
Alignment explanation
Indices: 36929364--36929422 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
36929354 TATTATAAAA
36929364 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
36929392 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
36929420 ATA
1 ATA
36929423 AGAAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:36929645 original size:19 final size:19
Alignment explanation
Indices: 36929621--36929661 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36929611 ATGAAATAAA
36929621 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAA-AGAAAC
*
36929640 AGAATAGCTAAAAAGAAAC
1 AGAATAGCAAAAAAGAAAC
36929659 AGA
1 AGA
36929662 GAACAGACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.66, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAAGAAAC
Found at i:36932713 original size:39 final size:39
Alignment explanation
Indices: 36932659--36932736 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
36932649 TGATTAGCTC
36932659 ATCCCTTATTGGAATGCTTCCATGGCATATCATCCAAAG
1 ATCCCTTATTGGAATGCTTCCATGGCATATCATCCAAAG
36932698 ATCCCTTATTGGAATGCTTCCATGGCATATCATCCAAAG
1 ATCCCTTATTGGAATGCTTCCATGGCATATCATCCAAAG
36932737 GAACACAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (39 bp):
ATCCCTTATTGGAATGCTTCCATGGCATATCATCCAAAG
Found at i:36938246 original size:34 final size:34
Alignment explanation
Indices: 36938123--36938246 Score: 146
Period size: 34 Copynumber: 3.7 Consensus size: 34
36938113 TTAAAAATTT
* ***
36938123 TAAA-AAA-TAAATTAGGGTTTA-GAGTTTTTTT
1 TAAATAAATTAAATTAGGGTTTATGGGTTTTAAA
* * *
36938154 TAAAATTAATTAAATTAGGTTTTAAGGGTTTTAAA
1 T-AAATAAATTAAATTAGGGTTTATGGGTTTTAAA
*
36938189 TAAATTAATTAAATTAGGGTTTATGGGTTTTAAA
1 TAAATAAATTAAATTAGGGTTTATGGGTTTTAAA
36938223 TAAATAAATTAAATTAGGGTTTAT
1 TAAATAAATTAAATTAGGGTTTAT
36938247 TTTAAAAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.01
32 3 0.04
33 2 0.03
34 67 0.84
35 7 0.09
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
TAAATAAATTAAATTAGGGTTTATGGGTTTTAAA
Found at i:36938569 original size:125 final size:127
Alignment explanation
Indices: 36938367--36938614 Score: 306
Period size: 125 Copynumber: 2.0 Consensus size: 127
36938357 GTAGTTTTAG
* ** * * * *
36938367 AAAAATTAATTTTGAGAAGACGGTTCTGAAAAGCTAATGTTAAAAACGCTTCAAATAGGATGCAT
1 AAAAATTAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAAACACTTCAAACAAGATGCAT
*
36938432 AATCAGCAAAATTACTG-AAAAA-TCTCCCACGTGGCCGCTCTTTTTCTACAGTAGTTCCTGT
66 AATCAGCAAAATTACTGAAAAAAGT-TCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGT
* * *
36938493 AAAAA-TAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAAACATTTCAAGCAAGATGCAC
1 AAAAATTAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAAACACTTCAAACAAGATGCA-
* * ** *
36938557 T-GTTAGCAAAATTACTGAAAAAAGTTCTTACGTGGATGCTCTTTTTCTACAGTAGTTC
65 TAATCAGCAAAATTACTGAAAAAAGTTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
36938615 TAGCTTGGCC
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
125 62 0.60
126 40 0.39
127 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (127 bp):
AAAAATTAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAAACACTTCAAACAAGATGCAT
AATCAGCAAAATTACTGAAAAAAGTTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGT
Found at i:36941968 original size:24 final size:24
Alignment explanation
Indices: 36941918--36941968 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
36941908 AATAGAGAAT
* * *
36941918 GCGGAGGTGTTTGCATCACCCATG
1 GCGGAGGTGTTTGAATCACACAAG
* *
36941942 GCGGAGGTGTTTGAATCTCATAAG
1 GCGGAGGTGTTTGAATCACACAAG
36941966 GCG
1 GCG
36941969 ATGGGGATTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (24 bp):
GCGGAGGTGTTTGAATCACACAAG
Found at i:36942146 original size:18 final size:18
Alignment explanation
Indices: 36942123--36942161 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
36942113 GAAAAATGAA
*
36942123 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
36942141 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
36942159 ACA
1 ACA
36942162 CACCTGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:36943716 original size:9 final size:9
Alignment explanation
Indices: 36943702--36943729 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
36943692 ATTATATGTA
36943702 TATAATTAT
1 TATAATTAT
36943711 TATAATTAT
1 TATAATTAT
36943720 TATAATTAT
1 TATAATTAT
36943729 T
1 T
36943730 TATTCAAATG
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATAATTAT
Found at i:36948300 original size:25 final size:24
Alignment explanation
Indices: 36948263--36948314 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
36948253 GCTATTATAA
* *
36948263 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAATAAATT
*
36948287 AAAATTACATAAATGAAAATAAATT
1 AAAATTACA-AAATAAAAATAAATT
36948312 AAA
1 AAA
36948315 TAATATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAATAAATT
Found at i:36948332 original size:29 final size:29
Alignment explanation
Indices: 36948278--36948333 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
36948268 TATAAAATAA
* *
36948278 AAATTAATTAAAATTACATAAATGAAAAT
1 AAATTAAATAAAATTACAAAAATGAAAAT
*
36948307 AAATTAAATAATATT-CAAAAATTGAAA
1 AAATTAAATAAAATTACAAAAA-TGAAA
36948334 TTAACCCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATTAAATAAAATTACAAAAATGAAAAT
Found at i:36951462 original size:18 final size:19
Alignment explanation
Indices: 36951439--36951474 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36951429 TAAAATTGGT
36951439 ATTTTAT-AATTTAATTTA
1 ATTTTATCAATTTAATTTA
*
36951457 ATTTTATCATTTTAATTT
1 ATTTTATCAATTTAATTT
36951475 TTTTGTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTATCAATTTAATTTA
Found at i:36952604 original size:22 final size:21
Alignment explanation
Indices: 36952561--36952608 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
36952551 TTAGGGTTTT
36952561 ATAATTTTATAAAAATATTTA
1 ATAATTTTATAAAAATATTTA
* *
36952582 ACTAATTTT-TAGAATTATATTA
1 A-TAATTTTATAAAAATAT-TTA
36952604 ATAAT
1 ATAAT
36952609 AAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTTTATAAAAATATTTA
Found at i:36960656 original size:18 final size:17
Alignment explanation
Indices: 36960623--36960661 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36960613 TTGTATAAAT
36960623 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
36960641 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
36960658 TGTG
1 TGTG
36960662 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:36960918 original size:23 final size:23
Alignment explanation
Indices: 36960887--36960984 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
36960877 AGTGTTATTG
36960887 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
36960910 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
36960933 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
36960955 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
36960978 ATCAGTG
1 ATCAGTG
36960985 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:36960953 original size:45 final size:45
Alignment explanation
Indices: 36960889--36960977 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
36960879 TGTTATTGAT
* *
36960889 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
36960934 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
36960978 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:36963620 original size:125 final size:121
Alignment explanation
Indices: 36963393--36963622 Score: 336
Period size: 125 Copynumber: 1.9 Consensus size: 121
36963383 AATTAATCTT
* * *
36963393 CGGTGAGGAAAATCTCGAACACACAAACGGAACTTGAACAGAAAAAAATAGGACAAGGCTCCAAG
1 CGGTAAGGAAAATCTCGAACACACAAACGGAACTCGAAAAGAAAAAAATAGGACAAGGCTCCAAG
*
36963458 GCGTGTATCAAGCCACTATCTTTAAGGTTATAATCGCCCCTGTTAGTACAAAACTC
66 GCGTGTATCAAGCCACTATCTTTAAAGTTATAATCGCCCCTGTTAGTACAAAACTC
* * *
36963514 CGGTAAGGAAAATCTCGAACACACGATCGGAACTCGAAAAGAAAAAGAAGAAATATGAC-AGGCT
1 CGGTAAGGAAAATCTCGAACACACAAACGGAACTCGAAAAG---AA-AA-AAATAGGACAAGGCT
*
36963578 CCAAGGCGTGTATCAAGCCACTATCTTTAAAGTTATATTCGCCCC
61 CCAAGGCGTGTATCAAGCCACTATCTTTAAAGTTATAATCGCCCC
36963623 CACTTATCTT
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
121 36 0.38
124 2 0.02
125 50 0.52
126 8 0.08
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (121 bp):
CGGTAAGGAAAATCTCGAACACACAAACGGAACTCGAAAAGAAAAAAATAGGACAAGGCTCCAAG
GCGTGTATCAAGCCACTATCTTTAAAGTTATAATCGCCCCTGTTAGTACAAAACTC
Found at i:36973041 original size:82 final size:81
Alignment explanation
Indices: 36972917--36973072 Score: 185
Period size: 82 Copynumber: 1.9 Consensus size: 81
36972907 AAAAAATTCA
* * * * *
36972917 ATTCAATCCTCTTATAAATAGAGAGTATAAATTAATATATAGTGAAATTGA-ACTTT-GCTCCCC
1 ATTCAATACTCTTATAAATAGAAAGTATAAATTAATACATAGTAAAATT-ACACTTTAACT-CCC
36972980 TCAAAATGAAAAGTTTTCT
64 T-AAAATGAAAAGTTTTCT
*
36972999 ATTCAATACTCTTATAAATAAAGAAATTATAAATT-A-ACATAGTAAAATTACACTTTAACTCCC
1 ATTCAATACTCTTATAAAT--AGAAAGTATAAATTAATACATAGTAAAATTACACTTTAACTCCC
36973062 TAAAATGAAAA
64 TAAAATGAAAA
36973073 AAAAAGTATG
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
81 11 0.17
82 38 0.59
83 3 0.05
84 12 0.19
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (81 bp):
ATTCAATACTCTTATAAATAGAAAGTATAAATTAATACATAGTAAAATTACACTTTAACTCCCTA
AAATGAAAAGTTTTCT
Found at i:36973118 original size:23 final size:23
Alignment explanation
Indices: 36973092--36973135 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
36973082 GTTTAGTACC
36973092 TTAAAAAATAATGAAA-TTATAAA
1 TTAAAAAATAAT-AAACTTATAAA
* *
36973115 TTAATACATAATAAACTTATA
1 TTAAAAAATAATAAACTTATA
36973136 TTTTGATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
TTAAAAAATAATAAACTTATAAA
Found at i:36973730 original size:24 final size:24
Alignment explanation
Indices: 36973698--36973743 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36973688 TGGAATGGAT
* *
36973698 TTTACTTTTTAATTTTTTTTACAA
1 TTTACTTTTAAATATTTTTTACAA
*
36973722 TTTATTTTTAAATATTTTTTAC
1 TTTACTTTTAAATATTTTTTAC
36973744 TAATAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTACTTTTAAATATTTTTTACAA
Found at i:36973837 original size:28 final size:29
Alignment explanation
Indices: 36973801--36973859 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 29
36973791 TTTATTCTAA
36973801 TTTTGATTC-ATTAT-ATTCATATGGATTT
1 TTTTGATTCAATTATAATT-ATATGGATTT
*
36973829 TTTTTATTCTAATTATACATTATATGGATTT
1 TTTTGATTC-AATTATA-ATTATATGGATTT
36973860 CATTCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 8 0.31
30 5 0.19
31 10 0.38
32 3 0.12
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTTGATTCAATTATAATTATATGGATTT
Found at i:36981468 original size:15 final size:15
Alignment explanation
Indices: 36981444--36981476 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36981434 TTTAGGTAAA
36981444 ATAAAGATAAAAAAT
1 ATAAAGATAAAAAAT
*
36981459 ATAAATATAAAAAAT
1 ATAAAGATAAAAAAT
36981474 ATA
1 ATA
36981477 TTCTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAAGATAAAAAAT
Found at i:36989404 original size:139 final size:139
Alignment explanation
Indices: 36989154--36989434 Score: 427
Period size: 139 Copynumber: 2.0 Consensus size: 139
36989144 CCCAAAATTT
* * * * * * *
36989154 CTTCCATCGTTCTGACATTTATTCACCCCTTTTCTGTCGAATTTTTATTGTTTCCTCCCTTTTTT
1 CTTCCATCATTCTGACATTTATTCACCCCTTGTCTGCCGAATTTTCATCGGTTCCTCCCTCTTTT
* *
36989219 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGATTAAACTCGCTCAATTCGGTAAGTATTC
66 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGACTAAACTCGCTCAATTCGATAAGTATTC
36989284 ATTTTGCCA
131 ATTTTGCCA
*
36989293 CTTCCATCATTCTGACGTTTATTCACCCCTTGTCTGCCGAATTTTCATCGGTTCCTCCCTCTTTT
1 CTTCCATCATTCTGACATTTATTCACCCCTTGTCTGCCGAATTTTCATCGGTTCCTCCCTCTTTT
* * * *
36989358 CTTTTGATTTCTTTTATGCCTCCATTGTGGTCGACGACTGAACTCGCTCGATTCGATAAGTATTC
66 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGACTAAACTCGCTCAATTCGATAAGTATTC
*
36989423 ATTTTGTCA
131 ATTTTGCCA
36989432 CTT
1 CTT
36989435 TCTCTCATTC
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
139 127 1.00
ACGTcount: A:0.16, C:0.27, G:0.13, T:0.44
Consensus pattern (139 bp):
CTTCCATCATTCTGACATTTATTCACCCCTTGTCTGCCGAATTTTCATCGGTTCCTCCCTCTTTT
CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGACTAAACTCGCTCAATTCGATAAGTATTC
ATTTTGCCA
Found at i:37004780 original size:20 final size:20
Alignment explanation
Indices: 37004757--37004799 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
37004747 AGAAAAAATT
37004757 GATTCAAAAAATTAGCAATC
1 GATTCAAAAAATTAGCAATC
* *
37004777 GATTCAAAATATTATCAATC
1 GATTCAAAAAATTAGCAATC
37004797 GAT
1 GAT
37004800 ACGAACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (20 bp):
GATTCAAAAAATTAGCAATC
Found at i:37004908 original size:42 final size:42
Alignment explanation
Indices: 37004849--37004970 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
37004839 ATTTTTGAAC
* *
37004849 ATTAGCTTGCTCACAAACGTGTAGCAAGGAAACATGAAAAAT
1 ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAAAAAT
* *
37004891 ATTAGCTTGCTAACAAACGTGCAACAAAGG-AGCATGAAAAAT
1 ATTAGCTTGCTCACAAACGTGCAGC-AAGGAAGCATGAAAAAT
* *
37004933 ATCAGCTTACTCACAAACGTGCAGCAAGGAAGCATGAA
1 ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAA
37004971 TCAATCTGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.06
42 62 0.89
43 4 0.06
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (42 bp):
ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAAAAAT
Found at i:37013707 original size:18 final size:17
Alignment explanation
Indices: 37013684--37013722 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
37013674 CATAAATCAT
* *
37013684 AACAAACAAAAATAAGA
1 AACAAAAAAAAAAAAGA
37013701 GAACAAAAAAAAAAAAGA
1 -AACAAAAAAAAAAAAGA
37013719 AACA
1 AACA
37013723 GCACCAGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.79, C:0.10, G:0.08, T:0.03
Consensus pattern (17 bp):
AACAAAAAAAAAAAAGA
Found at i:37014570 original size:26 final size:26
Alignment explanation
Indices: 37014530--37014593 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
37014520 AAGATGATAT
*
37014530 GAAAAATAAAGTTTTTTTATTGA-TTAAA
1 GAAAAAT-AA-TTTTTGTATT-ATTTAAA
37014558 GAAAAATAATTTTTGTATTATTTAAA
1 GAAAAATAATTTTTGTATTATTTAAA
37014584 -ATAAAATAAT
1 GA-AAAATAAT
37014594 GATTATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.06
26 22 0.67
27 2 0.06
28 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
GAAAAATAATTTTTGTATTATTTAAA
Found at i:37052628 original size:44 final size:42
Alignment explanation
Indices: 37052568--37052725 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 42
37052558 ATGTGATTTT
37052568 GTGTAAGACCACGTCTGGGAC-GATGGCATCGATTTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGATTTG-GA-TTAC
* * * *
37052612 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGG-TTAA
1 GTGTAAGACCACGTCTGGGACAGTGGCATCG-ATTTGGATTAC
** * * *
37052654 GTGTAAGACCTTGTCTAGGACAGTGACATC-ATTATTTGATTAC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGA-T-TTGGATTAC
*
37052697 ATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 GTGTAAGACCACGTCTGGGACAG-TGGCAT
37052726 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 32 0.35
43 25 0.27
44 29 0.32
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATTTGGATTAC
Found at i:37056732 original size:62 final size:62
Alignment explanation
Indices: 37056656--37056780 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
37056646 CAATGTACCT
*
37056656 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
* *
37056718 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
37056780 A
1 A
37056781 GTTTGTTCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:37056745 original size:24 final size:24
Alignment explanation
Indices: 37056718--37056794 Score: 61
Period size: 27 Copynumber: 3.2 Consensus size: 24
37056708 TATATAACAA
37056718 AATTTATATTACAAAGTTTGTTCC
1 AATTTATATTACAAAGTTTGTTCC
** * *
37056742 AATTTTTAATATTGTAATGTAT-TT--
1 AA--TTT-ATATTACAAAGTTTGTTCC
*
37056766 AATTTGTATTACAAAGTTTGTTCC
1 AATTTATATTACAAAGTTTGTTCC
37056790 AATTT
1 AATTT
37056795 TAGTGTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
21 9 0.24
22 5 0.13
24 9 0.24
26 5 0.13
27 10 0.26
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
AATTTATATTACAAAGTTTGTTCC
Found at i:37058061 original size:14 final size:14
Alignment explanation
Indices: 37058042--37058075 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
37058032 AAATTACATG
37058042 TTAGAATAGTATCA
1 TTAGAATAGTATCA
37058056 TTAGAATAGTATCA
1 TTAGAATAGTATCA
37058070 TTAGAA
1 TTAGAA
37058076 AAAAAATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:37059764 original size:20 final size:20
Alignment explanation
Indices: 37059739--37059778 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37059729 AATATTTTCC
*
37059739 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
37059759 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
37059779 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:37059784 original size:34 final size:35
Alignment explanation
Indices: 37059727--37059793 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37059717 TAAACACTAG
*
37059727 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37059762 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37059794 TATTTTACTG
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:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37059895 original size:16 final size:16
Alignment explanation
Indices: 37059876--37059919 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
37059866 TAAAATAATA
*
37059876 AAAATAACATACCAAT
1 AAAATAACATAACAAT
* *
37059892 AAAAAAATATAACAAT
1 AAAATAACATAACAAT
*
37059908 AACATAACATAA
1 AAAATAACATAA
37059920 GCAAAACATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAACATAACAAT
Found at i:37059930 original size:27 final size:27
Alignment explanation
Indices: 37059873--37059936 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
37059863 TATTAAAATA
* *
37059873 ATAAAAATAACATACCAATAAAAAAAT
1 ATAAAAATAACATAACAATAAAAAAAC
* *
37059900 ATAACAATAACATAAC-ATAAGCAAAAC
1 ATAAAAATAACATAACAATAA-AAAAAC
37059927 ATAATAAATA
1 ATAA-AAATA
37059937 TGAATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.13
27 22 0.73
28 4 0.13
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (27 bp):
ATAAAAATAACATAACAATAAAAAAAC
Found at i:37060116 original size:20 final size:22
Alignment explanation
Indices: 37060077--37060118 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37060067 AATTTCATTT
*
37060077 ATAATATTTATAAGAACATAAA
1 ATAAAATTTATAAGAACATAAA
37060099 ATAAAATTTA-AA-AACATAAA
1 ATAAAATTTATAAGAACATAAA
37060119 CTCTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAAATTTATAAGAACATAAA
Found at i:37060742 original size:31 final size:31
Alignment explanation
Indices: 37060707--37060765 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
37060697 TTTCTTCTTC
37060707 CCTTCCCTTCCTGCCCTCTCCTTCTCCTCCT
1 CCTTCCCTTCCTGCCCTCTCCTTCTCCTCCT
* * ** *
37060738 CCTTCTCTTCTTTTCTTCTCCTTCTCCT
1 CCTTCCCTTCCTGCCCTCTCCTTCTCCT
37060766 TCTTCTCCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.47
Consensus pattern (31 bp):
CCTTCCCTTCCTGCCCTCTCCTTCTCCTCCT
Found at i:37060776 original size:6 final size:6
Alignment explanation
Indices: 37060651--37060768 Score: 55
Period size: 6 Copynumber: 19.2 Consensus size: 6
37060641 TTTATTTTTT
* * * * * *
37060651 TCCTTC TCTTTC TTCTTC -CCTCTC TCTATTC TCCTTC TCTTTTT TCTTTC
1 TCCTTC TCCTTC TCCTTC TCCT-TC TC-CTTC TCCTTC TC-CTTC TCCTTC
* * *
37060701 TTCTTC -CCTTC -CCTTCC TGCCCTC TCCTTC TCCTCC TCCTTC T-CTTC
1 TCCTTC TCCTTC TCCTT-C T-CCTTC TCCTTC TCCTTC TCCTTC TCCTTC
*
37060748 TTTTCTTC TCCTTC TCCTTC T
1 --TCCTTC TCCTTC TCCTTC T
37060769 TCTCCTTCAC
Statistics
Matches: 85, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
5 14 0.16
6 51 0.60
7 12 0.14
8 8 0.09
ACGTcount: A:0.01, C:0.44, G:0.01, T:0.54
Consensus pattern (6 bp):
TCCTTC
Found at i:37065602 original size:21 final size:21
Alignment explanation
Indices: 37065520--37065611 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 21
37065510 TTTTATAAAA
* *
37065520 TTTAAA-AA-TTTATGAAATC
1 TTTAAATAATTTTATGATATT
* *
37065539 TTTATATAATTTTATGATTTT
1 TTTAAATAATTTTATGATATT
* ***
37065560 TTTGAAA-AATGTTA-GGGGTT
1 TTT-AAATAATTTTATGATATT
37065580 TTTAAATAATTTTATGATA-T
1 TTTAAATAATTTTATGATATT
37065600 TTTAAAGTAATT
1 TTTAAA-TAATT
37065612 ATGAGTTTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
19 8 0.15
20 21 0.39
21 23 0.43
22 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTAAATAATTTTATGATATT
Found at i:37078227 original size:10 final size:10
Alignment explanation
Indices: 37078192--37078228 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
37078182 ATTGATTAAA
37078192 TAAAAATTAT
1 TAAAAATTAT
37078202 TAAAATATTA-
1 TAAAA-ATTAT
37078212 TAAAAATTAT
1 TAAAAATTAT
37078222 TAAAAAT
1 TAAAAAT
37078229 GGTAAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.16
10 17 0.68
11 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:37078252 original size:46 final size:48
Alignment explanation
Indices: 37078200--37078290 Score: 114
Period size: 46 Copynumber: 1.9 Consensus size: 48
37078190 AATAAAAATT
* *
37078200 ATTAAAATATTATAAAAATTAT-TAAAAATGGT-AAATTGTTAAAAAC
1 ATTAAAATATTATAAAAAATATAGAAAAATGGTAAAATTGTTAAAAAC
* * * *
37078246 ATTAAAATTTTGTAAAAAATATAGAAAAATTGTAAAATTTTTAAA
1 ATTAAAATATTATAAAAAATATAGAAAAATGGTAAAATTGTTAAA
37078291 GAACGTAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 19 0.51
47 8 0.22
48 10 0.27
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (48 bp):
ATTAAAATATTATAAAAAATATAGAAAAATGGTAAAATTGTTAAAAAC
Found at i:37080688 original size:16 final size:15
Alignment explanation
Indices: 37080665--37080694 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37080655 ATATATTTAC
37080665 AAAAAAATGATGTTA
1 AAAAAAATGATGTTA
37080680 AAAATAAATGATGTT
1 AAAA-AAATGATGTT
37080695 TTGGTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAAAAATGATGTTA
Found at i:37084925 original size:2 final size:2
Alignment explanation
Indices: 37084920--37084964 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
37084910 GTGTGTGTGT
37084920 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
37084962 GA G
1 GA G
37084965 GCCAAGGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37096300 original size:19 final size:20
Alignment explanation
Indices: 37096276--37096313 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37096266 AAATAAACAT
37096276 TAAAAAA-TTATTTTAAAAA
1 TAAAAAAGTTATTTTAAAAA
37096295 TAAAAAAGTTATTTTAAAA
1 TAAAAAAGTTATTTTAAAA
37096314 GTATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TAAAAAAGTTATTTTAAAAA
Found at i:37097502 original size:16 final size:17
Alignment explanation
Indices: 37097466--37097502 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
37097456 AATTTTATTT
37097466 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
37097483 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
37097498 TAATA
1 TAATA
37097503 TTCTTCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:37098441 original size:21 final size:21
Alignment explanation
Indices: 37098415--37098462 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
37098405 ATATGTGAAG
37098415 TTTCTAGACTAGAAGTCCAAA
1 TTTCTAGACTAGAAGTCCAAA
* *
37098436 TTTCTAGATTAGAAGTCCGAA
1 TTTCTAGACTAGAAGTCCAAA
37098457 TTTCTA
1 TTTCTA
37098463 AATGTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
TTTCTAGACTAGAAGTCCAAA
Found at i:37108799 original size:15 final size:15
Alignment explanation
Indices: 37108781--37108832 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
37108771 ATTTAATATT
*
37108781 AATATATTGATAATA
1 AATATATTAATAATA
*
37108796 AATATCTATTACAATTATA
1 AATA--TATT--AATAATA
37108815 AATATATTAATAATA
1 AATATATTAATAATA
37108830 AAT
1 AAT
37108833 GTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 8 0.27
19 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:37109247 original size:23 final size:27
Alignment explanation
Indices: 37109189--37109249 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 27
37109179 TATAAGGACT
37109189 TATGACATATTTTAACTTAGTATAAAA
1 TATGACATATTTTAACTTAGTATAAAA
37109216 TATGA-ATATTTTAA-TTA-TAT-AAA
1 TATGACATATTTTAACTTAGTATAAAA
37109239 TAT-ACATATTT
1 TATGACATATTT
37109250 GTTTAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 12 0.36
24 3 0.09
25 3 0.09
26 9 0.27
27 5 0.15
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (27 bp):
TATGACATATTTTAACTTAGTATAAAA
Found at i:37110438 original size:24 final size:24
Alignment explanation
Indices: 37110411--37110460 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
37110401 CGTGTTTCTA
37110411 TTGATTTAGGTTAGGCATTTTTTT
1 TTGATTTAGGTTAGGCATTTTTTT
37110435 TTGATTTAGGTTAGGCATTTTTTT
1 TTGATTTAGGTTAGGCATTTTTTT
37110459 TT
1 TT
37110461 ACGGGAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.60
Consensus pattern (24 bp):
TTGATTTAGGTTAGGCATTTTTTT
Found at i:37120178 original size:57 final size:57
Alignment explanation
Indices: 37120090--37120203 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
37120080 TACTATCAAA
37120090 TCTATCATCTTTTCAATGGTGCATAAAAACAGCAGTTGAGATTAAATTTACTTAATC
1 TCTATCATCTTTTCAATGGTGCATAAAAACAGCAGTTGAGATTAAATTTACTTAATC
*
37120147 TCTATCATCTTTTCCATGGTGCATAAAAACAGCAGTTGAGATTAAATTTACTTAATC
1 TCTATCATCTTTTCAATGGTGCATAAAAACAGCAGTTGAGATTAAATTTACTTAATC
37120204 ATTGCTAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (57 bp):
TCTATCATCTTTTCAATGGTGCATAAAAACAGCAGTTGAGATTAAATTTACTTAATC
Found at i:37137205 original size:30 final size:29
Alignment explanation
Indices: 37137156--37137221 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
37137146 ACAGTTGGAT
* *
37137156 CTAAATTTTGAAATCTGAAAAGTA-AAGGGA
1 CTAAATTTTGAAATATG-AAACTACAA-GGA
37137186 CTAAATTTCTGAAA-ATGAAACTACAAGGA
1 CTAAATTT-TGAAATATGAAACTACAAGGA
37137215 CTAAATT
1 CTAAATT
37137222 CCAAATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 15 0.47
30 12 0.38
31 5 0.16
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (29 bp):
CTAAATTTTGAAATATGAAACTACAAGGA
Found at i:37148334 original size:17 final size:16
Alignment explanation
Indices: 37148312--37148365 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
37148302 TGGGTTAATT
37148312 GTTTGGATTTTTTCAAA
1 GTTTGGATTTTTT-AAA
* **
37148329 GTTTGGGTTTTTTTTA
1 GTTTGGATTTTTTAAA
*
37148345 GTTTAGATTTTTTAAA
1 GTTTGGATTTTTTAAA
37148361 GTTTG
1 GTTTG
37148366 AGGTTTTAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.19, C:0.02, G:0.20, T:0.59
Consensus pattern (16 bp):
GTTTGGATTTTTTAAA
Found at i:37148347 original size:16 final size:16
Alignment explanation
Indices: 37148312--37148372 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
37148302 TGGGTTAATT
*
37148312 GTTTGGATTTTTTCAAA
1 GTTTGGGTTTTTT-AAA
**
37148329 GTTTGGGTTTTTTTTA
1 GTTTGGGTTTTTTAAA
* *
37148345 GTTTAGATTTTTTAAA
1 GTTTGGGTTTTTTAAA
37148361 GTTTGAGGTTTT
1 GTTTG-GGTTTT
37148373 AACTTTTTGA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 17 0.50
17 17 0.50
ACGTcount: A:0.18, C:0.02, G:0.21, T:0.59
Consensus pattern (16 bp):
GTTTGGGTTTTTTAAA
Found at i:37148919 original size:25 final size:25
Alignment explanation
Indices: 37148867--37148920 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
37148857 AAATATTTTC
** *
37148867 TAAAATTAAATATTTTAATTAATGA
1 TAAAATTAAATATAATAATTAATAA
*
37148892 TAAAATTAAATATAATAATTACTAA
1 TAAAATTAAATATAATAATTAATAA
37148917 TAAA
1 TAAA
37148921 TGTAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAAATTAAATATAATAATTAATAA
Found at i:37161721 original size:33 final size:33
Alignment explanation
Indices: 37161656--37161721 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
37161646 TGTGCGATTT
** *
37161656 TATACATGAAACTTGAATTGTGGTTCATTTGTG
1 TATACATGAAACTTGAATTGTCATTCAATTGTG
*
37161689 TATACATGAAACTTTG-ATTTTCATTCAATTGTG
1 TATACATGAAAC-TTGAATTGTCATTCAATTGTG
37161722 CACCATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (33 bp):
TATACATGAAACTTGAATTGTCATTCAATTGTG
Found at i:37165164 original size:2 final size:2
Alignment explanation
Indices: 37165157--37165233 Score: 118
Period size: 2 Copynumber: 38.5 Consensus size: 2
37165147 TGTAATTCGG
* * *
37165157 TC TC TC TC CC CC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
37165199 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37165234 GTTTGGATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:37166645 original size:15 final size:15
Alignment explanation
Indices: 37166625--37166690 Score: 123
Period size: 15 Copynumber: 4.4 Consensus size: 15
37166615 TTCTGCCCGG
37166625 CCCAATACCCACAAA
1 CCCAATACCCACAAA
37166640 CCCAATACCCACAAA
1 CCCAATACCCACAAA
*
37166655 CCCAATACCCATAAA
1 CCCAATACCCACAAA
37166670 CCCAATACCCACAAA
1 CCCAATACCCACAAA
37166685 CCCAAT
1 CCCAAT
37166691 TACCATGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.09
Consensus pattern (15 bp):
CCCAATACCCACAAA
Found at i:37166657 original size:8 final size:7
Alignment explanation
Indices: 37166625--37166689 Score: 58
Period size: 8 Copynumber: 8.7 Consensus size: 7
37166615 TTCTGCCCGG
*
37166625 CCCAATA
1 CCCAAAA
37166632 CCCACAAA
1 CCCA-AAA
*
37166640 CCCAATA
1 CCCAAAA
37166647 CCCACAAA
1 CCCA-AAA
*
37166655 CCCAATA
1 CCCAAAA
37166662 CCCATAAA
1 CCCA-AAA
*
37166670 CCCAATA
1 CCCAAAA
37166677 CCCACAAA
1 CCCA-AAA
37166685 CCCAA
1 CCCAA
37166690 TTACCATGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 23 0.49
8 24 0.51
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.08
Consensus pattern (7 bp):
CCCAAAA
Found at i:37167710 original size:3 final size:3
Alignment explanation
Indices: 37167702--37167754 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
37167692 TTAGTCCTAC
* * * *
37167702 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37167750 TAT TA
1 TAT TA
37167755 CCTATTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:37183895 original size:29 final size:29
Alignment explanation
Indices: 37183853--37183909 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
37183843 AGCCTCGTGA
* *
37183853 CAAGTGGTATCTGAGCTGTTGGTTCGAAC
1 CAAGTGATATCTGAGCTATTGGTTCGAAC
*
37183882 CAAGTGATATCTGAGTTATTGGTTCGAA
1 CAAGTGATATCTGAGCTATTGGTTCGAA
37183910 GGCACCGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (29 bp):
CAAGTGATATCTGAGCTATTGGTTCGAAC
Found at i:37203274 original size:50 final size:50
Alignment explanation
Indices: 37203160--37203401 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
37203150 AACATGCAAA
** * *
37203160 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
*
37203211 GCCATGTCCCAGACATGGTCTT-C-TAGGGACCTCTCACTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCA-TCTCGGTGCCAAT
* *
37203261 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* * *
37203311 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG-TGCCAAT
*
37203367 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37203402 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
49 6 0.04
50 83 0.50
51 33 0.20
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:37203341 original size:101 final size:104
Alignment explanation
Indices: 37203160--37203401 Score: 332
Period size: 101 Copynumber: 2.3 Consensus size: 104
37203150 AACATGCAAA
** *
37203160 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATGTCCCAGAC
* *
37203225 ATGGTCTTCTAGGGACCTCTCA-CTC-T-CGG-TGCCAAC
65 ATGGTCTTCTAGGGACCTCTCAGATCTTAAGGATGCCAAC
*
37203261 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTCCCAGACA
* *
37203326 TGGTCTTAC-AGGGGACCTCTCATGATCTTAAGGATGTCAAT
66 TGGTCTT-CTA-GGGACCTCTCA-GATCTTAAGGATGCCAAC
*
37203367 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37203402 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
100 39 0.31
101 42 0.34
103 2 0.02
104 1 0.01
105 2 0.02
106 39 0.31
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (104 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTCCCAGACA
TGGTCTTCTAGGGACCTCTCAGATCTTAAGGATGCCAAC
Found at i:37203518 original size:13 final size:13
Alignment explanation
Indices: 37203497--37203528 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
37203487 GCTTGGATCA
*
37203497 TCATCAAATAAAT
1 TCATAAAATAAAT
37203510 TCATAAAATAAAT
1 TCATAAAATAAAT
37203523 TCATAA
1 TCATAA
37203529 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:37209994 original size:104 final size:104
Alignment explanation
Indices: 37209803--37210069 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
37209793 TTGTATATAA
** *
37209803 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
37209867 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
37209907 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
37209972 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
37210011 AGGGGTTGCTAAGTGCTGATTCCCCAATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
37210070 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
103 30 0.19
104 81 0.53
105 42 0.27
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:37212897 original size:50 final size:50
Alignment explanation
Indices: 37212782--37213030 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
37212772 GATAATAACA
* ** *
37212782 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
37212833 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
37212883 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37212933 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
37212988 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37213031 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 94 0.55
51 33 0.19
53 3 0.02
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37212956 original size:100 final size:104
Alignment explanation
Indices: 37212781--37213030 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
37212771 TGATAATAAC
** *
37212781 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* * *
37212846 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
* *
37212883 -TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
37212947 CCCAGACATGGTCTTACAAGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAAGGGACCTCTCA--ATCTTAAGG
* *
37212988 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37213031 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
Found at i:37213144 original size:13 final size:13
Alignment explanation
Indices: 37213126--37213157 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
37213116 GCTTGGATCA
37213126 TCATAAAATAAAT
1 TCATAAAATAAAT
37213139 TCATAAAATAAAT
1 TCATAAAATAAAT
37213152 TCATAA
1 TCATAA
37213158 TTGCTGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:37236058 original size:31 final size:31
Alignment explanation
Indices: 37236023--37236083 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
37236013 ATTAAAATTA
* * *
37236023 AGAAAAATTGTTAATTTTTAGGATTAATGTG
1 AGAAAAATTGTTAAGTTTAAAGATTAATGTG
*
37236054 AGAAAAGTTGTTAAGTTTAAAGATTAATGT
1 AGAAAAATTGTTAAGTTTAAAGATTAATGT
37236084 AGATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (31 bp):
AGAAAAATTGTTAAGTTTAAAGATTAATGTG
Found at i:37247358 original size:2 final size:2
Alignment explanation
Indices: 37247351--37247385 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37247341 AATGAAAATC
37247351 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37247386 TTGGGAGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37264228 original size:18 final size:18
Alignment explanation
Indices: 37264182--37264230 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
37264172 ATAATATTAT
* **
37264182 ATTAATAATATATTTTTA
1 ATTAATAAAATATTTAAA
*
37264200 TTTAA-AAAATATTTAAA
1 ATTAATAAAATATTTAAA
37264217 ATTAATAAAATATT
1 ATTAATAAAATATT
37264231 ATATTTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATAAAATATTTAAA
Found at i:37267100 original size:88 final size:89
Alignment explanation
Indices: 37267001--37267202 Score: 248
Period size: 87 Copynumber: 2.3 Consensus size: 89
37266991 CAATATTTTT
* * * * * *
37267001 AAAAAGTAATTAAGCTCATGCTTTTTTTTTGCACTCATTTGAGCATTTGAACTTTTAAAATTCAT
1 AAAAAGCAATTAAGCCCATGCTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
37267066 CAAAAAGT-CCCTCAAA-CTTTAAA
66 CAAAAA-TACCCTCAAATCTTTAAA
* * * *
37267089 AAAAAGCAATTAAGCCCCTAC-TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCAT
1 AAAAAGCAATTAAGCCCATGCTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
* **
37267153 CAAAAATACCCTCAAATTTTTTCGA
66 CAAAAATACCCTCAAA-TCTTTAAA
37267178 AAAAAGCAATTAAGCCCATGCTTTT
1 AAAAAGCAATTAAGCCCATGCTTTT
37267203 ATTAAAAATT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
86 1 0.01
87 51 0.54
88 17 0.18
89 23 0.24
90 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (89 bp):
AAAAAGCAATTAAGCCCATGCTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
CAAAAATACCCTCAAATCTTTAAA
Found at i:37267322 original size:19 final size:18
Alignment explanation
Indices: 37267298--37267359 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
37267288 AAAATTTTAT
37267298 TAAAAATTAGAAAAAAATA
1 TAAAAATT-GAAAAAAATA
* *
37267317 TAAAAATCGTAAAAAATA
1 TAAAAATTGAAAAAAATA
37267335 TAAAAACTTGTAAAAAAATA
1 TAAAAA-TTG-AAAAAAATA
37267355 TAAAA
1 TAAAA
37267360 TATTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 15 0.41
19 9 0.24
20 13 0.35
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATTGAAAAAAATA
Found at i:37267322 original size:20 final size:19
Alignment explanation
Indices: 37267299--37267359 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
37267289 AAATTTTATT
37267299 AAAAATTAGAAAAAAATAT-
1 AAAAATT-GAAAAAAATATA
* *
37267318 AAAAATCGTAAAAAATATA
1 AAAAATTGAAAAAAATATA
*
37267337 AAAACTTGTAAAAAAATATA
1 AAAAATTG-AAAAAAATATA
37267357 AAA
1 AAA
37267360 TATTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 10 0.29
19 12 0.34
20 13 0.37
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAATTGAAAAAAATATA
Found at i:37267367 original size:19 final size:18
Alignment explanation
Indices: 37267298--37267388 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 18
37267288 AAAATTTTAT
*
37267298 TAAAAATTAGAAAAAAATA
1 TAAAAATT-TAAAAAAATA
*
37267317 TAAAAATCGT-AAAAAATA
1 TAAAAAT-TTAAAAAAATA
37267335 TAAAAACTTGTAAAAAAATA
1 TAAAAA-TT-TAAAAAAATA
*
37267355 TAAAATATTT-AAAATATA
1 TAAAA-ATTTAAAAAAATA
37267373 TAGAAATATTTAAAAA
1 TA-AAA-ATTTAAAAA
37267389 TTATATTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
18 23 0.38
19 18 0.30
20 19 0.31
21 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
TAAAAATTTAAAAAAATA
Found at i:37267368 original size:18 final size:17
Alignment explanation
Indices: 37267309--37267393 Score: 80
Period size: 18 Copynumber: 4.6 Consensus size: 17
37267299 AAAAATTAGA
*
37267309 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAAT-TT
37267327 AAAAAATATAAAAACTTGT
1 AAAAAATATAAAAA-TT-T
37267346 AAAAAAATATAAAATATTT
1 -AAAAAATATAAAA-ATTT
*
37267365 AAAATATATAGAAATATTT
1 AAAAAATATA-AAA-ATTT
*
37267384 AAAAATTATA
1 AAAAAATATA
37267394 TTTTTTATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
18 23 0.40
19 19 0.33
20 15 0.26
21 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (17 bp):
AAAAAATATAAAAATTT
Found at i:37267393 original size:19 final size:18
Alignment explanation
Indices: 37267347--37267393 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
37267337 AAAACTTGTA
*
37267347 AAAAAATATAAAATATTT
1 AAAAATTATAAAATATTT
37267365 -AAAATATATAGAAATATTT
1 AAAAAT-TATA-AAATATTT
37267384 AAAAATTATA
1 AAAAATTATA
37267394 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.16
18 4 0.16
19 12 0.48
20 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATTATAAAATATTT
Found at i:37267462 original size:20 final size:19
Alignment explanation
Indices: 37267413--37267463 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
37267403 AAGTCATAAG
37267413 AAAATTATACAAATTGTAAA
1 AAAATTATA-AAATTGTAAA
* *
37267433 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAATT-GTAAA
37267452 AAAATTATAAAA
1 AAAATTATAAAA
37267464 ATTATCGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 9 0.36
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAATTATAAAATTGTAAA
Found at i:37267754 original size:26 final size:27
Alignment explanation
Indices: 37267715--37267769 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
37267705 TTTTTATAAA
*
37267715 AAAATTTGTAATTTTTAA-TAAATTTT
1 AAAATTTGTAATTTTTAATTAAAATTT
37267741 AAAATTT-TATATTTTTAATTAAAATTT
1 AAAATTTGTA-ATTTTTAATTAAAATTT
37267768 AA
1 AA
37267770 TTTTTTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 15 0.58
27 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
AAAATTTGTAATTTTTAATTAAAATTT
Found at i:37267764 original size:20 final size:19
Alignment explanation
Indices: 37267739--37267805 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
37267729 TTAATAAATT
37267739 TTAAAATTTTATATTTTTAA
1 TTAAAATTTTATATTTTT-A
*
37267759 TTAAAA-TTTA-ATTTTTT
1 TTAAAATTTTATATTTTTA
* *
37267776 TCTAAAATTTAATATTTTTT
1 T-TAAAATTTTATATTTTTA
*
37267796 TTATAATTTT
1 TTAAAATTTT
37267806 TAATAAGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 11 0.28
19 14 0.35
20 14 0.35
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTAAAATTTTATATTTTTA
Found at i:37267794 original size:18 final size:19
Alignment explanation
Indices: 37267740--37267794 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
37267730 TAATAAATTT
* *
37267740 TAAAATTTTATATTTTTAAT
1 TAAAATTTAATATTTTT-AC
*
37267760 TAAAATTTAAT-TTTTTTC
1 TAAAATTTAATATTTTTAC
37267778 TAAAATTTAATATTTTT
1 TAAAATTTAATATTTTT
37267795 TTTATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.35
19 10 0.32
20 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAAATTTAATATTTTTAC
Found at i:37269257 original size:22 final size:21
Alignment explanation
Indices: 37269173--37269245 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
37269163 CAAAACAACA
*
37269173 GTTTCTCCCATCGTTCTTGTTG
1 GTTTCTCCC-TCGTTCTTGCTG
*
37269195 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
* *
37269216 GTTTGTCCCTCGTTTTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
37269237 GTTTCTCCC
1 GTTTCTCCC
37269246 CTCTTTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
21 36 0.80
22 9 0.20
ACGTcount: A:0.01, C:0.29, G:0.19, T:0.51
Consensus pattern (21 bp):
GTTTCTCCCTCGTTCTTGCTG
Found at i:37269264 original size:22 final size:22
Alignment explanation
Indices: 37269173--37269257 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 22
37269163 CAAAACAACA
* * *
37269173 GTTTCTCCCATCGTTCTTGTTG
1 GTTTCTCCCCTCGTTTTTGCTG
* *
37269195 GTTTCT-CCCTTGTTCTTGCTG
1 GTTTCTCCCCTCGTTTTTGCTG
*
37269216 GTTTGT-CCCTCGTTTTTGCTG
1 GTTTCTCCCCTCGTTTTTGCTG
*
37269237 GTTTCTCCCCTCTTTTTTGCT
1 GTTTCTCCCCTCGTTTTTGCT
37269258 TTGTTCTTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
21 35 0.65
22 19 0.35
ACGTcount: A:0.01, C:0.28, G:0.18, T:0.53
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTTTTGCTG
Found at i:37271381 original size:30 final size:30
Alignment explanation
Indices: 37271347--37271555 Score: 341
Period size: 30 Copynumber: 6.9 Consensus size: 30
37271337 TACACTGTAT
37271347 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
37271377 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
37271407 TATTGTATTTTAAAAAT-AAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
* *
37271436 TAATGTATTTTAAAAATAAAAAAAAATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
37271466 TAGTGTATTTTAAAAATAAAAAAATATAGG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
37271496 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAA-ATATATG
37271527 TAGTGTATTTTTTAAAAAT-AAAAAATATA
1 TAGTGTA--TTTTAAAAATAAAAAAATATA
37271556 GTTTATATTC
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
29 28 0.17
30 107 0.64
31 18 0.11
32 5 0.03
33 10 0.06
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (30 bp):
TAGTGTATTTTAAAAATAAAAAAATATATG
Found at i:37271444 original size:59 final size:60
Alignment explanation
Indices: 37271347--37271555 Score: 341
Period size: 59 Copynumber: 3.5 Consensus size: 60
37271337 TACACTGTAT
37271347 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATG
* * *
37271407 TATTGTATTTTAAAAAT-AAAAAATATATGTAATGTATTTTAAAAATAAAAAAAAATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATG
*
37271466 TAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAA-ATATATG
37271527 TAGTGTATTTTTTAAAAAT-AAAAAATATA
1 TAGTGTA--TTTTAAAAATAAAAAAATATA
37271556 GTTTATATTC
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
59 56 0.41
60 49 0.36
61 13 0.09
62 10 0.07
63 10 0.07
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (60 bp):
TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATG
Found at i:37271503 original size:89 final size:91
Alignment explanation
Indices: 37271350--37271551 Score: 336
Period size: 89 Copynumber: 2.2 Consensus size: 91
37271340 ACTGTATTAG
* * *
37271350 TGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTATTGTAT
1 TGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTAT
37271415 TTTAAAAAT-AAAAA-ATATATGTAA
66 TTTAAAAATAAAAAATATATATGTAA
37271439 TGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTAT
1 TGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTAT
*
37271504 TTTAAAAATAAAAAATATATATGTAG
66 TTTAAAAATAAAAAATATATATGTAA
37271530 TGTATTTTTTAAAAATAAAAAA
1 TGTA--TTTTAAAAATAAAAAA
37271552 TATAGTTTAT
Statistics
Matches: 105, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
89 71 0.68
90 5 0.05
91 13 0.12
93 16 0.15
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (91 bp):
TGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTAT
TTTAAAAATAAAAAATATATATGTAA
Found at i:37271920 original size:39 final size:39
Alignment explanation
Indices: 37271877--37271957 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
37271867 ACTAAAGTGA
*
37271877 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAAAAGTTCAAGTAAAGCTTTAAAGATGAAC
* *
37271916 AAAGAAAACAAAAGTTTAAGTAAAGCTTTAAATATGAAC
1 AAAGAAAACAAAAGTTCAAGTAAAGCTTTAAAGATGAAC
37271955 AAA
1 AAA
37271958 TCGATTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.21
Consensus pattern (39 bp):
AAAGAAAACAAAAGTTCAAGTAAAGCTTTAAAGATGAAC
Found at i:37278586 original size:13 final size:14
Alignment explanation
Indices: 37278570--37278598 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37278560 AATTTTTTTT
37278570 TTAT-TTTTTAATA
1 TTATGTTTTTAATA
37278583 TTATGTTTTTAATA
1 TTATGTTTTTAATA
37278597 TT
1 TT
37278599 GAGAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATGTTTTTAATA
Found at i:37281769 original size:11 final size:11
Alignment explanation
Indices: 37281753--37281781 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37281743 GTGTGGGTTG
37281753 GATATATGATT
1 GATATATGATT
37281764 GATATATGATT
1 GATATATGATT
37281775 GA-ATATG
1 GATATATG
37281782 CCTTGTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (11 bp):
GATATATGATT
Found at i:37286093 original size:3 final size:3
Alignment explanation
Indices: 37286085--37286111 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37286075 AAGCTGCTAT
37286085 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
37286112 CACTTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37290657 original size:6 final size:6
Alignment explanation
Indices: 37290646--37290672 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37290636 TTTTAGGTGC
37290646 TTGGGG TTGGGG TTGGGG TTGGGG TTG
1 TTGGGG TTGGGG TTGGGG TTGGGG TTG
37290673 TTAATAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (6 bp):
TTGGGG
Found at i:37293649 original size:16 final size:15
Alignment explanation
Indices: 37293623--37293652 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37293613 TACGTATGTG
37293623 TATATGTATATAAAT
1 TATATGTATATAAAT
37293638 TATATAGTATATAAA
1 TATAT-GTATATAAA
37293653 AATGTAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
TATATGTATATAAAT
Found at i:37294579 original size:22 final size:22
Alignment explanation
Indices: 37294537--37294578 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
37294527 TGAAACAAAC
*
37294537 AAAAATAAAATAAAATAAAAAG
1 AAAAATAAAAGAAAATAAAAAG
37294559 AAAAAT-AAAGAAAATAAAAA
1 AAAAATAAAAGAAAATAAAAA
37294579 ACGCAAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAAAAAG
Found at i:37297785 original size:29 final size:29
Alignment explanation
Indices: 37297752--37297809 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
37297742 AAATTTAATG
*
37297752 TGCAATGTCATTCATG-AATTTTAACTTTA
1 TGCAATGTCATACATGAAATTTTAA-TTTA
* *
37297781 TGCAATTTTATACATGAAATTTTAATTTA
1 TGCAATGTCATACATGAAATTTTAATTTA
37297810 ATTTAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (29 bp):
TGCAATGTCATACATGAAATTTTAATTTA
Found at i:37303928 original size:18 final size:19
Alignment explanation
Indices: 37303905--37303947 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
37303895 TTTTACACAT
37303905 TATTT-ATTT-TTATATATA
1 TATTTAATTTATTAT-TATA
37303923 TATTTAAATTTATTATTATA
1 TATTT-AATTTATTATTATA
37303943 TATTT
1 TATTT
37303948 TGGAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTAATTTATTATTATA
Found at i:37303942 original size:20 final size:20
Alignment explanation
Indices: 37303910--37303979 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
37303900 CACATTATTT
37303910 ATTTTTATATATATATTTAA
1 ATTTTTATATATATATTTAA
37303930 ATTTATTAT-TATATATTTTGGAA
1 ATTT-TTATATATATA-TTT--AA
* * *
37303953 ATATTTATGTATTTATTTAA
1 ATTTTTATATATATATTTAA
*
37303973 TTTTTTA
1 ATTTTTA
37303980 AAAATTAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 17 0.41
21 7 0.17
22 7 0.17
23 10 0.24
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTTTATATATATATTTAA
Found at i:37308564 original size:37 final size:39
Alignment explanation
Indices: 37308490--37308573 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
37308480 TTACATCCTT
*
37308490 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
37308529 TTGTTGAAACCTTAGT-TCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
37308566 TTGCTGAA
1 TTGTTGAA
37308574 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 2 0.05
39 16 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:37309043 original size:18 final size:18
Alignment explanation
Indices: 37309016--37309066 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
37309006 AATTGTTCCA
*
37309016 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAGACT
*
37309034 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAGACT
* *
37309052 GATTTTTTGGGATAG
1 GATTTCTAGGGATAG
37309067 GATCCTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.37
Consensus pattern (18 bp):
GATTTCTAGGGATAGACT
Found at i:37313901 original size:16 final size:16
Alignment explanation
Indices: 37313848--37313901 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
37313838 GTTTTTATTT
*
37313848 ATTAATGTATAAACTA
1 ATTAATTTATAAACTA
* *
37313864 ATTACTTCTATCAAA-GA
1 ATTAATT-TAT-AAACTA
37313881 ATTAATTTATAAACTA
1 ATTAATTTATAAACTA
37313897 ATTAA
1 ATTAA
37313902 GTCTACTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 10 0.33
18 3 0.10
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTAATTTATAAACTA
Found at i:37317620 original size:348 final size:350
Alignment explanation
Indices: 37316968--37317648 Score: 1231
Period size: 348 Copynumber: 2.0 Consensus size: 350
37316958 AGTCACCATT
*
37316968 AGCATGATTGGTGATACAAAAAGGAGCACTCTGTACTAGATTTGGTTGTGCACCCTCCTTACTAA
1 AGCATGATTGGCGATACAAAAAGGAGCACTCTGTACTAGATTTGGTTGTGCACCCTCCTTACTAA
37317033 CACCAACAAATGAAAATTCATATTCAAAGAACACAACATCTCTCGATACAAAATACTTTCCTATA
66 CACCAACAAATGAAAATTCATATTCAAAGAACACAACATCTCTCGATACAAAATACTTTCCTATA
37317098 TCAAGATCATAAACTTTCCACCTTTTTTTTTCCCAAAAGGATATCCTACAAACATACAACGTTGA
131 TCAAGATCATAAACTTTCCACCTTTTTTTTTCCCAAAAGGATATCCTACAAACATACAACGTTGA
* *
37317163 CTTATGCTAGCAAACTTGTCTTTCTCCTTATTCAAGTTCTGACCATAACCAAGGCATCCGAAAGT
196 CTTATGCTAGCAAACTTGTCTTTCTCCTTATTCAAGTTCTGACCATAACAAAGGCATCCAAAAGT
37317228 TCGAATATGATTATAACTAGAAGGTTTACCAAACAAGATCTCATTAGGAGTCTTTCCTTCCAATA
261 TCGAATATGATTATAACTAGAAGGTTTACCAAACAAGATCTCATTAGGAGTCTTTCCTTCCAATA
37317293 GTTTAGAATCTAATAGTTTAGAAGG
326 GTTTAGAATCTAATAGTTTAGAAGG
* * * *
37317318 AGCATGGTTGGCGATACAAAAATGAGCACTTTGTACTAGATTTGGTTGTGCACCCTTCTTACTAA
1 AGCATGATTGGCGATACAAAAAGGAGCACTCTGTACTAGATTTGGTTGTGCACCCTCCTTACTAA
* *
37317383 CATCAAGAAATGAAAATTCATATTCAAAGAACACAACATCTCTCGATACAAAATACTTTCCTATA
66 CACCAACAAATGAAAATTCATATTCAAAGAACACAACATCTCTCGATACAAAATACTTTCCTATA
37317448 TCAAGATCATAAACTTTCCACC-TTTTTTTT-CCAAAAGGATATCCTACAAACATACAACGTTGA
131 TCAAGATCATAAACTTTCCACCTTTTTTTTTCCCAAAAGGATATCCTACAAACATACAACGTTGA
*
37317511 CTTATGCTAGCAAACTTGTCTTTCTCCTTATTCAAGTTCTGGCCATAACAAAGGCATCCAAAAGT
196 CTTATGCTAGCAAACTTGTCTTTCTCCTTATTCAAGTTCTGACCATAACAAAGGCATCCAAAAGT
* * *
37317576 TTGAATATGATTATAACTAGAAGGTTTACCAAACAAGATCTCATTAGGAGTCTTTTCTTCTAATA
261 TCGAATATGATTATAACTAGAAGGTTTACCAAACAAGATCTCATTAGGAGTCTTTCCTTCCAATA
37317641 GTTTAGAA
326 GTTTAGAA
37317649 GGTGTCCGAT
Statistics
Matches: 318, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
348 165 0.52
349 8 0.03
350 145 0.46
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (350 bp):
AGCATGATTGGCGATACAAAAAGGAGCACTCTGTACTAGATTTGGTTGTGCACCCTCCTTACTAA
CACCAACAAATGAAAATTCATATTCAAAGAACACAACATCTCTCGATACAAAATACTTTCCTATA
TCAAGATCATAAACTTTCCACCTTTTTTTTTCCCAAAAGGATATCCTACAAACATACAACGTTGA
CTTATGCTAGCAAACTTGTCTTTCTCCTTATTCAAGTTCTGACCATAACAAAGGCATCCAAAAGT
TCGAATATGATTATAACTAGAAGGTTTACCAAACAAGATCTCATTAGGAGTCTTTCCTTCCAATA
GTTTAGAATCTAATAGTTTAGAAGG
Found at i:37320928 original size:46 final size:46
Alignment explanation
Indices: 37320853--37321097 Score: 334
Period size: 46 Copynumber: 5.6 Consensus size: 46
37320843 TACGTATGAT
* * *
37320853 CACTTATCAC-TTGTC-CCTGATCATATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
37320897 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
37320943 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
37320989 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
37321025 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
37321071 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
37321098 AGTACTCAAA
Statistics
Matches: 182, Mismatches: 7, Indels: 22
0.86 0.03 0.10
Matches are distributed among these distances:
36 29 0.16
38 2 0.01
39 1 0.01
40 3 0.02
42 3 0.02
43 1 0.01
44 12 0.07
45 5 0.03
46 126 0.69
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:37321030 original size:36 final size:36
Alignment explanation
Indices: 37320989--37321061 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
37320979 CTAAAGCTAC
*
37320989 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
37321025 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
37321061 C
1 C
37321062 TAAAGCTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:37321080 original size:82 final size:82
Alignment explanation
Indices: 37320943--37321097 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
37320933 CTAAGGCTAC
*
37320943 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
37321008 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
37321025 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
37321090 TGATCAGA
66 TGATCAGA
37321098 AGTACTCAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TGATCAGATAAGTGTAG
Found at i:37329403 original size:124 final size:123
Alignment explanation
Indices: 37329182--37329436 Score: 384
Period size: 124 Copynumber: 2.1 Consensus size: 123
37329172 AAATAGTGGG
** * * * *
37329182 AAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
37329247 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTTTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
37329306 AAATCGCTGATACCAGAATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * *
37329371 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTGTT
66 TCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
37329430 AAATCGC
1 AAATCGC
37329437 GCCCTCGTGG
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 89 0.75
125 29 0.25
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (123 bp):
AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:37331145 original size:14 final size:15
Alignment explanation
Indices: 37331128--37331161 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37331118 AATAAATATC
37331128 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
37331142 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
37331157 TAAAA
1 TAAAA
37331162 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:37331387 original size:22 final size:22
Alignment explanation
Indices: 37331357--37331398 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37331347 ATTTGGAGAT
*
37331357 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
37331379 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
37331399 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:37331406 original size:30 final size:30
Alignment explanation
Indices: 37331370--37331428 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37331360 TTGAAGGAAA
* *
37331370 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
37331400 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
37331429 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:37331419 original size:52 final size:51
Alignment explanation
Indices: 37331348--37331450 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
37331338 TTAATATGGA
* * *
37331348 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
37331399 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
37331451 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:37331425 original size:22 final size:22
Alignment explanation
Indices: 37331400--37331491 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
37331390 ATTTGAGAGT
37331400 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
37331422 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
37331444 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
37331466 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
37331488 TTGA
1 TTGA
37331492 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:37331449 original size:44 final size:44
Alignment explanation
Indices: 37331400--37331491 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
37331390 ATTTGAGAGT
* *
37331400 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
37331444 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
37331488 TTGA
1 TTGA
37331492 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Found at i:37336175 original size:32 final size:31
Alignment explanation
Indices: 37336137--37336215 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
37336127 TTATTTTTAT
**
37336137 TTAAATTTGATTTTTAATTTTTTTAAAAAGAG
1 TTAAATTTGATTTTTAA-TACTTTAAAAAGAG
* *
37336169 TTAAATTTGACTATTAATACTTTAAAAAGAG
1 TTAAATTTGATTTTTAATACTTTAAAAAGAG
* *
37336200 TCAAATTGTTATTTTT
1 TTAAATT-TGATTTTT
37336216 TTAATAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 18 0.47
32 20 0.53
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (31 bp):
TTAAATTTGATTTTTAATACTTTAAAAAGAG
Found at i:37336319 original size:16 final size:16
Alignment explanation
Indices: 37336300--37336330 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37336290 CTAATTTTTT
*
37336300 ATTTTTATTTTTTTGC
1 ATTTTTATGTTTTTGC
37336316 ATTTTTATGTTTTTG
1 ATTTTTATGTTTTTG
37336331 AATAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (16 bp):
ATTTTTATGTTTTTGC
Found at i:37336540 original size:25 final size:23
Alignment explanation
Indices: 37336512--37336558 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37336502 AATGTTAATA
*
37336512 ACTAAATTTAACTAAAAAATTATAG
1 ACTAAA-TTAA-TAAAAAAATATAG
37336537 ACTAAATTAATAAAAAAATATA
1 ACTAAATTAATAAAAAAATATA
37336559 AACAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 4 0.19
25 6 0.29
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (23 bp):
ACTAAATTAATAAAAAAATATAG
Found at i:37337170 original size:27 final size:28
Alignment explanation
Indices: 37337132--37337198 Score: 118
Period size: 27 Copynumber: 2.4 Consensus size: 28
37337122 TTCATCATAA
37337132 AAAGTAAAAGGAATCC-TTTTTTTATAG
1 AAAGTAAAAGGAATCCTTTTTTTTATAG
37337159 AAAGTAAAAGGAATCCTTTTTTTTATAG
1 AAAGTAAAAGGAATCCTTTTTTTTATAG
37337187 AAAGTGAAAAGG
1 AAAGT-AAAAGG
37337199 TTAGTCAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 16 0.42
28 16 0.42
29 6 0.16
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (28 bp):
AAAGTAAAAGGAATCCTTTTTTTTATAG
Found at i:37346226 original size:50 final size:50
Alignment explanation
Indices: 37346126--37346307 Score: 184
Period size: 50 Copynumber: 3.5 Consensus size: 50
37346116 AAAGAGATCT
* * * *
37346126 CATGTAAGACCATGTCTGGGACATGGCATTGACATCATTGATATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CG--A-GATGAGAGGTCC
* * *
37346182 CATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
* * * **
37346232 CTTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
* *
37346282 CATGTAAGACCATATCTGGGATATGG
1 CATGTAAGACCATGTCTGGGACATGG
37346308 TATTGGCAGT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 76 0.69
51 1 0.01
53 1 0.01
55 1 0.01
56 31 0.28
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCC
Found at i:37354129 original size:30 final size:30
Alignment explanation
Indices: 37354095--37354188 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 30
37354085 TTCATAAATG
37354095 CCTCAAACTACATTGTCTGTACTCTTGGAT
1 CCTCAAACTACATTGTCTGTACTCTTGGAT
* * * * **
37354125 CCTCATTA-TCCATCTTTCT-T--TCATAAAT
1 CCTCA-AACTACAT-TGTCTGTACTCTTGGAT
*
37354153 GCCTCGAACTACATTGTCTGTACTCTTGGAT
1 -CCTCAAACTACATTGTCTGTACTCTTGGAT
37354184 CCTCA
1 CCTCA
37354189 TTATCCATCT
Statistics
Matches: 43, Mismatches: 14, Indels: 14
0.61 0.20 0.20
Matches are distributed among these distances:
28 10 0.23
29 9 0.21
30 14 0.33
31 10 0.23
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (30 bp):
CCTCAAACTACATTGTCTGTACTCTTGGAT
Done.