Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 258 of 322
Found at i:85662449 original size:62 final size:62
Alignment explanation
Indices: 85662378--85662498 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
85662368 TTGAGAGTAA
* *
85662378 GAGCAATTGATTCTAGTTGATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
1 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
85662440 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCA
1 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCA
85662499 TATTAACTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (62 bp):
GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
Found at i:85666532 original size:3 final size:3
Alignment explanation
Indices: 85666524--85666559 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
85666514 AAGCTAAAAC
85666524 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85666560 CAGTAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:85666574 original size:30 final size:30
Alignment explanation
Indices: 85666540--85666597 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
85666530 TAATAATAAT
* *
85666540 AATAATAATAATA-ATAATAACAGTAAAAGA
1 AATAAGAATAA-ACATAATAACAGAAAAAGA
*
85666570 AATAAGACTAAACATAATAACAGAAAAA
1 AATAAGAATAAACATAATAACAGAAAAA
85666598 ACTAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (30 bp):
AATAAGAATAAACATAATAACAGAAAAAGA
Found at i:85666610 original size:22 final size:24
Alignment explanation
Indices: 85666567--85666611 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
85666557 TAACAGTAAA
*
85666567 AGAAATAAGACTAAACATAATAAC
1 AGAAATAAGACTAAACAAAATAAC
*
85666591 AGAAA-AA-ACTAAAGAAAATAA
1 AGAAATAAGACTAAACAAAATAA
85666612 ATAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (24 bp):
AGAAATAAGACTAAACAAAATAAC
Found at i:85666629 original size:15 final size:16
Alignment explanation
Indices: 85666605--85666649 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
85666595 AAAACTAAAG
85666605 AAAATAAATAATAA-TA
1 AAAATAAATAA-AATTA
85666621 AAAAT-AATAAAATTA
1 AAAATAAATAAAATTA
*
85666636 AAAATTAA-AAAATT
1 AAAATAAATAAAATT
85666650 GATTAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAAATAAAATTA
Found at i:85666749 original size:16 final size:15
Alignment explanation
Indices: 85666742--85666777 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
85666732 TAGTAAAACA
85666742 AATAAATATAATAAC
1 AATAAATATAATAAC
*
85666757 AATAAATAATAATAAT
1 AATAAAT-ATAATAAC
85666773 AATAA
1 AATAA
85666778 TAAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAATATAATAAC
Found at i:85667897 original size:26 final size:24
Alignment explanation
Indices: 85667836--85667897 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
85667826 TGATATTTTC
*
85667836 ATAATTGTAT-TTTTTTCATATTT
1 ATAATTGTATATATTTTCATATTT
*
85667859 TTAATTGTTTATATATTTTCATAATTGT
1 ATAATTG--TATATATTTTCAT-ATT-T
85667887 ATAATTGTATA
1 ATAATTGTATA
85667898 ATTGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
25 3 0.10
26 12 0.39
27 3 0.10
28 7 0.23
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (24 bp):
ATAATTGTATATATTTTCATATTT
Found at i:85686097 original size:5 final size:5
Alignment explanation
Indices: 85686087--85686140 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
85686077 GGTCTTCTAC
85686087 GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG
1 GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG
85686137 GATG
1 GATG
85686141 AGCCCCTGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.20, C:0.00, G:0.59, T:0.20
Consensus pattern (5 bp):
GATGG
Found at i:85686680 original size:12 final size:12
Alignment explanation
Indices: 85686658--85686692 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
85686648 AATAACCCCA
85686658 CAGGCCCGTGTGC
1 CAGG-CCGTGTGC
85686671 CAGGCCGTGTGC
1 CAGGCCGTGTGC
*
85686683 TAGGCCGTGT
1 CAGGCCGTGT
85686693 AACAGCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (12 bp):
CAGGCCGTGTGC
Found at i:85699278 original size:19 final size:19
Alignment explanation
Indices: 85699254--85699291 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
85699244 ATTTCCTAAC
85699254 GAAATTTTAATACCACATT
1 GAAATTTTAATACCACATT
85699273 GAAATTTTAATACCACATT
1 GAAATTTTAATACCACATT
85699292 AATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
GAAATTTTAATACCACATT
Found at i:85710969 original size:27 final size:27
Alignment explanation
Indices: 85710888--85710957 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
85710878 AAATAGGCCA
*
85710888 ATTGGTGCCACCTATGGGAAGGGCGCC
1 ATTGGTGCCACCTATGGGAAGGGCACC
* *
85710915 AGTGGTGCCGCCTATGGGAAGGGCACC
1 ATTGGTGCCACCTATGGGAAGGGCACC
85710942 ATTGGTGCCACCTATG
1 ATTGGTGCCACCTATG
85710958 TCATGGGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.20
Consensus pattern (27 bp):
ATTGGTGCCACCTATGGGAAGGGCACC
Found at i:85713013 original size:13 final size:13
Alignment explanation
Indices: 85712992--85713025 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
85712982 AAATTTTTCT
*
85712992 AAAGCACTTCTCA
1 AAAGTACTTCTCA
85713005 AAAGTACTTCTCA
1 AAAGTACTTCTCA
85713018 AAAGTACT
1 AAAGTACT
85713026 GGCCCTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGTACTTCTCA
Found at i:85714077 original size:45 final size:47
Alignment explanation
Indices: 85714026--85714138 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 47
85714016 TTTGTGTGTG
*
85714026 TATTTGAAATAATTATTTGAAATACTTCACATAT-AAA-AATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATATAAAATAATAATGA
* * *
85714071 TATTTGAAATAGTTATTTAAAATATTTTACATATAAAAATAATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATAT-AAAATAATAATGA
* *
85714119 TGTTTAAAATAATTATTTAA
1 TATTTGAAATAATTATTTAA
85714139 TTTTATAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
45 30 0.52
47 3 0.05
48 25 0.43
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (47 bp):
TATTTGAAATAATTATTTAAAATACTTCACATATAAAATAATAATGA
Found at i:85714487 original size:22 final size:21
Alignment explanation
Indices: 85714438--85714488 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 21
85714428 TAAAAAGATA
85714438 AATTAAAAATAAAATATTTTT
1 AATTAAAAATAAAATATTTTT
85714459 -A--AAAAATAACAA-ATTTATT
1 AATTAAAAATAA-AATATTT-TT
85714478 AATTAAAAATA
1 AATTAAAAATA
85714489 CTAACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 12 0.48
19 4 0.16
20 2 0.08
22 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTAAAAATAAAATATTTTT
Found at i:85714539 original size:3 final size:3
Alignment explanation
Indices: 85714533--85714585 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
85714523 AACAACATGA
85714533 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85714581 AAT AA
1 AAT AA
85714586 ACAAATTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85714919 original size:36 final size:36
Alignment explanation
Indices: 85714828--85714919 Score: 130
Period size: 36 Copynumber: 2.6 Consensus size: 36
85714818 TTTAAAAGTT
* *
85714828 ATTTGACTTGTGTCTCTTTCATAAGCAGCCTTAAAA
1 ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
* * *
85714864 ATTTGACTTGTATCTCTTTTATAAGAAGCTTTGAAA
1 ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
*
85714900 ATTTGATTTGTGTCTCTTTT
1 ATTTGACTTGTGTCTCTTTT
85714920 TAAAAAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (36 bp):
ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
Found at i:85719560 original size:43 final size:43
Alignment explanation
Indices: 85719490--85719701 Score: 241
Period size: 43 Copynumber: 5.0 Consensus size: 43
85719480 ATAGCTCATG
* * * * *
85719490 CAATGCC-ATATCCCAGATATGTTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * * * *
85719532 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATAA
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * *
85719575 CGATGTCAATGTCCTAGACATGGTCTTACACGTAATCACAATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCAC-ATAT
* *
85719619 -AATGTCAATGTCCCAGACATGGTCTTACATGTAATCACA-AT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
*
85719660 ACAATGCCAATTTCCTAGACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
85719702 CTCGGTAATC
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 7 0.05
43 133 0.92
44 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
Found at i:85726283 original size:40 final size:40
Alignment explanation
Indices: 85726185--85726447 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
85726175 TCCTCGTTCA
* * * ** *
85726185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
85726224 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
85726264 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
85726304 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
85726344 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
85726384 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
85726424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
85726448 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:85736969 original size:16 final size:16
Alignment explanation
Indices: 85736948--85736998 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
85736938 TGAATTACTG
85736948 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
85736964 ATTACA-TCTCTATTCT
1 ATTACAGT-TCTATTCC
*
85736980 ATTACAGTCCTATTCC
1 ATTACAGTTCTATTCC
85736996 ATT
1 ATT
85736999 CACCCCAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:85738978 original size:24 final size:25
Alignment explanation
Indices: 85738942--85738988 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
85738932 GTTTAATAAA
*
85738942 AAATAATCAAAA-TAATAAGATATT
1 AAATAATCAAAATTAAAAAGATATT
85738966 AAATAA-CACAAATTAAAAAGATA
1 AAATAATCA-AAATTAAAAAGATA
85738989 ATGATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.45
25 9 0.45
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAATCAAAATTAAAAAGATATT
Found at i:85739015 original size:3 final size:3
Alignment explanation
Indices: 85739009--85739158 Score: 67
Period size: 3 Copynumber: 50.3 Consensus size: 3
85738999 CATGAACAAC
* * * * * *
85739009 AAT AAT AAT AGT AA- AAA AAGT AAA AAA AAT AAT AGT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
85739054 AAC AAT AAT AGT ACGA- AAT AAT AAT AGT AGG AA- AAA AAGT AAT AAT
1 AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * * * * *
85739100 AAT AAT GAT AA- AA- AAT AAT AAT AGT ACT AAT AGT GAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85739146 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
85739159 TATATAAAAA
Statistics
Matches: 113, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
2 9 0.08
3 99 0.88
4 5 0.04
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:85739078 original size:16 final size:16
Alignment explanation
Indices: 85739057--85739087 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85739047 TAATAATAAC
85739057 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
*
85739073 AATAATAGTAGGAAA
1 AATAATAGTACGAAA
85739088 AAAAGTAATA
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:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:85739165 original size:12 final size:14
Alignment explanation
Indices: 85739093--85739170 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
85739083 GGAAAAAAAG
*
85739093 TAATAATAATAATGA
1 TAATAAT-ATAATAA
*
85739108 TAA-AAAATAATAA
1 TAATAATATAATAA
* * * *
85739121 TAGTACTAATAGTGA
1 TAATAAT-ATAATAA
85739136 TAATAATGATAATAA
1 TAATAAT-ATAATAA
85739151 TAATAATATATATAA
1 TAATAATATA-ATAA
*
85739166 AAATA
1 TAATA
85739171 GTAAAAATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
13 8 0.17
14 6 0.13
15 33 0.70
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:85741069 original size:143 final size:143
Alignment explanation
Indices: 85740840--85741325 Score: 618
Period size: 143 Copynumber: 3.4 Consensus size: 143
85740830 CTACAACTTC
* * * * ** * *
85740840 AAGGAAATAAGA-TCTGCTATCTTCAATCTTCTCCTTTGCGACTTCAGGGAGATAAGGCTGGTGG
1 AAGGAAATAAGATTC-GTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGG
*
85740904 CTTCATTCTGCTCCACTG-CAACTTCAGGAAGATAAGATTCA-CTATAATTTGTAGCTTTAATCT
65 CTTCAATCTGCTCCAC-GACAACTTCAGGAAGATAAGATTCATC-ATAATTTGTAGCTTTAATCT
*
85740967 ATTCCACTGCAATGTT
128 GTTCCACTGCAATGTT
* * * *
85740983 AAGGAAATAAGATTTGTTGTTTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGTTAGTGGC
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
* * * *
85741048 TTCAATCTGGTCCACGACAACTTCAAGAAGATAAGACTCGTCATAATTTGTAGCTTTAATCTGTT
66 TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
*
85741113 CCACTGAAATGTT
131 CCACTGCAATGTT
* * *
85741126 AGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGTTGGTGAC
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
* * * * * * *
85741191 TTCAATCTACTCCACTACAACTTTAGGAAGATAAGATCCATCATAATATGTAGTTTTAATTTGTT
66 TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
* *
85741256 CCACTGCAACGCT
131 CCACTGCAATGTT
* * *
85741269 AAGGAAATAAGATTCGTTGGCTTCAGTCTGCTCCGTTGCAACTTTAGGGAGATAAGG
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGG
85741326 CTTGTGATTT
Statistics
Matches: 296, Mismatches: 44, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
142 1 0.00
143 293 0.99
144 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (143 bp):
AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
CCACTGCAATGTT
Found at i:85746532 original size:47 final size:46
Alignment explanation
Indices: 85746381--85746701 Score: 155
Period size: 47 Copynumber: 6.8 Consensus size: 46
85746371 TTGAGTTATG
* * * * * **
85746381 TGAGAGCCAGTGAAAGGCCATGTCTGGGACATGAATCAGCCACATTA
1 TGAGAGCCAGTGTAA-GACATGTCTGGGACATGCATCGGCCTCACGA
* * ** * *
85746428 TGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACAT-AGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-CGA
* *
85746476 GGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACGA
* ** * * * *
85746523 TGAAAGCCAGTGTAAGATGTGTCTAGGACATGCATAGG-CT-AAGC
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGA
** * * * * *
85746567 TTCGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGAACGTACAC-A
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCA-TCG-GCCT-CACGA
* * * * **
85746615 CGAGAGCTAGTGTGAGACCATGTCTGGGAGATGACATCGGCCTCGATAA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTC-ACGA
* * *
85746664 AGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
85746702 AGCAACTTAA
Statistics
Matches: 204, Mismatches: 55, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
44 28 0.14
45 3 0.01
46 10 0.05
47 75 0.37
48 37 0.18
49 48 0.24
50 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGA
Found at i:85749007 original size:23 final size:23
Alignment explanation
Indices: 85748975--85749026 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
85748965 AGAATGCCCA
85748975 CAATGAGGGAGACGCCACTTAGG
1 CAATGAGGGAGACGCCACTTAGG
* *
85748998 CAATGTGGGAGATGCCACTTAGG
1 CAATGAGGGAGACGCCACTTAGG
85749021 CGAATG
1 C-AATG
85749027 CCGAGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.29, C:0.19, G:0.35, T:0.17
Consensus pattern (23 bp):
CAATGAGGGAGACGCCACTTAGG
Found at i:85754031 original size:94 final size:93
Alignment explanation
Indices: 85753870--85754046 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 93
85753860 GTTATGTGAG
* * *
85753870 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAAATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAATGTAAAACCATGTCTGGGACATGGCATC-AAATTGAGACGAGGGCCAGTGTAAGACATG
85753935 TCTAGGACATGCATCAGCCACATTCTGAT
65 TCTAGGACATGCATCAGCCACATTCTGAT
* * *
85753964 AGCCAATGTAAAATCATGTCTGGGACATGGCATC-AGTGTAGAGA-GAAGTGCCAGTGTAAGACA
1 AGCCAATGTAAAACCATGTCTGGGACATGGCATCAAAT-T-GAGACG-AGGGCCAGTGTAAGACA
*
85754027 TGTCTGGGACATGCATCAGC
63 TGTCTAGGACATGCATCAGC
85754047 TAAGCTTCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 2 0.03
93 2 0.03
94 69 0.95
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (93 bp):
AGCCAATGTAAAACCATGTCTGGGACATGGCATCAAATTGAGACGAGGGCCAGTGTAAGACATGT
CTAGGACATGCATCAGCCACATTCTGAT
Found at i:85754127 original size:49 final size:49
Alignment explanation
Indices: 85753867--85754147 Score: 167
Period size: 47 Copynumber: 5.8 Consensus size: 49
85753857 TGAGTTATGT
* *
85753867 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AAAT-TGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAAGTAT-ACAC
* * * * * * *
85753915 GAGGGCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCCA-CATTC-T
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
* * * * * *
85753961 GATAGCCAATGTAAAATCATGTCTGGGACATGGCATCAG--TGTAGAGA-
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAAGTATACAC
* *
85754008 GAAGTGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCTAAGCT-T-CTTGC
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGC-AAG-TATAC--AC
* * ** * *
85754059 TAGTGTAAG-ATAAGACATGTCTGGGACAT-GCATCAGCACGTATACAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
*
85754106 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAA
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAA
85754148 CTTAACCCAT
Statistics
Matches: 174, Mismatches: 39, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
46 23 0.13
47 50 0.29
48 42 0.24
49 43 0.25
50 16 0.09
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
Found at i:85760842 original size:68 final size:64
Alignment explanation
Indices: 85760751--85760972 Score: 214
Period size: 67 Copynumber: 3.4 Consensus size: 64
85760741 TAATTCGGGA
* * * *
85760751 TGTATACCATGTGGACAAAAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTAGACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
85760816 ATG
62 ATG
* * * * * * *
85760819 TTTACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--T
85760884 G
64 G
* * * * *
85760885 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
85760949 TGTACACCATGT-GTACAAGAGAGC
1 TGTACACCATGTAG-ACAAGAGAGC
85760973 CAAAATTATG
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 29 0.23
68 26 0.21
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:85766562 original size:3 final size:3
Alignment explanation
Indices: 85766548--85766710 Score: 61
Period size: 3 Copynumber: 55.3 Consensus size: 3
85766538 GATTAAAAAG
* * * * * *
85766548 ATA ATG ATA ATA ATA ATA GTA A-A A-A ATA GTA A-A AAA ACA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
85766593 GTA ATA ATA ACA ATA ATA GTA CGA-A ATA ATA ATA GTA GGA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
85766638 AGTA ATA ATA ATA ATG ATA A-A A-A ATA ATA ATA GTA CTT ATA GTG
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
85766682 ATA ATA ATG ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
85766711 AAAAATAAAA
Statistics
Matches: 120, Mismatches: 31, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
2 13 0.11
3 101 0.84
4 6 0.05
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:85766625 original size:16 final size:16
Alignment explanation
Indices: 85766604--85766634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85766594 TAATAATAAC
85766604 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
*
85766620 AATAATAGTAGGAAA
1 AATAATAGTACGAAA
85766635 AAAAGTAATA
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:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:85768603 original size:18 final size:18
Alignment explanation
Indices: 85768566--85768603 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
85768556 GGAAGCTAAG
*
85768566 AATCCAATATTCCAATTC
1 AATCCAATATTCCAAATC
85768584 AATCCAATA-TCCATAATC
1 AATCCAATATTCCA-AATC
85768602 AA
1 AA
85768604 AGCAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
AATCCAATATTCCAAATC
Found at i:85773595 original size:16 final size:16
Alignment explanation
Indices: 85773574--85773641 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
85773564 TTTGGTTTGC
85773574 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85773590 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
85773606 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
85773622 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
85773638 TGTA
1 TGTA
85773642 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85773902 original size:14 final size:15
Alignment explanation
Indices: 85773866--85773908 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
85773856 TTTAAACATA
*
85773866 ATTATTATTAAATAT
1 ATTATAATTAAATAT
85773881 ATTATAATTAAATAT
1 ATTATAATTAAATAT
*
85773896 A-TATAATTTAATA
1 ATTATAATTAAATA
85773909 AAATTCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:85774026 original size:14 final size:15
Alignment explanation
Indices: 85773977--85774028 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
85773967 ATAAAATATA
85773977 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
85773992 TATTAAATATATTAT
1 AATTAAATATATTAT
85774007 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
85774020 AATTTAATA
1 AATTAAATA
85774029 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:85774074 original size:120 final size:122
Alignment explanation
Indices: 85773860--85774118 Score: 461
Period size: 120 Copynumber: 2.1 Consensus size: 122
85773850 ATCATATTTA
85773860 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
85773925 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTG
85773981 AACATAATTATTATTAAATATATTATAATTAAA-ATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
* * *
85774045 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAATATATCATTTG
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTG
*
85774102 AA-ATAATTAATATTAAA
1 AACATAATTATTATTAAA
85774119 ATTAACATGT
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
120 98 0.74
121 35 0.26
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (122 bp):
AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTG
Found at i:85774079 original size:59 final size:59
Alignment explanation
Indices: 85773896--85774079 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
85773886 AATTAAATAT
85773896 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
85773955 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
85774014 AT-
57 ATA
85774016 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
85774075 ATATA
1 ATATA
85774080 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:85780474 original size:16 final size:16
Alignment explanation
Indices: 85780453--85780520 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
85780443 TTTGGTTCGC
85780453 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85780469 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
85780485 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
85780501 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85780517 TGTA
1 TGTA
85780521 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85780789 original size:17 final size:17
Alignment explanation
Indices: 85780748--85780888 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
85780738 AACATAATTA
85780748 TTATT-AAATATAT--T
1 TTATTAAAATATATAAT
* *
85780762 TTTTTATAATATATAAT
1 TTATTAAAATATATAAT
85780779 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
85780797 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
* * *
85780813 ATA-TAATATTATAAAAT
1 TTATTAA-AATATATAAT
* *
85780830 ATAATTTAAAATA-ATTA-
1 -TTA-TTAAAATATATAAT
85780847 TTATT--AA-ATATAAT
1 TTATTAAAATATATAAT
**
85780861 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
*
85780879 TTAATAAAAT
1 TTATTAAAAT
85780889 TCTTAGTATT
Statistics
Matches: 92, Mismatches: 18, Indels: 31
0.65 0.13 0.22
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 6 0.07
15 13 0.14
16 9 0.10
17 29 0.32
18 23 0.25
19 3 0.03
20 3 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:85780816 original size:24 final size:22
Alignment explanation
Indices: 85780786--85780834 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
85780776 AATTTGATAA
85780786 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
85780810 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
85780832 AAT
1 AAT
85780835 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:85780825 original size:15 final size:15
Alignment explanation
Indices: 85780805--85780860 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
85780795 ATTTATTAAA
*
85780805 ATTATAATATATAAT
1 ATTATAAAATATAAT
85780820 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
85780833 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
85780846 ATTATTAAATATAAT
1 ATTATAAAATATAAT
85780861 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:85780827 original size:41 final size:40
Alignment explanation
Indices: 85780765--85781003 Score: 142
Period size: 38 Copynumber: 6.2 Consensus size: 40
85780755 ATATATTTTT
85780765 TTATAATATATAAT-TTGATAAAATATATGAATTTATTAAAA
1 TTATAATATATAATATT-ATAAAATATAT-AATTTATTAAAA
*
85780806 TTATAATATATAATATTAT-AAA-ATATAATTTA-AAATAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAA-AA
* * *
85780844 TTATTATTAAATATAAT-TTAACAAAAATATATAATTTAATAAAA
1 TTA-TA--ATATATAATATT-A-TAAAATATATAATTTATTAAAA
* * *
85780888 TTCTTAGTAT-TAAATATTCT----TATATGAATTTATTAAAA
1 TT-ATAATATAT-AATATTATAAAATATAT-AATTTATTAAAA
* *
85780926 TTATAATATATAATACTATAAAATA-AT-TTTTATT-AAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAAAA
*
85780963 -TATAAT-T-T-A-A-TA-AAAATATATAATTTAATAAAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAAAA
85780996 TTA-AATAT
1 TTATAATAT
85781004 TCTTATGATT
Statistics
Matches: 157, Mismatches: 17, Indels: 55
0.69 0.07 0.24
Matches are distributed among these distances:
30 6 0.04
31 4 0.03
32 6 0.04
33 7 0.04
34 4 0.03
35 1 0.01
36 6 0.04
37 21 0.13
38 31 0.20
39 6 0.04
40 7 0.04
41 28 0.18
42 7 0.04
43 5 0.03
44 16 0.10
45 2 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (40 bp):
TTATAATATATAATATTATAAAATATATAATTTATTAAAA
Found at i:85780855 original size:26 final size:25
Alignment explanation
Indices: 85780815--85780877 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
85780805 ATTATAATAT
85780815 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
85780840 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
85780867 AAAATA-TATAA
1 ATAATATTATAA
85780878 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:85780960 original size:61 final size:60
Alignment explanation
Indices: 85780788--85780965 Score: 165
Period size: 61 Copynumber: 3.0 Consensus size: 60
85780778 TTTGATAAAA
*
85780788 TATATGAATTTATTAAAATTATAATATATAATATTATAAAATATAATTTA--AAATAATTAT
1 TATATGAATTTATTAAAATTATAATATATAATATTATAAAATAT-TTTTATTAAAT-ATTAT
* * * *
85780848 TAT-TAAATATAATTTAACAA--A-AATATATAAT-TTAATAAAAT-TCTTAGTATTAAATATTC
1 TATATGAAT-TTA-TTAA-AATTATAATATATAATATT-ATAAAATAT-TT-TTATTAAATATTA
85780907 T
60 T
*
85780908 TATATGAATTTATTAAAATTATAATATATAATACTATAAAATAATTTTTATTAAATAT
1 TATATGAATTTATTAAAATTATAATATATAATATTATAAAAT-ATTTTTATTAAATAT
85780966 AATTTAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 27
0.72 0.08 0.21
Matches are distributed among these distances:
58 6 0.06
59 27 0.29
60 16 0.17
61 39 0.41
62 5 0.05
63 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (60 bp):
TATATGAATTTATTAAAATTATAATATATAATATTATAAAATATTTTTATTAAATATTAT
Found at i:85786955 original size:15 final size:15
Alignment explanation
Indices: 85786937--85786969 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
85786927 TTAAAATCAA
85786937 TATTTTTACAACATC
1 TATTTTTACAACATC
*
85786952 TATTTTTACAATATC
1 TATTTTTACAACATC
85786967 TAT
1 TAT
85786970 ATTTCTTTAA
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:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTTACAACATC
Found at i:85791372 original size:21 final size:22
Alignment explanation
Indices: 85791343--85791386 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
85791333 CTTCAATTTT
*
85791343 GAAATAAAAAAAT-AAATTAAA
1 GAAACAAAAAAATAAAATTAAA
85791364 GAAACAAAAAAATGAAAATTAAA
1 GAAACAAAAAAAT-AAAATTAAA
85791387 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (22 bp):
GAAACAAAAAAATAAAATTAAA
Found at i:85795090 original size:16 final size:16
Alignment explanation
Indices: 85795041--85795091 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
85795031 GGGGTGCCAT
85795041 ATTTAAAATTTTATAA
1 ATTTAAAATTTTATAA
* *
85795057 ATTT-TACTTTTACT-A
1 ATTTAAAATTTTA-TAA
85795072 ATTTAAAATTTTATAA
1 ATTTAAAATTTTATAA
85795088 ATTT
1 ATTT
85795092 TAAAGGGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAAAATTTTATAA
Found at i:85798622 original size:16 final size:16
Alignment explanation
Indices: 85798594--85798633 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
85798584 GTAAATGAAT
*
85798594 TTAAACTTAAAAAATAA
1 TTAAAATTAAAAAA-AA
85798611 TTAAAATTAAAAAAAA
1 TTAAAATTAAAAAAAA
85798627 TTAAAAT
1 TTAAAAT
85798634 CCCTAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAATTAAAAAAAA
Found at i:85799805 original size:82 final size:82
Alignment explanation
Indices: 85799684--85799891 Score: 310
Period size: 82 Copynumber: 2.5 Consensus size: 82
85799674 GTATACATTG
* * * *
85799684 TTCAAAAAATCATTTCAAAAAAACAAACAAAATACGTTATACTAACGAAATGATGATATAGCAGT
1 TTCAAAAAATCATTTC-AAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAGT
85799749 AAGATGTTAACCAACCAT
65 AAGATGTTAACCAACCAT
* * *
85799767 TTCAATAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGAAGTA
1 TTCAAAAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAGTA
*
85799832 AGATTTTAACCAACCAT
66 AGATGTTAACCAACCAT
*
85799849 TTCAACAAATCATTTCAAAAATACAAACAAAATATGTTA-ACTA
1 TTCAAAAAATCATTTCAAAAA-ACAAACAAAATATGTTATACTA
85799892 TCTCAATTCA
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
82 82 0.72
83 32 0.28
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.26
Consensus pattern (82 bp):
TTCAAAAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAGTA
AGATGTTAACCAACCAT
Found at i:85800231 original size:159 final size:156
Alignment explanation
Indices: 85799965--85800422 Score: 473
Period size: 159 Copynumber: 2.9 Consensus size: 156
85799955 ATGCCATCCT
* * * * * * *
85799965 TTTTTG-GCTTGTAGTTCTCATACTCGTACTAGACTGAGAA-C--AAAAATTAAAACCCAAATTT
1 TTTTTGAGCTTCTAGTTCTCGTACTAGTACCAGACT-AAAACCAAAAAAATCAGAACCCAAA-TT
* *
85800026 AGATTTAAATAATT-TGGAATTGACATTAAAAAAATGTTTACAATATACCTGTGATCCAGTTCTG
64 AGATTTAAAT-ATTCT-GAATTGACATT-AAAAAGTGTTTACAATATACCTGTGATCCAGTTGTG
*
85800090 TTAGGCTGAATGCATGGTGTTTTGTTGTT-C
126 TTAGGCTGAATGCATGGTGTTATGTTGTTAC
* * * *
85800120 TTTTTTTAGCTTCTAGTTCGT-GTACTCGTACCAGACTAAGACCAAAAAAATCATAACCCCAAAT
1 -TTTTTGAGCTTCTAGTTC-TCGTACTAGTACCAGACTAAAACCAAAAAAATCAGAA-CCCAAAT
* * * * *
85800184 TAGATTAAAATATTACTGAATTGACATTAAAATAGTGTATACGATATACCTATGATCCAGTTGTA
63 TAGATTTAAATATT-CTGAATTGACATTAAAA-AGTGTTTACAATATACCTGTGATCCAGTTGTG
*
85800249 TTAGGCTAAATGCATGGTGTTATGTTGTTAC
126 TTAGGCTGAATGCATGGTGTTATGTTGTTAC
* * *
85800280 TTTTTGGGCTTCTAGTTCTCGTACTAGTACCAGACTAAAACCAAAAAAATCAGAATCCAAATAAG
1 TTTTTGAGCTTCTAGTTCTCGTACTAGTACCAGACTAAAACCAAAAAAATCAGAACCCAAATTAG
* ** * * *
85800345 ATTTTAATATTTCAAAATTGACAATGAAAAAGTGTTTACAATATACCTGGGCTCCTA-TTGTGTT
66 ATTTAAATA-TTCTGAATTGAC-ATTAAAAAGTGTTTACAATATACCTGTGATCC-AGTTGTGTT
*
85800409 AGGTTGAATGCATG
128 AGGCTGAATGCATG
85800423 ATCCTTTGTT
Statistics
Matches: 251, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
156 7 0.03
157 25 0.10
158 70 0.28
159 141 0.56
160 8 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (156 bp):
TTTTTGAGCTTCTAGTTCTCGTACTAGTACCAGACTAAAACCAAAAAAATCAGAACCCAAATTAG
ATTTAAATATTCTGAATTGACATTAAAAAGTGTTTACAATATACCTGTGATCCAGTTGTGTTAGG
CTGAATGCATGGTGTTATGTTGTTAC
Found at i:85802206 original size:181 final size:181
Alignment explanation
Indices: 85801902--85802266 Score: 676
Period size: 181 Copynumber: 2.0 Consensus size: 181
85801892 TTTGGATGGT
* *
85801902 CCCCAATAGTAGCTTCAAAATGTTTTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
1 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
*
85801967 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGTAACT
66 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
85802032 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
131 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
85802083 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
1 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
* * *
85802148 ACACAATAGATGTGCTTATCATGAAAACTTTTCACCTGTGTGTATCTGGCCATGTTACTGCAACT
66 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
85802213 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
131 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
85802264 CCC
1 CCC
85802267 TATTTGGTTC
Statistics
Matches: 178, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
181 178 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (181 bp):
CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
Found at i:85810926 original size:112 final size:113
Alignment explanation
Indices: 85810717--85810935 Score: 293
Period size: 112 Copynumber: 1.9 Consensus size: 113
85810707 AACATGTGAC
*
85810717 TAATTGATAAAGAAATGTAATGAATGAATTAATAAAATCAATTATGAATGAAAATATGCTAGGGC
1 TAATTGATAAAGAAATGTAATGAATGAATTAATAAAATCAATTATGAATAAAAATATGCTAGGGC
*
85810782 AATTAAAATCCTGTGGCAAATTTCAATGAATAAGTGGGAAAGTATGAT
66 AATTAAAATCCTGTGGCAAATTTCAATGAATAAGTGAGAAAGTATGAT
* * * *
85810830 TAATTGATAAAGAGATGTAATGAA-GGATTAA-AAATATCAATTATGACTAAAAATATGTTAGGG
1 TAATTGATAAAGAAATGTAATGAATGAATTAATAAA-ATCAATTATGAATAAAAATATGCTAGGG
* * * *
85810893 TAATTAAAATGCTGTGTC-CATTCTCAAAT-AATAAGTGAGAAAG
65 CAATTAAAATCCTGTGGCAAATT-TC-AATGAATAAGTGAGAAAG
85810936 AGTTTGTACT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
111 6 0.06
112 61 0.66
113 26 0.28
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (113 bp):
TAATTGATAAAGAAATGTAATGAATGAATTAATAAAATCAATTATGAATAAAAATATGCTAGGGC
AATTAAAATCCTGTGGCAAATTTCAATGAATAAGTGAGAAAGTATGAT
Found at i:85816523 original size:2 final size:2
Alignment explanation
Indices: 85816516--85816544 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85816506 ATGACATTTA
85816516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85816545 GAAATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85819455 original size:16 final size:16
Alignment explanation
Indices: 85819436--85819470 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
85819426 ATATGAATCA
*
85819436 ATTTCTATATATATAT
1 ATTTATATATATATAT
*
85819452 ATTTATTTATATATAT
1 ATTTATATATATATAT
85819468 ATT
1 ATT
85819471 AAATGTCATA
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:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTATATATATATAT
Found at i:85829722 original size:98 final size:98
Alignment explanation
Indices: 85829614--85829824 Score: 298
Period size: 98 Copynumber: 2.2 Consensus size: 98
85829604 CGTCTTTTAA
* * *
85829614 AAATTATTTTTTTAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAATTTTTTTCAGTAATTT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
* * *
85829679 TGTTGACAGTGCATCCTGCTTGAAGCTTTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
* * * * *
85829712 AAATTATTTTTTCAGGAACTACTGTAGAAAAAAAGCGTCCATGTTGGAGCTTTTTTCAGTAAATT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
85829777 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
*
85829810 ACATT-TTCTTTTTAG
1 AAATTATT-TTTTTAG
85829825 AACCGTCTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 2 0.02
98 97 0.98
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (98 bp):
AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
Found at i:85829743 original size:127 final size:127
Alignment explanation
Indices: 85829499--85829726 Score: 325
Period size: 126 Copynumber: 1.8 Consensus size: 127
85829489 TAAGGCCAAA
** * * *
85829499 TAGGAACTACTGTAGAAAAAGAGGGTCCACGTGGGAACTTTTTTTAGTAATTTTTTCTGATAGTG
1 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTTAGTAATTTTGTCTGACAGTG
* * * **
85829564 CATCTTGCTTGAAGCGTTTTTGACACTATTTTTTCATAATCGTCTTTTAAAAATTATTTTTT
66 CATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAGAATCGTCTTAGAAAAATTATTTTTT
85829626 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAA-TTTTTTTCAGTAATTTTGT-TGACAGT
1 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTT-AGTAATTTTGTCTGACAGT
* *
85829689 GCATCCTGCTTGAAGCTTTTTTGAAATTATTTTTTCAG
65 GCATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAG
85829727 GAACTACTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
126 46 0.51
127 44 0.49
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (127 bp):
TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTTAGTAATTTTGTCTGACAGTG
CATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAGAATCGTCTTAGAAAAATTATTTTTT
Found at i:85831202 original size:40 final size:42
Alignment explanation
Indices: 85831132--85831212 Score: 139
Period size: 40 Copynumber: 2.0 Consensus size: 42
85831122 AAGACAAAAA
85831132 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
*
85831174 TATTATTTTCTC-T-TATATATATTTTTAAGTTTATATGAC
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGAC
85831213 ATGACAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 25 0.66
41 1 0.03
42 12 0.32
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (42 bp):
TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
Found at i:85831759 original size:26 final size:25
Alignment explanation
Indices: 85831724--85831786 Score: 99
Period size: 26 Copynumber: 2.5 Consensus size: 25
85831714 ATAATTTAAG
* *
85831724 ATAAATAATATTTATGTTTATGATA
1 ATAAATAATATTTATATTTATAATA
85831749 ACTAAATAATATTTATATTTATAATA
1 A-TAAATAATATTTATATTTATAATA
85831775 ATAAATAATATT
1 ATAAATAATATT
85831787 ATTTATCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATAAATAATATTTATATTTATAATA
Found at i:85831803 original size:28 final size:27
Alignment explanation
Indices: 85831724--85831804 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 27
85831714 ATAATTTAAG
* *
85831724 ATAAAT-A-ATATTTATGTTTATGATA
1 ATAAATAATATATTTATATTTAAGATA
85831749 ACTAAAT-A-ATATTTATATTTATA-ATA
1 A-TAAATAATATATTTATATTTA-AGATA
*
85831775 ATAAATAATATTATTTATCTTTAAGATA
1 ATAAATAATA-TATTTATATTTAAGATA
85831803 AT
1 AT
85831805 TTTATATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.13
26 23 0.49
27 2 0.04
28 16 0.34
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (27 bp):
ATAAATAATATATTTATATTTAAGATA
Found at i:85831809 original size:21 final size:21
Alignment explanation
Indices: 85831779--85831818 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
85831769 ATAATAATAA
*
85831779 ATAATATTATTTATCTTTAAG
1 ATAATATTATATATCTTTAAG
* *
85831800 ATAATTTTATATATTTTTA
1 ATAATATTATATATCTTTA
85831819 TTTTCTTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAATATTATATATCTTTAAG
Found at i:85831883 original size:20 final size:20
Alignment explanation
Indices: 85831831--85831883 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
85831821 TTCTTACATA
* **
85831831 AAAATTTACGTAAATTTTTC
1 AAAATTTACTTAACCTTTTC
*
85831851 AAAATTTATTTAACCTTTTC
1 AAAATTTACTTAACCTTTTC
85831871 -AAATTTCACTTAA
1 AAAATTT-ACTTAA
85831884 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTACTTAACCTTTTC
Found at i:85833187 original size:98 final size:98
Alignment explanation
Indices: 85833079--85833289 Score: 298
Period size: 98 Copynumber: 2.2 Consensus size: 98
85833069 CGTCTTTTAA
* * *
85833079 AAATTATTTTTTTAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAATTTTTTTCAGTAATTT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
* * *
85833144 TGTTGACAGTGCATCCTGCTTGAAGCTTTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
* * * * *
85833177 AAATTATTTTTTCAGGAACTACTGTAGAAAAAAAGCGTCCATGTTGGAGCTTTTTTCAGTAAATT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
85833242 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
*
85833275 ACATT-TTCTTTTTAG
1 AAATTATT-TTTTTAG
85833290 AACCGTCTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 2 0.02
98 97 0.98
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (98 bp):
AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTAGGAACTTTTTTCAGTAAATT
TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
Found at i:85833208 original size:127 final size:127
Alignment explanation
Indices: 85832964--85833191 Score: 325
Period size: 126 Copynumber: 1.8 Consensus size: 127
85832954 TAAGGCCAAA
** * * *
85832964 TAGGAACTACTGTAGAAAAAGAGGGTCCACGTGGGAACTTTTTTTAGTAATTTTTTCTGATAGTG
1 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTTAGTAATTTTGTCTGACAGTG
* * * **
85833029 CATCTTGCTTGAAGCGTTTTTGACACTATTTTTTCATAATCGTCTTTTAAAAATTATTTTTT
66 CATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAGAATCGTCTTAGAAAAATTATTTTTT
85833091 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAA-TTTTTTTCAGTAATTTTGT-TGACAGT
1 TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTT-AGTAATTTTGTCTGACAGT
* *
85833154 GCATCCTGCTTGAAGCTTTTTTGAAATTATTTTTTCAG
65 GCATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAG
85833192 GAACTACTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
126 46 0.51
127 44 0.49
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (127 bp):
TAGGAACTACTGTAGAAAAAGAGCATCCACGTAGGAACTTTTTTTAGTAATTTTGTCTGACAGTG
CATCCTGCTTGAAGCGTTTTTGAAACTATTTTTTCAGAATCGTCTTAGAAAAATTATTTTTT
Found at i:85834667 original size:40 final size:42
Alignment explanation
Indices: 85834597--85834677 Score: 139
Period size: 40 Copynumber: 2.0 Consensus size: 42
85834587 AAGACAAAAA
85834597 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
*
85834639 TATTATTTTCTC-T-TATATATATTTTTAAGTTTATATGAC
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGAC
85834678 ATGACAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 25 0.66
41 1 0.03
42 12 0.32
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (42 bp):
TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
Found at i:85835224 original size:26 final size:25
Alignment explanation
Indices: 85835189--85835251 Score: 99
Period size: 26 Copynumber: 2.5 Consensus size: 25
85835179 ATAATTTAAG
* *
85835189 ATAAATAATATTTATGTTTATGATA
1 ATAAATAATATTTATATTTATAATA
85835214 ACTAAATAATATTTATATTTATAATA
1 A-TAAATAATATTTATATTTATAATA
85835240 ATAAATAATATT
1 ATAAATAATATT
85835252 ATTTATCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATAAATAATATTTATATTTATAATA
Found at i:85835268 original size:28 final size:27
Alignment explanation
Indices: 85835189--85835269 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 27
85835179 ATAATTTAAG
* *
85835189 ATAAAT-A-ATATTTATGTTTATGATA
1 ATAAATAATATATTTATATTTAAGATA
85835214 ACTAAAT-A-ATATTTATATTTATA-ATA
1 A-TAAATAATATATTTATATTTA-AGATA
*
85835240 ATAAATAATATTATTTATCTTTAAGATA
1 ATAAATAATA-TATTTATATTTAAGATA
85835268 AT
1 AT
85835270 TTTATATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.13
26 23 0.49
27 2 0.04
28 16 0.34
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (27 bp):
ATAAATAATATATTTATATTTAAGATA
Found at i:85835274 original size:21 final size:21
Alignment explanation
Indices: 85835244--85835283 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
85835234 ATAATAATAA
*
85835244 ATAATATTATTTATCTTTAAG
1 ATAATATTATATATCTTTAAG
* *
85835265 ATAATTTTATATATTTTTA
1 ATAATATTATATATCTTTA
85835284 TTTTCTTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAATATTATATATCTTTAAG
Found at i:85835348 original size:20 final size:20
Alignment explanation
Indices: 85835296--85835348 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
85835286 TTCTTACATA
* **
85835296 AAAATTTACGTAAATTTTTC
1 AAAATTTACTTAACCTTTTC
*
85835316 AAAATTTATTTAACCTTTTC
1 AAAATTTACTTAACCTTTTC
85835336 -AAATTTCACTTAA
1 AAAATTT-ACTTAA
85835349 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTACTTAACCTTTTC
Found at i:85835655 original size:12 final size:12
Alignment explanation
Indices: 85835638--85835671 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
85835628 CGGCCCACCC
85835638 ATATTAATTTTT
1 ATATTAATTTTT
*
85835650 ATATTATTTTTT
1 ATATTAATTTTT
85835662 ATA-TAATTTT
1 ATATTAATTTT
85835672 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:85835829 original size:30 final size:29
Alignment explanation
Indices: 85835793--85835851 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
85835783 CAACTTAACA
85835793 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAA-AAAATT
* *
85835823 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAATT
85835852 TAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
AGCAAATGCCTCTAAAATAATAAAAAATT
Found at i:85835938 original size:19 final size:20
Alignment explanation
Indices: 85835895--85835938 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
85835885 CAATAACAAC
* *
85835895 AAAATAGTAGTACATAATAGT
1 AAAATAGTAG-ACAAAATAGG
85835916 AAAATAGTAG-CAAAATAGG
1 AAAATAGTAGACAAAATAGG
85835935 AAAA
1 AAAA
85835939 AAATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAATAGTAGACAAAATAGG
Found at i:85836256 original size:7 final size:7
Alignment explanation
Indices: 85836244--85836294 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
85836234 CGTAATATAT
85836244 ATATCAC
1 ATATCAC
85836251 ATATCAC
1 ATATCAC
85836258 ATATCAC
1 ATATCAC
85836265 ATATCAC
1 ATATCAC
85836272 ATATCAC
1 ATATCAC
85836279 ATATCAC
1 ATATCAC
85836286 ATATCAC
1 ATATCAC
85836293 AT
1 AT
85836295 CCTTAACTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.29
Consensus pattern (7 bp):
ATATCAC
Found at i:85838128 original size:52 final size:52
Alignment explanation
Indices: 85838071--85838308 Score: 297
Period size: 52 Copynumber: 4.7 Consensus size: 52
85838061 ACCTAAAATA
* * * *
85838071 TTATGAATGCAACAAAACAAACAATTAAGCATAATTAAAAACACCACTTAAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* * *
85838123 TTATGAATGCAACTAAACAATTAATGAAGCATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* * *
85838175 TTATGAATGCATCAAAGCAATCAATGAAACATAAATAAAAACA-AGAC----T
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACA-ACTTAAT
* *
85838223 TTATGAATGCAACAAAACAATCAATGAAGTATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* * *
85838275 TTATGAATGAAACAAAACAAACAATGAAACATAA
1 TTATGAATGCAACAAAACAATCAATGAAGCATAA
85838309 GTTGGAAACA
Statistics
Matches: 160, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
48 42 0.26
49 1 0.01
51 1 0.01
52 116 0.73
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (52 bp):
TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
Found at i:85838249 original size:100 final size:100
Alignment explanation
Indices: 85838071--85838308 Score: 323
Period size: 100 Copynumber: 2.3 Consensus size: 100
85838061 ACCTAAAATA
* * * * * *
85838071 TTATGAATGCAACAAAACAAACAATTAAGCATAATTAAAAACACCACTTAATTTATGAATGCAAC
1 TTATGAATGAAACAAAACAAACAATGAAACATAAATAAAAACA--A--GACTTTATGAATGCAAC
* *
85838136 TAAACAATTAATGAAGCATAAATAAAAACACAACTTTAT
62 AAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
* * * *
85838175 TTATGAATGCATCAAAGCAATCAATGAAACATAAATAAAAACAAGACTTTATGAATGCAACAAAA
1 TTATGAATGAAACAAAACAAACAATGAAACATAAATAAAAACAAGACTTTATGAATGCAACAAAA
*
85838240 CAATCAATGAAGTATAAATAAAAACACAACTTTAT
66 CAATCAATGAAGCATAAATAAAAACACAACTTTAT
85838275 TTATGAATGAAACAAAACAAACAATGAAACATAA
1 TTATGAATGAAACAAAACAAACAATGAAACATAA
85838309 GTTGGAAACA
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
100 81 0.68
102 1 0.01
104 37 0.31
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (100 bp):
TTATGAATGAAACAAAACAAACAATGAAACATAAATAAAAACAAGACTTTATGAATGCAACAAAA
CAATCAATGAAGCATAAATAAAAACACAACTTTAT
Found at i:85843381 original size:21 final size:21
Alignment explanation
Indices: 85843344--85843407 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
85843334 TTATACAATA
*
85843344 TGAAACAAAATTTAGTGTATAC
1 TGAAAC-AAATTAAGTGTATAC
85843366 TGAAACAAATTAAGTGTATAC
1 TGAAACAAATTAAGTGTATAC
*
85843387 TGAAACAAGTTAAGTGT-TAC
1 TGAAACAAATTAAGTGTATAC
85843407 T
1 T
85843408 AATTTTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.10
21 30 0.75
22 6 0.15
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (21 bp):
TGAAACAAATTAAGTGTATAC
Found at i:85847997 original size:25 final size:23
Alignment explanation
Indices: 85847956--85848017 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
85847946 TAGAAAATAA
85847956 AAAT-AAAAGATTATATATATGTTC
1 AAATAAAAAGATTATATATA--TTC
* *
85847980 AAATAAAAAGGTTGTATATATTC
1 AAATAAAAAGATTATATATATTC
85848003 AAATAAAAAGATTAT
1 AAATAAAAAGATTAT
85848018 GTTAAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 4 0.12
25 13 0.39
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (23 bp):
AAATAAAAAGATTATATATATTC
Found at i:85855158 original size:6 final size:6
Alignment explanation
Indices: 85855126--85855156 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
85855116 CCCAATTAAG
*
85855126 AATAAA AATAAA AATAAA AATAAA ACTAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
85855157 CTCAAATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:85866044 original size:96 final size:95
Alignment explanation
Indices: 85865932--85866148 Score: 278
Period size: 96 Copynumber: 2.3 Consensus size: 95
85865922 TTTTTTTCAT
* * * * * *
85865932 TTAATTCGATACTTGAACTTTCAAAATGCATCAAAAAGGCTCTCAAGTTTTTTC-AAAAAAAAAT
1 TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCTTTTTCAAAAAAAAAAA
85865996 TAAGC-CATTGCTTCTCTTTTTTTTTTTTGCGC
66 TAAGCTC-TTGC-T-TCTTTTTTTTTTTTGCGC
* *
85866028 TTAATTTGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCTTTTTCAAAAAAAAAAA
1 TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCTTTTTCAAAAAAAAAAA
85866093 TAAGCTCTTGCTTCTTTTTTTTTTTTGCGC
66 TAAGCTCTTGCTTCTTTTTTTTTTTTGCGC
* * *
85866123 TCAATT-GAATACTTAAAATGTCAAAA
1 TTAATTCG-ATACTTGAACTGTCAAAA
85866149 GGCTATTTGA
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
94 1 0.01
95 38 0.36
96 48 0.45
97 18 0.17
98 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (95 bp):
TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCTTTTTCAAAAAAAAAAA
TAAGCTCTTGCTTCTTTTTTTTTTTTGCGC
Found at i:85866625 original size:11 final size:9
Alignment explanation
Indices: 85866524--85866686 Score: 67
Period size: 10 Copynumber: 18.0 Consensus size: 9
85866514 CTTTGGTACG
85866524 ATAATTTTT
1 ATAATTTTT
*
85866533 ATATTTTTTT
1 ATA-ATTTTT
85866543 ATGAA-TTTT
1 AT-AATTTTT
85866552 AT-ATTTCTT
1 ATAATTT-TT
85866561 -TACATTTGTT
1 ATA-ATTT-TT
85866571 ATAACTTTTT
1 ATAA-TTTTT
* *
85866581 TTACAATTTT
1 ATA-ATTTTT
*
85866591 AT--GTTTT
1 ATAATTTTT
*
85866598 ACAATTTTT
1 ATAATTTTT
85866607 ATAATTTTT
1 ATAATTTTT
*
85866616 AATAAATTTT
1 -ATAATTTTT
85866626 A-AATTTTT
1 ATAATTTTT
*
85866634 -TTATTTTT
1 ATAATTTTT
* *
85866642 ATTAAAATTTA
1 A-T-AATTTTT
*
85866653 ATAACTTTT
1 ATAATTTTT
85866662 ATTAATTTTT
1 A-TAATTTTT
85866672 AT--TTTTT
1 ATAATTTTT
85866679 AT-ATTTTT
1 ATAATTTTT
85866687 TTGCCACTCA
Statistics
Matches: 117, Mismatches: 19, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
7 13 0.11
8 20 0.17
9 31 0.26
10 41 0.35
11 12 0.10
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:85866639 original size:26 final size:27
Alignment explanation
Indices: 85866594--85866672 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 27
85866584 CAATTTTATG
85866594 TTTTACAATTTTTATAATTTTTAATAAA
1 TTTTA-AATTTTTATAATTTTTAATAAA
* *
85866622 TTTTAAATTTTT-TTATTTTTATTAAAA
1 TTTTAAATTTTTATAATTTTTAAT-AAA
* *
85866649 TTTAATAACTTTTATTAATTTTTA
1 TTTTA-AATTTTTA-TAATTTTTA
85866673 TTTTTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.21
27 14 0.33
28 11 0.26
30 8 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTAAATTTTTATAATTTTTAATAAA
Found at i:85870059 original size:28 final size:28
Alignment explanation
Indices: 85870017--85870071 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
85870007 CCGATTTGCT
*
85870017 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
85870045 CCCTCTGTTTATTTTCTTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCTTTTCT
85870072 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:85870092 original size:38 final size:39
Alignment explanation
Indices: 85870045--85870118 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
85870035 TTCTTTTCTG
*
85870045 CCCTCTGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * * *
85870083 CCCTTTGTTTCTTCTCATTTTCTTTTTTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTT
85870119 TTGAGTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (39 bp):
CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:85873331 original size:16 final size:16
Alignment explanation
Indices: 85873288--85873322 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
85873278 TGGTTCCTTA
*
85873288 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
85873303 TTAATAATAATTATAT
1 TTAATAATAATTATAT
85873319 TTAA
1 TTAA
85873323 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:85873453 original size:18 final size:17
Alignment explanation
Indices: 85873425--85873459 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85873415 ATTATTAAGA
*
85873425 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85873442 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85873460 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85873716 original size:16 final size:16
Alignment explanation
Indices: 85873695--85873762 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
85873685 GATTTGCTAT
85873695 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85873711 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
85873727 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
85873743 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85873759 TACA
1 TACA
85873763 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:85875346 original size:18 final size:18
Alignment explanation
Indices: 85875323--85875376 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
85875313 CATACAACGT
*
85875323 GATTCATGATTGTCAAGG
1 GATTCATGATCGTCAAGG
85875341 GATTCATGATCGTCAAGG
1 GATTCATGATCGTCAAGG
85875359 GATTCATGATCGTCAAGG
1 GATTCATGATCGTCAAGG
85875377 ATTTATGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (18 bp):
GATTCATGATCGTCAAGG
Found at i:85875703 original size:16 final size:14
Alignment explanation
Indices: 85875664--85875706 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
85875654 AATATAAGTG
85875664 GAATGGGATATCTC
1 GAATGGGATATCTC
*
85875678 GAATTGGGATATCTTTT
1 GAA-TGGGATATC--TC
85875695 GAATGGGATATC
1 GAATGGGATATC
85875707 CCTTATCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 9 0.36
17 4 0.16
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (14 bp):
GAATGGGATATCTC
Found at i:85875781 original size:21 final size:21
Alignment explanation
Indices: 85875749--85875788 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
85875739 TTCAATAACG
85875749 TAAAAAATTTGAACCAGACAC
1 TAAAAAATTTGAACCAGACAC
85875770 TAAAACAA-TTGAACCAGAC
1 TAAAA-AATTTGAACCAGAC
85875789 TGTAGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.53, C:0.20, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAAAAATTTGAACCAGACAC
Found at i:85877841 original size:21 final size:21
Alignment explanation
Indices: 85877817--85877858 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
85877807 CTAAACCGAA
85877817 CACTAAAACAACC-GAATCGGG
1 CACTAAAA-AACCTGAATCGGG
*
85877838 CACTAAAAATCCTGAATCGGG
1 CACTAAAAAACCTGAATCGGG
85877859 ATGGAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (21 bp):
CACTAAAAAACCTGAATCGGG
Found at i:85887186 original size:25 final size:25
Alignment explanation
Indices: 85887143--85887225 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
85887133 CAACTTGCAT
* * *
85887143 GAGCTTACCATTATCCAGCTCGGAG
1 GAGCTTACTAATATTCAGCTCGGAG
* * ** *
85887168 GAGCTTATTAATGTTCAGCTCACAT
1 GAGCTTACTAATATTCAGCTCGGAG
* * *
85887193 GAGCTTGCTATTATTTAGCTCGGAG
1 GAGCTTACTAATATTCAGCTCGGAG
85887218 GAGCTTAC
1 GAGCTTAC
85887226 GGTTATCACT
Statistics
Matches: 41, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
GAGCTTACTAATATTCAGCTCGGAG
Found at i:85889619 original size:68 final size:66
Alignment explanation
Indices: 85889547--85889718 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
85889537 CATCATGTGT
* * * *
85889547 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
85889610 TGTAG
62 TGTAG
** * *
85889615 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
85889680 AG
65 AG
* * * *
85889682 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
85889719 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:85889652 original size:64 final size:64
Alignment explanation
Indices: 85889571--85889754 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
85889561 AGACATTATG
* * *
85889571 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
85889635 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
85889700 AA
63 AA
* * *
85889702 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
85889755 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:85893846 original size:2 final size:2
Alignment explanation
Indices: 85893841--85893873 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
85893831 AAAAAGATAA
85893841 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 A
85893874 AACAAATGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85895236 original size:15 final size:15
Alignment explanation
Indices: 85895218--85895246 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85895208 AGCAAATTAC
85895218 ACATAAATAAATAGA
1 ACATAAATAAATAGA
85895233 ACATAAATAAATAG
1 ACATAAATAAATAG
85895247 TCAAACAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
ACATAAATAAATAGA
Found at i:85898432 original size:21 final size:21
Alignment explanation
Indices: 85898408--85898447 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
85898398 AAAAACAACG
85898408 TAGTTTT-ACCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
85898429 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
85898448 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:85903279 original size:28 final size:28
Alignment explanation
Indices: 85903239--85903300 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
85903229 CTTGCTCGAT
*
85903239 TTTAATTGAAATAGTAAAAAAATAAAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
** * *
85903267 TTTAATTTTAATAATAAAAATATATAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
85903295 TATTAA
1 T-TTAA
85903301 ACATAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTAATTGAAATAATAAAAAAATAAAAA
Found at i:85908308 original size:53 final size:53
Alignment explanation
Indices: 85908227--85908372 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
85908217 CTTACACGGT
* *
85908227 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
85908282 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
85908335 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
85908373 AACTGGCGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:85912240 original size:12 final size:12
Alignment explanation
Indices: 85912223--85912247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85912213 ATGTAAGTGA
85912223 TCTTGATGATTT
1 TCTTGATGATTT
85912235 TCTTGATGATTT
1 TCTTGATGATTT
85912247 T
1 T
85912248 TACATTTTTT
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:85913018 original size:47 final size:45
Alignment explanation
Indices: 85912906--85913033 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 45
85912896 TCACTTGTGT
* **
85912906 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTACG
1 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGACATAAGACG
* *
85912951 GAAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGTAC-TAAGACG
1 G-TGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-ACATAAGACG
* *
85912999 AGTGCTAGTGTAAGACATGTCTAGGACATGCATCG
1 -GTGCTAGTGTAAGACATGTTTGGGACATGCATCG
85913034 ACTTCGAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 17 0.25
47 26 0.38
48 23 0.33
49 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGACATAAGACG
Found at i:85913058 original size:46 final size:48
Alignment explanation
Indices: 85912959--85913174 Score: 198
Period size: 47 Copynumber: 4.6 Consensus size: 48
85912949 CGGAAGCTAA
* ** *
85912959 TGTAAGACCATGTTTGGGACATGGCATCGGTACTAAGACGA-GT--GCTAG
1 TGTAAGACCATGTCTGGGACATGGCATC-G-ACTTCGA-GATGTAAGCCAG
* *
85913007 TGTAAGA-CATGTCTAGGACAT-GCATCGACTTCGAGATGTAAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCCAG
* * * *
85913053 TGTAAGA-CATGTCTGGGACAT-ACATCGGCTACGAGATG-ATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTA-AGCCAG
* * * *
85913099 TGTAAGACCATGTTTGGGATATGGCATCGACTT-GAGATATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCCAG
*
85913146 TGTAAGACCATGTCTGAGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
85913175 GTACCTTACC
Statistics
Matches: 138, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
43 2 0.01
44 7 0.05
45 2 0.01
46 53 0.38
47 60 0.43
48 14 0.10
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCCAG
Found at i:85919849 original size:12 final size:12
Alignment explanation
Indices: 85919832--85919856 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85919822 ATGTAAGTGA
85919832 TCTTGATGATTT
1 TCTTGATGATTT
85919844 TCTTGATGATTT
1 TCTTGATGATTT
85919856 T
1 T
85919857 TACATTTTTT
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:85920744 original size:47 final size:45
Alignment explanation
Indices: 85920519--85920782 Score: 207
Period size: 47 Copynumber: 5.6 Consensus size: 45
85920509 TGTGTGTGCT
** *
85920519 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGGA-AGAT-
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTGA-GAT-GATAG-TC
* * * *
85920565 AGTGTAAGACCATGTCTGGGACGTGGCATTGACACTGAGACGAGTACT-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CTGAGATGA-TAGTC
* *
85920613 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-GAGATGAT-AGTC
* *
85920659 AGTGTAAGACATGTCTGGGACATTCATCG-GCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT--GAGATGATAGTC
* *
85920705 TGTGTAAGACCATGTCTGGGACATGGCATCGACCTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTGAGATGAT-AGTC
* *
85920752 AGTGTAAGGCCATGTCTGGGATATGGCATCG
1 AGTGTAA-GACATGTCTGGGACAT-GCATCG
85920783 GCACCTTATC
Statistics
Matches: 179, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 5 0.03
46 67 0.37
47 77 0.43
48 24 0.13
49 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTGAGATGATAGTC
Found at i:85922513 original size:25 final size:25
Alignment explanation
Indices: 85922479--85922527 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
85922469 CGATTGATTC
85922479 GAAACTTTGCTTACAAAACAAACAA
1 GAAACTTTGCTTACAAAACAAACAA
85922504 GAAACTTTGCTTACAAAACAAACA
1 GAAACTTTGCTTACAAAACAAACA
85922528 CATTACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.20
Consensus pattern (25 bp):
GAAACTTTGCTTACAAAACAAACAA
Found at i:85922537 original size:29 final size:26
Alignment explanation
Indices: 85922480--85922552 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
85922470 GATTGATTCG
*
85922480 AAACTTTGCTTACAAAAC-AAACAAG
1 AAACTTTGCTTACAAAACAAAACAAC
85922505 AAACTTTGCTTACAAAACAAACACATTAC
1 AAACTTTGCTTACAAAACAAA-ACA--AC
85922534 AAACTCTT-CTTA-AAAACAA
1 AAACT-TTGCTTACAAAACAA
85922553 CTTTGAACAC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 18 0.43
26 2 0.05
27 3 0.07
28 7 0.17
29 10 0.24
30 2 0.05
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.23
Consensus pattern (26 bp):
AAACTTTGCTTACAAAACAAAACAAC
Found at i:85927251 original size:40 final size:40
Alignment explanation
Indices: 85927153--85927415 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
85927143 TCCTCGTTCA
* * * ** *
85927153 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
85927192 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
85927232 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
85927272 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
85927312 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
85927352 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
85927392 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
85927416 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:85939204 original size:17 final size:17
Alignment explanation
Indices: 85939159--85939206 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
85939149 TGTGTCTCAA
85939159 CCGTGTGAAGGACACGG
1 CCGTGTGAAGGACACGG
*
85939176 CC---T--AGCACACGG
1 CCGTGTGAAGGACACGG
85939188 CCGTGTGAAGGACACGG
1 CCGTGTGAAGGACACGG
85939205 CC
1 CC
85939207 TATTTGGCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
12 10 0.42
14 1 0.04
15 1 0.04
17 12 0.50
ACGTcount: A:0.23, C:0.31, G:0.35, T:0.10
Consensus pattern (17 bp):
CCGTGTGAAGGACACGG
Found at i:85944852 original size:19 final size:19
Alignment explanation
Indices: 85944828--85944865 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
85944818 TAACATCCTT
85944828 TTCAAATATTCAATTCAAA
1 TTCAAATATTCAATTCAAA
85944847 TTCAAATATTCAATTCAAA
1 TTCAAATATTCAATTCAAA
85944866 CATCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
TTCAAATATTCAATTCAAA
Found at i:85951648 original size:19 final size:19
Alignment explanation
Indices: 85951617--85951658 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
85951607 AGCTATCATC
*
85951617 AAAC-TTAAAAATTTAATA
1 AAACTTTAAAAATTAAATA
* *
85951635 CAACTTTAACAATTAAATA
1 AAACTTTAAAAATTAAATA
85951654 AAACT
1 AAACT
85951659 CAAGTTGAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
AAACTTTAAAAATTAAATA
Found at i:85953402 original size:17 final size:17
Alignment explanation
Indices: 85953376--85953408 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85953366 ATTCTTTTCT
85953376 TTCATTCTCA-CCACCG
1 TTCATTCTCATCCACCG
85953392 TTCACTTCTCATCCACC
1 TTCA-TTCTCATCCACC
85953409 ATCAACCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.18, C:0.45, G:0.03, T:0.33
Consensus pattern (17 bp):
TTCATTCTCATCCACCG
Found at i:85956997 original size:12 final size:12
Alignment explanation
Indices: 85956980--85957006 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
85956970 ATTCCGAAGT
85956980 ATATATATATAC
1 ATATATATATAC
85956992 ATATATATATAC
1 ATATATATATAC
85957004 ATA
1 ATA
85957007 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:85957525 original size:27 final size:27
Alignment explanation
Indices: 85957494--85957671 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
85957484 TAAATTGTAC
85957494 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
85957521 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85957547 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
85957575 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
85957603 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85957630 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85957657 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85957672 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85957608 original size:82 final size:81
Alignment explanation
Indices: 85957495--85957650 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
85957485 AAATTGTACA
* *
85957495 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85957559 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
85957576 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85957641 TGCGAGTTGA
65 TGCGAATTGA
85957651 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85957662 original size:82 final size:81
Alignment explanation
Indices: 85957491--85957671 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
85957481 GATTAAATTG
* *
85957491 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85957556 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
85957572 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85957636 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85957654 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85957672 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85958483 original size:25 final size:25
Alignment explanation
Indices: 85958432--85958520 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
85958422 CACACCACGA
* *
85958432 CTCTCTTGAGCTTCCCGAT-TAACAG
1 CTCTCATGAGCTTCCCGATAT-ATAG
* *
85958457 CTCTCTTGAGCTTCCCGATATTTAG
1 CTCTCATGAGCTTCCCGATATATAG
* * * *
85958482 CTCGCAAGAGCTTCCCAATATATAA
1 CTCTCATGAGCTTCCCGATATATAG
*
85958507 CTCACATGAGCTTC
1 CTCTCATGAGCTTC
85958521 TTATTATATG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 52 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATATAG
Found at i:85963392 original size:4 final size:4
Alignment explanation
Indices: 85963383--85963424 Score: 66
Period size: 4 Copynumber: 10.0 Consensus size: 4
85963373 TATTGTCTTG
85963383 TAAA TAAA TAAA TGAAA TGAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAAA
85963425 AAAGGTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 28 0.76
5 9 0.24
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:85965569 original size:43 final size:43
Alignment explanation
Indices: 85965484--85965587 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
85965474 CCCAGACAAA
* * * * *
85965484 GTCTTACACGAAATCACAATACGATGGCAATGTACTAGACATG
1 GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
* * *
85965527 GTTTTACACGTAATCTCAATACAATGCCAATGTCCCAAACATG
1 GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
*
85965570 GTCTTACATGTAATCACA
1 GTCTTACACGTAATCACA
85965588 TCTCGATAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
Found at i:85983752 original size:43 final size:44
Alignment explanation
Indices: 85983703--85983800 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 44
85983693 CCAGATATAG
* * ** *
85983703 TCTTACATGTAAAT-AC-TTATCGATGCCACTGTCCCAGACAGGA
1 TCTTACACGTAAATCACAATAT-GATGCCAAGGTCCCAGACAGCA
*
85983746 TCTTACACG-AAATCACAATATGATGCCAAGGTCCCAGACATCA
1 TCTTACACGTAAATCACAATATGATGCCAAGGTCCCAGACAGCA
85983789 TCTTACACGTAA
1 TCTTACACGTAA
85983801 TCTCAAGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
42 4 0.09
43 37 0.80
44 5 0.11
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (44 bp):
TCTTACACGTAAATCACAATATGATGCCAAGGTCCCAGACAGCA
Found at i:85983815 original size:43 final size:43
Alignment explanation
Indices: 85983733--85983848 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
85983723 CGATGCCACT
* * * **
85983733 GTCCCAGACAGGATCTTACACGAAATCACAATATGATGCCAAG
1 GTCCCAGACATGATCTTACACGTAATCACAAGACAATGCCAAG
* * *
85983776 GTCCCAGACATCATCTTACACGTAATCTCAAGACAATGCCAAT
1 GTCCCAGACATGATCTTACACGTAATCACAAGACAATGCCAAG
* * *
85983819 GTCGCAGACATGGTCTTACATGTAATCACA
1 GTCCCAGACATGATCTTACACGTAATCACA
85983849 TCTTGATAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
GTCCCAGACATGATCTTACACGTAATCACAAGACAATGCCAAG
Found at i:85986972 original size:19 final size:19
Alignment explanation
Indices: 85986925--85986972 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
85986915 AATCATTAAT
* *
85986925 TTTTGGAATTTTTATAAATA
1 TTTT-GAATTTTAAAAAATA
**
85986945 TTTAAAATTTTAAAAAATA
1 TTTTGAATTTTAAAAAATA
85986964 TTTTGAATT
1 TTTTGAATT
85986973 ATTTTGTAGT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTTGAATTTTAAAAAATA
Found at i:85988489 original size:79 final size:82
Alignment explanation
Indices: 85988378--85988562 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
85988368 GCTACTCGTT
* *
85988378 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
85988441 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
85988458 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
85988521 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
85988538 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85988563 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.