Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 345 of 410
Found at i:106473164 original size:30 final size:31
Alignment explanation
Indices: 106473138--106473196 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
106473128 GTAAATACTC
* *
106473138 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
106473168 AAAATTTGAAGGACTAATAGTGAAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
106473197 TTGAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:106477708 original size:26 final size:26
Alignment explanation
Indices: 106477672--106477724 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
106477662 TCATATTATT
106477672 ATGTTCATCCACCGAAATAAGAAACA
1 ATGTTCATCCACCGAAATAAGAAACA
106477698 ATGTTCATCCACCGAAATAAGAAACA
1 ATGTTCATCCACCGAAATAAGAAACA
106477724 A
1 A
106477725 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (26 bp):
ATGTTCATCCACCGAAATAAGAAACA
Found at i:106481334 original size:18 final size:17
Alignment explanation
Indices: 106481311--106481344 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
106481301 TAGCTGTGCC
106481311 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
106481329 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
106481345 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:106482375 original size:25 final size:25
Alignment explanation
Indices: 106482346--106482393 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106482336 TTATAATATG
* * *
106482346 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
106482371 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
106482394 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:106482496 original size:20 final size:20
Alignment explanation
Indices: 106482430--106482496 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
106482420 ATTTTGATAA
*
106482430 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
106482450 ACATGACATGTATGATATAC
1 ACATGATATGTATGATATGC
* *
106482470 ACATGATATGAATGACATGC
1 ACATGATATGTATGATATGC
106482490 ACATGAT
1 ACATGAT
106482497 GTATTTATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106482624 original size:23 final size:24
Alignment explanation
Indices: 106482545--106482689 Score: 206
Period size: 24 Copynumber: 6.0 Consensus size: 24
106482535 GAGGAAGTGC
106482545 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106482569 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106482593 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106482617 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
106482640 AAAAAAAGGG-TTTTGCCCCAGTTATT
1 ---AAAAGGGCTTATGCCCCAGTTATT
*
106482666 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
106482690 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 13
0.87 0.02 0.10
Matches are distributed among these distances:
23 28 0.25
24 54 0.49
25 8 0.07
26 15 0.14
27 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:106482917 original size:31 final size:31
Alignment explanation
Indices: 106482882--106482945 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106482872 CGTTTACAGT
106482882 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
106482913 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
106482944 AA
1 AA
106482946 TATAAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:106488061 original size:26 final size:26
Alignment explanation
Indices: 106488025--106488077 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
106488015 TCATATTATT
106488025 ATGTTCATCCACCGAAATAAGAAACA
1 ATGTTCATCCACCGAAATAAGAAACA
106488051 ATGTTCATCCACCGAAATAAGAAACA
1 ATGTTCATCCACCGAAATAAGAAACA
106488077 A
1 A
106488078 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (26 bp):
ATGTTCATCCACCGAAATAAGAAACA
Found at i:106490608 original size:18 final size:19
Alignment explanation
Indices: 106490568--106490611 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
106490558 TGCAAGGCAT
** *
106490568 TATAAATTCATTAGGTATT
1 TATAAATTCATTAAATATG
106490587 TATAAATT-ATTAAATATG
1 TATAAATTCATTAAATATG
106490605 TATAAAT
1 TATAAAT
106490612 GAATTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TATAAATTCATTAAATATG
Found at i:106492907 original size:50 final size:50
Alignment explanation
Indices: 106492851--106492958 Score: 207
Period size: 50 Copynumber: 2.2 Consensus size: 50
106492841 CTTTATTCAA
*
106492851 TGGGACATGTGAGGGGAAATAAAGAGAGTGTTAGCTTTATGCTTCACTTT
1 TGGGACATGTGAGGGGAAATAAAGAGAGTGTTAGCTTTAAGCTTCACTTT
106492901 TGGGACATGTGAGGGGAAATAAAGAGAGTGTTAGCTTTAAGCTTCACTTT
1 TGGGACATGTGAGGGGAAATAAAGAGAGTGTTAGCTTTAAGCTTCACTTT
106492951 TGGGACAT
1 TGGGACAT
106492959 TTTTGACTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (50 bp):
TGGGACATGTGAGGGGAAATAAAGAGAGTGTTAGCTTTAAGCTTCACTTT
Found at i:106493199 original size:39 final size:39
Alignment explanation
Indices: 106493143--106493317 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 39
106493133 TATTTTTTTA
* * * *
106493143 AGTATTACGACATATGCTTGAATGTTATGTGATTAAATG
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATG
* *
106493182 AGTATTGCGATAAATGCTTGAATGTTATGTGATTATATG
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATG
* * *
106493221 AGTATTGCGATATGTGCTTAAACGTTATGTAATTATATG
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATG
* *
106493260 AGTATTGTTG-TATATGCTTAAAGGTTATGTGATTATATG
1 AGTATTG-CGATATATGCTTAAATGTTATGTGATTATATG
* * * *
106493299 TGTAATGTGATACATGCTT
1 AGTATTGCGATATATGCTT
106493318 CATAGTGAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
38 2 0.02
39 115 0.97
40 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (39 bp):
AGTATTGCGATATATGCTTAAATGTTATGTGATTATATG
Found at i:106499456 original size:2 final size:2
Alignment explanation
Indices: 106499449--106499485 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106499439 CATTTTAACT
106499449 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106499486 CACAAATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106511431 original size:13 final size:12
Alignment explanation
Indices: 106511415--106511444 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
106511405 AAGTAGTTTC
106511415 AAAAAATAAAGAT
1 AAAAAATAAA-AT
106511428 AAAAAATAAAAT
1 AAAAAATAAAAT
106511440 AAAAA
1 AAAAA
106511445 TAGGAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:106511647 original size:13 final size:13
Alignment explanation
Indices: 106511629--106511662 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
106511619 CAGGCTCGAC
106511629 CACGGTCGGTGAG
1 CACGGTCGGTGAG
*
106511642 CACGGTCGGTGGG
1 CACGGTCGGTGAG
106511655 CACGGTCG
1 CACGGTCG
106511663 TGTCGCACGC
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:0.12, C:0.26, G:0.47, T:0.15
Consensus pattern (13 bp):
CACGGTCGGTGAG
Found at i:106511670 original size:13 final size:13
Alignment explanation
Indices: 106511629--106511671 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
106511619 CAGGCTCGAC
*
106511629 CACGGTCGGTGAG
1 CACGGTCGGTGCG
*
106511642 CACGGTCGGTGGG
1 CACGGTCGGTGCG
106511655 CACGGTC-GTGTCG
1 CACGGTCGGTG-CG
106511668 CACG
1 CACG
106511672 CCCATGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 3 0.11
13 24 0.89
ACGTcount: A:0.12, C:0.28, G:0.44, T:0.16
Consensus pattern (13 bp):
CACGGTCGGTGCG
Found at i:106518576 original size:20 final size:21
Alignment explanation
Indices: 106518553--106518591 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
106518543 AAGTAGTTTT
*
106518553 AAAAAGATAA-AAATAAAAAC
1 AAAAAAATAATAAATAAAAAC
106518573 AAAAAAATAATAAATAAAA
1 AAAAAAATAATAAATAAAA
106518592 GTCTTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAAAAATAATAAATAAAAAC
Found at i:106525316 original size:13 final size:13
Alignment explanation
Indices: 106525298--106525322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106525288 AAATTATGAT
106525298 AATTATAATTATA
1 AATTATAATTATA
106525311 AATTATAATTAT
1 AATTATAATTAT
106525323 TAGTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTATAATTATA
Found at i:106525389 original size:27 final size:24
Alignment explanation
Indices: 106525359--106525407 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
106525349 TACTTGAATA
106525359 AAATAATAAGCATGTTAATTATTTTTT
1 AAAT-ATAAG-AT-TTAATTATTTTTT
*
106525386 AAATATTAGATTTAATTATTTT
1 AAATATAAGATTTAATTATTTT
106525408 AATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 2 0.10
26 4 0.19
27 4 0.19
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (24 bp):
AAATATAAGATTTAATTATTTTTT
Found at i:106528972 original size:51 final size:51
Alignment explanation
Indices: 106528916--106529016 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
106528906 ATTGATAAAA
106528916 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAAT
1 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAAT
* * * *
106528967 GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCATTATAA
1 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAA
106529017 GAATTTCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (51 bp):
GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAAT
Found at i:106528976 original size:25 final size:26
Alignment explanation
Indices: 106528908--106529016 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
106528898 TGATACAAAT
*
106528908 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106528934 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
106528960 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
106528985 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
106529011 TTATAA
1 TGATAA
106529017 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.30
26 55 0.70
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:106534122 original size:26 final size:26
Alignment explanation
Indices: 106534085--106534193 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106534075 TGATACAAAT
106534085 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106534110 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
106534136 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
106534162 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106534188 TGATAA
1 TGATAA
106534194 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.07
26 75 0.93
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:106539736 original size:10 final size:10
Alignment explanation
Indices: 106539721--106539755 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
106539711 AAAATAATTC
*
106539721 AAATATATAA
1 AAATATAAAA
106539731 AAATATAAAA
1 AAATATAAAA
*
106539741 AAATAAAAAA
1 AAATATAAAA
106539751 AAATA
1 AAATA
106539756 GCATGGAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATATAAAA
Found at i:106541252 original size:106 final size:106
Alignment explanation
Indices: 106541107--106541425 Score: 464
Period size: 106 Copynumber: 3.0 Consensus size: 106
106541097 CATGTACCAA
*
106541107 ATTGCACATTGAAA-AAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTACTAGAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTATTAGAAATT
* *
106541171 CTATCACATGCGTAGGTATGTGAAAATCACATATTTATAGT
66 CTATCACATGCGTAGGTATGTGAAAATCACATATTTAGAAT
* * * * *
106541212 ATTGTACATTGAAACAAAGTTCATGTATGAATTTGATATTTACCCCTTTATATTTATTAAAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTATTAGAAATT
*
106541277 CTATCACATACGTAGGTATGTGAAAATCACATATTTAGAAT
66 CTATCACATGCGTAGGTATGTGAAAATCACATATTTAGAAT
* *
106541318 ATTGCACATTGAAACAAAATTCATGTATAAATTTGAGATTTAT-TCCTTTATATTTATTAGAAAA
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCT-CTTTATATTTATTAG-AAA
* * * *
106541382 TT-TATTACACGCGTATGTATATGAAAATCACATATTTAGAAT
64 TTCTATCACATGCGTAGGTATGTGAAAATCACATATTTAGAAT
106541424 AT
1 AT
106541426 GTGAATGCAT
Statistics
Matches: 190, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
105 13 0.07
106 172 0.91
107 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (106 bp):
ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTATTAGAAATT
CTATCACATGCGTAGGTATGTGAAAATCACATATTTAGAAT
Found at i:106545505 original size:27 final size:27
Alignment explanation
Indices: 106545447--106545505 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
106545437 TAAAAATATC
* * *
106545447 CAAACATACTACTTAACTTGTAAATTT
1 CAAATATACCACTTAAATTGTAAATTT
106545474 CAAATATACCACTTAAATTGTAAATTT
1 CAAATATACCACTTAAATTGTAAATTT
106545501 CAAAT
1 CAAAT
106545506 CATTCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (27 bp):
CAAATATACCACTTAAATTGTAAATTT
Found at i:106547519 original size:5 final size:5
Alignment explanation
Indices: 106547509--106547544 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
106547499 GTTTTAATCT
106547509 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
106547545 ATTTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:106547529 original size:15 final size:14
Alignment explanation
Indices: 106547509--106547544 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
106547499 GTTTTAATCT
106547509 TTTTATTTTATTTTA
1 TTTTATTTTA-TTTA
106547524 TTTTATTTTATTTA
1 TTTTATTTTATTTA
106547538 TTTTATT
1 TTTTATT
106547545 ATTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:106551470 original size:14 final size:15
Alignment explanation
Indices: 106551434--106551476 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
106551424 TATCTCGGTA
106551434 ATCAATCAAATTCAT
1 ATCAATCAAATTCAT
* *
106551449 ACCAATCATATTC-T
1 ATCAATCAAATTCAT
*
106551463 ATCAATCAGATTCA
1 ATCAATCAAATTCA
106551477 AATATAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (15 bp):
ATCAATCAAATTCAT
Found at i:106552360 original size:21 final size:20
Alignment explanation
Indices: 106552336--106552382 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
106552326 TGATTGTTTT
*
106552336 ATTTTATATATTTTATATTTA
1 ATTTTATAAATTTT-TATTTA
* *
106552357 ATTTGATAAATTTTTATTTT
1 ATTTTATAAATTTTTATTTA
106552377 ATTTTA
1 ATTTTA
106552383 ATTATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTATAAATTTTTATTTA
Found at i:106553200 original size:71 final size:71
Alignment explanation
Indices: 106553084--106553224 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
106553074 GAACAGGGGG
*
106553084 AAATTGTTATATCCCTACCCCAAGGATCACATGTGGCTAAATGAATGACAACTTGACAAAAGCCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCTAAATGAATGACAACTTGACAAAAGCCC
106553149 AGGTAA
66 AGGTAA
* *
106553155 AAATTGTTATACCCCTACCCCAAGGATCATATGTGGC-AGAATGAATGACAACTTGACAAGAGCC
1 AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCTA-AATGAATGACAACTTGACAAAAGCC
106553219 CAGGTA
65 CAGGTA
106553225 GGCACCCTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 1 0.02
71 65 0.98
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (71 bp):
AAATTGTTATACCCCTACCCCAAGGATCACATGTGGCTAAATGAATGACAACTTGACAAAAGCCC
AGGTAA
Found at i:106555620 original size:3 final size:3
Alignment explanation
Indices: 106555612--106555638 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
106555602 TTGAATTCAA
106555612 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
106555639 ATATATATAT
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:106557871 original size:16 final size:17
Alignment explanation
Indices: 106557838--106557874 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
106557828 AATAAATGTT
*
106557838 TTAAAATTATAGAAAAA
1 TTAAAATTATAAAAAAA
106557855 TTAAAATTA-AAAAAAA
1 TTAAAATTATAAAAAAA
106557871 TTAA
1 TTAA
106557875 TGTAAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAATTATAAAAAAA
Found at i:106559301 original size:22 final size:23
Alignment explanation
Indices: 106559276--106559319 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
106559266 AATTCTCAAT
106559276 ATTTATATCTTTT-GTCAAATTA
1 ATTTATATCTTTTAGTCAAATTA
* * *
106559298 ATTTTTATTTTTTAGTTAAATT
1 ATTTATATCTTTTAGTCAAATT
106559320 TAACCCTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTTATATCTTTTAGTCAAATTA
Found at i:106564395 original size:17 final size:17
Alignment explanation
Indices: 106564373--106564407 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
106564363 AATCCACAAG
106564373 TTAGATTCTCCGAAGAA
1 TTAGATTCTCCGAAGAA
106564390 TTAGATTCTCCGAAGAA
1 TTAGATTCTCCGAAGAA
106564407 T
1 T
106564408 AAGAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (17 bp):
TTAGATTCTCCGAAGAA
Found at i:106565470 original size:17 final size:17
Alignment explanation
Indices: 106565448--106565491 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
106565438 TTATAAATTA
106565448 TTGGAAGCTCGATTTGG
1 TTGGAAGCTCGATTTGG
106565465 TTGGAAGCTCGATTTGG
1 TTGGAAGCTCGATTTGG
106565482 TTGGAAGCTC
1 TTGGAAGCTC
106565492 ATCGGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (17 bp):
TTGGAAGCTCGATTTGG
Found at i:106568171 original size:25 final size:24
Alignment explanation
Indices: 106568131--106568180 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
106568121 GAATGGAAAA
*
106568131 AATGAGAGGAAAGTG-AGAGAGGG
1 AATGAGAGAAAAGTGAAGAGAGGG
*
106568154 AATGAGAGAATAATGTGAAGTGAGGG
1 AATGAGAGAA-AA-GTGAAGAGAGGG
106568180 A
1 A
106568181 TGGATGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.41
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (24 bp):
AATGAGAGAAAAGTGAAGAGAGGG
Found at i:106569877 original size:43 final size:42
Alignment explanation
Indices: 106569772--106569889 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
106569762 CCTACAAATG
* *
106569772 CTGCTAAAGATCATGTTCTTTAGCGTGTTTGTAGCAAAAGCG
1 CTGCTAAAGATCATGTTCTTTAGCGCGTTTGTAGCAAAAGCA
* * *
106569814 CCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCA
1 CTGCTAAAGATCATGTTCTTTAGC-GCGTTTGTAGCAAAAGCA
* * *
106569857 CTGCTAAATACCATGATCTTTAGCAGCGTTTGT
1 CTGCTAAAGATCATGTTCTTTAGC-GCGTTTGT
106569890 GTGAGAAAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 22 0.34
43 42 0.66
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
CTGCTAAAGATCATGTTCTTTAGCGCGTTTGTAGCAAAAGCA
Found at i:106571910 original size:21 final size:21
Alignment explanation
Indices: 106571872--106571911 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106571862 ATTACTCCAA
*
106571872 AGAAGCCGATTGATTCATCTT
1 AGAAGCCGATTCATTCATCTT
106571893 AGAAGCCGAATTCA-TCATC
1 AGAAGCCG-ATTCATTCATC
106571912 ACGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCTT
Found at i:106576291 original size:21 final size:21
Alignment explanation
Indices: 106576260--106576307 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
106576250 TTAGCGTTTG
106576260 TTTAC-TCCTTTCACTTCTAT
1 TTTACTTCCTTTCACTTCTAT
106576280 TTTACTTCCTTTCACTTCTAT
1 TTTACTTCCTTTCACTTCTAT
106576301 TTTACTT
1 TTTACTT
106576308 ATTTCTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTACTTCCTTTCACTTCTAT
Found at i:106583223 original size:47 final size:46
Alignment explanation
Indices: 106583148--106583320 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 46
106583138 TGTGATTTCT
* *
106583148 GTATAAGACCA-GTTGGGCTATGGCATCGGTGTGATATGAGCTTCC
1 GTATAAGACCATATTGGGATATGGCATCGGTGTGATATGAGCTTCC
* *
106583193 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTTCT
1 GTATAAGACCATAT-TGGGATATGGCATCGGTGTGATATGAGCTTCC
* * ** * * *
106583240 ATGTAAGACCATATCTGGGATATGGCATTAGTGTAATATGCG-ATCC
1 GTATAAGACCATAT-TGGGATATGGCATCGGTGTGATATGAGCTTCC
* * * *
106583286 GTGTAAGACCATGGTTGGGCTATGGCTTCGGTGTG
1 GTATAAGACCAT-ATTGGGATATGGCATCGGTGTG
106583321 TGATATGTGA
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
45 11 0.10
46 29 0.27
47 66 0.62
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (46 bp):
GTATAAGACCATATTGGGATATGGCATCGGTGTGATATGAGCTTCC
Found at i:106586613 original size:26 final size:26
Alignment explanation
Indices: 106586577--106586628 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
106586567 ATAATTGTAC
106586577 TGTTAATGATAAAGTTGTGACATGAG
1 TGTTAATGATAAAGTTGTGACATGAG
106586603 TGTTAATGATAAAGTTGTGACATGAG
1 TGTTAATGATAAAGTTGTGACATGAG
106586629 GATGTCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTTAATGATAAAGTTGTGACATGAG
Found at i:106587234 original size:47 final size:48
Alignment explanation
Indices: 106587182--106587345 Score: 171
Period size: 47 Copynumber: 3.5 Consensus size: 48
106587172 TGGTTGGACC
*
106587182 ATGGCAAC-ATGTGATATGTGATTTTCGTATAAGACCATAGT-TAGGG-T
1 ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATA-TCT-GGGAT
* * *
106587229 ATGGCATCGGTGTGATATGAG-CTTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
* * *
106587276 ATGGCATCTG-TGTGATATGTGCTTCT-GTGTAAGACCATATCTGGGAT
1 ATGGCATC-GATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
*
106587323 ATGACATC-AGTGTGATATGTGAT
1 ATGGCATCGA-TGTGATATGTGAT
106587346 CCGTGTAAGA
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
46 4 0.04
47 83 0.83
48 13 0.13
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (48 bp):
ATGGCATCGATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
Found at i:106587294 original size:16 final size:17
Alignment explanation
Indices: 106587273--106587305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
106587263 CCATATCTGG
106587273 GATATG-GCATCTGTGT
1 GATATGTGCATCTGTGT
*
106587289 GATATGTGCTTCTGTGT
1 GATATGTGCATCTGTGT
106587306 AAGACCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.42
Consensus pattern (17 bp):
GATATGTGCATCTGTGT
Found at i:106587382 original size:46 final size:47
Alignment explanation
Indices: 106587211--106587391 Score: 181
Period size: 47 Copynumber: 3.8 Consensus size: 47
106587201 GATTTTCGTA
* * * *
106587211 TAAGACCATAGT-TAGGG-TATGGCATCGGTGTGATATGAGCTTTCGTA
1 TAAGACCATA-TCT-GGGATATGGCATCGGTGTGATATGTGCATCCGTG
* * *
106587258 TAAGACCATATCTGGGATATGGCATCTGTGTGATATGTGCTTCTGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCATCCGTG
* *
106587305 TAAGACCATATCTGGGATATGACATCAGTGTGATATGTG-ATCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCATCCGTG
* * *
106587351 TAAGACCACAGCT-GGACTATGGCTTCGGTGTGTGATATGTG
1 TAAGACCATATCTGGGA-TATGGCATC-G-GTGTGATATGTG
106587392 ACTATGTGCA
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 3 0.03
46 27 0.23
47 73 0.63
48 12 0.10
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (47 bp):
TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCATCCGTG
Found at i:106592220 original size:19 final size:19
Alignment explanation
Indices: 106592196--106592236 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
106592186 GATTATTTAT
106592196 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAA-TAA
*
106592215 TTAATTATTCATAAAATAA
1 TTAATTAATCATAAAATAA
106592234 TTA
1 TTA
106592237 TGAAATATGA
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:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATTAATCATAAAATAA
Found at i:106592238 original size:59 final size:59
Alignment explanation
Indices: 106592171--106592596 Score: 628
Period size: 59 Copynumber: 7.3 Consensus size: 59
106592161 TATGATTATC
**
106592171 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* *
106592230 ATAATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAGA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* **
106592289 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAGTTAATTATTCATCGA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* * * *
106592348 ACTATTATGAAATATGACTATTTATTTAATTAATTGAAAATTAGTTAATTATTCATAGA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* * * *
106592407 ATTATTATGAAATATGATTATTTACTTATTTTATCGAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* * *
106592466 ATTATTATGAAATATGATTATTTACTTAA-T--CT-AAAATTAATTAATTATTCATTAA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
* *
106592521 ATTATTATGAAATATGATTATTTATTTAATTAATT-AGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATTAATTGA-AAATTAATTAATTATTCATAAA
106592580 ATTATTATGAAATATGA
1 ATTATTATGAAATATGA
106592597 CCCAGCTTTT
Statistics
Matches: 336, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
55 50 0.15
56 1 0.00
58 3 0.01
59 282 0.84
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATTGAAAATTAATTAATTATTCATAAA
Found at i:106593836 original size:25 final size:25
Alignment explanation
Indices: 106593805--106593873 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
106593795 CTAAATATAC
* *
106593805 ACTATCTGTAGT-GTTTTCACAGTAT
1 ACTATCTATAGTAG-TTTCACAATAT
*
106593830 ACTATCTATAGTAGTTTCAGAATAT
1 ACTATCTATAGTAGTTTCACAATAT
* * *
106593855 ACTATTTACAGTATTTTCA
1 ACTATCTATAGTAGTTTCA
106593874 GTTTAAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
ACTATCTATAGTAGTTTCACAATAT
Found at i:106593874 original size:25 final size:25
Alignment explanation
Indices: 106593818--106593874 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
106593808 ATCTGTAGTG
* * *
106593818 TTTTCACAGTATACTATCTATAGTA
1 TTTTCAGAATATACTATCTACAGTA
* *
106593843 GTTTCAGAATATACTATTTACAGTA
1 TTTTCAGAATATACTATCTACAGTA
106593868 TTTTCAG
1 TTTTCAG
106593875 TTTAAACTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (25 bp):
TTTTCAGAATATACTATCTACAGTA
Found at i:106598191 original size:46 final size:46
Alignment explanation
Indices: 106597965--106598273 Score: 190
Period size: 46 Copynumber: 6.5 Consensus size: 46
106597955 AATGCTATAC
* *
106597965 CATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTACAT-C-TCGTAGCCGATG
* * ** ** * *
106598011 CCAAGTTCCAGACATGGTCTTACACTGACTATTGAAATCG-AGGCTGACG
1 -CATGTCCCAGACATGGTCTTACACTG-CT-TACATCTCGTA-GCCGATG
*
106598060 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACT-GCT-T-ACATCT-CGTAGCCGATG
** *
106598110 CCATGTCCCAGACATGGTCTTACACTG-AAAAATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTTACATCTCGTAGCCGATG
*
106598156 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCAATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTACATCTCGTA-GCCGATG
* * *
106598202 CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTC-AATGCGGATG
1 CATGTCCCAGACATGGTCTTACACT-GC-TTACATCTCGTA-GCCGATG
**
106598248 CCATGTCTAAGACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
106598274 AGCTCACAAT
Statistics
Matches: 213, Mismatches: 31, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 63 0.30
47 37 0.17
48 13 0.06
49 33 0.15
50 36 0.17
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGCTTACATCTCGTAGCCGATG
Found at i:106605092 original size:14 final size:14
Alignment explanation
Indices: 106605039--106605151 Score: 79
Period size: 14 Copynumber: 8.1 Consensus size: 14
106605029 AATGGTTTTT
*
106605039 GGGTTTAAAGTTT-
1 GGGTTTAAGGTTTA
* *
106605052 GGGGTTATAGGTTTT
1 GGGTTTA-AGGTTTA
* **
106605067 GTGTTTGTGGTTTA
1 GGGTTTAAGGTTTA
*
106605081 CGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
* *
106605095 GGGCTTAGGGTTTA
1 GGGTTTAAGGTTTA
106605109 GGGTTT-AGAGTTTA
1 GGGTTTAAG-GTTTA
*
106605123 GGGTCTCAA-GTTTA
1 GGGT-TTAAGGTTTA
*
106605137 GGGTTTCAGGTTTA
1 GGGTTTAAGGTTTA
106605151 G
1 G
106605152 AGTATAATTT
Statistics
Matches: 75, Mismatches: 19, Indels: 11
0.71 0.18 0.10
Matches are distributed among these distances:
13 9 0.12
14 60 0.80
15 5 0.07
16 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.43
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:106605106 original size:21 final size:21
Alignment explanation
Indices: 106605082--106605139 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
106605072 TGTGGTTTAC
106605082 GGTTTAAGGTTTAGGGCTTAG
1 GGTTTAAGGTTTAGGGCTTAG
* * *
106605103 GGTTTAGGGTTTAGAGTTTAG
1 GGTTTAAGGTTTAGGGCTTAG
*
106605124 GGTCTCAA-GTTTAGGG
1 GGT-TTAAGGTTTAGGG
106605140 TTTCAGGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGCTTAG
Found at i:106605142 original size:7 final size:7
Alignment explanation
Indices: 106605075--106605126 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
106605065 TTGTGTTTGT
*
106605075 GGTTTAC
1 GGTTTAG
*
106605082 GGTTTAA
1 GGTTTAG
106605089 GGTTTAG
1 GGTTTAG
*
106605096 GGCTTAG
1 GGTTTAG
106605103 GGTTTAG
1 GGTTTAG
106605110 GGTTTAG
1 GGTTTAG
*
106605117 AGTTTAG
1 GGTTTAG
106605124 GGT
1 GGT
106605127 CTCAAGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.17, C:0.04, G:0.38, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:106605232 original size:37 final size:37
Alignment explanation
Indices: 106605182--106605262 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
106605172 TTAGAAGATA
*
106605182 AATATAAGTAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
106605219 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
106605256 AAAATAA
1 AATATAA
106605263 TATATATCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:106609635 original size:64 final size:64
Alignment explanation
Indices: 106609567--106609700 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
106609557 TAATATTTCT
* *
106609567 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
*
106609631 ATATTTCTATCACGATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
106609695 ATATTT
1 ATATTT
106609701 AATAAAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:106609713 original size:64 final size:64
Alignment explanation
Indices: 106609580--106609714 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 64
106609570 TTTCTATCAC
* * * * *
106609580 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
*
106609644 GATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
106609707 -ATATTTTA
1 GAT-TTTTA
106609715 TATAGTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 54 0.86
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:106609775 original size:24 final size:24
Alignment explanation
Indices: 106609748--106609818 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
106609738 ATTATTATTG
*
106609748 AAATATTCTCTTCCGTTTTATCAC
1 AAATATTATCTTCCGTTTTATCAC
106609772 AAATATTAT-TGTCCGTTTTATCAC
1 AAATATTATCT-TCCGTTTTATCAC
* *
106609796 AAATATTAGCGTCCGTTTTATCA
1 AAATATTATCTTCCGTTTTATCA
106609819 TTTAAGTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (24 bp):
AAATATTATCTTCCGTTTTATCAC
Found at i:106610283 original size:241 final size:241
Alignment explanation
Indices: 106609860--106610323 Score: 901
Period size: 241 Copynumber: 1.9 Consensus size: 241
106609850 ATACCTTTTT
106609860 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
*
106609925 TACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
106609990 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
106610055 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
106610101 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
106610166 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
106610231 CTGGAAACCTGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCTCTAGGTGTAAC
131 CTGGAAACCTGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
106610296 AACGCCACGTATGATGAATCTTAAAAAA
196 AACGCCACGTATGATGAATCTTAAAAAA
106610324 CAACTTACAT
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 220 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCTGACGGGTTACCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:106610342 original size:9 final size:9
Alignment explanation
Indices: 106610325--106610372 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
106610315 CTTAAAAAAC
106610325 AACTTACAT
1 AACTTACAT
*
106610334 AACTCACAT
1 AACTTACAT
106610343 AACTTACAT
1 AACTTACAT
*
106610352 AATTTACAT
1 AACTTACAT
*
106610361 AACGTACAT
1 AACTTACAT
106610370 AAC
1 AAC
106610373 AACTTACGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:106616232 original size:31 final size:32
Alignment explanation
Indices: 106616172--106616252 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
106616162 AGAATTAATA
* *
106616172 TTTTTGGTTGTATTTTTTACGCTAAATTTGCTG
1 TTTTTGGTTGCATTTTATAC-CTAAATTTGCTG
* *
106616205 TTTTTGGTTGCATTTTATA-CTATATTTGTTG
1 TTTTTGGTTGCATTTTATACCTAAATTTGCTG
* *
106616236 TATTTGGTTGGATTTTA
1 TTTTTGGTTGCATTTTA
106616253 ATGCAGGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 25 0.60
33 17 0.40
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.59
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTATACCTAAATTTGCTG
Found at i:106616949 original size:12 final size:12
Alignment explanation
Indices: 106616932--106616964 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
106616922 CAGCCCGCCC
106616932 ATATTAATTTTT
1 ATATTAATTTTT
106616944 ATATT-ATTTTT
1 ATATTAATTTTT
106616955 ATA-TAATTTT
1 ATATTAATTTT
106616965 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:106620868 original size:15 final size:15
Alignment explanation
Indices: 106620850--106620882 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
106620840 AAGGCTTGGG
*
106620850 AAAGTAATCAGGCAT
1 AAAGTAATAAGGCAT
106620865 AAAGTAATAAGGCAT
1 AAAGTAATAAGGCAT
106620880 AAA
1 AAA
106620883 CATCCTCGTG
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:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAGTAATAAGGCAT
Found at i:106621305 original size:34 final size:31
Alignment explanation
Indices: 106621255--106621318 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 31
106621245 ATAAAAAATG
**
106621255 TATAATATTTTTAAATTTTAAAATAATATAA
1 TATAATATTTTTAAATTAAAAAATAATATAA
106621286 TATAATATTTTTTTAAAATTAAAAAATAATATA
1 TATAATA--TTTTT-AAATTAAAAAATAATATA
106621319 TGCGAGTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.25
33 5 0.18
34 16 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TATAATATTTTTAAATTAAAAAATAATATAA
Found at i:106623024 original size:14 final size:13
Alignment explanation
Indices: 106623001--106623032 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
106622991 TTTTTAAATT
106623001 ATACAAAAATATG
1 ATACAAAAATATG
106623014 ATACAAAAA-AT-
1 ATACAAAAATATG
106623025 ATACAAAA
1 ATACAAAA
106623033 TAACATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (13 bp):
ATACAAAAATATG
Found at i:106623028 original size:11 final size:12
Alignment explanation
Indices: 106622996--106623032 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
106622986 TTTATTTTTT
106622996 AAAT-TATACAA
1 AAATATATACAA
106623007 AAATATGATACAA
1 AAATAT-ATACAA
106623020 AAA-ATATACAA
1 AAATATATACAA
106623031 AA
1 AA
106623033 TAACATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 3 0.12
13 9 0.38
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (12 bp):
AAATATATACAA
Found at i:106626355 original size:53 final size:53
Alignment explanation
Indices: 106626275--106626380 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
106626265 TTGCAAGAAG
* *
106626275 ATAGGGCATGTTGAAAGAGTTTGCAAAAGTAGACCAAGACAGAACCAATCACA
1 ATAGGGCATGTTGAAAGAGTCTGCAAAAGTAGACCAAGACAAAACCAATCACA
106626328 ATAGGGCATGTTGAAAGAGTCTGCAAAAGTAGACCAAGACAAAACCAATCACA
1 ATAGGGCATGTTGAAAGAGTCTGCAAAAGTAGACCAAGACAAAACCAATCACA
106626381 GCAGCAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (53 bp):
ATAGGGCATGTTGAAAGAGTCTGCAAAAGTAGACCAAGACAAAACCAATCACA
Found at i:106628485 original size:21 final size:21
Alignment explanation
Indices: 106628461--106628564 Score: 80
Period size: 21 Copynumber: 5.2 Consensus size: 21
106628451 AAGTCTAGCT
*
106628461 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
106628482 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
*
106628500 GAAGCACACAGGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
106628521 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
106628539 AAAGCACACAAGTGCTAAACA
1 GAAGCACACAAGTGCTAAACG
106628560 GAAGC
1 GAAGC
106628565 CTGAAGGCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
18 15 0.23
19 14 0.22
20 15 0.23
21 20 0.31
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:106628502 original size:39 final size:39
Alignment explanation
Indices: 106628443--106628582 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
106628433 ATCGTGATCT
* * *
106628443 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
106628482 GAAGCCCGAAGGCTAACTGAAGCACACAGGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
106628521 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
106628560 GAAGCCTGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
106628583 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:106632539 original size:49 final size:49
Alignment explanation
Indices: 106632393--106632540 Score: 155
Period size: 49 Copynumber: 3.0 Consensus size: 49
106632383 ACCATGCAGC
106632393 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGT
1 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGT
* ** * * *
106632442 TC-ATCC-TGTTC-TTGTTTAGTTGATGA-C-A-TGCAGCTCATGAAATTCAGT
1 TCGAGCCATG--CAAAGGTT-GTTGA--ACCAAGTGCTGCTGATGAAATTCAGT
106632490 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGT
1 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGT
106632539 TC
1 TC
106632541 ATTTTGTTCT
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
46 1 0.01
47 3 0.04
48 33 0.43
49 35 0.46
50 3 0.04
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (49 bp):
TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGT
Found at i:106632559 original size:97 final size:97
Alignment explanation
Indices: 106632393--106632568 Score: 334
Period size: 97 Copynumber: 1.8 Consensus size: 97
106632383 ACCATGCAGC
106632393 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCCTGTTCTTGTT
1 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCCTGTTCTTGTT
106632458 TAGTTGATGACATGCAGCTCATGAAATTCAGT
66 TAGTTGATGACATGCAGCTCATGAAATTCAGT
**
106632490 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATTTTGTTCTTGTT
1 TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCCTGTTCTTGTT
106632555 TAGTTGATGACATG
66 TAGTTGATGACATG
106632569 TAATTTAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (97 bp):
TCGAGCCATGCAAAGGTTGTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCCTGTTCTTGTT
TAGTTGATGACATGCAGCTCATGAAATTCAGT
Found at i:106632561 original size:49 final size:49
Alignment explanation
Indices: 106632411--106632561 Score: 134
Period size: 49 Copynumber: 3.1 Consensus size: 49
106632401 TGCAAAGGTT
*
106632411 GTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCCTGTTCTTGTTTA
1 GTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCATGTTCTTGTTTA
* * * ** *
106632460 GTTGATGA-C-A-TGCAGCTCATGAAATTCAGTTCGAGCCATG--CAAAGGTT-
1 GTTGA--ACCAAGTGCTGCTGATGAAATTCAGTTC-A-TCATGTTC-TTGTTTA
**
106632508 GTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATTTTGTTCTTGTTTA
1 GTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCATGTTCTTGTTTA
106632557 GTTGA
1 GTTGA
106632562 TGACATGTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 22
0.67 0.13 0.19
Matches are distributed among these distances:
46 1 0.01
47 3 0.04
48 31 0.41
49 36 0.47
50 4 0.05
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (49 bp):
GTTGAACCAAGTGCTGCTGATGAAATTCAGTTCATCATGTTCTTGTTTA
Found at i:106640399 original size:24 final size:24
Alignment explanation
Indices: 106640354--106640399 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
106640344 ATTCCTTTTC
* *
106640354 TTTTCTTTTATTTTCATTTTTAGT
1 TTTTATTTTATTTTCATGTTTAGT
106640378 TTTTATTTTATTTTTC-TGTTTA
1 TTTTATTTTA-TTTTCATGTTTA
106640400 TTTGTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATTTTATTTTCATGTTTAGT
Found at i:106652607 original size:6 final size:6
Alignment explanation
Indices: 106652598--106652639 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
106652588 TTTAATTTTG
*
106652598 TATATC TATATC TATATC TATA-- TATATA TATATC TATA-C TAT
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TAT
106652640 TTATTAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:106652629 original size:16 final size:16
Alignment explanation
Indices: 106652604--106652635 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
106652594 TTTGTATATC
*
106652604 TATATCTATATCTATA
1 TATATATATATCTATA
106652620 TATATATATATCTATA
1 TATATATATATCTATA
106652636 CTATTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATATATCTATA
Found at i:106653673 original size:23 final size:23
Alignment explanation
Indices: 106653647--106653691 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
106653637 TCAACTTTGT
*
106653647 CAAACGAATCCACCGGTTGTTGG
1 CAAACAAATCCACCGGTTGTTGG
106653670 CAAACAAATCCACCGGTTGTTG
1 CAAACAAATCCACCGGTTGTTG
106653692 ACAAGGATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
CAAACAAATCCACCGGTTGTTGG
Found at i:106654445 original size:16 final size:16
Alignment explanation
Indices: 106654424--106654461 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
106654414 ATAGCAGACA
*
106654424 ATGAACAATTCTGACC
1 ATGAACAATTCTAACC
106654440 ATGAACAATTCTAACC
1 ATGAACAATTCTAACC
106654456 AT-AACA
1 ATGAACA
106654462 CCATATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (16 bp):
ATGAACAATTCTAACC
Found at i:106665649 original size:49 final size:50
Alignment explanation
Indices: 106665523--106665657 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 50
106665513 ACACCATTTG
* * * * *
106665523 TGGACAAGCCACCACTGGTTTGTAGATAAACTGCCATTGAAAACACTTGG
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAATGAAAACACTTGA
* ** * * * * *
106665573 TGCACAAGCCACCGTTGATATGCAAATATACTTCCAATG-AAACACTTTA
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAATGAAAACACTTGA
*
106665622 TGGACAAGCCACCACTGATTTGAAAATAAATTGCCA
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCA
106665658 CCTACTTCCA
Statistics
Matches: 65, Mismatches: 20, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
49 36 0.55
50 29 0.45
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (50 bp):
TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAATGAAAACACTTGA
Found at i:106674935 original size:46 final size:46
Alignment explanation
Indices: 106674827--106675087 Score: 389
Period size: 46 Copynumber: 5.7 Consensus size: 46
106674817 GGCAACCTGA
106674827 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
106674872 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
106674918 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
106674964 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
106675010 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
106675056 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
106675088 TCATGTCAAA
Statistics
Matches: 199, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
45 41 0.21
46 158 0.79
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:106675074 original size:138 final size:129
Alignment explanation
Indices: 106674785--106675087 Score: 417
Period size: 138 Copynumber: 2.3 Consensus size: 129
106674775 CTCTGATATG
106674785 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGTTGAAAGAT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGTTGAAAGAT
*** * * *
106674850 ACCATGGCAACCTGATATAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATA
66 ACCATGGCAACCTGATATAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
106674914 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAGACCATGGT
**
106674979 TGAAAGATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
58 TGAAAGATACCATGGCAACCTGATAT-AAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
106675044 ATGACAGA
122 ATGACAGA
* * * *
106675052 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
106675088 TCATGTCAAA
Statistics
Matches: 153, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
129 39 0.25
134 2 0.01
136 1 0.01
137 39 0.25
138 72 0.47
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (129 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGTTGAAAGAT
ACCATGGCAACCTGATATAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
Found at i:106682500 original size:39 final size:39
Alignment explanation
Indices: 106682446--106682524 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
106682436 CCCTTTGGAT
106682446 CCAATCCTAGACATGCATACCGCCATTGCCACACTTTAA
1 CCAATCCTAGACATGCATACCGCCATTGCCACACTTTAA
106682485 CCAATCCTAGACATGCATACCGCCATTGCCACACTTTAA
1 CCAATCCTAGACATGCATACCGCCATTGCCACACTTTAA
106682524 C
1 C
106682525 GTCATGGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.23
Consensus pattern (39 bp):
CCAATCCTAGACATGCATACCGCCATTGCCACACTTTAA
Found at i:106683214 original size:27 final size:27
Alignment explanation
Indices: 106683176--106683237 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
106683166 CAGCATGGCT
*
106683176 ACCAGAACAGATAAT-GTGACAGAGTC
1 ACCAGAACAGATAATCGTGACAGAGCC
*
106683202 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAATCGTGACAGAGCC
106683230 ACCAGAAC
1 ACCAGAAC
106683238 GCTTCCTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 11 0.34
28 15 0.47
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (27 bp):
ACCAGAACAGATAATCGTGACAGAGCC
Found at i:106683371 original size:26 final size:27
Alignment explanation
Indices: 106683342--106683413 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
106683332 ACTAACCCTG
* *
106683342 GGGGTATAACAGTAATTTTGC-ACCTA
1 GGGGTATAACAGTAATTTTCCAACATA
106683368 GGGGTATAACAGTAATTTTCCATACATA
1 GGGGTATAACAGTAATTTTCCA-ACATA
* *
106683396 GGGGTATTATAGTAATTT
1 GGGGTATAACAGTAATTT
106683414 AGCTACTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 20 0.50
28 20 0.50
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGGTATAACAGTAATTTTCCAACATA
Found at i:106684908 original size:26 final size:26
Alignment explanation
Indices: 106684851--106684900 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
106684841 CATGAAATTC
*
106684851 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACACA
106684877 TTATCATGAAACATTTACCTAACA
1 TTATCATGAAACATTTACCTAACA
106684901 TTTTATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACACA
Found at i:106687212 original size:18 final size:18
Alignment explanation
Indices: 106687189--106687224 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
106687179 GAGCATATTC
*
106687189 ATAAGGAAAAATTATAGG
1 ATAAGGAAAAACTATAGG
106687207 ATAAGGAAAAACTATAGG
1 ATAAGGAAAAACTATAGG
106687225 TCTTCTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.22, T:0.19
Consensus pattern (18 bp):
ATAAGGAAAAACTATAGG
Found at i:106691560 original size:30 final size:29
Alignment explanation
Indices: 106691526--106691586 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
106691516 AGCTAAACAA
106691526 ATTTTTAGAGA-AGTTAAAATTA-AATTATTT
1 ATTTTTAGA-ATAG-TAAAATTATAATT-TTT
*
106691556 ATTTTTATAATAGTAAAATTATAATTTTT
1 ATTTTTAGAATAGTAAAATTATAATTTTT
106691585 AT
1 AT
106691587 CATTTTAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (29 bp):
ATTTTTAGAATAGTAAAATTATAATTTTT
Found at i:106694321 original size:120 final size:120
Alignment explanation
Indices: 106694108--106694350 Score: 468
Period size: 120 Copynumber: 2.0 Consensus size: 120
106694098 CAAAAAGTAG
106694108 AAAGCCCAAACTTCAACATGAATTTAGTAATAAACCTCAATAATCAAACTATAATTAAATATTAT
1 AAAGCCCAAACTTCAACATGAATTTAGTAATAAACCTCAATAATCAAACTATAATTAAATATTAT
* *
106694173 AAATTAATTAATTGTTTTATATACAATAAAATATTGAGTAAATTATAGCTCTATT
66 AAATTAATTAACTATTTTATATACAATAAAATATTGAGTAAATTATAGCTCTATT
106694228 AAAGCCCAAACTTCAACATGAATTTAGTAATAAACCTCAATAATCAAACTATAATTAAATATTAT
1 AAAGCCCAAACTTCAACATGAATTTAGTAATAAACCTCAATAATCAAACTATAATTAAATATTAT
106694293 AAATTAATTAACTATTTTATATACAATAAAATATTGAGTAAATTATAGCTCTATT
66 AAATTAATTAACTATTTTATATACAATAAAATATTGAGTAAATTATAGCTCTATT
106694348 AAA
1 AAA
106694351 ATGGGGCAGG
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (120 bp):
AAAGCCCAAACTTCAACATGAATTTAGTAATAAACCTCAATAATCAAACTATAATTAAATATTAT
AAATTAATTAACTATTTTATATACAATAAAATATTGAGTAAATTATAGCTCTATT
Found at i:106708375 original size:29 final size:30
Alignment explanation
Indices: 106708330--106708387 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 30
106708320 ATTTTTACAG
106708330 ATTTTGATTTAATGTATAATT-TGATACATGA
1 ATTTTGATTT-ATGTATAATTAT-ATACATGA
106708361 ATTTTGATTT-TGTATAATTATATACAT
1 ATTTTGATTTATGTATAATTATATACAT
106708388 TATACTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 15 0.58
30 1 0.04
31 10 0.38
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (30 bp):
ATTTTGATTTATGTATAATTATATACATGA
Found at i:106717314 original size:40 final size:40
Alignment explanation
Indices: 106717270--106717354 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
106717260 ATAGCTGAGT
* *
106717270 TAAAAATCT-ATATTTCAATAATTTATATGAAATAAATTAA
1 TAAAAAT-TAATAATTCAATAAGTTATATGAAATAAATTAA
**
106717310 TAAAAATTAATAATTCAATAAGTTATATGCTATAAATTAA
1 TAAAAATTAATAATTCAATAAGTTATATGAAATAAATTAA
106717350 TAAAA
1 TAAAA
106717355 GGCAGTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAAATTAATAATTCAATAAGTTATATGAAATAAATTAA
Found at i:106719550 original size:18 final size:18
Alignment explanation
Indices: 106719529--106719568 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
106719519 GAAATATTTA
106719529 TTTTGATATTTT-TAGTAT
1 TTTTGATATTTTATA-TAT
*
106719547 TTTTGATGTTTTATATAT
1 TTTTGATATTTTATATAT
106719565 TTTT
1 TTTT
106719569 TAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (18 bp):
TTTTGATATTTTATATAT
Found at i:106719599 original size:12 final size:12
Alignment explanation
Indices: 106719570--106719601 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
106719560 TATATTTTTT
106719570 AAATT-ATATAA
1 AAATTAATATAA
106719581 AAA-TAATATAA
1 AAATTAATATAA
106719592 AAATTAATAT
1 AAATTAATAT
106719602 GAGAGGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 12 0.63
12 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:106723932 original size:7 final size:7
Alignment explanation
Indices: 106723920--106723953 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
106723910 TATTAGAATG
106723920 ATAAATA
1 ATAAATA
106723927 ATAAATA
1 ATAAATA
106723934 ATAAATA
1 ATAAATA
106723941 ATAAATAA
1 ATAAAT-A
106723949 ATAAA
1 ATAAA
106723954 GGAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAATA
Found at i:106726641 original size:14 final size:14
Alignment explanation
Indices: 106726619--106726652 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
106726609 AATTAAACCT
106726619 AATTAATTTAATTAA
1 AATT-ATTTAATTAA
*
106726634 CATTATTTAATTAA
1 AATTATTTAATTAA
106726648 AATTA
1 AATTA
106726653 AAATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATTTAATTAA
Found at i:106728242 original size:14 final size:15
Alignment explanation
Indices: 106728223--106728251 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
106728213 ACCTAAAAAA
106728223 TATTTTTA-TTATTT
1 TATTTTTATTTATTT
106728237 TATTTTTATTTATTT
1 TATTTTTATTTATTT
106728252 ATAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:106742200 original size:22 final size:23
Alignment explanation
Indices: 106742174--106742222 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
106742164 TTTGTTCAAC
106742174 TTTAATTT-TTAT-TCAAAAACAT
1 TTTAATTTGTTATATC-AAAACAT
106742196 TTTAATTTGTTATATCAAAACAT
1 TTTAATTTGTTATATCAAAACAT
106742219 TTTA
1 TTTA
106742223 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.32
23 15 0.60
24 2 0.08
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAATTTGTTATATCAAAACAT
Found at i:106750580 original size:50 final size:52
Alignment explanation
Indices: 106750522--106750633 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 52
106750512 TATTGCTGGC
* * * *
106750522 TAAATTTATTAAATTTG-TATTAAA-TGAAAGAATGTGTAAATATTGTGAGT
1 TAAATTTATTAAATTTGAGATTAAATTGAAAAAATATGTAAATATTGAGAGT
* * *
106750572 TAATTTTATTAAATTTGAGATTAAATTGAAAAAATATGTAAATTTTGAGTGT
1 TAAATTTATTAAATTTGAGATTAAATTGAAAAAATATGTAAATATTGAGAGT
106750624 TAAATTTATT
1 TAAATTTATT
106750634 TTTTAAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 16 0.31
51 6 0.12
52 30 0.58
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (52 bp):
TAAATTTATTAAATTTGAGATTAAATTGAAAAAATATGTAAATATTGAGAGT
Found at i:106751054 original size:49 final size:49
Alignment explanation
Indices: 106750982--106751080 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
106750972 GAGAAAAGAA
106750982 AGCTGGTAACCCAAATCCACACAGTATACAAATCCATTTATTTTGTATC
1 AGCTGGTAACCCAAATCCACACAGTATACAAATCCATTTATTTTGTATC
106751031 AGCTGGTAACCCAAATCCACACAGTATACAAATCCATTTATTTTGTATC
1 AGCTGGTAACCCAAATCCACACAGTATACAAATCCATTTATTTTGTATC
106751080 A
1 A
106751081 CACCAAATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (49 bp):
AGCTGGTAACCCAAATCCACACAGTATACAAATCCATTTATTTTGTATC
Found at i:106756174 original size:17 final size:16
Alignment explanation
Indices: 106756148--106756179 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
106756138 AGGATGTGTT
106756148 TAAAAATAAAATATAA
1 TAAAAATAAAATATAA
106756164 TAAATAATAAAATATA
1 TAAA-AATAAAATATA
106756180 TGGTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATAAAATATAA
Found at i:106757470 original size:2 final size:2
Alignment explanation
Indices: 106757463--106757487 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106757453 CCTTCTAATA
106757463 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 A
106757488 AGTTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106762047 original size:49 final size:52
Alignment explanation
Indices: 106761955--106762055 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 52
106761945 TTGTACATGC
* *
106761955 AATAATTTTCTATTCAACTTTAAATGTTCGAAGTTGTACTTTTAATTTTTTAG
1 AATAATTTTCCATT-AACTTTAAATGTTAGAAGTTGTACTTTTAATTTTTTAG
*
106762008 AATAATTTTCCATT-A-TTTAAAT-TTAGAAGTTGTATTTTTAATTTTTTA
1 AATAATTTTCCATTAACTTTAAATGTTAGAAGTTGTACTTTTAATTTTTTA
106762056 ATTTTATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
49 24 0.53
50 7 0.16
51 1 0.02
53 13 0.29
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (52 bp):
AATAATTTTCCATTAACTTTAAATGTTAGAAGTTGTACTTTTAATTTTTTAG
Found at i:106762500 original size:15 final size:15
Alignment explanation
Indices: 106762470--106762498 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
106762460 ACTATTAGTA
106762470 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
106762485 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
106762499 TACCATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:106764816 original size:33 final size:33
Alignment explanation
Indices: 106764756--106764819 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
106764746 AAATATTAAC
*
106764756 TTATTATAAAAATTATAGAAAAATATTAAAAAG
1 TTATTATAAAAATCATAGAAAAATATTAAAAAG
* *
106764789 TTATTAT-AAAATCATATAAAATTTATTAAAA
1 TTATTATAAAAATCATAGAAAA-ATATTAAAA
106764820 TGATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (33 bp):
TTATTATAAAAATCATAGAAAAATATTAAAAAG
Found at i:106766119 original size:228 final size:228
Alignment explanation
Indices: 106765716--106766825 Score: 1389
Period size: 228 Copynumber: 4.9 Consensus size: 228
106765706 CAGGTGCAAA
* * *
106765716 GTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCTTCAAGTTGCTTCCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAAA
*
106765781 AATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
66 AATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
106765846 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
131 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
106765911 ATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
196 ATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
* *
106765944 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCTTCAAGTTGCTTCCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAAA
*
106766009 AATCAGCCTCTGCTGGTCTGGAGGAATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
66 AATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
106766074 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
131 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
*
106766139 ATCCCGCCACGGAGACGGAGAACCAAGTGGAGG
196 ATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
* * *
106766172 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCTAGCTGCTTTCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAAA
* * * * *
106766237 TATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCTTAT-CTTGAACTTTGGCCTTAACATTATCG
66 AATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCTTATCCTGGATC-TTGGCCTTAACATTATCA
* * * * * * *
106766301 ATTGTGTCAGAGCTCTCAACTTCCAGGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAAATCTG
130 ATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTG
* * * * *
106766366 CATACCACCACGAAGACGGAGCACCAAGTGGAGG
195 CATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
* * * * * ** *
106766400 GTGGACTCCTTCTGGATGTTATAGTCAGCCAGGGTACGGCCATCCTCCAGTTGCTTACCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAAA
* * * * * *
106766465 AATCAGCCTCTGTTGGTCTGG-GGGAATTCCCTCCTTGTCCTGAATTTTTGCCTTAACATTATCA
66 AATCAGCCTCTGCTGGTCTGGAGGG-ATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCA
* * * * * ** * * ** * *
106766529 ATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
130 ATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTG
* * * * * *
106766594 CATTCCTCCACGGAGGCGAAGCACTAAGTGGAGT
195 CATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
* * * ** *
106766628 GTGGACTCCTTCTGGATGTTGTAATCAGCCAA-CGTGCGGCCATCCTCAAGTTGCTTACCAGCGA
1 GTGGACTCCTTCTGGATGTTGTAATCTG-CAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAA
* * * * * * * * *
106766692 AGATCAACCTTTGCTGGTCTGGGGGGATGCCTTCCTTGTCCTGAATCTTGGCCTTTACATTGTCA
65 AAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCA
* * * * * * ** * * *
106766757 ATAGTATCAGAACTCTCCACCTCCAATGTGATGGTCTTTCCGGTGAGGGTCTTGACGAAAATTTG
130 ATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTG
106766822 CATC
195 CATC
106766826 TATTTTGAAT
Statistics
Matches: 781, Mismatches: 96, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
227 8 0.01
228 765 0.98
229 8 0.01
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (228 bp):
GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCAAGTTGCTTACCAGCAAA
AATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
ATCCCGCCACGGAGACGAAGAACCAAGTGGAGG
Found at i:106776076 original size:30 final size:30
Alignment explanation
Indices: 106776040--106776099 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
106776030 CTTGGTTGAG
106776040 AGTATCCAAGAAGATTTAGATTAATTTTAT
1 AGTATCCAAGAAGATTTAGATTAATTTTAT
106776070 AGTATCCAAGAAGATTTAGATTAATTTTAT
1 AGTATCCAAGAAGATTTAGATTAATTTTAT
106776100 CGTTTACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (30 bp):
AGTATCCAAGAAGATTTAGATTAATTTTAT
Found at i:106779200 original size:21 final size:21
Alignment explanation
Indices: 106779169--106779273 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
106779159 AGTTGACTCA
106779169 TATGAGTTTCAGATTAACCCT
1 TATGAGTTTCAGATTAACCCT
* * * * *
106779190 TTTGGGTTTCAGTTTAGCTCT
1 TATGAGTTTCAGATTAACCCT
* * *
106779211 TTTGAGCTTCAGTTTAA-CCT
1 TATGAGTTTCAGATTAACCCT
*
106779231 TAATGAGTTTCAG-TTCAACTCT
1 T-ATGAGTTTCAGATT-AACCCT
*
106779253 TATGAGTTTCAGATTACCCCT
1 TATGAGTTTCAGATTAACCCT
106779274 ACTAGGTTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.08
21 56 0.85
22 5 0.08
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCAGATTAACCCT
Found at i:106779228 original size:42 final size:42
Alignment explanation
Indices: 106779171--106779333 Score: 129
Period size: 42 Copynumber: 3.9 Consensus size: 42
106779161 TTGACTCATA
* *
106779171 TGAGTTTCAGATTAACCCTTTTGGGTTTCAGTTTAGCTCTTT
1 TGAGCTTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTT
* * * * *
106779213 TGAGCTTCAGTTTAA-CCTTAATGAGTTTCAGTTCAACTCTTA
1 TGAGCTTCAGATTAACCCTT-ATGGGTTTCAGTTTAGCTCTTT
* * * **
106779255 TGAGTTTCAGATT-ACCCCTACTAGGTTTTTGTTTAGCTCTTAT
1 TGAGCTTCAGATTAACCCTTA-TGGGTTTCAGTTTAGCTCTT-T
*
106779298 T-AGCTTCTG-TTAAACCCTTATGGGTTTTC-GTTTAGC
1 TGAGCTTCAGATT-AACCCTTATGGG-TTTCAGTTTAGC
106779334 ACTTATGTGC
Statistics
Matches: 92, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
41 8 0.09
42 74 0.80
43 10 0.11
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTT
Found at i:106779282 original size:84 final size:83
Alignment explanation
Indices: 106779151--106779313 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 83
106779141 TAGCTCGAAT
* * ** *
106779151 TGAGTTTTAGTTGACTCATATGAGTTTCAGATTAACCCTTTTGGGTTTCAGTTTAGCTCTT-TTG
1 TGAGTTTCAGTTAACTCATATGAGTTTCAGATTAACCCTACTAGGTTTCAGTTTAGCTCTTATT-
*
106779215 AGCTTCAGTTTAACCTTAA
65 AGCTTCAGTTAAACCTTAA
* * **
106779234 TGAGTTTCAGTTCAACTCTTATGAGTTTCAGATTACCCCTACTAGGTTTTTGTTTAGCTCTTATT
1 TGAGTTTCAGTT-AACTCATATGAGTTTCAGATTAACCCTACTAGGTTTCAGTTTAGCTCTTATT
*
106779299 AGCTTCTGTTAAACC
65 AGCTTCAGTTAAACC
106779314 CTTATGGGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
83 11 0.16
84 54 0.81
85 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (83 bp):
TGAGTTTCAGTTAACTCATATGAGTTTCAGATTAACCCTACTAGGTTTCAGTTTAGCTCTTATTA
GCTTCAGTTAAACCTTAA
Found at i:106780906 original size:7 final size:7
Alignment explanation
Indices: 106780894--106780932 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
106780884 AAAAAGCACA
106780894 AAAAAAG
1 AAAAAAG
106780901 AAAAAAG
1 AAAAAAG
106780908 AAAAAAG
1 AAAAAAG
106780915 AAAAAAG
1 AAAAAAG
106780922 AAAAAAG
1 AAAAAAG
106780929 AAAA
1 AAAA
106780933 GCAATGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:106781657 original size:29 final size:30
Alignment explanation
Indices: 106781619--106781687 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
106781609 AGATTATATC
* * *
106781619 TTTATAATTTTAAAAAATTAAAT-TAAATT
1 TTTATTATTTGAAAAAATAAAATGTAAATT
* *
106781648 TTTATTATTTGAAAAGATAAAATGTAATTT
1 TTTATTATTTGAAAAAATAAAATGTAAATT
106781678 TATTATTATT
1 T-TTATTATT
106781688 AATTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 19 0.58
30 6 0.18
31 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTATTATTTGAAAAAATAAAATGTAAATT
Found at i:106782225 original size:17 final size:17
Alignment explanation
Indices: 106782193--106782227 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
106782183 ATTATTATAT
* *
106782193 TAATTATATTTGTTAAA
1 TAATTATATATATTAAA
106782210 TAATTATATATATTAAA
1 TAATTATATATATTAAA
106782227 T
1 T
106782228 CACTAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTATATATATTAAA
Found at i:106787832 original size:18 final size:18
Alignment explanation
Indices: 106787811--106787855 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
106787801 GAGAGACGAG
106787811 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
**
106787829 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAATCAAAAA
106787847 AGAAAAAGA
1 AGAAAAAGA
106787856 GAGTAAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:106790198 original size:31 final size:33
Alignment explanation
Indices: 106790112--106790212 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 33
106790102 TTTCCAAGTG
* ** * * *
106790112 GTACACACAAAGTATACCTTTCTTTTTCATATG
1 GTACACACAAAGTATACATAACCTTTTCAAATT
* *
106790145 GTATACACAAAGTATACCTAACC-TTTC-AATT
1 GTACACACAAAGTATACATAACCTTTTCAAATT
* *
106790176 GTACACACAAGGTGTACATAACCTTTTCAAATT
1 GTACACACAAAGTATACATAACCTTTTCAAATT
106790209 GTAC
1 GTAC
106790213 CATTTGGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 21 0.38
32 8 0.14
33 27 0.48
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.34
Consensus pattern (33 bp):
GTACACACAAAGTATACATAACCTTTTCAAATT
Found at i:106795002 original size:21 final size:21
Alignment explanation
Indices: 106794976--106795018 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106794966 TTTCTACCAT
106794976 TATTTTAAGCTAGGATTTATG
1 TATTTTAAGCTAGGATTTATG
106794997 TATTTTAAGCTAGGATTTATG
1 TATTTTAAGCTAGGATTTATG
106795018 T
1 T
106795019 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (21 bp):
TATTTTAAGCTAGGATTTATG
Found at i:106795751 original size:49 final size:50
Alignment explanation
Indices: 106795679--106795914 Score: 264
Period size: 49 Copynumber: 4.8 Consensus size: 50
106795669 TGAGGTTACG
* *
106795679 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCTCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * * *
106795728 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCACA
* * * ** *
106795779 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * * *
106795829 TGTGTAGTACTAAGTTCAAGCTAC--CGTGTACAAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
*
106795876 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
106795915 GCTTAGGCTA
Statistics
Matches: 155, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 27 0.17
48 12 0.08
49 48 0.31
50 31 0.20
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
Found at i:106801171 original size:150 final size:150
Alignment explanation
Indices: 106800900--106801288 Score: 688
Period size: 150 Copynumber: 2.6 Consensus size: 150
106800890 ATCTATTGTG
* ** * * *
106800900 AGGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGGTCGCATTTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATTGGTCGCATGTGTAGT
*
106800965 ACTAAGTGCAGGCTACTATGCGTACTTGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
*
106801030 GCTACGTGTATCAGATGGTT
131 GCTACATGTATCAGATGGTT
*
106801050 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATTGGTAGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATTGGTCGCATGTGTAGT
106801115 ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
106801180 GCTACATGTATCAGATGGTT
131 GCTACATGTATCAGATGGTT
*
106801200 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATTGGTCGCATGTGTAGT
106801265 ACTAAGTGCAGGCTACTATGCGTA
66 ACTAAGTGCAGGCTACTATGCGTA
106801289 ACAGATAGCT
Statistics
Matches: 228, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 228 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
GCTACATGTATCAGATGGTT
Found at i:106801294 original size:49 final size:50
Alignment explanation
Indices: 106800900--106801295 Score: 338
Period size: 49 Copynumber: 7.9 Consensus size: 50
106800890 ATCTATTGTG
* * *
106800900 AGGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGT-ACCGAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAG-ATAATT
* * * * * *
106800950 -GGTCGCATTTGTAGTACTAAGTGCAGGCTACTATGCGT-ACTTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAAC-AGATAA-TT
* * * * * **
106801000 CGATCACGTGTGTAGTATTAAGTGCAGGCTGCTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
* * * *
106801050 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
* * * *
106801100 -GGT-AGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT-ACTCGATAACTT
1 AGGTCA-CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAAC-AGATAA-TT
* * * * * * **
106801150 CGATCACGTGTGTAGTATTAAGTGCAGGCTGCTACATGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
* * *
106801200 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
* * * *
106801250 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAACAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATA
106801296 GCTTTGGCTA
Statistics
Matches: 271, Mismatches: 65, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
48 2 0.01
49 112 0.41
50 89 0.33
51 65 0.24
52 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
Found at i:106804661 original size:33 final size:32
Alignment explanation
Indices: 106804603--106804696 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 32
106804593 TTTCCAAGTT
* **
106804603 GTACATACAAAGTATACATTTCCTTTTCATATG-
1 GTACACACAAAGTATACATAACCTTTTCA-A-GA
* *
106804636 GTATACACAAAGTATACCTAACC-TTTCAAGA
1 GTACACACAAAGTATACATAACCTTTTCAAGA
*
106804667 GTACACACAAGGTATACATAACCTTTTCAA
1 GTACACACAAAGTATACATAACCTTTTCAA
106804697 ATTGTACCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.02
31 21 0.41
32 11 0.22
33 18 0.35
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (32 bp):
GTACACACAAAGTATACATAACCTTTTCAAGA
Found at i:106809680 original size:22 final size:22
Alignment explanation
Indices: 106809624--106809682 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
106809614 TTCTCTACCT
* *
106809624 TAAACCCTAAACCCTAAAACCA
1 TAAACCCTAAACTCTAAAAACA
*
106809646 TAAACTCTAAACTCTAAAAACA
1 TAAACCCTAAACTCTAAAAACA
106809668 TAAACCCTAAACTCT
1 TAAACCCTAAACTCT
106809683 TCAAGTCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCTAAACTCTAAAAACA
Found at i:106814398 original size:24 final size:28
Alignment explanation
Indices: 106814347--106814399 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
106814337 TAATTATGAA
106814347 AATTAAATTTATGATAATAATTTATTTTT
1 AATTAAATTTAT-ATAATAATTTATTTTT
106814376 AATTAAATTTAT-TAA-AATTT-TTTT
1 AATTAAATTTATATAATAATTTATTTT
106814400 GATAGGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.17
26 5 0.21
27 3 0.12
29 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTAAATTTATATAATAATTTATTTTT
Found at i:106815514 original size:27 final size:25
Alignment explanation
Indices: 106815464--106815522 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
106815454 GTTCTTGAAA
*
106815464 TTAAAAGTAAGTAAAAAGATTAAAATT
1 TTAAAAGTAAGTAAAAAGACT-AAA-T
* * *
106815491 TTAAAATTAAGTCAATAGACTAAAT
1 TTAAAAGTAAGTAAAAAGACTAAAT
106815516 TTAAAAG
1 TTAAAAG
106815523 ATTGAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 17 0.63
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (25 bp):
TTAAAAGTAAGTAAAAAGACTAAAT
Found at i:106818465 original size:24 final size:23
Alignment explanation
Indices: 106818429--106818500 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
106818419 TATCTAATAA
* *
106818429 ATATATATTTTTTTATTTTTAATT
1 ATATATA-TATTTTAATTTTAATT
*
106818453 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
106818476 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
106818497 ATAT
1 ATAT
106818501 TTTTCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 12 0.32
22 4 0.11
23 16 0.42
24 6 0.16
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:106819131 original size:20 final size:20
Alignment explanation
Indices: 106819088--106819132 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
106819078 ATCCAAACAC
*
106819088 CAGAAAAGTAAATCATTTCT
1 CAGAAAAATAAATCATTTCT
*
106819108 -AGAAAAATAAATCATTTTT
1 CAGAAAAATAAATCATTTCT
106819127 CAGAAA
1 CAGAAA
106819133 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (20 bp):
CAGAAAAATAAATCATTTCT
Found at i:106819639 original size:30 final size:31
Alignment explanation
Indices: 106819594--106819662 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
106819584 AAATTGTTAG
106819594 TTTTAAAATGATAAAA-TTACATATTAATTTT
1 TTTTAAAATGATAAAATTTA-ATATTAATTTT
* *
106819625 TTTTAAAAT-TTAAAATTTAATTTTAATTTT
1 TTTTAAAATGATAAAATTTAATATTAATTTT
*
106819655 TTTAAAAA
1 TTTTAAAA
106819663 AGTTTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TTTTAAAATGATAAAATTTAATATTAATTTT
Done.