Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 154 of 214
Found at i:45897929 original size:3 final size:3
Alignment explanation
Indices: 45897921--45898036 Score: 55
Period size: 3 Copynumber: 39.3 Consensus size: 3
45897911 CTTCCCTCCC
* * * *
45897921 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT
* * * * * * *
45897967 GCG CCT CCT TCC CCT TCT TCT TCT TC- TCT TC- TCT TC- TCT TTT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
45898011 TCT T-T TCT TCT TCT CTCAT TCT TCT T
1 TCT TCT TCT TCT TCT -TC-T TCT TCT T
45898037 TCCTGCTGTT
Statistics
Matches: 84, Mismatches: 19, Indels: 20
0.68 0.15 0.16
Matches are distributed among these distances:
2 12 0.14
3 62 0.74
4 9 0.11
5 1 0.01
ACGTcount: A:0.01, C:0.36, G:0.02, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:45898003 original size:13 final size:13
Alignment explanation
Indices: 45897980--45898026 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
45897970 CCTCCTTCCC
45897980 CTTCTTCTTCT-TCT
1 CTTC-TCTTCTCT-T
45897994 CTTCTCTTCTCTT
1 CTTCTCTTCTCTT
* *
45898007 TTTCTCTTTTCTT
1 CTTCTCTTCTCTT
45898020 CTTCTCT
1 CTTCTCT
45898027 CATTCTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 24 0.83
14 5 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
CTTCTCTTCTCTT
Found at i:45898766 original size:3 final size:3
Alignment explanation
Indices: 45898744--45898788 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
45898734 TGCAGGAAAA
* *
45898744 AAG AAT AAG -AG AAG AA- AAG AAG -AG AAT AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45898789 GGGAAAGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:45898783 original size:9 final size:9
Alignment explanation
Indices: 45898744--45898788 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
45898734 TGCAGGAAAA
*
45898744 AAGAATAAG
1 AAGAAGAAG
45898753 -AGAAGAA-
1 AAGAAGAAG
45898760 AAGAAG-AG
1 AAGAAGAAG
*
45898768 AATAAGAAG
1 AAGAAGAAG
45898777 AAGAAGAAG
1 AAGAAGAAG
45898786 AAG
1 AAG
45898789 GGGAAAGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.03
8 16 0.53
9 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:45899142 original size:50 final size:49
Alignment explanation
Indices: 45899088--45899193 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 49
45899078 TAATTTTAAT
*
45899088 TTTTAT-GTTATGGTTTACTATTTATGTTTTGTACATACTATGTCTTATTA
1 TTTTATAGTTAT-G-TTACTATTTATGTTATGTACATACTATGTCTTATTA
* * * *
45899138 TTTTATTATTTATGTTATTATTTATGTTATGTACATTCTATGTTTTATTA
1 TTTTA-TAGTTATGTTACTATTTATGTTATGTACATACTATGTCTTATTA
45899188 TTTTAT
1 TTTTAT
45899194 TTAATTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 42 0.86
51 2 0.04
52 4 0.08
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (49 bp):
TTTTATAGTTATGTTACTATTTATGTTATGTACATACTATGTCTTATTA
Found at i:45899155 original size:12 final size:12
Alignment explanation
Indices: 45899135--45899167 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45899125 CTATGTCTTA
*
45899135 TTATTTTATTAT
1 TTATGTTATTAT
45899147 TTATGTTATTAT
1 TTATGTTATTAT
45899159 TTATGTTAT
1 TTATGTTAT
45899168 GTACATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:45899387 original size:51 final size:47
Alignment explanation
Indices: 45899294--45899415 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 47
45899284 AAATAGTATT
* *
45899294 AAAAATAAAATACCGAAAAAATATGTTTATGAAAAAATAAAATACGAA
1 AAAAATAAAA-AACGAAAAAATATATTTATGAAAAAATAAAATACGAA
* * *
45899342 AAGAAATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAA
1 AA-AAATAAAAAACGAAAA-AATATATTTA-TGAAA-AAATAAAATACGAA
*
45899393 AAAAATAAAAATACGAACAAATA
1 AAAAATAAAAA-ACGAAAAAATA
45899416 GCCAAAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
48 9 0.15
49 16 0.26
50 17 0.27
51 20 0.32
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (47 bp):
AAAAATAAAAAACGAAAAAATATATTTATGAAAAAATAAAATACGAA
Found at i:45899409 original size:17 final size:17
Alignment explanation
Indices: 45899325--45899409 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
45899315 TATGTTTATG
45899325 AAAAAAT-AAAATACGA
1 AAAAAATAAAAATACGA
45899341 AAAGAAATAAAAA-ACGA
1 AAA-AAATAAAAATACGA
* * * **
45899358 AAATAGTATATTTACTGA
1 AAAAAATAAAAATAC-GA
** *
45899376 AAGTAAT-AAAATCCGA
1 AAAAAATAAAAATACGA
45899392 AAAAAATAAAAATACGA
1 AAAAAATAAAAATACGA
45899409 A
1 A
45899410 CAAATAGCCA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
16 14 0.28
17 25 0.50
18 11 0.22
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAAATACGA
Found at i:45899664 original size:157 final size:157
Alignment explanation
Indices: 45899346--45899880 Score: 795
Period size: 157 Copynumber: 3.4 Consensus size: 157
45899336 TACGAAAAGA
* ** * *
45899346 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
*
45899411 AAATAGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAACACACTAAAATAATACATTTCA
66 AAACAGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAACACACTAAAATAATACATTTCA
* * *
45899476 AACATTATATACTAAAATAATATAAAGT
130 AATATTATGTACTAAAATAATATAAAAT
*
45899504 AATAAAATATC-AAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAATAAGAAAAATACGAA
1 AATAAAATA-CGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAA
* * * *
45899568 CAAACAGTCAAAATAAGGGCTTTTTACTAAATTTGTATAAAAACACACTAAAATAATAAATTTCA
65 CAAACAGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAACACACTAAAATAATACATTTCA
45899633 AATATTATGTACTAAAATAATATAAAAT
130 AATATTATGTACTAAAATAATATAAAAT
* * * *
45899661 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAAAAAAATTCGAAAATAAGAAAATTACAAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
** *
45899726 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTC
66 AAACAGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAACACACTAAAATAATACATTTC
*
45899791 AAACT-TTCTGTACTAAAATAATATAAAAT
129 AAA-TATTATGTACTAAAATAATATAAAAT
* *
45899820 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
45899881 ATTGAAATTA
Statistics
Matches: 340, Mismatches: 32, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
156 1 0.00
157 158 0.46
158 73 0.21
159 107 0.31
160 1 0.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (157 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
AAACAGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAACACACTAAAATAATACATTTCAA
ATATTATGTACTAAAATAATATAAAAT
Found at i:45905039 original size:76 final size:76
Alignment explanation
Indices: 45904959--45905100 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 76
45904949 ATAGTTTTTT
45904959 ACTAAAAATAATACTAACTAACAATAATAATTAAGG-TTTTACTAAAAATAATAACTAACAATAA
1 ACTAAAAATAATACTAACTAA-AATAATAATTAAGGTTTTTACTAAAAATAATAACTAACAATAA
45905023 TATAGTGTAAAA
65 TATAGTGTAAAA
* * * *** *
45905035 ACTAACAATCATACTAACTAAAATAATAATTAGGGTTTTTACTAATTCTAATAACTAACCATAAT
1 ACTAAAAATAATACTAACTAAAATAATAATTAAGGTTTTTACTAAAAATAATAACTAACAATAAT
45905100 A
66 A
45905101 ATAATATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 13 0.22
76 45 0.78
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (76 bp):
ACTAAAAATAATACTAACTAAAATAATAATTAAGGTTTTTACTAAAAATAATAACTAACAATAAT
ATAGTGTAAAA
Found at i:45905357 original size:20 final size:20
Alignment explanation
Indices: 45905334--45905387 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
45905324 TTCTATTTTT
45905334 TTTCTTCTCTTTCTTTCTC-C
1 TTTCTTCT-TTTCTTTCTCTC
*
45905354 TTTC-TCTATTCTTTTCTCTC
1 TTTCTTCTTTTC-TTTCTCTC
45905374 TTT-TTCTTTTCTTT
1 TTTCTTCTTTTCTTT
45905388 TTTCGGCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 14 0.48
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCTTCTTTTCTTTCTCTC
Found at i:45909075 original size:32 final size:32
Alignment explanation
Indices: 45909039--45909104 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
45909029 TCATTCTATG
45909039 TTTATTGCCTTAGATTTTCTTGTTGAATGCTT
1 TTTATTGCCTTAGATTTTCTTGTTGAATGCTT
45909071 TTTATTGCCTTAGATTTTCTTGTTGAATGCTT
1 TTTATTGCCTTAGATTTTCTTGTTGAATGCTT
45909103 TT
1 TT
45909105 CATTTCATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (32 bp):
TTTATTGCCTTAGATTTTCTTGTTGAATGCTT
Found at i:45911653 original size:52 final size:52
Alignment explanation
Indices: 45911575--45911679 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
45911565 TCAAATCTCG
45911575 ATCCATCTAGATGTTCAATAAAAGACTACCTTCACTTGCTTGTTTGGTACTT
1 ATCCATCTAGATGTTCAATAAAAGACTACCTTCACTTGCTTGTTTGGTACTT
45911627 ATCCATCTAGATGTTCAATAAAAGACTACCTTCACTTGCTTGTTTGGTACTT
1 ATCCATCTAGATGTTCAATAAAAGACTACCTTCACTTGCTTGTTTGGTACTT
45911679 A
1 A
45911680 CGCCTTTTCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (52 bp):
ATCCATCTAGATGTTCAATAAAAGACTACCTTCACTTGCTTGTTTGGTACTT
Found at i:45914225 original size:20 final size:20
Alignment explanation
Indices: 45914179--45914226 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45914169 TAAATCGAGC
*
45914179 CTTTGAAGCCCTAAAAATAG
1 CTTTGAGGCCCTAAAAATAG
*
45914199 CTTTGAGGCCTTAAAAATAG
1 CTTTGAGGCCCTAAAAATAG
*
45914219 TTTTGAGG
1 CTTTGAGG
45914227 TAATTCAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
CTTTGAGGCCCTAAAAATAG
Found at i:45917106 original size:16 final size:17
Alignment explanation
Indices: 45917085--45917116 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45917075 TATAAAACAA
45917085 AAGAAAGAAA-AGAAAT
1 AAGAAAGAAACAGAAAT
45917101 AAGAAAGAAACAGAAA
1 AAGAAAGAAACAGAAA
45917117 GCTTAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
AAGAAAGAAACAGAAAT
Found at i:45918068 original size:25 final size:25
Alignment explanation
Indices: 45918017--45918072 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
45918007 ACTTTAGCGC
* ***
45918017 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGACAGT
45918042 GCTCTCTGATTACTAGCACGACAGT
1 GCTCTCTGATTACTAGCACGACAGT
45918067 GCTCTC
1 GCTCTC
45918073 CGTTTAGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGACAGT
Found at i:45929210 original size:12 final size:12
Alignment explanation
Indices: 45929198--45929247 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
45929188 CTTGTTCTTG
*
45929198 TTATTGTTATTG
1 TTATTGTTATTA
*
45929210 TTGTTGTTATTA
1 TTATTGTTATTA
* *
45929222 CTATTATTATTA
1 TTATTGTTATTA
*
45929234 TTATTATTATTA
1 TTATTGTTATTA
45929246 TT
1 TT
45929248 TGTGGTTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:45929229 original size:3 final size:3
Alignment explanation
Indices: 45929216--45929247 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
45929206 ATTGTTGTTG
*
45929216 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45929248 TGTGGTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:45938441 original size:12 final size:12
Alignment explanation
Indices: 45938424--45938448 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45938414 GGTGTTCATT
45938424 CGGTTAACCGAC
1 CGGTTAACCGAC
45938436 CGGTTAACCGAC
1 CGGTTAACCGAC
45938448 C
1 C
45938449 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45938620 original size:9 final size:9
Alignment explanation
Indices: 45938606--45938669 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
45938596 TTTGGTTAAA
45938606 AATTACCCG
1 AATTACCCG
45938615 AATTACCCG
1 AATTACCCG
45938624 AATTACCCG
1 AATTACCCG
*
45938633 -ATTAACCG
1 AATTACCCG
* *
45938641 AATTAACTG
1 AATTACCCG
*
45938650 AATTAACCG
1 AATTACCCG
45938659 AATTACCCG
1 AATTACCCG
45938668 AA
1 AA
45938670 AATTACCCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
8 7 0.14
9 43 0.86
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:45938629 original size:18 final size:18
Alignment explanation
Indices: 45938606--45938669 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
45938596 TTTGGTTAAA
*
45938606 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
45938624 AATTACCCG-ATTAACCG
1 AATTACCCGAATTAACCG
* *
45938641 AATTAACTGAATTAACCG
1 AATTACCCGAATTAACCG
45938659 AATTACCCGAA
1 AATTACCCGAA
45938670 AATTACCCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.35
18 26 0.65
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:45939834 original size:3 final size:3
Alignment explanation
Indices: 45939826--45939865 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45939816 GTATGTCAAT
45939826 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
45939866 CCTCTCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:45948240 original size:22 final size:22
Alignment explanation
Indices: 45948214--45948259 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
45948204 ATATGTTTCG
45948214 ATATATGCTAT-ATTAGATTGAA
1 ATATATGC-ATGATTAGATTGAA
*
45948236 ATATATGCATGATTATATTGAA
1 ATATATGCATGATTAGATTGAA
45948258 AT
1 AT
45948260 TTTAGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (22 bp):
ATATATGCATGATTAGATTGAA
Found at i:45949328 original size:4 final size:4
Alignment explanation
Indices: 45949319--45949360 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
45949309 ATAGTTTTAG
45949319 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
45949361 TCTCTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:45951097 original size:21 final size:22
Alignment explanation
Indices: 45951046--45951106 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
45951036 ATTCAATTAT
* *
45951046 TTTAAAAAAAATAAAGATCAAA
1 TTTAATAAAAATAAAAATCAAA
*
45951068 TTTAATAAAAATAAAAATTAAA
1 TTTAATAAAAATAAAAATCAAA
* *
45951090 -TTATTAAAAATATAAAT
1 TTTAATAAAAATAAAAAT
45951107 GTTAAGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TTTAATAAAAATAAAAATCAAA
Found at i:45951125 original size:14 final size:14
Alignment explanation
Indices: 45951079--45951126 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
45951069 TTAATAAAAA
45951079 TAAAAATTAAATTAT
1 TAAAAATTAAATT-T
*
45951094 TAAAAATATAAATGT
1 TAAAAAT-TAAATTT
*
45951109 TAAGAATTAAATTT
1 TAAAAATTAAATTT
45951123 TAAA
1 TAAA
45951127 TTATACCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 14 0.50
16 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
TAAAAATTAAATTT
Found at i:45957013 original size:95 final size:95
Alignment explanation
Indices: 45956850--45957040 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
45956840 AATCTCCTTA
45956850 GTCGAACTGACAACTAAATAATGCTATTTAGCCATTTTGATCTTGTTATATTTACTTTTACATTA
1 GTCGAACTGACAACTAAATAATGCTATTTAGCCATTTTGATCTTGTTATATTTACTTTTACATTA
45956915 TCTCATGATGGCTTGCACCCCAATTGTTTT
66 TCTCATGATGGCTTGCACCCCAATTGTTTT
*
45956945 GTCGAACTGACAACTAAATAATGCTATTTAGCCATTTTGATCTTGTTATATTTACTTTTGCATTA
1 GTCGAACTGACAACTAAATAATGCTATTTAGCCATTTTGATCTTGTTATATTTACTTTTACATTA
45957010 TCTCATGATGGCTTGCACCCCAATTGTTTT
66 TCTCATGATGGCTTGCACCCCAATTGTTTT
45957040 G
1 G
45957041 CTATTCCTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (95 bp):
GTCGAACTGACAACTAAATAATGCTATTTAGCCATTTTGATCTTGTTATATTTACTTTTACATTA
TCTCATGATGGCTTGCACCCCAATTGTTTT
Found at i:45966477 original size:19 final size:20
Alignment explanation
Indices: 45966434--45966477 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
45966424 CTTGGTACAA
45966434 ATACACATAAAATTGTGTGAAG
1 ATACACATAAAA-T-TGTGAAG
*
45966456 ATACACATAAAA-TGTGACG
1 ATACACATAAAATTGTGAAG
45966475 ATA
1 ATA
45966478 GACGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (20 bp):
ATACACATAAAATTGTGAAG
Found at i:45972853 original size:31 final size:29
Alignment explanation
Indices: 45972817--45972887 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
45972807 ACTACCAAAA
* *
45972817 TAGTCACTTTTATTTGGCACATGTTACATTT
1 TAGTCACTTATATTT-G-AAATGTTACATTT
* *
45972848 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATATTTGAAATGTTACATTT
45972877 TAGTCACTTAT
1 TAGTCACTTAT
45972888 GTTATCACGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 22 0.61
30 1 0.03
31 13 0.36
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
TAGTCACTTATATTTGAAATGTTACATTT
Found at i:45972912 original size:31 final size:29
Alignment explanation
Indices: 45972837--45972913 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
45972827 TATTTGGCAC
* *
45972837 ATGTTACATTTTAGTCACTTATGTTTGAA
1 ATGTAACATTTTAGTCACTTATGTTTCAA
* * *
45972866 ATGTTACGTTTTAGTCACTTATGTTATCACG
1 ATGTAACATTTTAGTCACTTATGTT-TCA-A
*
45972897 TTGTAACATTTTAGTCA
1 ATGTAACATTTTAGTCA
45972914 TTGAGCCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 24 0.60
30 2 0.05
31 14 0.35
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATGTTTCAA
Found at i:45973540 original size:31 final size:29
Alignment explanation
Indices: 45973476--45973544 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
45973466 ATGATAACGT
* *
45973476 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
45973505 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
45973536 AAGTGACTA
1 AAGTGACTA
45973545 TTTTGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:45975283 original size:12 final size:13
Alignment explanation
Indices: 45975254--45975286 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45975244 TTTTTAACTA
*
45975254 ATAATTGTAAATT
1 ATAATTATAAATT
45975267 ATAATTATAAA-T
1 ATAATTATAAATT
45975279 ATAATTAT
1 ATAATTAT
45975287 CACAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
ATAATTATAAATT
Found at i:45975692 original size:19 final size:22
Alignment explanation
Indices: 45975664--45975709 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
45975654 ATATCATACC
45975664 TTTT-AAATAAT-TTT-TAAT-
1 TTTTAAAATAATCTTTATAATA
45975682 TTTTAAAATAATCTTTATAATA
1 TTTTAAAATAATCTTTATAATA
45975704 TTTTAA
1 TTTTAA
45975710 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 7 0.29
20 3 0.12
21 4 0.17
22 6 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAATAATCTTTATAATA
Found at i:45986366 original size:19 final size:20
Alignment explanation
Indices: 45986325--45986363 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
45986315 TTATTTTTAT
*
45986325 ATTTTTATACTTTTTAAATA
1 ATTTTTATACTTTTTAAAAA
45986345 ATTTTTA-A-TTTTTAAAAA
1 ATTTTTATACTTTTTAAAAA
45986363 A
1 A
45986364 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTATACTTTTTAAAAA
Found at i:46000263 original size:10 final size:10
Alignment explanation
Indices: 46000248--46000277 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46000238 GTAAGACATA
46000248 TTATAAATAT
1 TTATAAATAT
46000258 TTATAAATA-
1 TTATAAATAT
46000267 TTATAAATAT
1 TTATAAATAT
46000277 T
1 T
46000278 AAGCAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATAAATAT
Found at i:46000270 original size:9 final size:9
Alignment explanation
Indices: 46000245--46000278 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
46000235 TTGGTAAGAC
46000245 ATATTATAA
1 ATATTATAA
46000254 ATATTTATAA
1 ATA-TTATAA
46000264 ATATTATAA
1 ATATTATAA
46000273 ATATTA
1 ATATTA
46000279 AGCAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATTATAA
Found at i:46007242 original size:29 final size:30
Alignment explanation
Indices: 46007175--46007243 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
46007165 ATTTGATCTT
* *
46007175 ATTTAATTCTTTTTAATAATACAATGACTA
1 ATTTAATTCTATTTAATAATACAAGGACTA
* * *
46007205 AATTGATTC-ATTTAATAATA-GAGGAACTA
1 ATTTAATTCTATTTAATAATACAAGG-ACTA
46007234 ATTTAATTCT
1 ATTTAATTCT
46007244 GTTCCTATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
28 2 0.07
29 21 0.70
30 7 0.23
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTTAATTCTATTTAATAATACAAGGACTA
Found at i:46009141 original size:24 final size:22
Alignment explanation
Indices: 46009114--46009159 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
46009104 AAAAAATTCT
*
46009114 ATTTTATTCATTAACATTATCTAA
1 ATTTAATTCATTAA-ATTA-CTAA
*
46009138 ATTTAATTCGTTAAATTACTAA
1 ATTTAATTCATTAAATTACTAA
46009160 CGGTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 12 0.60
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAATTCATTAAATTACTAA
Found at i:46010025 original size:20 final size:20
Alignment explanation
Indices: 46009983--46010031 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46009973 TTTTCTTTAA
*
46009983 ATTATTTTATTTTTAAGACT
1 ATTATTTTATTTATAAGACT
*
46010003 ATTATTTTATTTAT-AGAATT
1 ATTATTTTATTTATAAG-ACT
46010023 ATTATTTTA
1 ATTATTTTA
46010032 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAGACT
Found at i:46016719 original size:38 final size:36
Alignment explanation
Indices: 46016646--46016778 Score: 162
Period size: 37 Copynumber: 3.6 Consensus size: 36
46016636 TACCGTATGC
* *
46016646 AATTTTGAAAATATA-TTAAAAAATACGAA-TAGATA
1 AATTTTGAAAAAAGATTTAAAAAATACGAACT-GATA
46016681 AATTTTGAAAAAAGATTTTAAAAGAATACGAACTGATA
1 AATTTTGAAAAAAGA-TTTAAAA-AATACGAACTGATA
* *
46016719 AATTTTGAAAAAATATTTAAGAAAATACGATCTGATA
1 AATTTTGAAAAAAGATTTAA-AAAATACGAACTGATA
* *
46016756 AATTTTGAAAAAAAAATTAAAAA
1 AATTTTGAAAAAAGATTTAAAAA
46016779 TAAAATGCAA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
35 13 0.15
36 3 0.03
37 42 0.48
38 28 0.32
39 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (36 bp):
AATTTTGAAAAAAGATTTAAAAAATACGAACTGATA
Found at i:46016830 original size:22 final size:23
Alignment explanation
Indices: 46016790--46016834 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
46016780 AAAATGCAAA
*
46016790 ATTGATAAATTCATGGAACGTGG
1 ATTGATAAAATCATGGAACGTGG
46016813 ATTGATAAAAT-ATGGAACGTGG
1 ATTGATAAAATCATGGAACGTGG
46016835 CCATGGGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.29
Consensus pattern (23 bp):
ATTGATAAAATCATGGAACGTGG
Found at i:46017941 original size:21 final size:22
Alignment explanation
Indices: 46017916--46017978 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
46017906 ATATAAATAT
46017916 TATATTAATTTAATAAGATTTA
1 TATATTAATTTAATAAGATTTA
*
46017938 -ATATTAAATTTAATCTAATATTTA
1 TATATT-AATTTAA--TAAGATTTA
46017962 TCTATATTAATTTAATA
1 --TATATTAATTTAATA
46017979 TTAAAGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
24 10 0.29
26 7 0.21
27 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTAATTTAATAAGATTTA
Found at i:46024077 original size:22 final size:22
Alignment explanation
Indices: 46024051--46024092 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46024041 ATAAATACTG
*
46024051 TAACATG-GTAATTTTTTTATAA
1 TAACATGAG-AATTGTTTTATAA
46024073 TAACATGAGAATTGTTTTAT
1 TAACATGAGAATTGTTTTAT
46024093 GTAAATGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
TAACATGAGAATTGTTTTATAA
Found at i:46027333 original size:15 final size:17
Alignment explanation
Indices: 46027298--46027335 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
46027288 GAATGAAAAG
*
46027298 AAAATTGAAAGAGTAGA
1 AAAATAGAAAGAGTAGA
46027315 AAAATAGAAAGA-T-GA
1 AAAATAGAAAGAGTAGA
46027330 AAAATA
1 AAAATA
46027336 TAATTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (17 bp):
AAAATAGAAAGAGTAGA
Found at i:46030719 original size:18 final size:18
Alignment explanation
Indices: 46030673--46030723 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
46030663 AGCTTTCAGG
46030673 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
46030691 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
46030709 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
46030724 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:46033500 original size:20 final size:20
Alignment explanation
Indices: 46033475--46033514 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46033465 AATATTTTCC
*
46033475 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46033495 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46033515 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46033520 original size:34 final size:35
Alignment explanation
Indices: 46033463--46033529 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46033453 ACTTTTCCGG
*
46033463 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46033498 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46033530 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46033521 original size:14 final size:14
Alignment explanation
Indices: 46033498--46033537 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46033488 ACAGAAAAGT
*
46033498 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46033512 AAATCATTTTACGG
1 AAAACATTTTACAG
46033526 AAAACATTTTAC
1 AAAACATTTTAC
46033538 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46039611 original size:43 final size:42
Alignment explanation
Indices: 46039545--46039703 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
46039535 AGCTCGTACA
** *
46039545 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAAT-ACG
* * * * *
46039588 ATGCCACTATCCCATACAAGGTCTTACACGAAATCATATACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATACG
* *
46039630 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATATCCCAGACATGGTCTTACACGT-AA--TCAAATACG
* *
46039674 ATGCCAACATCCCAGACGTGGTCTTACACG
1 ATGCCAATATCCCAGACATGGTCTTACACG
46039704 ATATCACATA
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.30
43 33 0.35
44 28 0.30
45 5 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATACG
Found at i:46039701 original size:86 final size:84
Alignment explanation
Indices: 46039545--46039709 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 84
46039535 AGCTCGTACA
* *
46039545 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACGATGCCACTATCCCATACAAGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACGATGCCACTATCCCAGACAAGGT
46039610 CTTACACGAAATCATATACG
65 CTTACACGAAATCATATACG
* * **
46039630 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC-ATCCCAGACGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AA--TCAAATACGATGCC-ACTATCCCAGACAA
*
46039693 GGTCTTACACGATATCA
62 GGTCTTACACGAAATCA
46039710 CATATCGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
85 28 0.41
86 33 0.48
87 2 0.03
88 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATACGATGCCACTATCCCAGACAAGGTC
TTACACGAAATCATATACG
Found at i:46040710 original size:13 final size:13
Alignment explanation
Indices: 46040692--46040718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46040682 TACAAACGAT
46040692 AAAATTTTCACAC
1 AAAATTTTCACAC
46040705 AAAATTTTCACAC
1 AAAATTTTCACAC
46040718 A
1 A
46040719 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:46055273 original size:25 final size:24
Alignment explanation
Indices: 46055245--46055291 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
46055235 AAATATTTTT
* *
46055245 TTATTTTTATACTTTTTTAAAAAAA
1 TTATTCTTATA-TATTTTAAAAAAA
46055270 TTATTCTTATATATTTTAAAAA
1 TTATTCTTATATATTTTAAAAA
46055292 TATTTACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTCTTATATATTTTAAAAAAA
Found at i:46058746 original size:16 final size:17
Alignment explanation
Indices: 46058719--46058756 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
46058709 ATAAAAAAAC
46058719 ATATAT-TTTAT-ATTA
1 ATATATGTTTATAATTA
46058734 ATATATGTTTATAATTA
1 ATATATGTTTATAATTA
46058751 A-ATATG
1 ATATATG
46058757 AATATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
ATATATGTTTATAATTA
Found at i:46060501 original size:23 final size:23
Alignment explanation
Indices: 46060456--46060502 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
46060446 AGCACGAAAA
*
46060456 TTTTTTTAAAAAATGAAAGTTTT
1 TTTTTTTAAAAAACGAAAGTTTT
*
46060479 TTTTTTTAAAACACGAGAA-TTTT
1 TTTTTTTAAAAAACGA-AAGTTTT
46060502 T
1 T
46060503 AAACACGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTTTTTAAAAAACGAAAGTTTT
Found at i:46060503 original size:17 final size:16
Alignment explanation
Indices: 46060481--46060788 Score: 191
Period size: 17 Copynumber: 18.3 Consensus size: 16
46060471 AAAGTTTTTT
46060481 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGA-AA
46060498 TTTTT-AAACACGAAA
1 TTTTTAAAACACGAAA
* *
46060513 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACG-AAA
*
46060531 TTTTTAAAACACGACAT
1 TTTTTAAAACACGA-AA
*
46060548 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGA-AA
* *
46060565 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGA-AA
* *
46060582 TTTTTGAAACAC-AATTT
1 TTTTTAAAACACGAA--A
*
46060599 TTTTCTTAAA-A--AAA
1 TTTT-TAAAACACGAAA
*
46060613 --TTTAAAATACGAGAA
1 TTTTTAAAACACGA-AA
46060628 TTTTTAAAACACGAAAA
1 TTTTTAAAACACG-AAA
46060645 TTTTTAAAACACGAAAA
1 TTTTTAAAACACG-AAA
*
46060662 TTTTTGAAACACGGAAA
1 TTTTTAAAACAC-GAAA
**
46060679 TTTTTTAGAAA-ACGATT
1 -TTTTTA-AAACACGAAA
* *
46060696 TTTTTAAAATCACCGGAG
1 TTTTTAAAA-CA-CGAAA
46060714 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACG-AAA
* *
46060732 TCTTTGAAACACCGAAA
1 TTTTTAAAACA-CGAAA
46060749 TTTTTGAAAACACGAAGA
1 TTTTT-AAAACACGAA-A
*
46060767 TTTTTGAAACACGAAAA
1 TTTTTAAAACACG-AAA
46060784 TTTTT
1 TTTTT
46060789 TGAAGCACGA
Statistics
Matches: 233, Mismatches: 32, Indels: 52
0.74 0.10 0.16
Matches are distributed among these distances:
11 4 0.02
12 3 0.01
14 1 0.00
15 11 0.05
16 18 0.08
17 140 0.60
18 49 0.21
19 7 0.03
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (16 bp):
TTTTTAAAACACGAAA
Found at i:46060557 original size:34 final size:34
Alignment explanation
Indices: 46060480--46060798 Score: 221
Period size: 34 Copynumber: 9.4 Consensus size: 34
46060470 GAAAGTTTTT
* *
46060480 TTTTTTAAAACACGAGAATTTTT-AAACACGAAA
1 TTTTTTGAAACACGAAAATTTTTAAAACACGAAA
* ** *
46060513 ATTTCAGAAACACGAAAATTTTTAAAACACGACA
1 TTTTTTGAAACACGAAAATTTTTAAAACACGAAA
* * *
46060547 TTTTTTGAAACACGAGAATTTTTAAAACAAGACA
1 TTTTTTGAAACACGAAAATTTTTAAAACACGAAA
** *
46060581 TTTTTTGAAACAC-AATTTTTTTCTTAAA-A--AAA
1 TTTTTTGAAACACGAA-AATTTT-TAAAACACGAAA
* * *
46060613 ---TTTAAAATACGAGAATTTTTAAAACACGAAA
1 TTTTTTGAAACACGAAAATTTTTAAAACACGAAA
* * *
46060644 ATTTTTAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTTGAAACACGAAAATTTTTAAAACAC-GAAA
** *
46060679 TTTTTTAGAAA-ACG-ATTTTTTTAAAATCACCG-GA
1 TTTTTT-GAAACACGAAAATTTTTAAAA-CA-CGAAA
* * *
46060713 GTTTTTGAAAACACGAAAATCTTTGAAACACCGAAA
1 TTTTTTG-AAACACGAAAATTTTTAAAACA-CGAAA
* *
46060749 -TTTTTGAAAACACGAAGATTTTTGAAACACGAAAA
1 TTTTTTG-AAACACGAAAATTTTTAAAACACG-AAA
*
46060784 TTTTTTGAAGCACGA
1 TTTTTTGAAACACGA
46060799 GGATTATTGA
Statistics
Matches: 226, Mismatches: 40, Indels: 38
0.74 0.13 0.12
Matches are distributed among these distances:
28 4 0.02
29 13 0.06
30 1 0.00
31 3 0.01
32 2 0.01
33 20 0.09
34 100 0.44
35 64 0.28
36 19 0.08
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (34 bp):
TTTTTTGAAACACGAAAATTTTTAAAACACGAAA
Found at i:46060745 original size:35 final size:35
Alignment explanation
Indices: 46060616--46060778 Score: 147
Period size: 35 Copynumber: 4.7 Consensus size: 35
46060606 AAAAAAATTT
* * * *
46060616 AAAATACGAGAATTTTTAAAACA-CGAAAATTTTT-
1 AAAACACGAAAATTTTTGAAACACCG-GAATTTTTG
*
46060650 AAAACACGAAAATTTTTGAAACA-CGGAAATTTTTT
1 AAAACACGAAAATTTTTGAAACACCGG-AATTTTTG
** * *
46060685 AGAAA-ACG-ATTTTTTTAAAATCACCGGAGTTTTTG
1 A-AAACACGAAAATTTTTGAAA-CACCGGAATTTTTG
* *
46060720 AAAACACGAAAATCTTTGAAACACCGAAATTTTTG
1 AAAACACGAAAATTTTTGAAACACCGGAATTTTTG
*
46060755 AAAACACGAAGATTTTTGAAACAC
1 AAAACACGAAAATTTTTGAAACAC
46060779 GAAAATTTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
34 41 0.39
35 50 0.48
36 14 0.13
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (35 bp):
AAAACACGAAAATTTTTGAAACACCGGAATTTTTG
Found at i:46060809 original size:35 final size:35
Alignment explanation
Indices: 46060634--46060810 Score: 125
Period size: 35 Copynumber: 5.1 Consensus size: 35
46060624 AGAATTTTTA
* *
46060634 AAACA-CGAAAATTTTT-AAAACACGAAAATTTTTG
1 AAACACCG-AAATTTTTGAAAACACGAAGATTATTG
* * ** * *
46060668 AAACACGGAAATTTTTTAGAAA-ACG-ATTTTTTTA
1 AAACACCGAAATTTTTGA-AAACACGAAGATTATTG
* * *
46060702 AAATCACCGGAGTTTTTGAAAACACGAAAATCT-TTG
1 AAA-CACCGAAATTTTTGAAAACACGAAGAT-TATTG
*
46060738 AAACACCGAAATTTTTGAAAACACGAAGATTTTTG
1 AAACACCGAAATTTTTGAAAACACGAAGATTATTG
* *
46060773 AAACA-CGAAAATTTTTTG-AAGCACGAGGATTATTG
1 AAACACCG-AAA-TTTTTGAAAACACGAAGATTATTG
46060808 AAA
1 AAA
46060811 TTACAATTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
34 28 0.24
35 71 0.61
36 16 0.14
37 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (35 bp):
AAACACCGAAATTTTTGAAAACACGAAGATTATTG
Found at i:46060984 original size:17 final size:16
Alignment explanation
Indices: 46060950--46061000 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
46060940 AAAATTATTT
46060950 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
46060966 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
46060983 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
46061001 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:46061144 original size:10 final size:9
Alignment explanation
Indices: 46061129--46061186 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 9
46061119 ATTGAACCTC
46061129 TTTTTTCTT
1 TTTTTTCTT
46061138 GTTTTTTC--
1 -TTTTTTCTT
46061146 TTTTTTC-T
1 TTTTTTCTT
*
46061154 TTTTCTC-T
1 TTTTTTCTT
*
46061162 CTTTTTCTT
1 TTTTTTCTT
46061171 TTTTTCTCTT
1 TTTTT-TCTT
46061181 TTTTTT
1 TTTTTT
46061187 TTGCTGGGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.17
8 12 0.29
9 6 0.15
10 16 0.39
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:46061149 original size:17 final size:16
Alignment explanation
Indices: 46061127--46061188 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
46061117 GAATTGAACC
46061127 TCTTTTTTCTTGTTTTT
1 TCTTTTTTCTT-TTTTT
*
46061144 TCTTTTTTC-TTTTTC
1 TCTTTTTTCTTTTTTT
46061159 TCTCTTTTTCTTTTTTT
1 TCT-TTTTTCTTTTTTT
46061176 CTCTTTTTT-TTTT
1 -TCTTTTTTCTTTT
46061189 GCTGGGCTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.17
16 11 0.28
17 19 0.47
18 3 0.08
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (16 bp):
TCTTTTTTCTTTTTTT
Found at i:46061166 original size:16 final size:15
Alignment explanation
Indices: 46061139--46061188 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
46061129 TTTTTTCTTG
46061139 TTTTTTCT-TTTTTC
1 TTTTTTCTCTTTTTC
46061153 TTTTTCTCTCTTTTTC
1 TTTTT-TCTCTTTTTC
46061169 TTTTTTTCTCTTTTT-
1 -TTTTTTCTCTTTTTC
46061184 TTTTT
1 TTTTT
46061189 GCTGGGCTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.30
15 3 0.09
16 15 0.45
17 5 0.15
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTCTTTTTC
Found at i:46061334 original size:23 final size:24
Alignment explanation
Indices: 46061305--46061358 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
46061295 CTGCATTTGG
46061305 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
46061329 -CTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
46061352 GCTGCTT
1 GCTGCTT
46061359 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:46061511 original size:3 final size:3
Alignment explanation
Indices: 46061477--46061548 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
46061467 TTTTTATTAT
* *
46061477 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
46061520 TTC TTTC TTC TTC TTCC TTC TTC TTC TTC
1 TTC -TTC TTC TTC TT-C TTC TTC TTC TTC
46061549 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:46061535 original size:13 final size:12
Alignment explanation
Indices: 46061476--46061548 Score: 80
Period size: 13 Copynumber: 6.0 Consensus size: 12
46061466 TTTTTTATTA
46061476 TTTCTTTTCTT-
1 TTTCTTTTCTTC
46061487 TTTCTTTT-TTC
1 TTTCTTTTCTTC
46061498 TTTC-TTTCTTC
1 TTTCTTTTCTTC
46061509 TTCCTCTTTTCTTC
1 TT--TCTTTTCTTC
46061523 TTTCTTCTTCTTC
1 TTTCTT-TTCTTC
*
46061536 CTTCTTCTTCTTC
1 TTTCTT-TTCTTC
46061549 AAAGTCTAGC
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
10 5 0.09
11 17 0.31
12 4 0.07
13 20 0.36
14 9 0.16
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTTCTTC
Found at i:46061644 original size:18 final size:19
Alignment explanation
Indices: 46061608--46061648 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
46061598 CGATACTCTT
*
46061608 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
46061627 TCTTTTCCT-TCCT-TTT-
1 TCTTTTCCTCTCCTCTTTC
46061643 TCTTTT
1 TCTTTT
46061649 TTTCGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 4 0.19
19 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:46061650 original size:18 final size:16
Alignment explanation
Indices: 46061603--46061650 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
46061593 GACGCCGATA
46061603 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTT-TTCTC
*
46061620 CTCTTTCTCTTTTCCTTC
1 CTCTTTCT-TTTTTC-TC
*
46061638 CTTTTTCTTTTTT
1 CTCTTTCTTTTTT
46061651 TCGAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTCTTTTTTCTC
Found at i:46061914 original size:29 final size:30
Alignment explanation
Indices: 46061881--46061997 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
46061871 CGTAATTTTT
*
46061881 AGAAAATTTA-GGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* * *
46061910 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTAGGGGT-TAAAATGAAATTTAA
* * *
46061940 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* *
46061969 GGAAAAGTTTAGGGGTTAAAATGCAATTT
1 AGAAAA-TTTAGGGGTTAAAATGAAATTT
46061998 TTATTTTTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.18
30 57 0.80
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AGAAAATTTAGGGGTTAAAATGAAATTTAA
Found at i:46061936 original size:30 final size:30
Alignment explanation
Indices: 46061896--46061997 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
46061886 ATTTAGGATT
*
46061896 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
46061926 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
46061956 AAAATGAAATTT-AGGAAAAGTTTAGGGGTT
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
46061986 AAAATGCAATTT
1 AAAATGAAATTT
46061998 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:46062018 original size:14 final size:15
Alignment explanation
Indices: 46061993--46062027 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
46061983 GTTAAAATGC
46061993 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
46062008 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
46062022 AATTTT
1 AATTTT
46062028 GAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:46062456 original size:54 final size:54
Alignment explanation
Indices: 46062268--46062910 Score: 985
Period size: 54 Copynumber: 12.0 Consensus size: 54
46062258 CACGTGAGCC
* * * *
46062268 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT--AA
46062323 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATAGAAATTAA
*
46062376 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
46062430 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AGAAATTAA
46062484 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
46062534 AAGGCTCAACTCACCTCTCGCAATATGAGTT-AGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAA
* *
46062588 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
*
46062642 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
46062696 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AGAAATTAA
*
46062750 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
*
46062800 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
* *
46062854 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT-AA
46062909 AA
1 AA
46062911 TACCTCAACG
Statistics
Matches: 549, Mismatches: 16, Indels: 46
0.90 0.03 0.08
Matches are distributed among these distances:
49 1 0.00
50 108 0.20
52 5 0.01
53 43 0.08
54 335 0.61
55 45 0.08
58 6 0.01
59 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
Found at i:46062560 original size:158 final size:160
Alignment explanation
Indices: 46062268--46062910 Score: 1011
Period size: 158 Copynumber: 4.0 Consensus size: 160
46062258 CACGTGAGCC
* * *
46062268 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
46062332 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAG-A-AAAAGGCTCAACTCACCTCTC
64 CTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATAGAATAAAAGGCTCAACTCACCTCTC
*
46062395 GCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
126 GCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
*
46062430 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
46062495 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG-A-AAAAGGCTCAACTCACCTCTCGCAAT
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAATAAAAGGCTCAACTCACCTCTCGCAAT
46062558 ATGAGTT-AGTTTTTGAAAAATAGAAATTAA
131 ATGAGTTGA-TTTTTGAAAAATAGAAATTAA
*
46062588 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
46062653 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG-AA-TAAAAGGCTCAACTCACCTCTCGCA
46062718 ATATGAGTTGATTTTTG-AAAATCAGAAATTAA
129 ATATGAGTTGATTTTTGAAAAAT-AGAAATTAA
46062750 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
* *
46062811 CACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACTCACCTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG-AA-TAAAAGGCTCAACTCACCTCTCGCA
*
46062876 ATATGAGTTGATTTTTGAAAAACAGAAATTGAA
129 ATATGAGTTGATTTTTGAAAAATAGAAATT-AA
46062909 AA
1 AA
46062911 TACCTCAACG
Statistics
Matches: 458, Mismatches: 13, Indels: 23
0.93 0.03 0.05
Matches are distributed among these distances:
158 266 0.58
159 8 0.02
160 2 0.00
161 40 0.09
162 131 0.29
163 11 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (160 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAATAAAAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAATAGAAATTAA
Found at i:46062742 original size:266 final size:265
Alignment explanation
Indices: 46062268--46062910 Score: 1080
Period size: 266 Copynumber: 2.4 Consensus size: 265
46062258 CACGTGAGCC
* * * *
46062268 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTG-TTTTTGAAAAATAGAAATT--AAAAGGCTCAA
*
46062332 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAG--A--AAAAGGCTCAACTCACCTC
63 CTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTC
* *
46062393 TCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGA
125 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGA
46062458 GTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
190 GTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
46062523 AAAAATAGAAA
255 AAAAACAGAAA
46062534 AAGGCTCAACTCACCTCTCGCAATATGAGTTAGTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-GTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
*
46062599 CACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
65 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
46062664 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
130 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
46062729 TTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
195 TTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
46062794 CAGAAA
260 CAGAAA
*
46062800 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-GTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
46062865 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
65 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAA
46062911 TACCTCAACG
Statistics
Matches: 358, Mismatches: 12, Indels: 13
0.93 0.03 0.03
Matches are distributed among these distances:
262 13 0.04
264 1 0.00
265 34 0.09
266 295 0.82
267 15 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (265 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAA
Found at i:46063088 original size:72 final size:72
Alignment explanation
Indices: 46062858--46063477 Score: 1024
Period size: 72 Copynumber: 8.5 Consensus size: 72
46062848 AATTAAAAGT
** * *
46062858 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
46062923 TCTTGAGG
65 TCTTGAGG
*
46062931 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
46062996 TCTTGAGG
65 TCTTGAGG
46063004 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
46063069 CTTGAGG
66 CTTGAGG
* * *
46063076 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAATGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
46063141 TCTTGAGG
65 TCTTGAGG
* *
46063149 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCCTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
46063214 CCTGAGG
66 CTTGAGG
*
46063221 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
46063286 CTTGAGG
66 CTTGAGG
*
46063293 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
46063358 CTTGAGG
66 CTTGAGG
*
46063365 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACCTCAACGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTG-AAATTACCTCAACGT
*
46063430 GCCTTGAGG
64 GTCTTGAGG
** * *
46063439 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAA
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
46063478 GCATAGATTG
Statistics
Matches: 518, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
72 278 0.54
73 185 0.36
74 55 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGG
Found at i:46063123 original size:145 final size:145
Alignment explanation
Indices: 46062858--46063477 Score: 1053
Period size: 145 Copynumber: 4.3 Consensus size: 145
46062848 AATTAAAAGT
** * *
46062858 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
*
46062923 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
65 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
46062988 TCAACGTGTCTTGAGG
130 TCAACGTGTCTTGAGG
46063004 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
46063069 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
*
46063134 CAATGTGTCTTGAGG
131 CAACGTGTCTTGAGG
* *
46063149 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCCTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
* *
46063214 CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAAAAATTGAAATTACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
46063278 CAACGTGTCTTGAGG
131 CAACGTGTCTTGAGG
*
46063293 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
* *
46063358 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACC
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAA-TACC
*
46063423 TCAACGTGCCTTGAGG
130 TCAACGTGTCTTGAGG
** * *
46063439 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAA
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
46063478 GCATAGATTG
Statistics
Matches: 449, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
144 137 0.31
145 226 0.50
146 86 0.19
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (145 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
CAACGTGTCTTGAGG
Found at i:46063508 original size:16 final size:17
Alignment explanation
Indices: 46063474--46063508 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46063464 TTGATTTTTG
* *
46063474 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
46063491 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
46063508 A
1 A
46063509 TACCTCAGCA
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:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:46063713 original size:123 final size:122
Alignment explanation
Indices: 46063492--46063810 Score: 521
Period size: 123 Copynumber: 2.6 Consensus size: 122
46063482 AGATTGAAAA
* * * * * *
46063492 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGT
*
46063557 TGATTTTTGAAAAAGAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
63 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
46063617 AAAACATAAACTAAAAATACCTCGGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCC-GAGGCTCAACTCACTTCTCGCAATATGAGTTG
46063682 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
65 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
46063740 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
46063805 ATTTTT
65 ATTTTT
46063811 TTTAAAAAAT
Statistics
Matches: 183, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
122 2 0.01
123 155 0.85
124 3 0.02
125 23 0.13
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (122 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:46072072 original size:18 final size:17
Alignment explanation
Indices: 46072051--46072361 Score: 166
Period size: 17 Copynumber: 18.4 Consensus size: 17
46072041 ATGAAAGTTT
46072051 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
46072069 -TTTTT-AAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
46072085 -TTTCAAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
46072101 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGAAA
*
46072118 TTTTTTGAAACACGAGAA
1 TTTTTTAAAACACGA-AA
* *
46072136 -TTTTTAAAACAAGACA
1 TTTTTTAAAACACGAAA
* *
46072152 TTTTTTGAAACAC-AATT
1 TTTTTTAAAACACGAA-A
*
46072169 TTTTTCTTAAA-A--AAA
1 TTTTT-TAAAACACGAAA
* *
46072184 ---TTTAAAATATGAGAA
1 TTTTTTAAAACACGA-AA
46072199 -TTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
46072215 ATTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
46072232 ATTTTTGAAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
46072250 TTTTTTAGAAA-ACGATT
1 TTTTTTA-AAACACGAAA
* * *
46072267 TTTTTTAAAATAACCGGAG
1 TTTTTTAAAA-CA-CGAAA
*
46072286 TTTTTGAAAACACGAAA
1 TTTTTTAAAACACGAAA
* * *
46072303 ATCTTTGAAACACCG-AA
1 TTTTTTAAAACA-CGAAA
46072320 TTTTTTGAAAACACGAAGA
1 TTTTTT-AAAACACGAA-A
*
46072339 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACG-AAA
46072356 TTTTTT
1 TTTTTT
46072362 GAAGCACGAG
Statistics
Matches: 228, Mismatches: 40, Indels: 50
0.72 0.13 0.16
Matches are distributed among these distances:
11 4 0.02
12 3 0.01
14 1 0.00
15 2 0.01
16 24 0.11
17 141 0.62
18 38 0.17
19 15 0.07
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:46072072 original size:21 final size:20
Alignment explanation
Indices: 46072020--46072073 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
46072010 AATTTTGAAG
*
46072020 CACGAAAATTTTTTTTAAAA
1 CACGAAATTTTTTTTTAAAA
* *
46072040 AATGAAAGTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTAAAA
46072061 CACGAGAATTTTT
1 CACGA-AATTTTT
46072074 AAACACGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:46072331 original size:35 final size:36
Alignment explanation
Indices: 46072197--46072364 Score: 152
Period size: 35 Copynumber: 4.8 Consensus size: 36
46072187 AAAATATGAG
* *
46072197 AATTTTTAAAACA-CGAAAATTTTT-AAAACACGAA
1 AATTTTTGAAACACCGAAATTTTTTGAAAACACGAA
* *
46072231 AATTTTTGAAACACGGAAATTTTTT-AGAAA-ACGAT
1 AATTTTTGAAACACCGAAATTTTTTGA-AAACACGAA
** * * * *
46072266 TTTTTTTAAAATAACCG-GAGTTTTTGAAAACACGAA
1 AATTTTTGAAA-CACCGAAATTTTTTGAAAACACGAA
*
46072302 AATCTTTGAAACACCG-AATTTTTTGAAAACACGAA
1 AATTTTTGAAACACCGAAATTTTTTGAAAACACGAA
*
46072337 GATTTTTGAAACA-CGAAAATTTTTTGAA
1 AATTTTTGAAACACCG-AAATTTTTTGAA
46072365 GCACGAGGAT
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
34 14 0.13
35 63 0.59
36 29 0.27
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (36 bp):
AATTTTTGAAACACCGAAATTTTTTGAAAACACGAA
Found at i:46072557 original size:17 final size:16
Alignment explanation
Indices: 46072523--46072573 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
46072513 AAAATTATTT
46072523 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
46072539 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
46072556 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
46072574 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:46072717 original size:10 final size:9
Alignment explanation
Indices: 46072702--46072758 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
46072692 ATTGAACCTC
46072702 TTTTTTCTT
1 TTTTTTCTT
46072711 GTTTTTTC--
1 -TTTTTTCTT
46072719 TTTTTTC-T
1 TTTTTTCTT
*
46072727 TTTTCTC-T
1 TTTTTTCTT
*
46072735 CTTTTTCTT
1 TTTTTTCTT
*
46072744 TTTTCTCTT
1 TTTTTTCTT
46072753 TTTTTT
1 TTTTTT
46072759 TTGCTGGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.18
8 12 0.31
9 13 0.33
10 7 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:46072722 original size:17 final size:16
Alignment explanation
Indices: 46072699--46072760 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 16
46072689 CGAATTGAAC
46072699 CTCTTTTTTCTTGTTTT
1 CTCTTTTTTCTT-TTTT
*
46072716 TTCTTTTTTC-TTTTT
1 CTCTTTTTTCTTTTTT
46072731 CTCTCTTTTTCTTTTTT
1 CTCT-TTTTTCTTTTTT
46072748 CTCTTTTTT-TTTT
1 CTCTTTTTTCTTTT
46072761 GCTGGGCTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 11 0.27
16 12 0.29
17 18 0.44
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (16 bp):
CTCTTTTTTCTTTTTT
Found at i:46072863 original size:17 final size:17
Alignment explanation
Indices: 46072816--46072870 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
46072806 TGTGGGTGGT
46072816 CTGCTGCTGCGCTGGGC
1 CTGCTGCTGCGCTGGGC
**
46072833 CTG--GGGGCCTGCTGGGC
1 CTGCTGCTG-C-GCTGGGC
46072850 CTGCTGCTGCGCTGGGC
1 CTGCTGCTGCGCTGGGC
46072867 CTGC
1 CTGC
46072871 ATTTGGGCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 2 0.07
16 1 0.03
17 24 0.80
18 1 0.03
19 2 0.07
ACGTcount: A:0.00, C:0.35, G:0.44, T:0.22
Consensus pattern (17 bp):
CTGCTGCTGCGCTGGGC
Found at i:46072906 original size:23 final size:24
Alignment explanation
Indices: 46072877--46072930 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
46072867 CTGCATTTGG
46072877 GCTGCTTCATTCTTCTTCTTTTTT
1 GCTGCTTCATTCTTCTTCTTTTTT
*
46072901 -CTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCATTCTTCTTCTTTTTT
46072924 GCTGCTT
1 GCTGCTT
46072931 TTTTTTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.02, C:0.26, G:0.09, T:0.63
Consensus pattern (24 bp):
GCTGCTTCATTCTTCTTCTTTTTT
Found at i:46072938 original size:15 final size:16
Alignment explanation
Indices: 46072918--46072972 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
46072908 TTTCTTCTTC
46072918 TTTTTTGC-TGCTTTT
1 TTTTTTGCTTGCTTTT
*
46072933 TTTTTTGCTTTGGTTTT
1 TTTTTTGC-TTGCTTTT
46072950 TTTTTTGGCTTG-TTTCT
1 TTTTTT-GCTTGCTTT-T
46072967 TTTTTT
1 TTTTTT
46072973 TTTCTTGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 8 0.23
16 3 0.09
17 22 0.63
18 2 0.06
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTTTTGCTTGCTTTT
Found at i:46072952 original size:18 final size:16
Alignment explanation
Indices: 46072918--46072973 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 16
46072908 TTTCTTCTTC
*
46072918 TTTTTTGC-TGCTTTT
1 TTTTTTGCTTGTTTTT
46072933 TTTTTTGCTTTGGTTTTT
1 TTTTTTGC-TT-GTTTTT
*
46072951 TTTTTGGCTTGTTTCTT
1 TTTTTTGCTTGTTT-TT
46072968 TTTTTT
1 TTTTTT
46072974 TTCTTGGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 10 0.29
18 12 0.35
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (16 bp):
TTTTTTGCTTGTTTTT
Found at i:46072979 original size:18 final size:18
Alignment explanation
Indices: 46072928--46072980 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
46072918 TTTTTTGCTG
46072928 CTTTTTTTTTTGCTTTGGTT
1 CTTTTTTTTTT-C-TTGGTT
** *
46072948 -TTTTTTTTGGCTTGTTT
1 CTTTTTTTTTTCTTGGTT
46072965 CTTTTTTTTTTCTTGG
1 CTTTTTTTTTTCTTGG
46072981 GCTGCTGGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 5 0.19
18 13 0.50
19 8 0.31
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.75
Consensus pattern (18 bp):
CTTTTTTTTTTCTTGGTT
Found at i:46073084 original size:24 final size:24
Alignment explanation
Indices: 46073064--46073123 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
46073054 CTTTTCTTTT
*
46073064 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
46073088 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
46073112 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
46073124 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:46073086 original size:3 final size:3
Alignment explanation
Indices: 46073052--46073123 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
46073042 TTTTTATTAT
* *
46073052 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
46073095 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
46073124 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46073091 original size:13 final size:13
Alignment explanation
Indices: 46073075--46073123 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
46073065 CTTTTTTCTT
46073075 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
46073088 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
46073101 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
46073112 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
46073124 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:46073107 original size:10 final size:10
Alignment explanation
Indices: 46073092--46073120 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46073082 TCTTCCTCTT
46073092 TTCTTCTTCC
1 TTCTTCTTCC
46073102 TTCTTCTTCC
1 TTCTTCTTCC
46073112 TTCTTCTTC
1 TTCTTCTTC
46073121 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:46073213 original size:17 final size:17
Alignment explanation
Indices: 46073178--46073222 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
46073168 GACGCCGATA
*
46073178 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTTCCTCTC
46073195 CTCTTCTCTTTTCCT-TC
1 CTCTT-TCTTTTCCTCTC
*
46073212 CTTTTTCTTTT
1 CTCTTTCTTTT
46073223 TTTTCGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 8 0.32
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CTCTTTCTTTTCCTCTC
Found at i:46073220 original size:16 final size:18
Alignment explanation
Indices: 46073181--46073222 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
46073171 GCCGATACTC
*
46073181 TTTCTTTTCTTCTCCTCT
1 TTTCTTTTCCTCTCCTCT
*
46073199 TCTCTTTTCCT-TCCT-T
1 TTTCTTTTCCTCTCCTCT
46073215 TTTCTTTT
1 TTTCTTTT
46073223 TTTTCGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCCTCTCCTCT
Found at i:46073489 original size:29 final size:30
Alignment explanation
Indices: 46073456--46073572 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
46073446 CGTAATTTTT
*
46073456 AGAAAATTTA-GGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* * *
46073485 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTAGGGGT-TAAAATGAAATTTAA
* * *
46073515 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* *
46073544 GGAAAAGTTTAGGGGTTAAAATGCAATTT
1 AGAAAA-TTTAGGGGTTAAAATGAAATTT
46073573 TTATTTTTTA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.18
30 57 0.80
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AGAAAATTTAGGGGTTAAAATGAAATTTAA
Found at i:46073511 original size:30 final size:30
Alignment explanation
Indices: 46073471--46073572 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
46073461 ATTTAGGATT
*
46073471 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
46073501 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
46073531 AAAATGAAATTT-AGGAAAAGTTTAGGGGTT
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
46073561 AAAATGCAATTT
1 AAAATGAAATTT
46073573 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:46073593 original size:14 final size:15
Alignment explanation
Indices: 46073568--46073602 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
46073558 GTTAAAATGC
*
46073568 AATTTTTATTTTTTA
1 AATTTTTATTTTTGA
46073583 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
46073597 AATTTT
1 AATTTT
46073603 AAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:46074089 original size:4 final size:4
Alignment explanation
Indices: 46074080--46074123 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
46074070 TATATATCAT
46074080 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
46074124 ATAATGTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:46074446 original size:30 final size:30
Alignment explanation
Indices: 46074412--46074471 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46074402 GTCTACGCCA
*
46074412 CCATCGGCATCTCCTTCTCCTTCCTCTCCG
1 CCATCGGCATCTCCATCTCCTTCCTCTCCG
* *
46074442 CCATCTGCATCTGCATCTCCTTCCTCTCCG
1 CCATCGGCATCTCCATCTCCTTCCTCTCCG
46074472 GTTCCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.08, C:0.48, G:0.10, T:0.33
Consensus pattern (30 bp):
CCATCGGCATCTCCATCTCCTTCCTCTCCG
Found at i:46079136 original size:29 final size:30
Alignment explanation
Indices: 46079082--46079145 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
46079072 GGGATGGGAG
* *
46079082 GGGAGTAAAATTTTTTGTGGAAAAGTAGAA-
1 GGGAGTAAAATATTTTGGGGAAAAGTA-AAT
*
46079112 GGGAGTAAAA-ATTTTGGGGGAAAGTAAAT
1 GGGAGTAAAATATTTTGGGGAAAAGTAAAT
46079141 GGGAG
1 GGGAG
46079146 AGTAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 2 0.07
29 18 0.60
30 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (30 bp):
GGGAGTAAAATATTTTGGGGAAAAGTAAAT
Found at i:46079152 original size:139 final size:142
Alignment explanation
Indices: 46078976--46079238 Score: 347
Period size: 139 Copynumber: 1.9 Consensus size: 142
46078966 GGTTTGGGGA
* * * *
46078976 AGTAAAATTTTTAGGGGAAGTAAATAGGGGGAGTAAAATTTTGGAGAGAAAATATTAAAAAAATT
1 AGTAAAAATTTTAGGGGAAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAATT
*** * * * *
46079041 GAG-G-GGGGTGGGTTTAGGGTAGATG-GGAG-GTGGGATGGGAGGGGAGTAAAATTTTTTGTGG
66 G-GTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTTTGTGG
46079102 AAAAGTAGAAGGG
130 AAAAGTAGAAGGG
* *
46079115 AGTAAAAATTTTGGGGGAAAGTAAAT-GGGAGAGTAAAATGTTGAAGGGAAAATATTAAAAAAAT
1 AGTAAAAATTTTAGGGG-AAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAAT
*
46079179 TGGTGAGAAATGGATTTTGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTT
65 TGGTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTT
46079239 GGAGGGAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 52 0.50
140 24 0.23
141 4 0.04
142 24 0.23
ACGTcount: A:0.38, C:0.00, G:0.37, T:0.25
Consensus pattern (142 bp):
AGTAAAAATTTTAGGGGAAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAATT
GGTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTTTGTGGA
AAAGTAGAAGGG
Found at i:46081599 original size:16 final size:15
Alignment explanation
Indices: 46081578--46081625 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
46081568 GATGTGAATA
46081578 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
46081594 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
46081609 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
46081625 A
1 A
46081626 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:46081601 original size:24 final size:24
Alignment explanation
Indices: 46081574--46081629 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
46081564 TAATGATGTG
*
46081574 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
46081598 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
46081622 AATAATAA
1 AATAATAA
46081630 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:46081608 original size:8 final size:8
Alignment explanation
Indices: 46081574--46081625 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
46081564 TAATGATGTG
*
46081574 AATAATAA
1 AATATTAA
46081582 AATATATAA
1 AATAT-TAA
46081591 AATA-TAA
1 AATATTAA
46081598 AATATTAA
1 AATATTAA
*
46081606 AATATCAA
1 AATATTAA
*
46081614 AATATTAG
1 AATATTAA
46081622 AATA
1 AATA
46081626 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:46081799 original size:20 final size:20
Alignment explanation
Indices: 46081747--46081803 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
46081737 ATACTACATC
*
46081747 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
46081768 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
46081787 AATATGTACATAATATA
1 AATATGTACATAATATA
46081804 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:46081845 original size:22 final size:24
Alignment explanation
Indices: 46081782--46081903 Score: 86
Period size: 25 Copynumber: 5.0 Consensus size: 24
46081772 CGTGATAATA
*
46081782 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
46081807 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
* * **
46081830 TT-AAGATATATACATAAGATAACA
1 TTAAAAATATATACATAATAT-AGG
* **
46081854 TGTAAAATATATATAAATAATATAATA
1 T-TAAAA-ATATATACATAATAT-AGG
* *
46081881 TTAAAGATATATACATAAAATAG
1 TTAAAAATATATACATAATATAG
46081904 TATTATATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
22 15 0.19
23 4 0.05
24 2 0.03
25 34 0.44
26 6 0.08
27 17 0.22
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:46081865 original size:27 final size:25
Alignment explanation
Indices: 46081832--46081898 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 25
46081822 TAATATAGTT
46081832 AAGATATATACATAAGATAACATGTAA
1 AAGATATATACATAAGATAACAT-T-A
* * * *
46081859 AATATATATAAATAATATAATATTA
1 AAGATATATACATAAGATAACATTA
46081884 AAGATATATACATAA
1 AAGATATATACATAA
46081899 AATAGTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.41
26 1 0.03
27 19 0.56
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
AAGATATATACATAAGATAACATTA
Found at i:46081890 original size:25 final size:25
Alignment explanation
Indices: 46081776--46081991 Score: 134
Period size: 23 Copynumber: 9.0 Consensus size: 25
46081766 AAAATACGTG
* *
46081776 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
46081801 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
46081826 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
46081848 ATAACATGTAAAATATATATAAATAAT
1 ATAATAT-T-AAAGATATATACATAAT
*
46081875 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
46081900 ATAGTATT--ATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
46081923 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
46081946 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
46081968 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
46081991 A
1 A
46081992 ACAAAAAAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 46 0.30
24 8 0.05
25 46 0.30
26 1 0.01
27 19 0.13
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:46082631 original size:30 final size:30
Alignment explanation
Indices: 46082481--46082655 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
46082471 TAGGTACAAG
* *
46082481 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
46082511 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
46082541 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
46082571 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
46082601 TGGTGATGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
46082631 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
46082656 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 2 0.02
30 127 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:46083461 original size:75 final size:76
Alignment explanation
Indices: 46083363--46083540 Score: 261
Period size: 76 Copynumber: 2.4 Consensus size: 76
46083353 CGACATGTAA
*
46083363 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATTGAAAA-CG
1 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
**
46083426 CCTCAGCGTGTG
66 -CTCAGCACGTG
* *
46083438 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
1 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
46083503 CTCAGCACGTG
66 CTCAGCACGTG
* * *
46083514 AGCAAAGGCTCAACTCACTTCTCGCAA
1 ACCCAAGGCTCAACTCACATCTCGCAA
46083541 AAGTAGATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 35 0.38
76 56 0.61
77 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (76 bp):
ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
CTCAGCACGTG
Found at i:46083854 original size:76 final size:75
Alignment explanation
Indices: 46083642--46083868 Score: 289
Period size: 76 Copynumber: 3.0 Consensus size: 75
46083632 AAAACAGAAA
* ** ** *
46083642 TTGAAAAGCAG-AATTAAAAGGACCTCAGCATGTGAGCCGAGACTCAACTCACCTTTCGTAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTTTCGTAATAT
*
46083706 GAGTT-A-ATTT
64 GAGTTGATTTTT
* * * *
46083716 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGTAATATGA
46083781 GTTGATTTTT
66 GTTGATTTTT
* *
46083791 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGTAATATG
46083856 AGTTGATTTTT
65 AGTTGATTTTT
46083867 TT
1 TT
46083869 TACGAATAGA
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
73 34 0.26
74 10 0.08
75 31 0.23
76 58 0.44
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGTAATATGA
GTTGATTTTT
Found at i:46083880 original size:76 final size:76
Alignment explanation
Indices: 46083678--46083882 Score: 290
Period size: 76 Copynumber: 2.7 Consensus size: 76
46083668 AGCATGTGAG
* * * *
46083678 CCGAGACTCAACTCACCTTTCGTAATATGAGTT-A-ATTTTTGACAAACAGAAA-TTGAAATTAC
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTTGACAAACAGAAATTTAAAAATAC
46083740 CTCAGCGTGTC
66 CTCAGCGTGTC
* *
46083751 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTTGACAAACAGAAATTTAAAAATAC
46083816 CTCAGCGTGTC
66 CTCAGCGTGTC
* * * * *
46083827 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTACGAATAGAAATT
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTTGACAAACAGAAATT
46083883 GAAGAACAGA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
73 31 0.27
74 1 0.01
75 16 0.14
76 68 0.59
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
CCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTTGACAAACAGAAATTTAAAAATAC
CTCAGCGTGTC
Found at i:46083945 original size:91 final size:90
Alignment explanation
Indices: 46083791--46083956 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 90
46083781 GTTGATTTTT
* * *
46083791 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
46083856 AGTTGATTTTTTTTACGAATAGAAA
66 AGTTAATTTTTTTTACGAATAGAAA
* *
46083881 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
46083944 ATGAGTTAATTTT
63 ATGAGTTAATTTT
46083957 GACAAACAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 14 0.21
90 13 0.19
91 38 0.57
92 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (90 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTACGAATAGAAA
Found at i:46084018 original size:72 final size:74
Alignment explanation
Indices: 46083881--46084048 Score: 205
Period size: 72 Copynumber: 2.3 Consensus size: 74
46083871 CGAATAGAAA
* * * *
46083881 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCAAGGCTCAACTCACCTCTCACAATAT
46083946 GAGTT-AATT
65 GAGTTGAATT
* ** * *
46083955 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCAAGGCTCAACTCACCTTTCACAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCAAGGCTCAACTCACCTCTCACAATATG
*
46084019 AGTTGATTT
66 AGTTGAATT
* *
46084028 TTGAAAAATATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
46084049 AACAGAAATT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
72 33 0.42
73 20 0.25
74 26 0.33
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCAAGGCTCAACTCACCTCTCACAATATG
AGTTGAATT
Found at i:46084047 original size:14 final size:14
Alignment explanation
Indices: 46084028--46084077 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
46084018 GAGTTGATTT
* *
46084028 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
46084042 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
46084057 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
46084071 TT-AAAAA
1 TTGAAAAA
46084078 GACTTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:46084088 original size:176 final size:181
Alignment explanation
Indices: 46083876--46084233 Score: 530
Period size: 176 Copynumber: 2.0 Consensus size: 181
46083866 TTTTACGAAT
* * *
46083876 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
1 AGAAATTGAAGAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
*
46083941 AATATGAGTT-A-ATTTTGACAAACAGAAATTG-AAATTACCTCAGCGTGT-CCCAAGGCTCAAC
66 AATATGAGTTGATATTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTACCCAAGGCTCAAC
* *
46084002 TCACCTTTCACAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAAC
131 TCACCTCTCACAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAAAAC
*
46084052 AGAAATTGAA-AAGCAGAAATTAAAAAGACTTCAGCATGTGAGCCGAGACTCAACTCACCTCTCA
1 AGAAATTGAAGAA-CAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCA
* * *
46084116 CAATATGAGTTGATTTTTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGGT
65 CAATATGAGTTGA--TATTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT-ACCCAAGGCT
*
46084181 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAA
127 CAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAAAAATAGAAATTGAAAA
46084234 CACCTCAGCA
Statistics
Matches: 161, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
175 2 0.01
176 68 0.42
177 1 0.01
180 19 0.12
181 16 0.10
183 32 0.20
185 23 0.14
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (181 bp):
AGAAATTGAAGAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
AATATGAGTTGATATTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTACCCAAGGCTCAAC
TCACCTCTCACAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAAAAC
Found at i:46084184 original size:79 final size:76
Alignment explanation
Indices: 46084057--46084284 Score: 270
Period size: 79 Copynumber: 3.0 Consensus size: 76
46084047 AAAACAGAAA
* * * *
46084057 TTGAAAAGCAGAAATT-AAAAAGACTTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAA-CAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
46084121 TGAGTTGATTTTTT
63 TGAGTTGATTTTTT
* * *
46084135 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGGTCAACTCACCTCTCGCAATA
1 TTGA-AAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
46084200 TGAGTTGA-TTTTT
63 TGAGTTGATTTTTT
*
46084213 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
*
46084274 ATTTGATTTTT
65 AGTTGATTTTT
46084285 GAAAAACATA
Statistics
Matches: 133, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
72 30 0.23
73 4 0.03
75 1 0.01
77 15 0.11
78 31 0.23
79 52 0.39
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
TTGAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTT
Found at i:46084272 original size:72 final size:74
Alignment explanation
Indices: 46084100--46084464 Score: 273
Period size: 71 Copynumber: 4.8 Consensus size: 74
46084090 TGAGCCGAGA
* * *
46084100 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGACAAACAGAAATTGAAAAATACCTC-A
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAGAAATTG-AAAATACCTCAA
*
46084164 -GCGTGTAAGCCAAGG
64 CGCATGT--G---AGG
* *
46084179 GTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
46084242 CATGTGAGG
66 CATGTGAGG
* ***
46084251 CTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGAAAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGA-A-AAA-T----AGAAATTGAAAAT
** *
46084316 ACCTCAACGGGTCTTGAGG
57 ACCTCAACGCAT-GTGAGG
* ** *
46084335 TTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-ATGAT--AAATTGAAAATACCTCAATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
*
46084396 TGACT-TGAGG
66 -CA-TGTGAGG
* * *
46084406 TTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAATTAAAACAGAAATTGAAAATA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-A--AAAATAGAAATTGAAAATA
46084465 GAAATGGAAA
Statistics
Matches: 238, Mismatches: 28, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
71 59 0.25
72 36 0.15
73 1 0.00
74 1 0.00
75 4 0.02
76 3 0.01
77 29 0.12
78 21 0.09
79 28 0.12
81 17 0.07
82 1 0.00
83 6 0.03
84 32 0.13
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
CATGTGAGG
Found at i:46084300 original size:416 final size:407
Alignment explanation
Indices: 46083550--46084439 Score: 1144
Period size: 416 Copynumber: 2.1 Consensus size: 407
46083540 AAAGTAGATT
* * *
46083550 TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
1 TTGAAAATACCTC-A-ACGTG-ACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
*
46083615 AAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAGAATTAAAAGGACCTCAGCATGTGAGCC
63 AAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAGAATTAAAAAGACCTCAGCATGTGAGCC
* ** *
46083680 GAGACTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAG
128 GAGACTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTCAG
* *
46083745 CGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAA
193 CGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAA
* * * * **
46083810 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTACGAA
258 AAACACCTCAGCATG--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAA
* *
46083875 TAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAG-C-CGAGGCTCAACTCACCTCT
320 CAGAAATTG-AG--CAGAAATTGAAAAGACCTCA--ACG-G-GTCTCGAGGCTCAACTCACCTCT
46083938 CGCAATATGAGTTAATTTTGACAAACAGAAA
378 CGCAATATGAGTTAATTTT-ACAAACAGAAA
* * * *
46083969 TTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAACGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAA
*
46084034 AATATAAATTG-AAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACTTCAGCATGTGAGCCGA
66 AATATAAATTGAAAAAAACAGAAATTGAAAAGCAG-AATTAAAAAGACCTCAGCATGTGAGCCGA
*
46084098 GACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGACAAACAGAAATTGAAAAATACCTC
130 GACTCAACTCACCTCTCACAATATGAGTT-A--ATTTTTGACAAACAGAAATTG-AAAATACCTC
* * *
46084163 AGCGTGTAAGCCAAGGGTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA-
191 AGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
* *
46084227 TTGAAAACACCTCAGCATG-TGAGGCTCAACTCACCTCTCGCAATATGATTTGA-TTTTTGAAAA
254 TTAAAAACACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * *
46084290 ACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAAT
319 ACAGAAATTGAGCAGAAATTGAAAAGACCTCAACGGGTCTCGAGGCTCAACTCACCTCTCGCAAT
* *** ** *
46084355 ATGAGTTGATTTTTTGATGATAAA
384 ATGAGTTAATTTTACAAACAGAAA
* *** *
46084379 TTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 TTGAAAATACCTCAACGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
46084440 TGAATTAAAA
Statistics
Matches: 413, Mismatches: 49, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
409 1 0.00
410 59 0.14
411 37 0.09
413 19 0.05
415 25 0.06
416 121 0.29
417 4 0.01
418 33 0.08
419 32 0.08
420 16 0.04
421 16 0.04
422 50 0.12
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (407 bp):
TTGAAAATACCTCAACGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAA
AATATAAATTGAAAAAAACAGAAATTGAAAAGCAGAATTAAAAAGACCTCAGCATGTGAGCCGAG
ACTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTCAGCGT
GTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAA
CACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
TTGAGCAGAAATTGAAAAGACCTCAACGGGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTT
AATTTTACAAACAGAAA
Found at i:46084515 original size:159 final size:154
Alignment explanation
Indices: 46084180--46084533 Score: 430
Period size: 159 Copynumber: 2.2 Consensus size: 154
46084170 AAGCCAAGGG
46084180 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATA-AAATTGAAAACACCTCAGCAT
* * * * *
46084245 GTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
64 GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAACAGAAATG
* *
46084310 GAAAATACCTCAACGGGTCTTGAGGT
129 GAAAACACCTCAACGCGTCTTGAGGT
** * *
46084336 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A-G-CA
*
46084399 CT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
63 -TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTG-A--AAAACAGAAATTG--AA
*
46084463 TAGAAATGGAAAACACCTC-A-GCGTCTTGAGGT
121 CAGAAATGGAAAACACCTCAACGCGTCTTGAGGT
*
46084495 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
46084534 CACATAAATT
Statistics
Matches: 171, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 39 0.23
156 35 0.20
157 1 0.01
159 50 0.29
160 8 0.05
161 18 0.11
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (154 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAGCATGT
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAACAGAAATGGA
AAACACCTCAACGCGTCTTGAGGT
Done.