Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 282 of 325
Found at i:87386041 original size:25 final size:25
Alignment explanation
Indices: 87386012--87386059 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87386002 TTATAATATG
* * *
87386012 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
87386037 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
87386060 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:87386128 original size:20 final size:20
Alignment explanation
Indices: 87386103--87386161 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
87386093 TAAATATGGT
87386103 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
87386123 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
87386143 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
87386162 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:87386242 original size:23 final size:24
Alignment explanation
Indices: 87386212--87386306 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
87386202 GAGGAAGTGA
87386212 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
87386235 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87386259 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
87386283 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87386307 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:87386280 original size:47 final size:49
Alignment explanation
Indices: 87386213--87386306 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
87386203 AGGAAGTGAA
*
87386213 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
87386260 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
87386307 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:87386570 original size:68 final size:69
Alignment explanation
Indices: 87386498--87386636 Score: 253
Period size: 68 Copynumber: 2.0 Consensus size: 69
87386488 CGTTTACAGT
87386498 AAAGGCTTCAGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGG-CCAGTAATATGAAAT
1 AAAGGCTTCAGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
87386562 ATGA
66 ATGA
* *
87386566 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCAGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
87386631 ATGA
66 ATGA
87386635 AA
1 AA
87386637 TACAAAAAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 48 0.71
69 20 0.29
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCAGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:87386589 original size:31 final size:31
Alignment explanation
Indices: 87386524--87386636 Score: 138
Period size: 38 Copynumber: 3.5 Consensus size: 31
87386514 TATTATGAAA
* *
87386524 TATGAAACATGAAAAGGCTTCGG-CCAGTAA
1 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
87386554 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
1 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
87386585 TATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAT
1 TATG-AA-AT-----ATGAAAAGGCTTCGGCCCAGTAT
87386623 TATGAAATATGAAA
1 TATGAAATATGAAA
87386637 TACAAAAAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
30 22 0.30
31 16 0.22
32 2 0.03
33 2 0.03
36 2 0.03
37 2 0.03
38 27 0.37
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (31 bp):
TATGAAATATGAAAAGGCTTCGGCCCAGTAT
Found at i:87386604 original size:38 final size:38
Alignment explanation
Indices: 87386552--87386659 Score: 171
Period size: 38 Copynumber: 2.8 Consensus size: 38
87386542 TTCGGCCAGT
87386552 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
87386590 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
** *
87386628 AATATGAAATACAAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
87386660 GCATGATTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 51 0.80
39 13 0.20
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:87390886 original size:26 final size:26
Alignment explanation
Indices: 87390857--87390964 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
87390847 TGGTACAAAT
87390857 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87390883 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87390909 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87390935 TGATAGTGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87390961 TGAT
1 TGAT
87390965 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87394610 original size:21 final size:21
Alignment explanation
Indices: 87394580--87394741 Score: 135
Period size: 21 Copynumber: 7.7 Consensus size: 21
87394570 TGTTTAGCTC
* * *
87394580 ATGAGCTTCTGTTTAACTCAT
1 ATGAGTTTCTGTTCAACTCTT
*
87394601 ATGAGTTTCTGTTCAACTCTA
1 ATGAGTTTCTGTTCAACTCTT
* * *
87394622 ATGGGTTTCCGTTCAGCTCTT
1 ATGAGTTTCTGTTCAACTCTT
* * * *
87394643 TTGAGCTTCTGTTTAACCCTT
1 ATGAGTTTCTGTTCAACTCTT
* *
87394664 ATGGGTTTCTGTTCAACTTTT
1 ATGAGTTTCTGTTCAACTCTT
* * *
87394685 AAGAGCTTCTGTTCAACCCTT
1 ATGAGTTTCTGTTCAACTCTT
* * *
87394706 ATGGGTTTCTGTTTAGCTCTT
1 ATGAGTTTCTGTTCAACTCTT
* *
87394727 ATGAGCTTCAGTTCA
1 ATGAGTTTCTGTTCA
87394742 GCCTTTGGGC
Statistics
Matches: 105, Mismatches: 36, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 105 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (21 bp):
ATGAGTTTCTGTTCAACTCTT
Found at i:87394668 original size:42 final size:42
Alignment explanation
Indices: 87394602--87394741 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 42
87394592 TTAACTCATA
* * * *
87394602 TGAGTTTCTGTTCAACTCTAATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* *
87394644 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAACT-TTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* * *
87394685 AAGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTTA
1 -TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
*
87394728 TGAGCTTCAGTTCA
1 TGAGCTTCTGTTCA
87394742 GCCTTTGGGC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.04
42 78 0.94
43 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
Found at i:87394716 original size:63 final size:63
Alignment explanation
Indices: 87394580--87394741 Score: 173
Period size: 63 Copynumber: 2.6 Consensus size: 63
87394570 TGTTTAGCTC
* * * * *
87394580 ATGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAACTCTAATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTTCTGTTTAACTCTTATGAGTTTCTGTTCAACTCTAATGAGCTTCCGTTCAACCCTT
* * * * *
87394643 TTGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTTTTAA-GAGCTTCTGTTCAACCCTT
1 ATGAGCTTCTGTTTAACTCTTATGAGTTTCTGTTCAAC-TCTAATGAGCTTCCGTTCAACCCTT
* * * * *
87394706 ATGGGTTTCTGTTTAGCTCTTATGAGCTTCAGTTCA
1 ATGAGCTTCTGTTTAACTCTTATGAGTTTCTGTTCA
87394742 GCCTTTGGGC
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 76 0.95
64 4 0.05
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (63 bp):
ATGAGCTTCTGTTTAACTCTTATGAGTTTCTGTTCAACTCTAATGAGCTTCCGTTCAACCCTT
Found at i:87396525 original size:18 final size:17
Alignment explanation
Indices: 87396504--87396620 Score: 85
Period size: 18 Copynumber: 6.2 Consensus size: 17
87396494 TTTTAAATTA
87396504 TATATTATATGATTATTT
1 TATATTATAT-ATTATTT
87396522 TATATTACTCATATTATTTAT
1 TATATTA-T-ATATTA-TT-T
87396543 ATATATTATATATTATTT
1 -TATATTATATATTATTT
* *
87396561 TCACATGTATACTTTTATATT
1 T-ATAT-TATA-TATTAT-TT
87396582 ATATATTATAT-TTATTT
1 -TATATTATATATTATTT
87396599 TATATTAT-TATGTCATTT
1 TATATTATATAT-T-ATTT
87396617 TATA
1 TATA
87396621 CTATTAAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
15 1 0.01
16 9 0.11
17 4 0.05
18 23 0.28
19 12 0.14
20 19 0.23
21 7 0.08
22 8 0.10
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (17 bp):
TATATTATATATTATTT
Found at i:87396619 original size:23 final size:23
Alignment explanation
Indices: 87396484--87396609 Score: 62
Period size: 25 Copynumber: 5.2 Consensus size: 23
87396474 GTTATTAGCT
* *
87396484 TTATTTTTATTTTTAAATTATATA
1 TTATATTTA-TTTTATATTATATA
87396508 TTATATGATTATTTTATATTACTCATA
1 TTATAT--TTATTTTATATTA-T-ATA
*
87396535 -T-TATTTA-TATATATTATATA
1 TTATATTTATTTTATATTATATA
* * *
87396555 TTAT-TTTCACATGTATACTTTTATA
1 TTATATTT-A-TTTTATA-TTATATA
*
87396580 TTATATATTATATTTATTTTATATTA
1 TTATAT-TTAT-TTTATATTATA-TA
87396606 TTAT
1 TTAT
87396610 GTCATTTTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
20 3 0.04
21 5 0.06
22 10 0.13
23 3 0.04
24 10 0.13
25 26 0.33
26 17 0.22
27 5 0.06
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATATTTATTTTATATTATATA
Found at i:87407932 original size:3 final size:3
Alignment explanation
Indices: 87407924--87407961 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
87407914 TGAGATTTAA
87407924 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87407962 ACGGAGAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87409172 original size:205 final size:205
Alignment explanation
Indices: 87408820--87409609 Score: 1341
Period size: 205 Copynumber: 3.8 Consensus size: 205
87408810 ATAGGCCGCA
* *
87408820 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
* * * *
87408885 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGAAAAAC
66 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
* *
87408950 TAAGCTGATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
87409015 GGGAGCAGAT
196 GGGAGCAGAT
87409025 ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
1 ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
87409090 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
66 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
*
87409155 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
87409220 GGGAGCAGAT
196 GGGAGCAGAT
87409230 ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
1 ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
87409295 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
66 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
87409360 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
*
87409425 GGGAGCGGAT
196 GGGAGCAGAT
* * * * * * *
87409435 ACATAGTAGATCTCACTTTCAGATAATTT-CACTGAAGCAAGATCCAAAATGATTTGGCAT-TCT
1 ACATAGCAGATCTCACCTTCAAAT-GTTTATACTGAAG-GAGATCCAAGATGATTTGGCATCT-T
* * * * *
87409498 TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAA
63 TGTGCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAA
87409563 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
128 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
87409610 AAGCAGATTT
Statistics
Matches: 559, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
205 428 0.77
206 131 0.23
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
ACATAGCAGATCTCACCTTCAAATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCTTTGT
GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACATGTTTACGATGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACG
GGGAGCAGAT
Found at i:87409817 original size:4 final size:4
Alignment explanation
Indices: 87409808--87409832 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
87409798 AACCGGGCCT
87409808 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
87409833 GTTTGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:87411314 original size:22 final size:22
Alignment explanation
Indices: 87411268--87411316 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
87411258 ATGATTATTT
*
87411268 TATATTACTCATATTATTTATA
1 TATATTACTCATATTATTTACA
87411290 TATATTA-T-ATATTATTTTCACA
1 TATATTACTCATATTA-TTT-ACA
87411312 TATAT
1 TATAT
87411317 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 14 0.58
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTACTCATATTATTTACA
Found at i:87411354 original size:13 final size:13
Alignment explanation
Indices: 87411240--87411355 Score: 66
Period size: 13 Copynumber: 9.1 Consensus size: 13
87411230 TATTTTTTAT
*
87411240 TTTTAAATTA-TA
1 TTTTATATTATTA
* *
87411252 TATTATATGATTA
1 TTTTATATTATTA
*
87411265 TTTTATATTACTCA
1 TTTTATATTA-TTA
*
87411279 TATTAT-TTATATA
1 TTTTATATTAT-TA
*
87411292 TATTATA-TATTA
1 TTTTATATTATTA
*
87411304 TTTTCACA-TATATA
1 TTTT-ATATTAT-TA
87411318 CTTTTATATTA-TA
1 -TTTTATATTATTA
*
87411331 TATTATA--ATTA
1 TTTTATATTATTA
87411342 TTTTATATTATTA
1 TTTTATATTATTA
87411355 T
1 T
87411356 GTCATTTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
10 1 0.01
11 8 0.10
12 19 0.24
13 35 0.44
14 11 0.14
15 6 0.08
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:87411365 original size:77 final size:78
Alignment explanation
Indices: 87411240--87411391 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
87411230 TATTTTTTAT
* *
87411240 TTTTAAATTATATATTATATGATTATTTTATATTACTCATATTATTTATATATATTATATATTAT
1 TTTTAAATTATATATTATA-GATTATTTTATATTACTCATATCATTTATA-ATATTAAATATT-T
87411305 TT-TC-ACATATATAC
63 TTATCTACATATATAC
* * * *
87411319 TTTTATATTATATATTATA-ATTATTTTATATTA-TTATGTCATTTTATACTATTAAATATTTTT
1 TTTTAAATTATATATTATAGATTATTTTATATTACTCATATCA-TTTATAATATTAAATATTTTT
87411382 ATCTACATAT
65 ATCTACATAT
87411392 TGTTATCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.05
76 17 0.27
77 26 0.41
79 18 0.28
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (78 bp):
TTTTAAATTATATATTATAGATTATTTTATATTACTCATATCATTTATAATATTAAATATTTTTA
TCTACATATATAC
Found at i:87413608 original size:25 final size:25
Alignment explanation
Indices: 87413580--87413628 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
87413570 ATATATATCA
87413580 TAAA-ATAGCACATAAAAGAAATAAT
1 TAAACATAGCACATAAAA-AAATAAT
*
87413605 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCACATAAAAAAATAA
87413629 AACTATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAACATAGCACATAAAAAAATAAT
Found at i:87414168 original size:19 final size:19
Alignment explanation
Indices: 87414122--87414230 Score: 132
Period size: 19 Copynumber: 5.7 Consensus size: 19
87414112 TTAAATCTCC
*
87414122 AAGATTACAAGATCATATCTT
1 AAGATTAC-ATATCATATC-T
87414143 CAAGATTACATATCATATCT
1 -AAGATTACATATCATATCT
*
87414163 AAGATTGCATATCATATCT
1 AAGATTACATATCATATCT
*
87414182 AAGATT--GTATCATATCT
1 AAGATTACATATCATATCT
*
87414199 AAGATTTCATATCATATCT
1 AAGATTACATATCATATCT
*
87414218 AAGATTGCATATC
1 AAGATTACATATC
87414231 CTTAAAGATT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
17 16 0.20
19 46 0.57
20 1 0.01
21 9 0.11
22 8 0.10
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
AAGATTACATATCATATCT
Found at i:87414197 original size:36 final size:36
Alignment explanation
Indices: 87414153--87414224 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
87414143 CAAGATTACA
87414153 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
*
87414189 TATCATATCTAAGATTTCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
87414225 CATATCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:87414986 original size:206 final size:206
Alignment explanation
Indices: 87414619--87415566 Score: 1472
Period size: 206 Copynumber: 4.6 Consensus size: 206
87414609 AATCTGTTAT
* * *
87414619 CTTCGATCTGTTTTCTGACAAAACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * * * *
87414684 GCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAAACATCCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * ** * *
87414749 GGATTTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
87414814 GAGACGCCAAA
196 GAGACGCCAAA
* * *
87414825 CTTCAATTTGTTCTCTGACAATATAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
87414890 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* **
87414955 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
87415020 GAGACGCCAAA
196 GAGACGCCAAA
*
87415031 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
87415096 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
87415161 GGATCTGCTTCAGTATAAATATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCAAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
87415226 GAGACGCCAAA
196 GAGACGCCAAA
*
87415237 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
87415302 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC-TCCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCAT-CT
* * * * * * *
87415366 TGGATCTGCTTTAGTAAAAACATATGAAGGCCAGATTTGCTATGCGTCTACTCTCTGTTGAATAT
130 TGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
87415431 GGAGACGCCAAA
195 GGAGACGCCAAA
*
87415443 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAGT-GTAA--A
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCA
*
87415505 CTGTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
65 C-GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
87415567 TGCTATCTTC
Statistics
Matches: 692, Mismatches: 47, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
204 2 0.00
205 59 0.09
206 630 0.91
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:87415586 original size:44 final size:43
Alignment explanation
Indices: 87415536--87416002 Score: 294
Period size: 44 Copynumber: 10.7 Consensus size: 43
87415526 TGTCTTCGAT
* * *
87415536 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACAC-AGGATGCCAAATCTGCTATCTTCAAC
* *** *
87415580 TTGTTCCCTATAAAAACAGGGATGCC--ATGCTAAAATCTTCGATC
1 TTGTTCCCTATAAACACA-GGATGCCAAAT-CTGCTATCTTC-AAC
** * * * * * * *
87415624 TACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 TTGTTCCCTATAAACACAGG-ATGCCAAATCTGCTATCTTCAAC
*
87415668 TTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTTAAC
1 TTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTCAAC
** *
87415711 TTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACA-GGATGCCAAAT-CTGCTATCTTCAAC
* * * * * ** *
87415753 TCTGTTTCGCTGTAAGCACAGGAATGTCAGAT-TGCTATCTTTGAT
1 T-TG-TTCCCTATAAACACAGG-ATGCCAAATCTGCTATCTTCAAC
87415798 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACA-GGATGCCAAATCTGCTATCTTCAAC
87415842 TTGTTCCCTATAAACACAGGATGCC--A--TGCTAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGATGCCAAATCTGCT--ATCTTCAAC
* * ** **
87415883 TCGTTCCCTATAAACACAGGGATG-C-GATGCTGAAATCTTTGA-
1 TTGTTCCCTATAAACACA-GGATGCCAAAT-CTGCTATCTTCAAC
* * * * * * *
87415925 TCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGA-TGCCAAATCTGCTATCTTCAAC
87415971 TTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TTGTTCCCTATAAACACA-GGATGCCAAATCT
87416003 TGTTTCTTTG
Statistics
Matches: 326, Mismatches: 67, Indels: 60
0.72 0.15 0.13
Matches are distributed among these distances:
39 4 0.01
41 28 0.09
42 12 0.04
43 96 0.29
44 151 0.46
45 27 0.08
46 8 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTCAAC
Found at i:87415699 original size:131 final size:129
Alignment explanation
Indices: 87415528--87415997 Score: 599
Period size: 131 Copynumber: 3.6 Consensus size: 129
87415518 ATTAGCTATG
* * *
87415528 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACAC-AGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
87415593 AAACAGGGATGCCATGCTAAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGC
65 ACACAGGGATGCCATGCT-AAATCTTCGATCT-CTTCACTGTAAGCACAGGAATGTCAGATCTGC
87415658 TA
128 TA
*
87415660 TCTTCGATTTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAA
1 TCTTCGATTTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
* *
87415725 CACAGGGATGCCATGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATGTCAGAT-TGCT
66 CACAGGGATGCCATGCT-AAATCTTCGATCT-CTTCACTGTAAGCACAGGAATGTCAGATCTGCT
87415789 A
129 A
*
87415790 TCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACA-GGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * * * *
87415855 ACACA-GGATGCCATGCTAAATCTTC-AACTCGTTCCCTATAAACACAGGGATG-C-GATGCTGA
65 ACACAGGGATGCCATGCTAAATCTTCGATCTC-TTCACTGTAAGCACAGGAATGTCAGAT-CTGC
*
87415916 AA
128 TA
* * * * * * * * *
87415918 TCTTTGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATA
1 TCTTCGATTTG-TTCCCTATAAACACAGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
87415983 AACACAGGGATGCCA
64 AACACAGGGATGCCA
87415998 AATCTTGTTT
Statistics
Matches: 304, Mismatches: 27, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
126 3 0.01
127 1 0.00
128 36 0.12
129 56 0.18
130 50 0.16
131 136 0.45
132 22 0.07
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (129 bp):
TCTTCGATTTGTTCCCTATAAACACAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
CACAGGGATGCCATGCTAAATCTTCGATCTCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
Found at i:87415940 original size:172 final size:173
Alignment explanation
Indices: 87415638--87416002 Score: 565
Period size: 172 Copynumber: 2.1 Consensus size: 173
87415628 TCACTGTAAG
* * * * *
87415638 CACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGATGCCAAATCTGCTA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGATGCC-AA-CTGCTA
* * *
87415703 TCTTTAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGTTTCGCTGTAA
64 TCTTCAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAA
*
87415768 GCACAGGAATGTCAGAT-TGCTATCTTTGATTTGTTCCCTATAAA
129 GCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
87415812 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGATGCC-A-TGCTAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGATGCCAACTGCT--A
* *
87415875 TCTTCAACTCGTTCCCTATAAACACAGGGATGCGATGCTGAAATCTTTGATCTGCTTCGCTGTAA
64 TCTTCAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAA
*
87415940 GCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
129 GCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
87415985 CACAGGGATGCCAAATCT
1 CACAGGGATGCCAAATCT
87416003 TGTTTCTTTG
Statistics
Matches: 176, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
170 4 0.02
172 78 0.44
173 44 0.25
174 50 0.28
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (173 bp):
CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGATGCCAACTGCTATC
TTCAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGC
ACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
Found at i:87416868 original size:7 final size:7
Alignment explanation
Indices: 87416856--87416893 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
87416846 GCCTCTCCAT
87416856 TTTTTTC
1 TTTTTTC
87416863 TTTTTTC
1 TTTTTTC
87416870 -TTTTTC
1 TTTTTTC
87416876 TTTTTTTC
1 -TTTTTTC
87416884 TTTTTT-
1 TTTTTTC
87416890 TTTT
1 TTTT
87416894 GAAATAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.34
7 13 0.45
8 6 0.21
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:87416868 original size:8 final size:8
Alignment explanation
Indices: 87416855--87416890 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
87416845 GGCCTCTCCA
87416855 TTTTTTTC
1 TTTTTTTC
87416863 -TTTTTTC
1 TTTTTTTC
87416870 --TTTTTC
1 TTTTTTTC
87416876 TTTTTTTC
1 TTTTTTTC
87416884 TTTTTTT
1 TTTTTTT
87416891 TTTGAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 7 0.27
8 13 0.50
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:87416879 original size:21 final size:20
Alignment explanation
Indices: 87416855--87416893 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
87416845 GGCCTCTCCA
87416855 TTTTTTTCTTTTTTCTTTTTC
1 TTTTTTTCTTTTTT-TTTTTC
87416876 TTTTTTTCTTTTTTTTTT
1 TTTTTTTCTTTTTTTTTT
87416894 GAAATAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTTTTC
Found at i:87416880 original size:14 final size:14
Alignment explanation
Indices: 87416857--87416893 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
87416847 CCTCTCCATT
87416857 TTTTTC-TTTTTTC
1 TTTTTCTTTTTTTC
87416870 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
87416884 TTTTT-TTTTT
1 TTTTTCTTTTT
87416894 GAAATAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:87419493 original size:20 final size:19
Alignment explanation
Indices: 87419457--87419507 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
87419447 TTTATAATTT
*
87419457 TGAATGCAAATGATGC-AA
1 TGAATGCAAAAGATGCAAA
87419475 TGAAATGCAATAAGATGCAAA
1 TG-AATGCAA-AAGATGCAAA
87419496 TGAATGCAAAAG
1 TGAATGCAAAAG
87419508 GTATCGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.34
20 13 0.45
21 4 0.14
ACGTcount: A:0.49, C:0.10, G:0.22, T:0.20
Consensus pattern (19 bp):
TGAATGCAAAAGATGCAAA
Found at i:87419505 original size:10 final size:10
Alignment explanation
Indices: 87419457--87419505 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
87419447 TTTATAATTT
87419457 TGAATGCAAA
1 TGAATGCAAA
87419467 TG-ATGC-AA
1 TGAATGCAAA
87419475 TGAAATGC-AA
1 TG-AATGCAAA
*
87419485 TAAGATGCAAA
1 TGA-ATGCAAA
87419496 TGAATGCAAA
1 TGAATGCAAA
87419506 AGGTATCGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 20 0.61
11 4 0.12
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (10 bp):
TGAATGCAAA
Found at i:87421846 original size:22 final size:21
Alignment explanation
Indices: 87421816--87421926 Score: 64
Period size: 19 Copynumber: 5.7 Consensus size: 21
87421806 TACAAATTAA
87421816 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
87421838 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
87421859 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
87421878 ATCT--AAGATT---GTATCAT
1 ATCTCCAAGATTACAG-ATCAT
* *
87421895 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
87421914 ATCT--AAGATTACA
1 ATCTCCAAGATTACA
87421927 TATCCTTAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
17 15 0.19
19 42 0.53
21 10 0.13
22 12 0.15
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:87421868 original size:19 final size:19
Alignment explanation
Indices: 87421833--87421930 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
87421823 AGATTACAAG
87421833 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
87421854 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87421873 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
87421890 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
87421909 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
87421928 ATC
1 ATC
87421931 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:87421875 original size:14 final size:15
Alignment explanation
Indices: 87421855--87421911 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
87421845 AGATTGCATA
87421855 TCATATCTAAGATTG
1 TCATATCTAAGATTG
87421870 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
87421889 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
87421906 -CATATC
1 TCATATC
87421912 ATATCTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:87421897 original size:36 final size:37
Alignment explanation
Indices: 87421833--87421923 Score: 148
Period size: 36 Copynumber: 2.4 Consensus size: 37
87421823 AGATTACAAG
87421833 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
87421873 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
87421909 ATCATATCTAAGATT
1 ATCATATCTAAGATT
87421924 ACATATCCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 35 0.69
38 7 0.14
39 1 0.02
40 8 0.16
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:87422248 original size:2 final size:2
Alignment explanation
Indices: 87422241--87422272 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
87422231 TCAATCAACT
87422241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87422273 GTTTTATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87428878 original size:27 final size:27
Alignment explanation
Indices: 87428833--87429108 Score: 329
Period size: 27 Copynumber: 10.3 Consensus size: 27
87428823 GCTGAAATGG
*
87428833 TGACTGAAATACCCTCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* *
87428860 TAACTAAAATACCCCCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
*
87428887 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
*
87428914 TGAATGAAATA-CCCCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
** * *
87428940 TGACCAAAATACCTCCATAAGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* * * *
87428967 TGTCCGAAATACCTCCATAGGATAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* *
87428994 TGACCGAAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* * *
87429021 TGACTAAAATACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* *
87429048 TGACTGTAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* * * *
87429075 TGACTGTAGTACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
87429102 TGACTGA
1 TGACTGA
87429109 TTTGCCTTAT
Statistics
Matches: 218, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.11
27 195 0.89
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
TGACTGAAATACCCCCATAGGGTAAAA
Found at i:87429048 original size:81 final size:79
Alignment explanation
Indices: 87428833--87429106 Score: 363
Period size: 81 Copynumber: 3.4 Consensus size: 79
87428823 GCTGAAATGG
* *
87428833 TGACTGAAATA-CCCTCATAGGGTAAAATAACTAAAATACCCCCATAGGGTAAAATGACCGAAAT
1 TGACTGAAATACCCCT-ATAGGGTAAAATGACTAAAATA-CCCCATAAGGTAAAATGACCGAAAT
87428897 ACCCCCATAGGGTAAAA
64 A-CCCCATAGGGTAAAA
* * *
87428914 TGAATGAAATACCCC-ATAGGGTAAAATGACCAAAATACCTCCATAAGGTAAAATGTCCGAAATA
1 TGACTGAAATACCCCTATAGGGTAAAATGACTAAAATACC-CCATAAGGTAAAATGACCGAAATA
*
87428978 CCTCCATAGGATAAAA
65 CC-CCATAGGGTAAAA
* * *
87428994 TGACCGAAATACCCCTATAGGGTAAAATGACTAAAATACCCCTATAAGGTAAAATGACTGTAATA
1 TGACTGAAATACCCCTATAGGGTAAAATGACTAAAATACCCC-ATAAGGTAAAATGACCGAAATA
87429059 CCCCTATAGGGTAAAA
65 CCCC-ATAGGGTAAAA
* * *
87429075 TGACTGTAGTACCCCTATAAGGTAAAATGACT
1 TGACTGAAATACCCCTATAGGGTAAAATGACT
87429107 GATTTGCCTT
Statistics
Matches: 170, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
79 4 0.02
80 71 0.42
81 92 0.54
82 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (79 bp):
TGACTGAAATACCCCTATAGGGTAAAATGACTAAAATACCCCATAAGGTAAAATGACCGAAATAC
CCCATAGGGTAAAA
Found at i:87432075 original size:27 final size:27
Alignment explanation
Indices: 87432045--87432214 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
87432035 TGAAATACCT
* *
87432045 ATGACTCAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
*
87432072 ATGACCGAAATA-CCCTCATAGGGTAAA
1 ATGACTGAAATACCCCT-ATAGGGTAAA
87432099 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* *
87432126 ATGACTAAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
*
87432153 ATGACTGTAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * * *
87432180 ATGACTGTAGTACCCCTGTAAGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
87432207 ATGACTGA
1 ATGACTGA
87432215 TTTGCCCTAC
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.02
27 121 0.95
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
ATGACTGAAATACCCCTATAGGGTAAA
Found at i:87437801 original size:21 final size:21
Alignment explanation
Indices: 87437775--87437815 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87437765 GGTTCGAATT
87437775 TTAGACACATTTTTTTTGTGC
1 TTAGACACATTTTTTTTGTGC
87437796 TTAGACACATTTTTTTTGTG
1 TTAGACACATTTTTTTTGTG
87437816 TTTTCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (21 bp):
TTAGACACATTTTTTTTGTGC
Found at i:87440147 original size:64 final size:64
Alignment explanation
Indices: 87440068--87440196 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
87440058 CATTCATACC
* * *
87440068 CTAGTCGTTGATTTCCATAAATGGATAGATAGTCTATCACCATTAACTTATTTTCTTAAATCTT
1 CTAGTCGTTGATTTCCATAAACGGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
*
87440132 CTAGTCGTTGATTTCCATAAACGGATAGATAGTCTGTCACCATCAACTCATTTTCTTAAATCTT
1 CTAGTCGTTGATTTCCATAAACGGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
87440196 C
1 C
87440197 AAATGTTTGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (64 bp):
CTAGTCGTTGATTTCCATAAACGGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
Found at i:87441696 original size:2 final size:2
Alignment explanation
Indices: 87441689--87441716 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87441679 TATCTCATTC
87441689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87441717 TAATACGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87447017 original size:2 final size:2
Alignment explanation
Indices: 87447010--87447038 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87447000 ATGTGTTTCT
87447010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87447039 GAGATGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87453356 original size:43 final size:43
Alignment explanation
Indices: 87453309--87453430 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
87453299 ATTGTACTGT
* * *
87453309 GATTATGTGTAAGACCATCTTTGGGATATTGGCATCATT-ATAC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAAT-C
** *
87453352 GATTACATGTAAGACCATGTCTGGGACATCGGCATCATTAATC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
* * * *
87453395 GATTTTGTGTAAAACCCTGTCTGGGACAAT-GGCATC
1 GATTATGTGTAAGACCATCTCTGGGAC-ATCGGCATC
87453431 GATATGTGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 62 0.94
44 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
Found at i:87453420 original size:86 final size:85
Alignment explanation
Indices: 87453266--87453475 Score: 212
Period size: 86 Copynumber: 2.4 Consensus size: 85
87453256 ACCTAGATGA
* * * * *
87453266 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTACTGTGATTATGTGTAAGACCATCTTT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTAATGCGATTATGTGTAAAACCATCTCT
* *
87453331 GGGATATTGGCATC-ATTATAC
65 GGGACAATGGCATCGA-TATAC
* * *
87453352 GATTACATGTAAGACCATGTCTGGGACATCGGCATCAT-TAAT-CGATTTTGTGTAAAACCCTGT
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCAT--TGTAATGCGATTATGTGTAAAACCATCT
**
87453415 CTGGGACAATGGCATCGATATGT
63 CTGGGACAATGGCATCGATATAC
* *
87453438 G-TTAACATGTAAGACCATATCTGGGATATGGCATTGTA
1 GATT-ACATGTAAGACCATGTCTGGGACATGGCATTGTA
87453476 CGAGCTTTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
83 1 0.01
84 2 0.02
85 8 0.08
86 88 0.85
87 4 0.04
88 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATTGTAATGCGATTATGTGTAAAACCATCTCTG
GGACAATGGCATCGATATAC
Found at i:87460242 original size:276 final size:278
Alignment explanation
Indices: 87459496--87460320 Score: 1030
Period size: 278 Copynumber: 3.0 Consensus size: 278
87459486 TTGTGGAAGG
** * * * * *
87459496 TTCAACCTGTTTTTCCTCGTATAACCCTCAAAGATTGGTTTGGCTTCTTGCATCCATCGAACGAT
1 TTCAACCCATTTTTCCTCGCAGAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * **
87459561 CCATGTCGAATCGAGTAGCACGTTCTCGCTTAGATGCT-GTTTTGTCTTTATCGCTCTCTTTTGT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATG-TGGTTTTGTCTTTATCGCTCTCTTTCAT
* * * * *
87459625 TTCTGATTCCCTATAAGATATTCCACACTC-AGTTTTGAGATCGGAAACTTGTTTGGTTGTAAAT
130 TTTTGATTCCCTATAAGATATTCCACACTCGA-TTCTGAGATAGAAAACTTGCTTGGTTGTAAAT
* * ** * * **
87459689 CATGACTCGATCATCCCATCAACACCTTCATTTGTCAGCATAAAGCTGTCACTATGTATGGGAAA
194 CACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGGGAAA
* *
87459754 AATAGTTTCACCTCATTTTT
259 AGTAGTTCCACCTCATTTTT
* * * * **
87459774 TTCAACCCGTTTTTCCTCTCATAATCTTCAAATATTGGTTCAACTTCTTGCATCCATCGAACGAT
1 TTCAACCCATTTTTCCTCGCAGAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * *
87459839 CCATTTCGAATCGAGTAGCACATTCTTGCCTAGATGTGGTTTTGTCTTCATGGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
* *
87459904 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCA-AAAACTTACTTGGTTGTAAATC
131 TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGAT-AGAAAACTTGCTTGGTTGTAAATC
* * * * * *
87459968 ACAACTCAATCGTCCCATCGGCACCTTCATTTTTCTGCATCAGGCTATCACTAAGTGCGGGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGGGAAAA
87460033 GTAGTTCCACCTCA-TTTT
260 GTAGTTCCACCTCATTTTT
* * * *
87460051 TTCAATCCATTTTTCCTCGCAGAATCTTTAAAGATTGGTTTGACTTCTTGCAT-CATTGAATGAT
1 TTCAACCCATTTTTCCTCGCAGAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
87460115 CTATTTTGAATCGAGTAGCGCATTCTCACCTAGATGTGGTTTTGTCTTTATTGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
* * * *
87460180 TTTGATTCCCTATAAGATATTCCACACTCGATTCTAAGATAGAAAACTCGCTTAGATGTAAATCA
131 TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATAGAAAACTTGCTTGGTTGTAAATCA
* * * * *
87460245 CGACTTGACCGTCCCATTGGCACCTTCATTTGTCAGTATAAGGCTGTCACTAAGTGCGAGAAAAG
196 CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGGGAAAAG
87460310 TAGTTCCACCT
261 TAGTTCCACCT
87460321 TGTTTTTCCT
Statistics
Matches: 469, Mismatches: 74, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
275 1 0.00
276 189 0.40
277 50 0.11
278 229 0.49
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (278 bp):
TTCAACCCATTTTTCCTCGCAGAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATAGAAAACTTGCTTGGTTGTAAATCA
CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGGGAAAAG
TAGTTCCACCTCATTTTT
Found at i:87466165 original size:27 final size:28
Alignment explanation
Indices: 87466109--87466178 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
87466099 AAATTTGTAC
87466109 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
87466137 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
87466164 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
87466179 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:87466189 original size:27 final size:27
Alignment explanation
Indices: 87466109--87466190 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
87466099 AAATTTGTAC
* *
87466109 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
87466137 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
87466164 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
87466191 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:87477895 original size:30 final size:30
Alignment explanation
Indices: 87477861--87477920 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
87477851 TACCCTAAAG
87477861 TAAACATATTATCACTTGAATACTTAATGC
1 TAAACATATTATCACTTGAATACTTAATGC
87477891 TAAACATATTATCACTTGAATACTTAATGC
1 TAAACATATTATCACTTGAATACTTAATGC
87477921 CCTAAAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAACATATTATCACTTGAATACTTAATGC
Found at i:87485572 original size:22 final size:22
Alignment explanation
Indices: 87485547--87485597 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
87485537 AGGAAGGCAG
87485547 GAAATAAAAATGAAAGGAGACC
1 GAAATAAAAATGAAAGGAGACC
*
87485569 GAAATAAAAATGAAAGGAGAGC
1 GAAATAAAAATGAAAGGAGACC
*
87485591 AAAATAA
1 GAAATAA
87485598 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.22, T:0.10
Consensus pattern (22 bp):
GAAATAAAAATGAAAGGAGACC
Found at i:87487092 original size:12 final size:12
Alignment explanation
Indices: 87487075--87487100 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87487065 AAAATAGGGC
87487075 TTTAGCGGCGTT
1 TTTAGCGGCGTT
87487087 TTTAGCGGCGTT
1 TTTAGCGGCGTT
87487099 TT
1 TT
87487101 ATCAACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:87487200 original size:41 final size:41
Alignment explanation
Indices: 87487155--87487373 Score: 259
Period size: 41 Copynumber: 5.4 Consensus size: 41
87487145 CGTTTTAATA
* *
87487155 AAAACGCCGCTAAAAA-CAGAGCAACAGCGGCGTTTTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCAACAGCGGCG-CTTTCAGT
* * *
87487196 AAAACGCCTCTAAAAA-CGGATC-ACTAGCGGCGCTTT-AGGT
1 AAAACGCCGCTAAAAACCAGAGCAAC-AGCGGCGCTTTCA-GT
** *
87487236 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCAACAGCGGCGCTTTCAGT
*
87487277 AAAACGCCGCTAAAAACCAGAGC-ACTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCAAC-AGCGGCGCTTTCAGT
** *
87487318 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCAACAGCGGCGCTTTCAGT
87487359 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
87487374 GTCATAGAAC
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 22 0.14
41 134 0.85
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCAACAGCGGCGCTTTCAGT
Found at i:87487267 original size:82 final size:82
Alignment explanation
Indices: 87487155--87487373 Score: 334
Period size: 82 Copynumber: 2.7 Consensus size: 82
87487145 CGTTTTAATA
** * ** * * *
87487155 AAAACGCCGCTAAAAA-CAGAGCAACAGCGGCGTTTTTTAGTAAAACGCCTCTAAAAA-CGGATC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTCGGTAAAACGCCGCTAAAAACCAGAGC
87487218 ACTAGCGGCGCTTTAGGT
65 ACTAGCGGCGCTTTAGGT
87487236 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
*
87487301 CTAGCGGCGCTTTCGGT
66 CTAGCGGCGCTTTAGGT
87487318 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
87487374 GTCATAGAAC
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
81 36 0.28
82 91 0.72
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
CTAGCGGCGCTTTAGGT
Found at i:87488602 original size:14 final size:14
Alignment explanation
Indices: 87488583--87488613 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
87488573 AATTTTTATA
87488583 AAATATATAGTTCT
1 AAATATATAGTTCT
*
87488597 AAATATATAGTTTT
1 AAATATATAGTTCT
87488611 AAA
1 AAA
87488614 CGCCATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (14 bp):
AAATATATAGTTCT
Found at i:87489148 original size:10 final size:10
Alignment explanation
Indices: 87489094--87489144 Score: 93
Period size: 10 Copynumber: 5.1 Consensus size: 10
87489084 TTTTTTTTTT
87489094 GTTTGAAATG
1 GTTTGAAATG
87489104 GTTTGAAATG
1 GTTTGAAATG
87489114 GTTTGAAATG
1 GTTTGAAATG
87489124 GTTTGAAATG
1 GTTTGAAATG
*
87489134 GGTTGAAATG
1 GTTTGAAATG
87489144 G
1 G
87489145 GTTGCAATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.37
Consensus pattern (10 bp):
GTTTGAAATG
Found at i:87491664 original size:19 final size:19
Alignment explanation
Indices: 87491629--87491670 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
87491619 CAAATTACTA
*
87491629 TTTTTTATATTAATAATGTT
1 TTTTTTATATT-ATAATATT
87491649 TTTTTTAATATT-TAATATT
1 TTTTTT-ATATTATAATATT
87491668 TTT
1 TTT
87491671 AAATTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTATATTATAATATT
Found at i:87492269 original size:26 final size:26
Alignment explanation
Indices: 87492240--87492349 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
87492230 TGATACAAAT
87492240 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87492266 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87492292 TGATAATGGGTTAGGTAAACGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87492318 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87492344 TGATAA
1 TGATAA
87492350 GAATTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87494378 original size:135 final size:136
Alignment explanation
Indices: 87494131--87494414 Score: 509
Period size: 134 Copynumber: 2.1 Consensus size: 136
87494121 GAGTAGTCTC
87494131 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
87494196 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTATCA
66 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
87494260 CTGTTA
131 CTGTTA
*
87494266 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
87494330 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
87494395 ACTGTTA
130 ACTGTTA
**
87494402 CCTGAATGGGCTT
1 CCCAAATGGGCTT
87494415 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 57 0.40
135 57 0.40
136 29 0.20
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:87498156 original size:25 final size:26
Alignment explanation
Indices: 87498127--87498234 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
87498117 TGATACAAAT
87498127 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87498152 TGATAAT-GGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87498177 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87498203 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87498229 TGATAA
1 TGATAA
87498235 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 31 0.39
26 48 0.61
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87498189 original size:51 final size:51
Alignment explanation
Indices: 87498127--87498234 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
87498117 TGATACAAAT
87498127 TGATAATGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATATTCCA
1 TGATAATGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTCCA
* * *
87498177 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTCCA
87498229 TGATAA
1 TGATAA
87498235 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
50 7 0.13
51 24 0.45
52 22 0.42
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTCCA
Found at i:87499737 original size:26 final size:26
Alignment explanation
Indices: 87499708--87499760 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
87499698 TTTACAGTTT
87499708 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
87499734 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
87499760 T
1 T
87499761 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:87500267 original size:120 final size:126
Alignment explanation
Indices: 87500012--87500260 Score: 370
Period size: 129 Copynumber: 2.0 Consensus size: 126
87500002 AGTCTCCCCA
87500012 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
1 AATGGGCTTGCATATGTTTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
**
87500077 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTACTGTTAC
65 ATCTGAATAAGGGGC--A--CCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCACCACTGTTAC
87500142 C
126 C
87500143 AATGGGCTTGCATATGTTT-TGATGTTGCATGTATTTTGAAATGGGCCTATGGG-C-TACTGTTA
1 AATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
*
87500205 TCTGAATAA-GGGC-CCCAGTTTA-TGTAATCTGAAAAGGGCTTGG-CTACCACT-TTACC
66 TCTGAATAAGGGGCACCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCACCACTGTTACC
87500261 TGAATGGCTT
Statistics
Matches: 115, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
118 5 0.04
119 5 0.04
120 21 0.18
121 9 0.08
126 4 0.03
127 17 0.15
128 1 0.01
129 34 0.30
131 19 0.17
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (126 bp):
AATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
TCTGAATAAGGGGCACCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCACCACTGTTACC
Found at i:87501113 original size:18 final size:18
Alignment explanation
Indices: 87501069--87501257 Score: 134
Period size: 18 Copynumber: 10.3 Consensus size: 18
87501059 TATTTGATAT
*
87501069 CATAA-TTACATAAC-TA
1 CATAACTTATATAACTTA
* *
87501085 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
87501103 CATAACTTATATAACCTA
1 CATAACTTATATAACTTA
87501121 CATAACTTATTATAACTTA
1 CATAACTTA-TATAACTTA
* * *
87501140 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
87501157 TATATACTTACATAACTTA
1 CATA-ACTTATATAACTTA
**
87501176 CATAATGCTTAAATATATTTATA
1 CATAA--CTT--ATATAACT-TA
* *
87501199 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
87501218 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
87501236 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
87501253 CATAA
1 CATAA
87501258 ATATATCATA
Statistics
Matches: 136, Mismatches: 26, Indels: 21
0.74 0.14 0.11
Matches are distributed among these distances:
16 4 0.03
17 27 0.20
18 60 0.44
19 23 0.17
20 8 0.06
22 7 0.05
23 2 0.01
24 5 0.04
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:87501135 original size:46 final size:45
Alignment explanation
Indices: 87501075--87501180 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 45
87501065 ATATCATAAT
*
87501075 TACATAAC-TATATAACATATATAACTTACATAACT-TATATAACC
1 TACATAACTTATATAACATATATAACTTACATAAATATATAT-ACC
* * *
87501119 TACATAACTTATTATAACTTATATAACTTAGATAAATATATATACT
1 TACATAACTTA-TATAACATATATAACTTACATAAATATATATACC
*
87501165 TACATAACTTACATAA
1 TACATAACTTATATAA
87501181 TGCTTAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 8 0.15
45 6 0.11
46 35 0.65
47 5 0.09
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (45 bp):
TACATAACTTATATAACATATATAACTTACATAAATATATATACC
Found at i:87501247 original size:17 final size:17
Alignment explanation
Indices: 87501210--87501263 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
87501200 CATAATTTAC
*
87501210 ATAACTTACATAACTTAT
1 ATAACTTACATAA-ATAT
*
87501228 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
*
87501245 ATAATTTACATAAATAT
1 ATAACTTACATAAATAT
87501262 AT
1 AT
87501264 CATATCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 20 0.62
18 12 0.38
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAACTTACATAAATAT
Found at i:87501257 original size:9 final size:9
Alignment explanation
Indices: 87501069--87501240 Score: 116
Period size: 9 Copynumber: 18.6 Consensus size: 9
87501059 TATTTGATAT
87501069 CATAA-TTA
1 CATAACTTA
87501077 CATAAC-TA
1 CATAACTTA
* *
87501085 TATAACATA
1 CATAACTTA
*
87501094 TATAACTTA
1 CATAACTTA
87501103 CATAACTTA
1 CATAACTTA
* *
87501112 TATAACCTA
1 CATAACTTA
87501121 CATAACTTA
1 CATAACTTA
*
87501130 TTATAACTTA
1 -CATAACTTA
*
87501140 TATAACTTA
1 CATAACTTA
* *
87501149 GATAA-ATA
1 CATAACTTA
*
87501157 TATATACTTA
1 CATA-ACTTA
87501167 CATAACTTA
1 CATAACTTA
87501176 CATAATGCTTA
1 CATAA--CTTA
* *
87501187 AATATATTTATA
1 CATA-A-CT-TA
*
87501199 TCATAATTTA
1 -CATAACTTA
87501209 CATAACTTA
1 CATAACTTA
87501218 CATAACTTA
1 CATAACTTA
*
87501227 TATAACTTA
1 CATAACTTA
*
87501236 GATAA
1 CATAA
87501241 ATATATAATT
Statistics
Matches: 134, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
8 17 0.13
9 85 0.63
10 15 0.11
11 10 0.07
12 4 0.03
13 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:87510766 original size:2 final size:2
Alignment explanation
Indices: 87510759--87510993 Score: 67
Period size: 2 Copynumber: 124.0 Consensus size: 2
87510749 ATGTGCAAAA
* *
87510759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
87510800 AA AT AT AC ACT A- AT ACT AT AGT A- AT A- AT TT GT A- AT A- AT
1 AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT
* * ** * * *
87510838 A- AT AT AT AC AC A- AT AT GG A- AT TT A- AA AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
87510876 AT AT AT AT AT GT AT AT A- AT AGT AT TT A- AG A- AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * **
87510916 A- AG AA AT AT AT A- ACT A- AT GGC AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
87510956 AT A- AA AT AC AT A- AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87510994 TAGAAATGAT
Statistics
Matches: 172, Mismatches: 36, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
1 19 0.11
2 145 0.84
3 8 0.05
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (2 bp):
AT
Found at i:87511334 original size:18 final size:18
Alignment explanation
Indices: 87511308--87511344 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
87511298 GAAAAAAAAG
*
87511308 GAAGAGAGAGGGAAGAGA
1 GAAGAGAGAGAGAAGAGA
*
87511326 GAAGGGAGAGAGAAGAGA
1 GAAGAGAGAGAGAAGAGA
87511344 G
1 G
87511345 GGGGAAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
GAAGAGAGAGAGAAGAGA
Found at i:87511650 original size:14 final size:15
Alignment explanation
Indices: 87511615--87511650 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
87511605 TTTTTTGGTT
87511615 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
87511630 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
87511644 TTTTTTT
1 TTTTTTT
87511651 TTTGGTGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:87511651 original size:15 final size:16
Alignment explanation
Indices: 87511614--87511651 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
87511604 TTTTTTTGGT
87511614 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
87511630 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
87511644 TTTTTTTT
1 TTTTTTTT
87511652 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:87511666 original size:34 final size:34
Alignment explanation
Indices: 87511613--87511688 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
87511603 TTTTTTTTGG
*
87511613 TTTTTTTT-TGCTGGAAATTTTTTTCTGGAAATT
1 TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAATT
**
87511646 TTTTTTTTGGTGCTGG-AATTTTTTGCTGGATTTT
1 TTTTTTTT-GTGCTGGAAATTTTTTGCTGGAAATT
87511680 TTTTTTTTG
1 TTTTTTTTG
87511689 CTTCCCCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 9 0.24
34 23 0.61
35 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.18, T:0.64
Consensus pattern (34 bp):
TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAATT
Found at i:87512131 original size:35 final size:35
Alignment explanation
Indices: 87512091--87512196 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
87512081 GGGGTGTGTG
*
87512091 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
87512126 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
87512161 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
87512196 A
1 A
87512197 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:87513829 original size:26 final size:26
Alignment explanation
Indices: 87513720--87513821 Score: 170
Period size: 26 Copynumber: 3.9 Consensus size: 26
87513710 CATGAAATTC
87513720 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87513746 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
87513772 TTATCATGGAACATTTACCT-ACCCTA
1 TTATCATGAAACATTTACCTAACCC-A
*
87513798 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
87513822 TTTTATCAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 4 0.05
26 66 0.90
27 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87517881 original size:15 final size:16
Alignment explanation
Indices: 87517843--87517873 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87517833 ACCAAAAGCA
*
87517843 ACATTTTAGTTCTTAT
1 ACATTTTAGTCCTTAT
87517859 ACATTTTAGTCCTTA
1 ACATTTTAGTCCTTA
87517874 ATATTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
ACATTTTAGTCCTTAT
Found at i:87519799 original size:21 final size:21
Alignment explanation
Indices: 87519760--87519804 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
87519750 TAAATATTAG
**
87519760 ATTAAATTTAATATTAAATCTT
1 ATTAAATTTAATAGAAAAT-TT
87519782 ATTAAA-TTAATAGAAAATTT
1 ATTAAATTTAATAGAAAATTT
87519802 ATT
1 ATT
87519805 TAGAAGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATTTAATAGAAAATTT
Found at i:87519915 original size:61 final size:61
Alignment explanation
Indices: 87519749--87519916 Score: 169
Period size: 61 Copynumber: 2.7 Consensus size: 61
87519739 ACTTATCAAT
* * * * *
87519749 ATAAATATTAGATTAAATTTAATATTAAATCTTATTAAATTAATAGAAAATTTATTTAGAAG
1 ATAAATATTAAATTAAATTTAATATTAAATC-TATTAAATTAATATAAAATTTAATAAAAAG
* * * * * **
87519811 ACAAAAATTAAATTAAATTAAATATTAATAT-AATCACTTTAATATAAAA-TTAATAAAATAG
1 ATAAATATTAAATTAAATTTAATATTAA-ATCTATTAAATTAATATAAAATTTAATAAAA-AG
* *
87519872 ATAAGTATTAAATTAAATTTAATATTAAATCTATTAAAATAATAT
1 ATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAT
87519917 TATTTTTGAA
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
60 8 0.10
61 48 0.59
62 24 0.29
63 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (61 bp):
ATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATATAAAATTTAATAAAAAG
Found at i:87523276 original size:24 final size:24
Alignment explanation
Indices: 87523240--87523291 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87523230 ACGTTTTGAA
*
87523240 GGTTCTTTATTTTCTGGCTTTCGG
1 GGTTCTTTATTTTCGGGCTTTCGG
* *
87523264 GGTTCTTTGTTTTCGGGTTTTCGG
1 GGTTCTTTATTTTCGGGCTTTCGG
87523288 GGTT
1 GGTT
87523292 TAGTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.02, C:0.13, G:0.31, T:0.54
Consensus pattern (24 bp):
GGTTCTTTATTTTCGGGCTTTCGG
Found at i:87524421 original size:40 final size:40
Alignment explanation
Indices: 87524377--87524509 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 40
87524367 GCACCCAATG
* * * *
87524377 CTAGTCGGATAAATTGACAAATATAATGGTGTGCCCTGCA
1 CTAGTCAGATAAACTGACAAATATAATGTTGTGCCATGCA
** * *
87524417 CTAGTCAGATAAACT---AACGA-AA-GTTGCGCCAAGCA
1 CTAGTCAGATAAACTGACAAATATAATGTTGTGCCATGCA
* * *
87524452 CTAGTCGGATAAA-TCGACAAATATAATGTTGTGCCTTACA
1 CTAGTCAGATAAACT-GACAAATATAATGTTGTGCCATGCA
87524492 CTAGTCAGATAAACTGAC
1 CTAGTCAGATAAACTGAC
87524510 GAAGATTGAG
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
34 1 0.01
35 21 0.30
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 37 0.53
41 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
CTAGTCAGATAAACTGACAAATATAATGTTGTGCCATGCA
Found at i:87524527 original size:75 final size:75
Alignment explanation
Indices: 87524296--87524552 Score: 286
Period size: 75 Copynumber: 3.4 Consensus size: 75
87524286 AAGTGTTTCA
** * * * *
87524296 CCCAGCACTAGTCAAAT-AATTGACAATTATAATGATGTGCCCAACACTAGTCACATAAACTAAT
1 CCCAGCACTAGTCGGATAAATTGACAAATATAATGATGTGCCCTACACTAGTCAGATAAACTAAC
87524360 GAAAGTTGCA-
66 GAAAGTTG-AG
*** * *
87524370 CCCAATGCTAGTCGGATAAATTGACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAACTAAC
1 CCCAGCACTAGTCGGATAAATTGACAAATATAATGATGTGCCCTACACTAGTCAGATAAACTAAC
*
87524435 GAAAGTTGCG
66 GAAAGTTGAG
* * * * *
87524445 CCAAGCACTAGTCGGATAAATCGACAAATATAATGTTGTGCCTTACACTAGTCAGATAAACTGAC
1 CCCAGCACTAGTCGGATAAATTGACAAATATAATGATGTGCCCTACACTAGTCAGATAAACTAAC
87524510 G-AAGATTGAG
66 GAAAG-TTGAG
** * *
87524520 CCCAGCACTAGTCAAATAAACTGACAGATATAA
1 CCCAGCACTAGTCGGATAAATTGACAAATATAA
87524553 AGGGTGTGCC
Statistics
Matches: 152, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
74 15 0.10
75 137 0.90
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (75 bp):
CCCAGCACTAGTCGGATAAATTGACAAATATAATGATGTGCCCTACACTAGTCAGATAAACTAAC
GAAAGTTGAG
Found at i:87529781 original size:36 final size:35
Alignment explanation
Indices: 87529716--87529786 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
87529706 ACACAATATG
* * * *
87529716 GTATTTTAAATATATATATATATGTATATATAATA
1 GTATTTGAAATATATACATAGATGTATATAAAATA
87529751 GTATTTGAGAATATATACATAAGATG-ATATAAAATA
1 GTATTTGA-AATATATACAT-AGATGTATATAAAATA
87529787 CATACATGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 7 0.23
36 19 0.63
37 4 0.13
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (35 bp):
GTATTTGAAATATATACATAGATGTATATAAAATA
Found at i:87529857 original size:11 final size:11
Alignment explanation
Indices: 87529830--87529874 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
87529820 ATGGCATTAA
*
87529830 AAAATATATAC
1 AAAATATATAT
*
87529841 ATAATATATAT
1 AAAATATATAT
*
87529852 AAAATACATAT
1 AAAATATATAT
*
87529863 AATATATATAT
1 AAAATATATAT
87529874 A
1 A
87529875 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:87530375 original size:11 final size:12
Alignment explanation
Indices: 87530359--87530393 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
87530349 AAAGAAAAAA
87530359 AAGAGAG-AGGG
1 AAGAGAGAAGGG
87530370 AAGAGAGAAGGG
1 AAGAGAGAAGGG
87530382 -AGAGAGAAGGG
1 AAGAGAGAAGGG
87530393 A
1 A
87530394 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:87530535 original size:33 final size:33
Alignment explanation
Indices: 87530492--87530559 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
87530482 AAAAAGGTAA
*
87530492 ATTTTTTTATATTTGTTT-TGTAT-ATATATATAT
1 ATTTTATTATATTT-TTTAT-TATGATATATATAT
*
87530525 ATTTTATTATATTTTTTATTATGATGTATATAT
1 ATTTTATTATATTTTTTATTATGATATATATAT
87530558 AT
1 AT
87530560 AGATTAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (33 bp):
ATTTTATTATATTTTTTATTATGATATATATAT
Found at i:87530600 original size:6 final size:6
Alignment explanation
Indices: 87530585--87530615 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
87530575 AAAAAGGGAA
87530585 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
87530616 GAGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:87530623 original size:17 final size:17
Alignment explanation
Indices: 87530603--87530641 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
87530593 AATAAAAATA
*
87530603 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
87530620 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
87530637 AAAAT
1 AAAAT
87530642 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:87531909 original size:74 final size:74
Alignment explanation
Indices: 87531728--87532630 Score: 640
Period size: 74 Copynumber: 11.7 Consensus size: 74
87531718 GTGATCTGAA
87531728 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAA-ACAGAAATTGAAAATACCTCA
* * *
87531793 GCATGTGAAC-CGAG
63 --ACGTG-TCTTGAG
*
87531807 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAACG
87531872 TGTCTTGAG
66 TGTCTTGAG
** * *
87531881 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTAAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTTAAAACAGAAATTGAAAATACCTCAAC
* *
87531946 ATGTCCTGAG
65 GTGTCTTGAG
** * * *
87531956 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTAACAATAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAAATACCTCAAC
*
87532020 GTGTCCTGAG
65 GTGTCTTGAG
** * * * **
87532030 GCTCAACTCACCTCTCGCGGTATGAGTTGATTTTTTTTGAAAGATATAAATTG-AAA-AGCAGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-AAA-ACAGAAATTGAAAATACCTCAA
** **
87532093 ATTGAAATT-A-
64 CGTG-TCTTGAG
* * * * * * * * ** *** *
87532103 CCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC--AAATAGAA
1 GCTCAAC-T--C---A-CCTC-TCGCA-ATAT-G-AGT-TGATTTTTTTTAAAACAGAAATTG--
* *
87532166 ATTGAAATTACCTCAGCGTGTCCTGAG
52 A---AAA-TACCTCAACGTGTCTTGAG
** * * *
87532193 GCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATATATTTAAACACAAAAATTGACA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTT------T-T-TTTAAA-ACAGAAATTGAAA
* * ***
87532258 ATACCTCAGCGTGCCCCAAG
55 ATACCTCAACGTGTCTTGAG
* * *
87532278 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTGAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAACG
87532341 TGTCTTGAG
66 TGTCTTGAG
* *
87532350 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAATAAATTGAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-------TTTAA---AACAGAAATTGAAAA
87532415 TACCTCAACGTGTCTTGAG
56 TACCTCAACGTGTCTTGAG
** * * * *
87532434 GCTCAACTCATTTCTGGCAATATGAGTTGATTTTTTTAAAAAGTAGAAATTGAAAATACCTCAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAA-CAGAAATTGAAAATACCTCAAC
87532499 GTGTCTTGAG
65 GTGTCTTGAG
* ** * *
87532509 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACAGAAATAAAAAATACTTCAATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAACG
87532574 TGTCTTGAG
66 TGTCTTGAG
*
87532583 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAAT
87532631 AAAAACATCA
Statistics
Matches: 666, Mismatches: 103, Indels: 116
0.75 0.12 0.13
Matches are distributed among these distances:
72 56 0.08
73 39 0.06
74 163 0.24
75 149 0.22
76 33 0.05
77 7 0.01
78 11 0.02
79 32 0.05
80 6 0.01
81 13 0.02
82 4 0.01
83 4 0.01
84 67 0.10
85 51 0.08
86 2 0.00
87 4 0.01
88 4 0.01
89 10 0.02
90 6 0.01
91 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAG
Found at i:87531991 original size:149 final size:149
Alignment explanation
Indices: 87531728--87532630 Score: 915
Period size: 149 Copynumber: 5.8 Consensus size: 149
87531718 GTGATCTGAA
*
87531728 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTATTT-AAA-ACAGAAATTGAAAATACCTC
* * * *
87531792 AGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAAT
64 A--ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAATAGAAAT
*
87531856 TGAAAATACCTCAACGTGTCTTGAG
125 TGAAAATACCTCAGCGTGTCTTGAG
** * *
87531881 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT-TTTAAAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTATTTAAAACAGAAATTGAAAATACCTCAA
* **
87531945 CATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAATAGAAATTGAAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA-AATAGAAATTGAAA
* *
87532010 TTACCTCAGCGTGTCCTGAG
130 ATACCTCAGCGTGTCTTGAG
** *
87532030 GCTCAACTCACCTCTCGCGGTATGAGTTGATTTTTTTTGAAAGATATAAATTGAAAAGCAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTT------TAT---TT-AAAA-CAGAAAT
* *
87532095 TGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
52 TGAAAATACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-
* *
87532158 AAATAGAAATTGAAATTACCTCAGCGTGTCCTGAG
115 AAATAGAAATTGAAAATACCTCAGCGTGTCTTGAG
** * * * *
87532193 GCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATATATTTAAACACAAAAATTGACA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-ATTT------T-TATTTAAA-ACAGAAATTGAAA
* * ** *
87532258 ATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAATAGA
57 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAATAGA
87532322 AATTGAAAATACCTCAGCGTGTCTTGAG
122 AATTGAAAATACCTCAGCGTGTCTTGAG
* *
87532350 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAAAAATAAATTGAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT------ATTTAA---AACAGAAATTGAAA
* ** *
87532414 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTGGCAATATGAGTTGATTTTTTTAAAAAGTA
57 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAA-TA
**
87532479 GAAATTGAAAATACCTCAATGTGTCTTGAG
120 GAAATTGAAAATACCTCAGCGTGTCTTGAG
* ** *
87532509 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT-TTTGAAACAGAAATAAAAAATACTTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTATTTAAAACAGAAATTGAAAATACCTCAA
* * * *
87532572 TGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAAT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAATAGAAAT
87532631 AAAAACATCA
Statistics
Matches: 642, Mismatches: 68, Indels: 86
0.81 0.09 0.11
Matches are distributed among these distances:
147 6 0.01
148 15 0.02
149 153 0.24
151 20 0.03
152 9 0.01
153 30 0.05
154 10 0.02
155 3 0.00
156 53 0.08
157 65 0.10
158 68 0.11
159 71 0.11
161 5 0.01
162 6 0.01
163 71 0.11
164 56 0.09
167 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (149 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTATTTAAAACAGAAATTGAAAATACCTCAA
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAATAGAAATTGAAAA
TACCTCAGCGTGTCTTGAG
Found at i:87532174 original size:73 final size:73
Alignment explanation
Indices: 87532080--87532617 Score: 468
Period size: 73 Copynumber: 7.0 Consensus size: 73
87532070 AAGATATAAA
** * *
87532080 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87532145 GTTGATTT
66 GTTGATTT
* * * * ** *
87532153 TTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87532218 GTTGATTT
66 GTTGATTT
* * * * ** ** * ** * * *
87532226 TTGAAAAATA-TATTTAAACACAAAAATTGACAATACCTCAGCGTGCCCCAAGGCTCAACTCACC
1 TTGAAAAATAGAAATTGAA-A-ATACCTCAAC-GTGTCT-TGAG-G-CTCAA----C---TCACC
87532290 TCTCGCAATATGAGTTGATTT
53 TCTCGCAATATGAGTTGATTT
*
87532311 TTG-AAAATAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87532375 GTTGATTT
66 GTTGATTT
**
87532383 TTGAAAAAAATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG-----AA-AAA-T----AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
87532448 TGGCAATATGAGTTGATTTT
55 TCGCAATATGAGTTGA-TTT
* *
87532468 TTTAAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAA-TAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
87532533 AGTTGATTTT
65 AGTTGA-TTT
*** * ** * *
87532543 TTTTGAAACAGAAATAAAAAATACTTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87532608 GTTGATTT
66 GTTGATTT
87532616 TT
1 TT
87532618 TTGAAACAGA
Statistics
Matches: 377, Mismatches: 61, Indels: 54
0.77 0.12 0.11
Matches are distributed among these distances:
72 34 0.09
73 79 0.21
74 61 0.16
75 70 0.19
76 2 0.01
77 1 0.00
78 5 0.01
79 11 0.03
80 4 0.01
81 2 0.01
82 4 0.01
83 4 0.01
84 64 0.17
85 36 0.10
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:87532366 original size:72 final size:73
Alignment explanation
Indices: 87532249--87532617 Score: 411
Period size: 72 Copynumber: 4.9 Consensus size: 73
87532239 TTAAACACAA
* * * ***
87532249 AAATTGACAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
87532314 AAAA-TAG
66 AAAAGTAG
*
87532321 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
87532386 AAAAAAATAAATTGAACAG
66 ------A-AAA--G--TAG
** *
87532405 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTGGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
*
87532470 TAAAAAGTAG
64 TGAAAAGTAG
*
87532480 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
*
87532545 TTG-AAA-CAG
63 TTGAAAAGTAG
** * *
87532554 AAATAAAAAATACTTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
87532618 TTGAAACAGA
Statistics
Matches: 261, Mismatches: 21, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
71 5 0.02
72 60 0.23
74 58 0.22
75 60 0.23
76 7 0.03
77 1 0.00
78 1 0.00
79 6 0.02
80 1 0.00
84 57 0.22
86 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGTAG
Found at i:87532460 original size:84 final size:75
Alignment explanation
Indices: 87532402--87532617 Score: 290
Period size: 75 Copynumber: 2.9 Consensus size: 75
87532392 ATAAATTGAA
** *
87532402 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTGGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
**
87532467 TTTTAAAAAG
66 TTAAAAAAAG
* *
87532477 TAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
****
87532542 TTTTTGAAA-
66 TTAAAAAAAG
** * *
87532551 CAGAAATAAAAAATACTTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
87532616 TT
66 TT
87532618 TTGAAACAGA
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
74 63 0.48
75 67 0.52
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (75 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTAAAAAAAG
Found at i:87544590 original size:19 final size:19
Alignment explanation
Indices: 87544566--87544648 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 19
87544556 GTAATAATTT
87544566 AAAATAATAATATGTACAA
1 AAAATAATAATATGTACAA
* * *
87544585 AAAATACATATATATATGCAT
1 AAAATA-ATA-ATATGTACAA
*
87544606 ATAATAA-AAGTATGTA-ATA
1 AAAATAATAA-TATGTACA-A
* *
87544625 ATAATAATAATATCTACAA
1 AAAATAATAATATGTACAA
87544644 TAAAA
1 -AAAA
87544649 GAAAATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
18 2 0.04
19 24 0.50
20 10 0.21
21 12 0.25
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATAATAATATGTACAA
Found at i:87544972 original size:9 final size:9
Alignment explanation
Indices: 87544958--87544996 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
87544948 GGCATTAAAA
87544958 AATATATAT
1 AATATATAT
87544967 AATATATAT
1 AATATATAT
*
87544976 AAAATACATAT
1 --AATATATAT
87544987 AATATATAT
1 AATATATAT
87544996 A
1 A
87544997 TACGTATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:87544975 original size:11 final size:11
Alignment explanation
Indices: 87544959--87544998 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
87544949 GCATTAAAAA
87544959 ATATATATAAT
1 ATATATATAAT
87544970 ATATATA-AA-
1 ATATATATAAT
*
87544979 ATACATATAAT
1 ATATATATAAT
87544990 ATATATATA
1 ATATATATA
87544999 CGTATTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 6 0.24
10 4 0.16
11 15 0.60
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATATATAAT
Found at i:87544981 original size:20 final size:20
Alignment explanation
Indices: 87544956--87544996 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
87544946 ATGGCATTAA
*
87544956 AAAATATATATAATATATAT
1 AAAATACATATAATATATAT
87544976 AAAATACATATAATATATAT
1 AAAATACATATAATATATAT
87544996 A
1 A
87544997 TACGTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATACATATAATATATAT
Found at i:87545807 original size:21 final size:17
Alignment explanation
Indices: 87545762--87545797 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
87545752 TACCTGAAAT
87545762 TTTGTCTTGGTTCTTGC
1 TTTGTCTTGGTTCTTGC
87545779 TTTG-CTTGGCTTCTTGC
1 TTTGTCTTGG-TTCTTGC
87545796 TT
1 TT
87545798 GCATGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.00, C:0.19, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGTCTTGGTTCTTGC
Found at i:87546058 original size:17 final size:18
Alignment explanation
Indices: 87546026--87546068 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
87546016 AACTTTGATT
*
87546026 TGAAGAAATAAGAAGAAG
1 TGAAGAAATAAGAAGAAC
*
87546044 TGAAGAAGT-AGAAGAAC
1 TGAAGAAATAAGAAGAAC
87546061 TGAAGAAA
1 TGAAGAAA
87546069 AGAGGTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.28, T:0.12
Consensus pattern (18 bp):
TGAAGAAATAAGAAGAAC
Found at i:87547493 original size:22 final size:24
Alignment explanation
Indices: 87547446--87547494 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
87547436 TTGTTATTTT
*
87547446 TAAATGTTATTATAAATTTATCAA
1 TAAATGTTATTATAAATTGATCAA
87547470 TAAA-GTTA-TATATAATTGAT-AA
1 TAAATGTTATTATA-AATTGATCAA
87547492 TAA
1 TAA
87547495 TATAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 9 0.39
23 10 0.43
24 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (24 bp):
TAAATGTTATTATAAATTGATCAA
Found at i:87551717 original size:13 final size:12
Alignment explanation
Indices: 87551699--87551735 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
87551689 AGAAAAAAAA
87551699 AAGAGAGAGAGGG
1 AAGAGAGA-AGGG
87551712 AAGAGAGAAGGG
1 AAGAGAGAAGGG
87551724 -AGAGAGAAGGG
1 AAGAGAGAAGGG
87551735 A
1 A
87551736 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 4 0.17
13 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:87552381 original size:17 final size:17
Alignment explanation
Indices: 87552361--87552399 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
87552351 AAATAAAATA
*
87552361 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
87552378 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
87552395 AAAAT
1 AAAAT
87552400 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:87554825 original size:31 final size:31
Alignment explanation
Indices: 87554763--87554825 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
87554753 AGCTATACCA
* *
87554763 TTTTTGTCATCATGGTCCCTAAACCTTTTTT
1 TTTTTGTCATCATGGTACCTAAACCTATTTT
*
87554794 TTTTTGTCATTAGTGGTACCTAAA-CTATTTT
1 TTTTTGTCATCA-TGGTACCTAAACCTATTTT
87554825 T
1 T
87554826 CCCAAGTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.52
Consensus pattern (31 bp):
TTTTTGTCATCATGGTACCTAAACCTATTTT
Found at i:87555739 original size:26 final size:26
Alignment explanation
Indices: 87555684--87555740 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
87555674 CCAATGTGCG
* * * *
87555684 AGCCCTTGTGTGTGAGCCTATGCACG
1 AGCCCTTGTGTATGAACCTAAGCACA
87555710 AGCCCTTGTGTATGAACCTAAG-AGCA
1 AGCCCTTGTGTATGAACCTAAGCA-CA
87555736 AGCCC
1 AGCCC
87555741 CTATGTGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (26 bp):
AGCCCTTGTGTATGAACCTAAGCACA
Found at i:87555765 original size:17 final size:17
Alignment explanation
Indices: 87555743--87555781 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
87555733 GCAAGCCCCT
87555743 ATGTGCAAGACCCTT-GC
1 ATGTGCAA-ACCCTTAGC
*
87555760 ATGTGCGAACCCTTAGC
1 ATGTGCAAACCCTTAGC
87555777 ATGTG
1 ATGTG
87555782 AGAACCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (17 bp):
ATGTGCAAACCCTTAGC
Found at i:87555786 original size:17 final size:17
Alignment explanation
Indices: 87555752--87555807 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
87555742 TATGTGCAAG
*
87555752 ACCCTT-GCATGTGCGA
1 ACCCTTAGCATGTGAGA
87555768 ACCCTTAGCATGTGAGA
1 ACCCTTAGCATGTGAGA
* * *
87555785 ACCCCCTAGTATGTGTGA
1 A-CCCTTAGCATGTGAGA
87555803 ACCCT
1 ACCCT
87555808 CTTGTATGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 6 0.18
17 13 0.39
18 14 0.42
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (17 bp):
ACCCTTAGCATGTGAGA
Found at i:87555804 original size:18 final size:18
Alignment explanation
Indices: 87555777--87555818 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
87555767 AACCCTTAGC
87555777 ATGTGAGAACCCCCTAGT
1 ATGTGAGAACCCCCTAGT
* * *
87555795 ATGTGTGAACCCTCTTGT
1 ATGTGAGAACCCCCTAGT
87555813 ATGTGA
1 ATGTGA
87555819 ACCCTTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (18 bp):
ATGTGAGAACCCCCTAGT
Found at i:87558486 original size:14 final size:13
Alignment explanation
Indices: 87558462--87558499 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
87558452 ACAAGGGAAG
87558462 GAAAGAAGAAAAA
1 GAAAGAAGAAAAA
87558475 GAAAGAAAGAAAAA
1 GAAAG-AAGAAAAA
*
87558489 GAAAGGAGAAA
1 GAAAGAAGAAA
87558500 TTTAGAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAGAAGAAAAA
Found at i:87559257 original size:16 final size:15
Alignment explanation
Indices: 87559217--87559273 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
87559207 TTGAGTTATA
87559217 TATTCATGAATTGAG
1 TATTCATGAATTGAG
*
87559232 TATGGT-ATGAAATGATG
1 TAT--TCATGAATTGA-G
87559249 TATTCATGAATTGAG
1 TATTCATGAATTGAG
87559264 TATTACATGA
1 TATT-CATGA
87559274 CTAATGCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.26
16 21 0.60
17 5 0.14
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (15 bp):
TATTCATGAATTGAG
Found at i:87559818 original size:38 final size:38
Alignment explanation
Indices: 87559767--87559880 Score: 228
Period size: 38 Copynumber: 3.0 Consensus size: 38
87559757 GGTTCCTTGG
87559767 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
1 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
87559805 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
1 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
87559843 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
1 GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
87559881 CCATTGGTCC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (38 bp):
GTCGAACTGAGTTTAGGGGTGTTACATGAACAATTCTA
Found at i:87567811 original size:420 final size:422
Alignment explanation
Indices: 87566545--87569329 Score: 1890
Period size: 419 Copynumber: 6.8 Consensus size: 422
87566535 TTTTTAGATA
* *
87566545 AAATT-TTTTCAGAATATTTTCAGTTGCGGAAAATCCTCTGACTATTGTA-AAAATTCTAGTCAG
1 AAATTATTTTCAGAATATTTTCAGTTGTGGAAAATCCTCTGACTATTGTAGAAAATT-TAGTCAA
* * * * * * * ** *
87566608 TTGCATATTTTGAGGAAACTAAAATTGCTTGTTTTATCATTTTGCCCCTTCTGAAAACAATAAAA
65 TTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACAATATAA
* * * *
87566673 ATAGCAGGTCATTTTCCTCATTTAACATAACAAGCAAACAACATTCTTTCTCTCATTCTCATTTT
130 ATAGCAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTTT
* * * *
87566738 CTCTTGTCTG-TTTCTTTTTAGCA-ATTTTCAATCAAATTTCCT-ACTACATTTTCTTCTTTGCT
195 CTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTT-CTGACTACATTTTCTGCTTTGTT
* * * * *
87566800 TTTCAATCCCTTTCGGGAAGAGCAATACAAATTGTGTTCCACCTTCTTTATTCGAGTGTACGAGT
259 TTTCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTCGAGTGTACGA-A
* * * * * * * * * ** *
87566865 CGTCACCCGA-CCTA-TTCGTGTCTGCGCCCATGTTAACACGTGTCTACGGTACATACCA-GCA-
323 C-TGACCCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACAAGTGTCTACGACACGTACCACG-AG
*
87566926 TGTTTCTTTTTGGATAAAATTTCTATTTTT-TCTTTGT
386 TGTTTCTTTTTGGATAAAATTTCTATTTTTCT-TTTTT
* * * * * *
87566963 AAATTATTGTCAGAATATTTTCAATT-TCGGAAAATCCTTTAACTATT-AAGGAAAATCTAGTCA
1 AAATTATTTTCAGAATATTTTCAGTTGT-GGAAAATCCTCTGACTATTGTA-GAAAATTTAGTCA
* * * * * * * *
87567026 ATTGCATTTTTTGAGGAAATTGGCATTGTGTATTTTACCATTTTACCCCTTCATAAAACAGTATA
64 ATTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACAATATA
* * * * *
87567091 AATAGTATG-TCATTTTCCTTATTTTACATAACAAACAAACAACAATCCTTCTCTCATTCTGCTT
129 AATAGCA-GATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTT
* * * * * *
87567155 TTCTCTTGTTTGTTTTC-TTTTAGCGGTTTTTCAATCAAATTTTTTACTACATTTTCTACTTTG-
193 TTCTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTTTGT
* * * * * *
87567218 TTTTCTAATTCCTTTCGAGAAGAGTAATAACAATTGTGTTCCACCTCCTTTATTTTG-GTGTATG
258 TTTTC-AATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTA-TTCGAGTGTACG
* * * * *
87567282 AACCGCTGCCCGACCTAACCCAAT-CTATGTCCGTGTCCTTGTTAACACA-TGTCT-----ACGT
321 AA---CTG-AC--CCTAGCCCAGTCCT-TGTCTGTGTCCGTGTTAACA-AGTGTCTACGACACGT
* * *
87567340 ACCACGTGTATTT-TCTTTTGGATAAAATTTCTATTTTTCTTTTTG
378 ACCACGAGTGTTTCT-TTTTGGATAAAATTTCTATTTTTCTTTTTT
* * * *
87567385 AAATTATTTTCAAAATATTTTCAGTTGTGGAAAAT-C-ATGACTGTTGTAGAAAATTT-GATCAG
1 AAATTATTTTCAGAATATTTTCAGTTGTGGAAAATCCTCTGACTATTGTAGAAAATTTAG-TCAA
* * ** **
87567447 TTGCATTTTTT-AGGAAACAGACATTGCGTGTTTTATTATTTTACCCCTTAAGAAAACCGTATAA
65 TTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACAATATAA
*
87567511 ATAGTAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTTT
130 ATAGCAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTTT
* * * *
87567576 CTCTCGTCTGTTTTCTTTTTAGAAATTTTTCATTCAAATTTCTGACTACATTTTCGGCTTTGTTT
195 CTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTTTGTTT
* * * * * * *
87567641 TTCGATTCCTTTTGAGAAAAGCAATACCAAATATGTTTCACCTTATTTA-TCTGAGCGTACGAAC
260 TTCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTC-GAGTGTACGAAC
* * * * *
87567705 TGACGCGTGGCCCCGTCCTTGTCTGTGTTCGTCTTAACAAGTGTCTACGACACGTACCACGAGTG
324 TGAC-CCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACAAGTGTCTACGACACGTACCACGAGTG
87567770 TTTCTTTTTGGATAAAATTTCTATTTTTCTTTTTT
388 TTTCTTTTTGGATAAAATTTCTATTTTTCTTTTTT
* * * * *
87567805 AAATTATATTCATAATATTTTTAGGTGCGGAAAA---TCTG------GTCAG-----TT-GT--A
1 AAATTATTTTCAGAATATTTTCAGTTGTGGAAAATCCTCTGACTATTGT-AGAAAATTTAGTCAA
* * * * *
87567853 TT---TTTCTT-AGGTAACTGACACTACATGTTTTACCATTTTGCCCCTTCAA-AAAACAATATA
65 TTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTT-AAGAAAACAATATA
* * * *
87567913 AATAGCAGGTTATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTTTGTCATTCTCC-TT
129 AATAGCAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTT
* * * * * * *
87567977 T-TCTC-TC--ATTTGTTTTT-CCA---TTT--AGCAAATTT-TCGATTACATTTTTTACTTTGT
194 TCTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCT-GACTACATTTTCTGCTTTGT
* * * * * *
87568031 TTTCCGATTCCTTTTGAGAAGAGCAATACCTATTGTGTTCCACCTTCTTTATTCAAGTGTACGAA
258 TTTTCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTCGAGTGTACGAA
* * * ** * * * **
87568096 TTGCCACCC-GGCCCAGTCCGTGTCCATGTTCGTGTTAACACGTGTCTGCTTCACGTACTGCAC-
323 CTG--ACCCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACAAGTGTCTACGACACGTAC--CACG
* *
87568159 -GTGTTTCATTTTGGGTAAAATTTCTATTTTTTCTTTTTT
384 AGTGTTTCTTTTTGGATAAAATTTCTA-TTTTTCTTTTTT
* * *** ** *
87568198 AATTTATTTTTAGAATATTTTC-GATTGCAAAAAATCCTCTGACTGCTG-CGAAAAATTTAGTCA
1 AAATTATTTTCAGAATATTTTCAG-TTGTGGAAAATCCTCTGACTATTGTAG-AAAATTTAGTCA
* * * * * *
87568261 ATTGAATTTTTTAAGGAAATTGACACTACGTGTTTTACCATTTTGCCCCTT-CGAAAA-ATAGTA
64 ATTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACA-A-TA
**
87568324 TAAATAGCA-AGTCATTTTCCTCATTTTACATAACAAGCATTCAACAA--------T-A------
127 TAAATAGCAGA-TCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCC
* * *
87568373 -TTTCTCTCGTCTGTTTTCCTTTTAGCAGTTTTTCAGTCAATTTTCTGACTACATTTTCTGCTTT
191 TTTTCTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTTT
* * * ** *
87568437 G-TTTTCTGATACCTTTCGAGAAGTGCAATGGCAATTATATTCCACCTTCTTTATTC-AGGTGTA
256 GTTTTTC-AATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTCGA-GTGTA
* * * * * * * * * * * *
87568500 TGAACCGCCACCTAGCTC-GGCC----C-GTGGCCATGTTAACACGTGGCTAAGACAGGTATCA-
319 CGAACTGAC-CCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACAAGTGTCTACGACACGTACCAC
* * * * *
87568558 -AGCGTGT-TTTTTGTATGAAATTT-TATGTTTTTTTTATTTTTT
383 GAGTGTTTCTTTTTGGATAAAATTTCTA-----TTTTTCTTTTTT
* ** * * *
87568600 AAATTATTTTCAAAATA-TTTCTAACTGTAGAAAATCCTCTGACTATTG-CGAAAAATTTGGTCA
1 AAATTATTTTCAGAATATTTTC-AGTTGTGGAAAATCCTCTGACTATTGTAG-AAAATTTAGTCA
* * * * * *
87568663 ATTGTATTTTTTGAAGAAACTGACACTGCATGTTTTATC-GTTTAGCCCATTCGAA-AAAACAAT
64 ATTGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTA-CCCCTT--AAGAAAACAAT
*
87568726 ATAAATAACA-AGTCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTC
126 ATAAATAGCAGA-TCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTC
* * * *
87568790 CTTTTCTCTCGTTTGTTTTCCTTTTAGTAGTTTTTCAATCAAATTTCCGACTACATTTTCTGCTT
190 CTTTTCTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTT
* ** * * * * * * *
87568855 TATTTCCCAATTCCTTTTGAGAAGTGCATTAGCAATTATGTTCCACCTTCTTCATTCGGGTGTAT
255 TGTTTTTCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTCGAGTGTAC
* * * * * * * * ** *
87568920 GAA-T-A---T----CTGT-CTGGCCTG-GTTCGTGTTAATACA-TATTTACAACATATACCCCG
320 GAACTGACCCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACA-AGTGTCTACGACACGTACCACG
* * * * * *
87568973 CA-TGCTTATTTTTGGA-CAAATTTTTTTTTTTCCTTTTT
384 -AGTGTTTCTTTTTGGATAAAATTTCTATTTTTCTTTTTT
* * * * * * * *
87569011 AAATTATTTTTAGAATATTTTTAGTTGTAGAAAATCTTTTGACTATTGTGGAAAATCTAGTCAGT
1 AAATTATTTTCAGAATATTTTCAGTTGTGGAAAATCCTCTGACTATTGTAGAAAATTTAGTCAAT
* ** * * * **
87569076 TGCATTTTTTGAGGAAGCTGACACTATGTTTTTTACCGTTTT-GCCCTTTCGAAAA-ATTATATA
66 TGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACA--ATATA
* * * *
87569139 AATAACAGGTTATTTTCCTCATTTTACATAACAAGCAAACAATAATCTTTCTCTCATTCTCCTTT
129 AATAGCAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTT
* * * * * * *
87569204 TCTCCCGTTTGTTTTCTTTTTAACAGTTTTTCATTCAAATTTTTTACTAAATTTTCTGCTTTGTT
194 TCTCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTTTGTT
* * *
87569269 TTTCTATTCCTTTCGAGAAGAGCAATACCAATTGTGTTCCACCTAT-TTTATTCTA-TGTACG
259 TTTCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCT-TCTTTATTCGAGTGTACG
87569330 GATACTAAAG
Statistics
Matches: 1875, Mismatches: 350, Indels: 293
0.74 0.14 0.12
Matches are distributed among these distances:
391 1 0.00
392 143 0.08
393 39 0.02
394 8 0.00
396 4 0.00
397 1 0.00
398 13 0.01
399 16 0.01
400 11 0.01
401 11 0.01
402 129 0.07
403 150 0.08
404 8 0.00
405 2 0.00
406 8 0.00
407 12 0.01
408 77 0.04
409 18 0.01
410 168 0.09
411 90 0.05
412 18 0.01
413 101 0.05
414 4 0.00
415 35 0.02
416 12 0.01
417 3 0.00
418 8 0.00
419 398 0.21
420 273 0.15
421 20 0.01
422 63 0.03
423 2 0.00
424 3 0.00
425 4 0.00
426 22 0.01
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (422 bp):
AAATTATTTTCAGAATATTTTCAGTTGTGGAAAATCCTCTGACTATTGTAGAAAATTTAGTCAAT
TGCATTTTTTGAGGAAACTGACACTGCGTGTTTTACCATTTTACCCCTTAAGAAAACAATATAAA
TAGCAGATCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTCATTCTCCTTTTC
TCTCGTCTGTTTTCTTTTTAGCAGTTTTTCAATCAAATTTCTGACTACATTTTCTGCTTTGTTTT
TCAATTCCTTTCGAGAAGAGCAATACCAATTATGTTCCACCTTCTTTATTCGAGTGTACGAACTG
ACCCTAGCCCAGTCCTTGTCTGTGTCCGTGTTAACAAGTGTCTACGACACGTACCACGAGTGTTT
CTTTTTGGATAAAATTTCTATTTTTCTTTTTT
Found at i:87576959 original size:30 final size:30
Alignment explanation
Indices: 87576925--87576987 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
87576915 ATTTATTTTA
*
87576925 TTGTTAATTTTCTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
*
87576955 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
87576985 TTG
1 TTG
87576988 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:87577756 original size:127 final size:128
Alignment explanation
Indices: 87577537--87577878 Score: 497
Period size: 127 Copynumber: 2.6 Consensus size: 128
87577527 AAACTAATAT
* * * * *
87577537 ATATTATAAGCTATACTAATAATTAAAGAAACATTCGAACATGAAATCCATATATTTATGACTAA
1 ATATTATAAGCTATACTACTAACTAAAGAAACATTCCAACATGACATCCATATATTTATGACAAA
* *
87577602 TAGACATCCAATTTGAGTAACACATCAACATCGTGACGTAAAAAAACTAAGATATACATATAA
66 TAGACATCCAATTTGAGTAACAAATCAACATCGTGAAGTAAAAAAACTAAGATATACATATAA
* *
87577665 ATATTATAAGCTATACTACTAAGTAAAGAAACATTCCAACATGACATCC-TATATTTATCACAAA
1 ATATTATAAGCTATACTACTAACTAAAGAAACATTCCAACATGACATCCATATATTTATGACAAA
* * * * *
87577729 TAGACATCCAATTTGAGTAACAAATCAACATCGTGAAGTAAGAAAATTAATATATATATATAT
66 TAGACATCCAATTTGAGTAACAAATCAACATCGTGAAGTAAAAAAACTAAGATATACATATAA
* *
87577792 ATATATATTAAGCTATATACTACTAACTAAAGAAACATTCCAACATGACATCCTTATATTTATGG
1 ATAT-TA-TAAGC--TATACTACTAACTAAAGAAACATTCCAACATGACATCCATATATTTATGA
87577857 CAAATAGACATCCAATTTGAGT
62 CAAATAGACATCCAATTTGAGT
87577879 GACGTAAGAA
Statistics
Matches: 193, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
127 73 0.38
128 47 0.24
129 5 0.03
131 37 0.19
132 31 0.16
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (128 bp):
ATATTATAAGCTATACTACTAACTAAAGAAACATTCCAACATGACATCCATATATTTATGACAAA
TAGACATCCAATTTGAGTAACAAATCAACATCGTGAAGTAAAAAAACTAAGATATACATATAA
Found at i:87578004 original size:35 final size:35
Alignment explanation
Indices: 87577953--87578024 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
87577943 CAAGAAGACA
*
87577953 TTCAATTTGAGTAACACATCAGCATATTAATTTAT
1 TTCAATTTGAGAAACACATCAGCATATTAATTTAT
87577988 TTCAATTTGAGAAACACATCAGCATATTAATTTAT
1 TTCAATTTGAGAAACACATCAGCATATTAATTTAT
87578023 TT
1 TT
87578025 ACATTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (35 bp):
TTCAATTTGAGAAACACATCAGCATATTAATTTAT
Found at i:87578862 original size:16 final size:16
Alignment explanation
Indices: 87578841--87578872 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
87578831 GTCCAAGTAA
87578841 CAATCAACATATTGCG
1 CAATCAACATATTGCG
87578857 CAATCAACATATTGCG
1 CAATCAACATATTGCG
87578873 AAACAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CAATCAACATATTGCG
Found at i:87581230 original size:11 final size:11
Alignment explanation
Indices: 87581202--87581242 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
87581192 TTGAAGTTTA
*
87581202 TATTTTATGTAT
1 TATTTTAT-TTT
87581214 TA-TTTATTTT
1 TATTTTATTTT
87581224 TATTTTATTTT
1 TATTTTATTTT
87581235 TATTTTAT
1 TATTTTAT
87581243 AATTGATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 4 0.15
11 21 0.78
12 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:87581863 original size:127 final size:126
Alignment explanation
Indices: 87581714--87581946 Score: 367
Period size: 127 Copynumber: 1.8 Consensus size: 126
87581704 AAAACTTATC
* * * *
87581714 AAAACAAGGTAATATTTTGTGTTTGAAAATTTGAGAAATTGTGTCCTAACGTGCTGGGTTTCGAT
1 AAAACAAGGTAATATTTCGTGTTTGAAAATTTGAGAAATCGTGCCCTAACGTGCTGAGTTTCGAT
* * *
87581779 TTTCCGTTTGACCGAATAACTAAATATCCTTTCCAAATTTCATCCATGTTTTCTTAAATTAA
66 TTTCCG-TTGACCAAATAACCAAATATCCTTTCAAAATTTCATCCATGTTTTCTTAAATTAA
*
87581841 AAAACAAGGTAATATTTCGTGTTTGGAAATTTGAGAAATCGTGCCCTAACGTGCTGAGTTTCGAT
1 AAAACAAGGTAATATTTCGTGTTTGAAAATTTGAGAAATCGTGCCCTAACGTGCTGAGTTTCGAT
* *
87581906 TTTCCGTTGACCAAATAGCCAAATATCCTTTTAAAATTTCA
66 TTTCCGTTGACCAAATAACCAAATATCCTTTCAAAATTTCA
87581947 ATGCATGAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
126 30 0.31
127 66 0.69
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (126 bp):
AAAACAAGGTAATATTTCGTGTTTGAAAATTTGAGAAATCGTGCCCTAACGTGCTGAGTTTCGAT
TTTCCGTTGACCAAATAACCAAATATCCTTTCAAAATTTCATCCATGTTTTCTTAAATTAA
Found at i:87585707 original size:28 final size:28
Alignment explanation
Indices: 87585676--87585731 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
87585666 AAAACTAAGC
87585676 GTTTGATCGAAAACCCAAAAAACTTGAA
1 GTTTGATCGAAAACCCAAAAAACTTGAA
87585704 GTTTGATCGAAAACCCAAAAAACTTGAA
1 GTTTGATCGAAAACCCAAAAAACTTGAA
87585732 AGCTTGGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (28 bp):
GTTTGATCGAAAACCCAAAAAACTTGAA
Found at i:87586821 original size:13 final size:13
Alignment explanation
Indices: 87586803--87586863 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
87586793 GAAGAATTGT
87586803 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
87586816 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
87586829 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
87586842 TCAAAAGCACTTT
1 TCAAAAGCACTTC
87586855 TCAAAAGCA
1 TCAAAAGCA
87586864 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:87586863 original size:26 final size:26
Alignment explanation
Indices: 87586802--87586863 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
87586792 GGAAGAATTG
87586802 TTCAAAAGCACTTCTCAAAAGCACTT
1 TTCAAAAGCACTTCTCAAAAGCACTT
* *
87586828 TTCCACAGCACTTCTCAAAAGCACTT
1 TTCAAAAGCACTTCTCAAAAGCACTT
87586854 TTCAAAAGCA
1 TTCAAAAGCA
87586864 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (26 bp):
TTCAAAAGCACTTCTCAAAAGCACTT
Found at i:87588679 original size:3 final size:3
Alignment explanation
Indices: 87588671--87588766 Score: 167
Period size: 3 Copynumber: 32.0 Consensus size: 3
87588661 ATGTTAGATG
87588671 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
87588719 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T CTAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
87588764 TAT
1 TAT
87588767 CATACTATTA
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 1 0.01
3 88 0.99
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:87588848 original size:29 final size:28
Alignment explanation
Indices: 87588817--87588882 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
87588807 CGTTTGTTTA
87588817 TTTACTTATCATTTTTATATATAAATTCAT
1 TTTA-TTATCATTTTT-TATATAAATTCAT
* *
87588847 TTTATTTTCATTTTTTTTATAAATTTCTAT
1 TTTATTATCATTTTTTATATAAA-TTC-AT
87588877 TTTATT
1 TTTATT
87588883 TGTTTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.22
29 13 0.41
30 12 0.38
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTATTATCATTTTTTATATAAATTCAT
Done.