Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 28
Found at i:4874737 original size:68 final size:68
Alignment explanation
Indices: 4874622--4875082 Score: 618
Period size: 68 Copynumber: 6.8 Consensus size: 68
4874612 AAAAATTAAT
* * * *
4874622 AGGCCTAACTTTGCATTTGACAGAAATGTGTCATTTATGACAGTTAGATGAAAGGCTAAGAGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4874687 TTG
66 TTG
* * *
4874690 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGATAGGCTAAGTGCTT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4874755 TTG
66 TTG
* * * * * * * *
4874758 AGACATAACTATGCATTTAAAAGAAATGTGTCATTTATTCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4874823 TTG
66 TTG
* ** *
4874826 AGGCCTAACTATATATTTGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4874891 TTG
66 TTG
* * * * * *
4874894 AGACCTAACTGTGCATTTGACATAAAGGTGTAATTTATGCTAGTTCGATGAAAGGGTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4874959 TTG
66 TTG
*
4874962 AGGCCAAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4875027 TTG
66 TTG
* * ** *
4875030 ATGCCTAACTGTACAAATAGGA-AGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGC--ATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4875083 CAATTAAATA
Statistics
Matches: 340, Mismatches: 51, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
68 306 0.90
69 30 0.09
70 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4875171 original size:81 final size:81
Alignment explanation
Indices: 4875032--4875406 Score: 448
Period size: 81 Copynumber: 4.6 Consensus size: 81
4875022 TGCCTTTGAT
* * * * * *
4875032 GCCTAACTGTACAAATAGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAATAATGT
1 GCCTAACTGTGC-AATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAACAATGT
*
4875097 TGAGTAAAGGAATAATA
65 TGAGTAAAAGAATAATA
* *
4875114 GCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAA-TATCGT
1 GCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAACAAT-GT
4875178 TGAGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* * * * *
4875195 GACTAACTGTGTAATTGGCAGAGA-GATGTCAATTATGCTAGTTAGATGAACGATTAAACACTGT
1 GCCTAACTGTGCAATTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAACGATTAAACAATGT
4875259 TGAGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* * * *
4875276 GCCTAACTATGCAATTGGCAGAAATGTGTCAACTATGCCAGTTAGATGAACGGTTAAACACTGTT
1 GCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAACAATGTT
* *
4875341 CAGTAAAAGAATAATG
66 GAGTAAAAGAATAATA
** * * * * * * *
4875357 GATTAACTGTGTATTTGACAGAAAAGTGTCAAATATGCAAGTTAAATGAA
1 GCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
4875407 AAGATAAATA
Statistics
Matches: 255, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.01
81 239 0.94
82 13 0.05
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAACAATGTT
GAGTAAAAGAATAATA
Found at i:4875326 original size:162 final size:162
Alignment explanation
Indices: 4875052--4875406 Score: 516
Period size: 162 Copynumber: 2.2 Consensus size: 162
4875042 ACAAATAGGA
* * * *
4875052 AGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAATAATGTTGAGTAAAGGAATAATAGCC
1 AGAAAAGTGTCAATTATGCAAGTTAGATGAACAATTAAACAATGTTGAGTAAAAGAATAATAGCC
* * * *
4875117 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-TCGTTGA
66 TAACTATGCAATTGGCAGAAATGTGTCAACTATGCCAGTTAGATGAACGGTTAAACACT-GTTCA
*
4875181 GTAAAAGAATAATAGACTAACTGTGTAATTGGC
130 GTAAAAGAATAATAGACTAACTGTGTAATTGAC
* * * *
4875214 AG-AGAGATGTCAATTATGCTAGTTAGATGAACGATTAAACACTGTTGAGTAAAAGAATAATAGC
1 AGAAAAG-TGTCAATTATGCAAGTTAGATGAACAATTAAACAATGTTGAGTAAAAGAATAATAGC
4875278 CTAACTATGCAATTGGCAGAAATGTGTCAACTATGCCAGTTAGATGAACGGTTAAACACTGTTCA
65 CTAACTATGCAATTGGCAGAAATGTGTCAACTATGCCAGTTAGATGAACGGTTAAACACTGTTCA
* * *
4875343 GTAAAAGAATAATGGATTAACTGTGTATTTGAC
130 GTAAAAGAATAATAGACTAACTGTGTAATTGAC
* *
4875376 AGAAAAGTGTCAAATATGCAAGTTAAATGAA
1 AGAAAAGTGTCAATTATGCAAGTTAGATGAA
4875407 AAGATAAATA
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
161 2 0.01
162 165 0.96
163 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (162 bp):
AGAAAAGTGTCAATTATGCAAGTTAGATGAACAATTAAACAATGTTGAGTAAAAGAATAATAGCC
TAACTATGCAATTGGCAGAAATGTGTCAACTATGCCAGTTAGATGAACGGTTAAACACTGTTCAG
TAAAAGAATAATAGACTAACTGTGTAATTGAC
Found at i:4875493 original size:2 final size:2
Alignment explanation
Indices: 4875486--4875530 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4875476 ATATGAAATG
4875486 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
4875528 AT A
1 AT A
4875531 ATGTACAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4878988 original size:284 final size:279
Alignment explanation
Indices: 4878501--4879083 Score: 633
Period size: 284 Copynumber: 2.1 Consensus size: 279
4878491 GATCACATCT
* * *
4878501 AATTGGTGAACAAAAATTTATAAAGTTGGGAGATTATGATATATTTTATATGGTTTAAAATGAAG
1 AATTGGTGAACAAAAGTTTATAAAGTTGGGAGATTATGATATAATTTATAGGGTTTAAAATGAAG
* * * *
4878566 TCTACGATATAATTTATAGAGTTTGGAGTAAATAACAAAATATAAATAATTAAGACCCAATCTTG
66 TCTACGATATAACTTATAGAGTTTGGAGTAAATAACAAAATATAAATAAGTAACACCCAATCTTA
* * * *
4878631 GATAAAAATATTATTTTAAGGATTAAATTGAACAAACGTGAAATTACAAACTGAAATTTAAATAA
131 GATAAAAATATAATTTTAAGAACTAAATTGAACAAACATGAAATTACAAACTGAAATTTAAATAA
* * * * *
4878696 ATTTAAAAA-ATGCATGGATGAAA-TCAAATCAATTGTAAAATTTGAAGCTGAAATTAATATAAA
196 ATTTAAAAATATACAAGGATCAAATTCAAAT-AATTATAAAA--T---G-T-AAATTAATAAAAA
*
4878759 A-TGGACTAAATTGCA-TCAATTTTAAA
253 ATTAGACTAAATTGCATTC-ATTTTAAA
* * * * *
4878785 AATTGGTGAACAAAAGTTTAT-AGGATTTGGATATTATGATATAATTTATAGGGTTTGAATTGAA
1 AATTGGTGAACAAAAGTTTATAAAG-TTGGGAGATTATGATATAATTTATAGGGTTTAAAATGAA
* ** * * * * * *
4878849 -TTTATTATTTGACTTATAGGGTTTGGAGTAAATTACAAAAATATAAATAAGTATCACCGAAT-T
65 GTCTACGATATAACTTATAGAGTTTGGAGTAAATAAC-AAAATATAAATAAGTAACACCCAATCT
* * * * *
4878912 TCAGATAAATAGTATAATTTTAAGAACTAAATTGAACAATCATGGAATTATAAATTGAAATTTAA
129 T-AGATAAA-AATATAATTTTAAGAACTAAATTGAACAAACATGAAATTACAAACTGAAATTTAA
* *
4878977 ATAAA-TTAAAAATATATAAGGATCAAATTGAAATAATTATAAAATGTAAATTAATAAAAAATTA
192 ATAAATTTAAAAATATACAAGGATCAAATTCAAATAATTATAAAATGTAAATTAATAAAAAATTA
4879041 GACTAAATTGCATTCATTTTAAA
257 GACTAAATTGCATTCATTTTAAA
* *
4879064 AGTTTGTGAACAAAAGTTTA
1 AATTGGTGAACAAAAGTTTA
4879084 ACATATTAAT
Statistics
Matches: 251, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
278 13 0.05
279 40 0.16
280 3 0.01
283 33 0.13
284 87 0.35
285 70 0.28
286 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (279 bp):
AATTGGTGAACAAAAGTTTATAAAGTTGGGAGATTATGATATAATTTATAGGGTTTAAAATGAAG
TCTACGATATAACTTATAGAGTTTGGAGTAAATAACAAAATATAAATAAGTAACACCCAATCTTA
GATAAAAATATAATTTTAAGAACTAAATTGAACAAACATGAAATTACAAACTGAAATTTAAATAA
ATTTAAAAATATACAAGGATCAAATTCAAATAATTATAAAATGTAAATTAATAAAAAATTAGACT
AAATTGCATTCATTTTAAA
Found at i:4879356 original size:23 final size:22
Alignment explanation
Indices: 4879330--4879384 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
4879320 TATATAATTT
*
4879330 AATGTATAATCTAATAACAAATA
1 AATGAATAATCTAATAA-AAATA
* *
4879353 AATGAATCATTTAATAAAAATA
1 AATGAATAATCTAATAAAAATA
*
4879375 ATTTGAATAA
1 A-ATGAATAA
4879385 AATAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
AATGAATAATCTAATAAAAATA
Found at i:4881185 original size:2 final size:2
Alignment explanation
Indices: 4881180--4881236 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
4881170 AGAAGTAACG
4881180 TA TA TA TA TA 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 TA TA TA TA TA
4881222 TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA
4881237 ACATATAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4882865 original size:106 final size:106
Alignment explanation
Indices: 4882670--4883106 Score: 658
Period size: 106 Copynumber: 4.1 Consensus size: 106
4882660 TCCAAGTAGG
* * * * * * * *
4882670 TTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGTAGTTGAAATTGGTTCTGGAACTGGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
4882735 GTGTGTTGACAACCAGTCGTCCCTTCATTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAAC
*
4882776 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
4882841 GTTTGTTGGCAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAAC
* ** * *
4882882 TTGTGCTGTCTCGAGTCCAATGCCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
4882947 GTTTGTTGACAACAAGCTGTCCCTTCATTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAAC
* *
4882988 TTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
4883053 GTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAAC
4883094 TTGTGTTGTCTCG
1 TTGTGTTGTCTCG
4883107 GGTGGCGTGA
Statistics
Matches: 298, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 298 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (106 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
GTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAAC
Found at i:4883767 original size:37 final size:37
Alignment explanation
Indices: 4883725--4883796 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
4883715 AAGATATATG
* * *
4883725 TTGTTTCATGAGAAACGGTCTAAAGGGAGACAAAATT
1 TTGTTTCAAGAAAAACGGTCTAAAGAGAGACAAAATT
* * *
4883762 TTGTTTTAAGAAAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAAAAACGGTCTAAAGAGAGACAAAA
4883797 CTTAGTTCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (37 bp):
TTGTTTCAAGAAAAACGGTCTAAAGAGAGACAAAATT
Found at i:4884022 original size:36 final size:38
Alignment explanation
Indices: 4883968--4884044 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 38
4883958 GAAATAATTT
*
4883968 CAAAGGTTTTTTTCCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTGTCTCAAGAGAGA
*
4884006 CAAA-GTTTGTTT-CAAGGGAAACTGTCTTAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTGTCTCAAGAGAGA
4884042 CAA
1 CAA
4884045 TGGTGAGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 26 0.70
37 7 0.19
38 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (38 bp):
CAAAGGTTTGTTTCCAAGGGAAACTGTCTCAAGAGAGA
Found at i:4884559 original size:18 final size:18
Alignment explanation
Indices: 4884532--4884567 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4884522 TGTTGAATCC
*
4884532 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
4884550 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
4884568 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:4885644 original size:16 final size:15
Alignment explanation
Indices: 4885625--4885688 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
4885615 GTCCCTTTTC
4885625 CTTTTGATTTTTTCTT
1 CTTTT-ATTTTTTCTT
* *
4885641 CTTTTCTTTTTTGTT
1 CTTTTATTTTTTCTT
4885656 C--TTATTTTTTCTT
1 CTTTTATTTTTTCTT
* *
4885669 TTTTTCTTCTTTTCTT
1 CTTTTATT-TTTTCTT
4885685 -TTTT
1 CTTTT
4885689 GTTCTTGAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
13 10 0.26
15 17 0.44
16 12 0.31
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (15 bp):
CTTTTATTTTTTCTT
Found at i:4885657 original size:10 final size:9
Alignment explanation
Indices: 4885632--4885694 Score: 60
Period size: 8 Copynumber: 7.0 Consensus size: 9
4885622 TTCCTTTTGA
4885632 TTTTTTC-T
1 TTTTTTCTT
*
4885640 TCTTTTCTT
1 TTTTTTCTT
4885649 TTTTGTTCTT
1 TTTT-TTCTT
4885659 ATTTTTTC-T
1 -TTTTTTCTT
4885668 TTTTTTC-T
1 TTTTTTCTT
*
4885676 TCTTTTCTT
1 TTTTTTCTT
4885685 TTTTGTTCTT
1 TTTT-TTCTT
4885695 GAGCACTTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 20 0.43
9 9 0.20
10 13 0.28
11 4 0.09
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4885663 original size:18 final size:18
Alignment explanation
Indices: 4885632--4885694 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
4885622 TTCCTTTTGA
4885632 TTTT-TTCTTCTTTTCTT
1 TTTTGTTCTTCTTTTCTT
*
4885649 TTTTGTTCTTATTTT-TT
1 TTTTGTTCTTCTTTTCTT
*
4885666 CTTTTTTTCTTCTTTTCTT
1 -TTTTGTTCTTCTTTTCTT
4885685 TTTTGTTCTT
1 TTTTGTTCTT
4885695 GAGCACTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 6 0.15
18 31 0.79
19 2 0.05
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTGTTCTTCTTTTCTT
Found at i:4885694 original size:15 final size:15
Alignment explanation
Indices: 4885632--4885688 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
4885622 TTCCTTTTGA
4885632 TTTTTTCTTCTTTTC
1 TTTTTTCTTCTTTTC
* *
4885647 TTTTTTGTTC--TTA
1 TTTTTTCTTCTTTTC
*
4885660 TTTTTTCTTTTTTTC
1 TTTTTTCTTCTTTTC
4885675 TTCTTTTCTT-TTTT
1 TT-TTTTCTTCTTTT
4885689 GTTCTTGAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 10 0.29
15 17 0.50
16 7 0.21
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTCTTTTC
Found at i:4888573 original size:153 final size:153
Alignment explanation
Indices: 4888295--4888601 Score: 614
Period size: 153 Copynumber: 2.0 Consensus size: 153
4888285 AATCTACCTT
4888295 CGCCATCTCTTCGACAATGGTTGAGAGACCGAAAGGTCTCGGCTAAGATGGTCGGTGCTGGGTTG
1 CGCCATCTCTTCGACAATGGTTGAGAGACCGAAAGGTCTCGGCTAAGATGGTCGGTGCTGGGTTG
4888360 ACTCGTTTCGAAAGTTGCTCAAACAGTTCCACCACGGCTACGTCAATGTACCCCAAAGACTTTGG
66 ACTCGTTTCGAAAGTTGCTCAAACAGTTCCACCACGGCTACGTCAATGTACCCCAAAGACTTTGG
4888425 GAATATAATCAGGCCATACAGAC
131 GAATATAATCAGGCCATACAGAC
4888448 CGCCATCTCTTCGACAATGGTTGAGAGACCGAAAGGTCTCGGCTAAGATGGTCGGTGCTGGGTTG
1 CGCCATCTCTTCGACAATGGTTGAGAGACCGAAAGGTCTCGGCTAAGATGGTCGGTGCTGGGTTG
4888513 ACTCGTTTCGAAAGTTGCTCAAACAGTTCCACCACGGCTACGTCAATGTACCCCAAAGACTTTGG
66 ACTCGTTTCGAAAGTTGCTCAAACAGTTCCACCACGGCTACGTCAATGTACCCCAAAGACTTTGG
4888578 GAATATAATCAGGCCATACAGAC
131 GAATATAATCAGGCCATACAGAC
4888601 C
1 C
4888602 CAGTGCAAAC
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (153 bp):
CGCCATCTCTTCGACAATGGTTGAGAGACCGAAAGGTCTCGGCTAAGATGGTCGGTGCTGGGTTG
ACTCGTTTCGAAAGTTGCTCAAACAGTTCCACCACGGCTACGTCAATGTACCCCAAAGACTTTGG
GAATATAATCAGGCCATACAGAC
Found at i:4890257 original size:17 final size:19
Alignment explanation
Indices: 4890235--4890281 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
4890225 AACAAAAGAG
*
4890235 ATAAAGATAAATTG-A-AA
1 ATAAAGATAAATGGAATAA
4890252 ATAAAGA-AAATGGAATAA
1 ATAAAGATAAATGGAATAA
4890270 ATAAGAGATAAA
1 ATAA-AGATAAA
4890282 CAGAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 8 0.32
18 6 0.24
19 3 0.12
20 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (19 bp):
ATAAAGATAAATGGAATAA
Found at i:4892356 original size:20 final size:19
Alignment explanation
Indices: 4892321--4892358 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4892311 AAAGCTCCAA
4892321 AAGAAGAAAGAACAAGAAG
1 AAGAAGAAAGAACAAGAAG
*
4892340 AAGAAGAGAAGATCAAGAA
1 AAGAAGA-AAGAACAAGAA
4892359 AATGTAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.05, G:0.26, T:0.03
Consensus pattern (19 bp):
AAGAAGAAAGAACAAGAAG
Found at i:4893952 original size:59 final size:59
Alignment explanation
Indices: 4893885--4894683 Score: 758
Period size: 59 Copynumber: 13.5 Consensus size: 59
4893875 CAAATGGCAT
* * * *
4893885 TATATGTGCTGAAATGATAAGGAAATCATACAGAATGTATGAATTTCCATATGGAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* * *
4893944 TGA-GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATAT-GAGCAC
1 T-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
4894002 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* * * * *
4894061 TATATGTGCTAAATTGATAAGAAAATCATATTGAATGTATGAATTTCCATATGGAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* *
4894120 TGA-GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGTATTTCCATATGGAGCAC
1 T-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* **
4894179 TATATGTGATAAAATGATAACAAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
4894238 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGA-TTCTCATATGGAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTC-CATATGGAGCAC
* * * * *
4894297 TGA-GTGTGCTAAAATGATAAGGAAATCATACTGAATATATGGATTTCCAGATAGG-GCAT
1 T-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCAC
* * * ***
4894356 TATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCAC
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* * * * *** * *
4894415 TA-AGGGTGCTACAAGGATAAGGAAATCATACTAACAATATGAATTTTCATATAGG-GCAC
1 TATA-TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCAC
* * * *
4894474 T-TCATGTGCTAAAAATGGTAAAGG-GATCATACT-AATGGTATGGATTCTCGA-ATAGG-GCAC
1 TAT-ATGTGCT-AAAATGAT-AAGGAAATCATACTGAGT-GTATGGATT-TCCATAT-GGAGCAC
* * *
4894534 T-TCATGTGCTAAAAGTGGTGAAGG-AATCATACT-AATGGTATGGATTCTCGA-ATAGG-GCAC
1 TAT-ATGTGCTAAAA-TGAT-AAGGAAATCATACTGAGT-GTATGGATT-TCCATAT-GGAGCAC
* * * * * * *
4894594 T-TCGTGTGCTAAAATGAGAAGGAAATCATATTAAGTATAT-GATATTCCAGATAGAGCAC
1 TAT-ATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGAT-TTCCATATGGAGCAC
* * * *
4894653 TGAGA-GTGCTAATATTATAAGGAAATTATAC
1 T-ATATGTGCTAAAATGATAAGGAAATCATAC
4894684 GAATTGTATA
Statistics
Matches: 627, Mismatches: 86, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
57 1 0.00
58 70 0.11
59 444 0.71
60 106 0.17
61 6 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (59 bp):
TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
Found at i:4894266 original size:177 final size:176
Alignment explanation
Indices: 4893885--4894683 Score: 844
Period size: 177 Copynumber: 4.5 Consensus size: 176
4893875 CAAATGGCAT
* *
4893885 TATATGTGCTGAAATGATAAGGAAATCATACAGAATGTATGAATTTCCATATGGAGCACTGAGTG
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACTGAGTG
*
4893950 TGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATAT-GAGCACTATATGTGCTAA
66 TGCTAAAATGATAAGGAAATCATACTGAGTGTAT-GATTTCCATATGGAGCACTATATGTGCTAA
4894014 AATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
130 AATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* * *
4894061 TATATGTGCTAAATTGATAAGAAAATCATATTGAATGTATGAATTTCCATATGGAGCACTGAGTG
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACTGAGTG
*
4894126 TGCTAAAATGATAAGGAAATCATACTGAGTGTATGTATTTCCATATGGAGCACTATATGTGATAA
66 TGCTAAAATGATAAGGAAATCATACTGAGTGTATG-ATTTCCATATGGAGCACTATATGTGCTAA
**
4894191 AATGATAACAAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
130 AATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* *
4894238 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGA-TTCTCATATGGAGCACTGAGT
1 TATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTC-CATATGGAGCACTGAGT
* * * *
4894302 GTGCTAAAATGATAAGGAAATCATACTGAATATATGGATTTCCAGATAGG-GCATTATATGTGCT
65 GTGCTAAAATGATAAGGAAATCATACTGAGTGTAT-GATTTCCATAT-GGAGCACTATATGTGCT
* * * ***
4894366 AAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCAC
128 AAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
* * * ** * *
4894415 TA-AGGGTGCTACAAGGATAAGGAAATCATACT-AACAATATGAATTTTCATATAGG-GCACTTC
1 TATA-TGTGCTAAAATGATAAGGAAATCATACTGAA-TGTATGAATTTCCATAT-GGAGCAC-TG
* * * *
4894477 A-TGTGCTAAAAATGGTAAAGG-GATCATACT-AATGGTATGGATTCTCGA-ATAGG-GCACT-T
62 AGTGTGCT-AAAATGAT-AAGGAAATCATACTGAGT-GTAT-GATT-TCCATAT-GGAGCACTAT
* * *
4894536 CATGTGCTAAAAGTGGTGAAGG-AATCATACT-AATGGTATGGATTCTCGA-ATAGG-GCAC
121 -ATGTGCTAAAA-TGAT-AAGGAAATCATACTGAGT-GTATGGATT-TCCATAT-GGAGCAC
* * * * * *
4894594 T-TCGTGTGCTAAAATGAGAAGGAAATCATA-TTAAGTATATG-ATATTCCAGATAGAGCACTGA
1 TAT-ATGTGCTAAAATGATAAGGAAATCATACTGAA-TGTATGAAT-TTCCATATGGAGCACTGA
* * * *
4894656 GAGTGCTAATATTATAAGGAAATTATAC
63 GTGTGCTAAAATGATAAGGAAATCATAC
4894684 GAATTGTATA
Statistics
Matches: 533, Mismatches: 63, Indels: 52
0.82 0.10 0.08
Matches are distributed among these distances:
175 1 0.00
176 108 0.20
177 267 0.50
178 71 0.13
179 79 0.15
180 7 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (176 bp):
TATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACTGAGTG
TGCTAAAATGATAAGGAAATCATACTGAGTGTATGATTTCCATATGGAGCACTATATGTGCTAAA
ATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCAC
Found at i:4894529 original size:60 final size:60
Alignment explanation
Indices: 4894465--4894607 Score: 250
Period size: 60 Copynumber: 2.4 Consensus size: 60
4894455 GAATTTTCAT
*
4894465 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGGATCATACTAATGGTATGGATTCTCGA
1 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGAATCATACTAATGGTATGGATTCTCGA
* *
4894525 ATAGGGCACTTCATGTGCTAAAAGTGGTGAAGGAATCATACTAATGGTATGGATTCTCGA
1 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGAATCATACTAATGGTATGGATTCTCGA
*
4894585 ATAGGGCACTTCGTGTGCTAAAA
1 ATAGGGCACTTCATGTGCTAAAA
4894608 TGAGAAGGAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (60 bp):
ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGAATCATACTAATGGTATGGATTCTCGA
Found at i:4894980 original size:44 final size:44
Alignment explanation
Indices: 4894760--4894978 Score: 359
Period size: 44 Copynumber: 5.0 Consensus size: 44
4894750 TCAGTAATGC
4894760 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * *
4894804 AATTATAGTAAGTGTATTGGTAAAATAAGCTTACAATG-TTATAA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGA-GCTTATGA
4894848 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
*
4894892 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
* * *
4894936 AATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTATG
1 AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
4894979 GATTAAATGG
Statistics
Matches: 163, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 1 0.01
44 161 0.99
45 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.34
Consensus pattern (44 bp):
AATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGA
Found at i:4897564 original size:20 final size:20
Alignment explanation
Indices: 4897539--4897604 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
4897529 TGCAGTATCA
4897539 ATACTACATGAACAATACCC
1 ATACTACATGAACAATACCC
* * * *
4897559 ATACTATTCTTG--CAGTATCG
1 ATACTA--CATGAACAATACCC
4897579 ATACTACATGAACAATACCC
1 ATACTACATGAACAATACCC
4897599 ATACTA
1 ATACTA
4897605 TTCTTGCAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
18 3 0.09
20 28 0.82
22 3 0.09
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (20 bp):
ATACTACATGAACAATACCC
Found at i:4897583 original size:40 final size:40
Alignment explanation
Indices: 4897528--4897622 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
4897518 AATATTGTGT
*
4897528 TTGCAGTATCAATACTACATGAACAATACCCATACTATTC
1 TTGCAGTATCGATACTACATGAACAATACCCATACTATTC
4897568 TTGCAGTATCGATACTACATGAACAATACCCATACTATTC
1 TTGCAGTATCGATACTACATGAACAATACCCATACTATTC
4897608 TTGCAGTATCGATAC
1 TTGCAGTATCGATAC
4897623 CAAAGGCAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.31
Consensus pattern (40 bp):
TTGCAGTATCGATACTACATGAACAATACCCATACTATTC
Found at i:4897622 original size:20 final size:20
Alignment explanation
Indices: 4897559--4897622 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
4897549 AACAATACCC
4897559 ATACTATTCTTGCAGTATCG
1 ATACTATTCTTGCAGTATCG
* * * *
4897579 ATACTA--CATGAACAATACCC
1 ATACTATTCTTG--CAGTATCG
4897599 ATACTATTCTTGCAGTATCG
1 ATACTATTCTTGCAGTATCG
4897619 ATAC
1 ATAC
4897623 CAAAGGCAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 3 0.09
20 26 0.81
22 3 0.09
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (20 bp):
ATACTATTCTTGCAGTATCG
Found at i:4898677 original size:12 final size:12
Alignment explanation
Indices: 4898662--4898686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4898652 ATTATATATT
4898662 TATATATTCTAA
1 TATATATTCTAA
4898674 TATATATTCTAA
1 TATATATTCTAA
4898686 T
1 T
4898687 TTATTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATTCTAA
Found at i:4898738 original size:20 final size:21
Alignment explanation
Indices: 4898699--4898768 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 21
4898689 ATTTATTTAT
4898699 TTTATTTAGAATA-ATATAAT-
1 TTTATTTAGAATATAT-TAATA
4898719 TTTATTTAGAATATATTAATA
1 TTTATTTAGAATATATTAATA
4898740 TTTACATTTTTAGAATATATTAATA
1 TTT--A--TTTAGAATATATTAATA
4898765 TTTA
1 TTTA
4898769 AATTAATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
20 17 0.39
21 5 0.11
23 2 0.05
25 20 0.45
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTATTTAGAATATATTAATA
Found at i:4902246 original size:50 final size:50
Alignment explanation
Indices: 4902184--4902295 Score: 215
Period size: 50 Copynumber: 2.2 Consensus size: 50
4902174 CTGGAGTCAG
4902184 TGTTGGGCACCTCTAGCATTCTCTTTTCTCCTTTTTGATGCTAGAGCCAA
1 TGTTGGGCACCTCTAGCATTCTCTTTTCTCCTTTTTGATGCTAGAGCCAA
*
4902234 TGTTGGGTACCTCTAGCATTCTCTTTTCTCCTTTTTGATGCTAGAGCCAA
1 TGTTGGGCACCTCTAGCATTCTCTTTTCTCCTTTTTGATGCTAGAGCCAA
4902284 TGTTGGGCACCT
1 TGTTGGGCACCT
4902296 ATATGGTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (50 bp):
TGTTGGGCACCTCTAGCATTCTCTTTTCTCCTTTTTGATGCTAGAGCCAA
Found at i:4911554 original size:17 final size:17
Alignment explanation
Indices: 4911534--4911572 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4911524 ATTGACTCCT
*
4911534 CACTTGATTTTTCCCCA
1 CACTTGATTTTGCCCCA
4911551 CACTTGATTTTGCCCCA
1 CACTTGATTTTGCCCCA
4911568 CACTT
1 CACTT
4911573 ATACTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.36, G:0.08, T:0.38
Consensus pattern (17 bp):
CACTTGATTTTGCCCCA
Found at i:4914062 original size:28 final size:28
Alignment explanation
Indices: 4914022--4914079 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
4914012 CAACTCAATC
4914022 TCATGACACTTCAAATCAGTATAAGACT
1 TCATGACACTTCAAATCAGTATAAGACT
4914050 TCATGACACTTCAAATCAGTATAAGACT
1 TCATGACACTTCAAATCAGTATAAGACT
4914078 TC
1 TC
4914080 TGCTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (28 bp):
TCATGACACTTCAAATCAGTATAAGACT
Found at i:4926401 original size:23 final size:21
Alignment explanation
Indices: 4926355--4926401 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
4926345 AAGACATGAA
*
4926355 AAAAATGGAAAACAAAACAAC
1 AAAAATGGAAAACAAAAAAAC
4926376 AAAAATGTGAAAA-AGAAAAAATC
1 AAAAATG-GAAAACA-AAAAAA-C
4926399 AAA
1 AAA
4926402 TGCATTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAATGGAAAACAAAAAAAC
Found at i:4936409 original size:24 final size:23
Alignment explanation
Indices: 4936382--4936430 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4936372 CCTATTGATC
4936382 ATTT-TAGTTTGCCATAGAAATTTT
1 ATTTGTAG-TTGCCATA-AAATTTT
* *
4936406 ATTTGTTGTTGCCATAATATTTT
1 ATTTGTAGTTGCCATAAAATTTT
4936429 AT
1 AT
4936431 ACCACACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 12 0.55
25 2 0.09
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (23 bp):
ATTTGTAGTTGCCATAAAATTTT
Found at i:4938047 original size:17 final size:17
Alignment explanation
Indices: 4938022--4938064 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
4938012 AACAACTAAC
*
4938022 ATTCTAAGCAATCCACA
1 ATTCAAAGCAATCCACA
4938039 ATTCAAAGCAATCCACA
1 ATTCAAAGCAATCCACA
4938056 ATTCAAAGC
1 ATTCAAAGC
4938065 TAAATGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.07, T:0.21
Consensus pattern (17 bp):
ATTCAAAGCAATCCACA
Found at i:4938564 original size:28 final size:28
Alignment explanation
Indices: 4938521--4938577 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
4938511 GTCTTTCATA
4938521 TCCAAAGGTCTATTTAAGAACAAATAGT
1 TCCAAAGGTCTATTTAAGAACAAATAGT
*
4938549 TCCAAAGGTCTCTTTAAGAACAAATAGT
1 TCCAAAGGTCTATTTAAGAACAAATAGT
4938577 T
1 T
4938578 ACTAAATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (28 bp):
TCCAAAGGTCTATTTAAGAACAAATAGT
Found at i:4960850 original size:18 final size:18
Alignment explanation
Indices: 4960827--4961015 Score: 110
Period size: 18 Copynumber: 10.6 Consensus size: 18
4960817 TAAGCACACC
*
4960827 ACCTAAAATATGGTTATA
1 ACCTAAAATATGGTTACA
* *
4960845 ACCTAAAAACAT-GTTCCA
1 ACCT-AAAATATGGTTACA
*
4960863 A-CTAAAAACAT-GTTACA
1 ACCT-AAAATATGGTTACA
* * *
4960880 TCCTCAAATATGGTTACC
1 ACCTAAAATATGGTTACA
*
4960898 ACCTGAAAATA-GGTTCCA
1 ACCT-AAAATATGGTTACA
*
4960916 A-CTCAAAATCAT-GTTAAA
1 ACCT-AAAAT-ATGGTTACA
* *
4960934 ACATATAAATAT-GTTCCA
1 ACCTA-AAATATGGTTACA
*
4960952 ACCTAAAA-ATAGTTTACA
1 ACCTAAAATAT-GGTTACA
*
4960970 ATCTAAAATATGGTT-CTA
1 ACCTAAAATATGGTTAC-A
4960988 ACCTAAGAATA-GGTTACA
1 ACCTAA-AATATGGTTACA
4961006 ACCTAAAATA
1 ACCTAAAATA
4961016 CGATTCTTAA
Statistics
Matches: 133, Mismatches: 24, Indels: 29
0.72 0.13 0.16
Matches are distributed among these distances:
16 2 0.02
17 35 0.26
18 73 0.55
19 23 0.17
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (18 bp):
ACCTAAAATATGGTTACA
Found at i:4960993 original size:36 final size:35
Alignment explanation
Indices: 4960827--4961015 Score: 123
Period size: 36 Copynumber: 5.3 Consensus size: 35
4960817 TAAGCACACC
** * * *
4960827 ACCTAAAATATGGTTATAACCTAAAAACATGTTCCA
1 ACCTAAAATAT-GTTCCAACCTAAAAATAGGTTACA
* * * * *
4960863 A-CTAAAAACATGTTACATCCT-CAAATATGGTTACC
1 ACCT-AAAATATGTTCCAACCTAAAAATA-GGTTACA
* * * *
4960898 ACCTGAAAATAGGTTCCAA-CTCAAAATCATGTTAAA
1 ACCT-AAAATATGTTCCAACCTAAAAAT-AGGTTACA
* *
4960934 ACATATAAATATGTTCCAACCTAAAAATAGTTTACA
1 ACCTA-AAATATGTTCCAACCTAAAAATAGGTTACA
* * *
4960970 ATCTAAAATATGGTTCTAACCTAAGAATAGGTTACA
1 ACCTAAAATAT-GTTCCAACCTAAAAATAGGTTACA
4961006 ACCTAAAATA
1 ACCTAAAATA
4961016 CGATTCTTAA
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
34 4 0.03
35 24 0.21
36 80 0.69
37 8 0.07
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (35 bp):
ACCTAAAATATGTTCCAACCTAAAAATAGGTTACA
Found at i:4968178 original size:3 final size:3
Alignment explanation
Indices: 4968163--4968230 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
4968153 TAAAAAAATA
4968163 TAT TA- TAT T-T 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
* *
4968209 TAT TAT TAT TAA TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
4968231 TTTTATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4968392 original size:11 final size:11
Alignment explanation
Indices: 4968376--4968400 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4968366 AGGAAAGGCG
4968376 GGCTAATATAC
1 GGCTAATATAC
4968387 GGCTAATATAC
1 GGCTAATATAC
4968398 GGC
1 GGC
4968401 GTTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (11 bp):
GGCTAATATAC
Found at i:4968822 original size:182 final size:183
Alignment explanation
Indices: 4968515--4970452 Score: 3218
Period size: 182 Copynumber: 10.6 Consensus size: 183
4968505 TTGTCAGTTT
* * *
4968515 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAAGAGGTAAAAATATGACAAATCA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
**
4968580 GGTCTCGAAATGATAAAACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
4968645 AAGTATCGACACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
4968697 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
* * *
4968762 GGTCTCGAAATGATAAAATCGGTAAAAAGCTACCGAATATATTGAAAGTGTCAATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
4968827 AAGTATCGACACTTTTG-ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
* *
4968879 GTGTCGATACTTTATACAAATGTATCGATCCATATCAATATAACAAGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
* * *
4968944 GGTCTCGAAATGATAAAACCGGTAAAACGATATCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
*
4969009 AAGTATCGACACTTTTGTA-ATTTAAAAGAGAAGAAATTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
4969061 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
* *
4969126 GGTCTCGAAATGATAAAACCGGTAAAAAGATACAGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
* *
4969191 AAGTATTGACACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAACGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
* *
4969243 GTGTCGATACTTTACACAAATGTATCGATCCATAGCAATATAATAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
**
4969308 GGTCTCGAAATGATAAAACCGGTAAAAATATACCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
* *
4969373 AATTATCGACACTTTT-TATATTTAAAAGAGAAGACGTTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
4969425 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
*
4969490 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTTTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
* * *
4969555 AATTATCAACAGTTTT-TATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
4969607 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
*
4969672 GGTCTCGAAATGATAAAACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
*
4969737 AAGTATAGACACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
**
4969789 GTGTCGCCACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
* *
4969854 GGTCTCGAAATGATAAAACCGGTAAAAATCTACCGGATATATTAAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
*
4969919 AA-TAATTGACACTTTT-TATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
131 AAGT-ATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
* * *
4969971 GTATCGATATTTTATACAAATGTATCGATTCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
*
4970036 GGTCTTGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
* *
4970101 AATTATCGACACTTTT-TATATTTAAAAGAGAAGAAGTTATAGCGCCAAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
*
4970153 GTGTCGATATTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
1 GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
4970218 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
66 GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
* * ** * * *
4970283 AAATATCGAAACTTTCATA-ATTTAATAGAGAAGAAATTATAGCACCTAAAAA
131 AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
* * * *
4970335 GTGTCGATACTTTATGA-AAATGTATCGATCCATAACAATGTAATAGGTAAAAATATGACAAAAC
1 GTGTCGATACTTTAT-ACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAA-
* * * ** * *
4970399 CA-GTATCGAAATGACAAAATCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
64 CAGGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCG
4970453 GTACTTTAAT
Statistics
Matches: 1661, Mismatches: 85, Indels: 20
0.94 0.05 0.01
Matches are distributed among these distances:
181 6 0.00
182 1646 0.99
183 9 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (183 bp):
GTGTCGATACTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA
GGTCTCGAAATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATAT
AAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAA
Found at i:4972356 original size:22 final size:22
Alignment explanation
Indices: 4972305--4972360 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
4972295 AATGTTTTTG
4972305 ATTTT-TTATATAAAATGATGGT
1 ATTTTATTATATAAAATGAT-GT
*
4972327 ATAGTTATTATATAAAATGAT-T
1 AT-TTTATTATATAAAATGATGT
4972349 AATTTTATTATA
1 -ATTTTATTATA
4972361 AATGCATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 11 0.38
23 4 0.14
24 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
ATTTTATTATATAAAATGATGT
Found at i:4973387 original size:17 final size:17
Alignment explanation
Indices: 4973365--4973400 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4973355 TTTAAATATT
4973365 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
*
4973382 TCATGAAAATATATTAA
1 TCATGAAAAGATATTAA
4973399 TC
1 TC
4973401 CTAATGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:4974510 original size:19 final size:19
Alignment explanation
Indices: 4974486--4974535 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
4974476 AAATGTAGGG
*
4974486 TTAATTTTGTATAAGTTTT
1 TTAATTTTGTATAAGATTT
*
4974505 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
4974524 ATAATTTTGTAT
1 TTAATTTTGTAT
4974536 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.60
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:4975427 original size:200 final size:197
Alignment explanation
Indices: 4974677--4976692 Score: 2036
Period size: 198 Copynumber: 10.0 Consensus size: 197
4974667 CATTCCAAGT
** * * *
4974677 ATACTTTGTGTCCAGAATG-ATTTCCTTACCAAGTGCATGGAAATGTGTCGATACATTTATAAAA
1 ATACTTTGTGTCCAGAATGTATTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAAA
* * * * *
4974741 AGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACC
66 AGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAACC
* * ** * *
4974806 GGTCTAAATATATCGGTTTATGAGAAAACATATGTACATAAAGTATCGACACTTGTTTAATTTGT
131 GGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACAT-AAGTATCGACACTT-TATAATTTGT
4974871 GTCG
194 GTCG
** * * *
4974875 ATCCCGTACTTTGTGTCCAGAATG-ATTTCCTTACCAAG-GTCACCATAAATGTGTCGATACCTT
1 A-----TACTTTGTGTCCAGAATGTATTTCCAAACCAAGTG-CACGA-AAAAGTGTCGATACATT
* * *
4974938 TATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAA
59 TATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAA
* * * * * *
4975003 TCTAACCGGTCTAAATACACAGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTG
124 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACAT-AAGTATCGACACTTTAT-
4975068 AATTTGTGTCG
187 AATTTGTGTCG
* ** * * * * *
4975079 ATACTTTGTGTCCATAATG-ATTTCCTTACCAAG-GTCACCATAATGTATCGATACCTTTATAAA
1 ATACTTTGTGTCCAGAATGTATTTCCAAACCAAGTG-CACGAAAAAGTGTCGATACATTTATAAA
* * * * * *
4975142 AAGTATTGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGATAAATTATCAATCTAAC
65 AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAAC
* * * *
4975207 CGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACATTT-TGAATTC
130 CGGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACAT-AAGTATCGACAC-TTTAT-AATTT
4975271 GTGTCG
192 GTGTCG
*
4975277 ATAC-ATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAA
1 ATACTTTG-TGTCCAGAATGTATTTCCAAACCAAGTGCACGAA-AAAGTGTCGATACATTTATAA
* ** *
4975341 AAAGTATCGATCCCAAAAACA-CTGAGACCCATAATTATAATGTAATAGGTAAAATAACAATATA
64 AAAGTATCGATCCCAAAAACATC-GAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTA
* * *
4975405 ACCAGTCTAAATATATCGGTTTATGAGAAAAGAGGTATACATAAAGTATCGACACTTTATACATT
128 ACCGGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACAT-AAGTATCGACACTTTATA-ATT
4975470 TGTGTCG
191 TGTGTCG
* * * *
4975477 ATACTTTGTGTCCATAATGTATTTTCCAACCAAAACAAGTTCAC-AAATAAGTGTCGACACATTT
1 ATACTTTGTGTCCAGAATGTA-TTT----CCAAACCAAGTGCACGAAA-AAGTGTCGATACATTT
** * * * * * * *
4975541 ATATCAAGTGTCGATCCCAAAAACATTGACACCCGTAACTATAATGTAATAGGTCACTTTACAAT
60 ATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAAT
* * * * * *
4975606 GTAACCGGTTTAAATTTATCGATTTTATGAGAAAATAGGTCTACAATATA-TATCGACACTTTAT
125 GTAACCGGTCTAAATATACCG-GTTTATGAGAAAAAAGGTATAC-ATA-AGTATCGACACTTTA-
*
4975670 TCATTTGTGTCG
186 TAATTTGTGTCG
* *
4975682 ATAC-ATGTTGTCCAGAATGTATTTCCAAACCAAGTACACGAAAAAAGTGTCGATACATTTATAA
1 ATACTTTG-TGTCCAGAATGTATTTCCAAACCAAGTGCACG-AAAAAGTGTCGATACATTTATAA
* * *
4975746 CAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAA
64 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAA
* * *
4975811 CCGGTCTAAATATACCGG-TTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACAT
129 CCGGTCTAAATATACCGGTTTA-TGAGAAA-AAAGGTATACATAA-GTATCGACACTTTATA-AT
4975875 TTGTGTCG
190 TTGTGTCG
* * * *
4975883 ATACTTTGTGTCCATAATGTATTTTCCAACCAAAACAAGTTCAC-AAATAAGTGTCGACACATTT
1 ATACTTTGTGTCCAGAATGTA-TTT----CCAAACCAAGTGCACGAAA-AAGTGTCGATACATTT
** * * * * *
4975947 ATATCAAGTGTCGATCCCAAAAACATTGAAACCCGTAATTATAATGTAATAGGTCACTTTACAAT
60 ATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAAT
* * * * * *
4976012 GTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTCTACAATATGTATCGACACTTTATT
125 GTAACCGGTCTAAATATACCGG-TTTATGAGAAAAAAGGTATAC-ATAAGTATCGACACTTTA-T
*
4976077 CATTTGTGTCG
187 AATTTGTGTCG
* *
4976088 ATAC-ATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAAAAAAGTGTCAATACATTTATAA
1 ATACTTTG-TGTCCAGAATGTATTTCCAAACCAAGTGCACG-AAAAAGTGTCGATACATTTATAA
* * * *
4976152 CAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAA
64 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAA
* * *
4976217 CCGGTCTAAATATACCGG-TTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACAT
129 CCGGTCTAAATATACCGGTTTA-TGAGAAA-AAAGGTATACATAA-GTATCGACACTTTATA-AT
4976281 TTGTGTCG
190 TTGTGTCG
* * * ** * *
4976289 ACACTTTATGTCCATAATAAATTTTCCAAA-CAAGTTCACGAAAAAGTGTCGATACATTTATAAC
1 ATACTTTGTGTCCAGAATGTA-TTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAA
* * * *
4976353 AAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGTTAACATAACAATGTAAC
65 AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAAC
* * * * *
4976418 CGGTCTAAACATACCGG-TCATTAAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTG
130 CGGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACATAA-GTATCGACACTTTATA-ATTTG
4976482 TGTCG
193 TGTCG
* * * ** * *
4976487 ACACTTTATGTCCATAATAAATTTTCCAAA-CAAGTTCACGAAAAAGTGTCGATACATTTAGAAA
1 ATACTTTGTGTCCAGAATGTA-TTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAA
* * * * * *
4976551 AAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAATTTAATAGGTTACTTTACAATGTAAC
65 AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAAC
* * * * * * * * *
4976616 CGGT-TTAATTTTCCGATTTCATGAGAAAATAGGTCTACATAATGCATCGACACTTTTTAAATTA
130 CGGTCTAAATATACCGGTTT-ATGAGAAAAAAGGTATACATAA-GTATCGACACTTTAT-AATTT
4976680 GTGTCG
192 GTGTCG
4976686 ATACTTT
1 ATACTTT
4976693 TTAAAATTAC
Statistics
Matches: 1588, Mismatches: 171, Indels: 117
0.85 0.09 0.06
Matches are distributed among these distances:
197 9 0.01
198 329 0.21
199 121 0.08
200 301 0.19
201 283 0.18
202 21 0.01
203 38 0.02
204 247 0.16
205 210 0.13
206 26 0.02
207 3 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (197 bp):
ATACTTTGTGTCCAGAATGTATTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAAA
AGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTAACAATGTAACC
GGTCTAAATATACCGGTTTATGAGAAAAAAGGTATACATAAGTATCGACACTTTATAATTTGTGT
CG
Found at i:4975872 original size:22 final size:21
Alignment explanation
Indices: 4975846--4975889 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4975836 AAAAGAAAGG
4975846 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGATACTT
* *
4975868 TATACATTTGTGTCGATACTT
1 TATACATATGTATCGATACTT
4975889 T
1 T
4975890 GTGTCCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (21 bp):
TATACATATGTATCGATACTT
Found at i:4975992 original size:406 final size:402
Alignment explanation
Indices: 4974721--4976619 Score: 2227
Period size: 406 Copynumber: 4.7 Consensus size: 402
4974711 GCATGGAAAT
* * * *
4974721 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * ** * *
4974786 GGTAAATTATCAATCTAACCGGTCTAAATATATCGGTTTATGAGAAAACATATGTACATAAAGTA
66 GGTACATTA-CAATGTAACCGGTCTAAATATATCGTTTTATGAGAAAACAGGTCTACATATA-TA
* * * **
4974851 TCGACACTTGT-TTAATTTGTGTCGATCCCGTACTTTGTGTCCAGAATG-ATTTCCTTACCAAG-
129 TCGACACTT-TATTCATTTGTGTCGAT-AC--A-TGT-TGTCCAGAATGTATTTCCAAACCAAGT
* * * * *
4974913 GTCACCATAAATGTGTCGATACCTTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAAT
188 G-CACGAAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAT
* * * * * * *
4974978 TATAATGTAATAGGTAA-ATTATCAATCTAACCGGTCTAAATACACAGGTT-TATGAGAAA-ACA
252 TATAATGTAATAGGTAACA-TAACAATGTAACCGGTCTAAATATACCGGTTAT-TAAAAAAGAAA
* *
4975040 GGTGTACATGAA-GTATCGACACTTTTTGA-ATTTGTGTCGATACTTTGTGTCCATAATG-A-TT
315 GGTATACAT-AATGTATCGACACTTTAT-ACATTTGTGTCGATACTTTGTGTCCATAATGTATTT
* * *
4975101 TCCTTA-C---CAAGGTCAC-CATAA
378 TCC-AACCAAACAAGTTCACAAATAA
* * * * * *
4975122 TGTATCGATACCTTTATAAAAAGTATTGATCCCAAAAACATCGAGACCCATAATTATAATGTAAT
1 -GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * * * * *
4975187 AGATAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGA-AG
65 AGGTACATTA-CAATGTAACCGGTCTAAATATATCGTTTTATGAGAAAACAGGTCTACAT-ATA-
** *
4975251 TATCGACACATTT-TGAATTCGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCA
127 TATCGACAC-TTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCA
* *
4975315 CGAACAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA-CTGAGACCCATAATTAT
191 CGAAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATC-GAAACCCATAATTAT
* * * * * *
4975379 AATGTAATAGGTAAAATAACAATATAACCAGTCTAAATATATCGGTTTATGAGAAAAG--AGGTA
255 AATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGG-TTATTAAAAAAGAAAGGTA
*
4975442 TACATAAAGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAAC
319 TACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAAC
4975507 CAAAACAAGTTCACAAATAA
384 C-AAACAAGTTCACAAATAA
* * * * * *
4975527 GTGTCGACACATTTATATCAAGTGTCGATCCCAAAAACATTGACACCCGTAACTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
4975592 GGTCACTTTACAATGTAACCGGTTTAAATTTATCGATTTTATGAGAAAATAGGTCTACAATATAT
66 GGT-ACATTACAATGTAACCGGTCTAAATATATCG-TTTTATGAGAAAACAGGTCTAC-ATATAT
*
4975657 ATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTACACG
128 ATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACG
* *
4975722 AAAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAAT
193 AAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
4975787 GTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTAAAAAAGAAAGGTATACA
258 GTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTAAAAAAGAAAGGTATACA
*
4975852 TAATGTATCGATACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAACCAAA
323 TAATGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAACC-AA
4975917 ACAAGTTCACAAATAA
387 ACAAGTTCACAAATAA
* * * *
4975933 GTGTCGACACATTTATATCAAGTGTCGATCCCAAAAACATTGAAACCCGTAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
4975998 GGTCACTTTACAATGTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTCTACAATATGT
66 GGT-ACATTACAATGTAACCGGTCTAAATATATC-GTTTTATGAGAAAACAGGTCTAC-ATATAT
4976063 ATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACG
128 ATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACG
* * * *
4976128 AAAAAAGTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAAT
193 AAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
4976193 GTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTAAAAAAGAAAGGTATACA
258 GTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTAAAAAAGAAAGGTATACA
* * * **
4976258 TAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAATAAATTTT----CCAAA
323 TAATGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAACCAAA
4976319 CAAGTTCACGAAA-AA
388 CAAGTTCAC-AAATAA
*
4976334 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * * * * * *
4976399 GTTAACATAACAATGTAACCGGTCTAAACATACCG-GTCATTAAAAAAAAGGTATACATAATGTA
66 GGT-ACATTACAATGTAACCGGTCTAAATATATCGTTTTATGAGAAAACAGGTCTACAT-ATATA
* * * * * ** *
4976463 TCGATACTTTATACATTTGTGTCGACAC-TTTATGTCCATAATAAATTTTCCAAA-CAAGTTCAC
129 TCGACACTTTATTCATTTGTGTCGATACATGT-TGTCCAGAATGTA-TTTCCAAACCAAGTGCAC
* * * *
4976526 G-AAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAA
192 GAAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
* * * *
4976590 TTTAATAGGTTACTTTACAATGTAACCGGT
257 TGTAATAGGTAACATAACAATGTAACCGGT
4976620 TTAATTTTCC
Statistics
Matches: 1345, Mismatches: 120, Indels: 68
0.88 0.08 0.04
Matches are distributed among these distances:
397 15 0.01
398 249 0.19
399 74 0.06
400 16 0.01
401 101 0.08
402 145 0.11
403 3 0.00
404 97 0.07
405 183 0.14
406 461 0.34
407 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (402 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTACATTACAATGTAACCGGTCTAAATATATCGTTTTATGAGAAAACAGGTCTACATATATATC
GACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAAA
AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
ATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTAAAAAAGAAAGGTATACATAA
TGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAACCAAACAA
GTTCACAAATAA
Found at i:4976278 original size:22 final size:21
Alignment explanation
Indices: 4976252--4976297 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4976242 AAAAGAAAGG
*
4976252 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
4976274 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
4976295 TAT
1 TAT
4976298 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:4976475 original size:22 final size:21
Alignment explanation
Indices: 4976450--4976495 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4976440 AAAAAAAAGG
*
4976450 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
4976472 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
4976493 TAT
1 TAT
4976496 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:4980110 original size:199 final size:196
Alignment explanation
Indices: 4979840--4980322 Score: 546
Period size: 198 Copynumber: 2.4 Consensus size: 196
4979830 TTAGATTTTT
* * * *
4979840 TGTCGATACATTTATAACAAGTATCGAT-CTCAAAATCATAGAGACCGATAATTATAATGTAATA
1 TGTCGATACATTT-TAAAAAGTATCGATCCTCGAAA-CATCGAAACCGATAATTATAATGTAATA
** *
4979904 GGTAAATTTCCAATGTAACCGGTAGAAATATACCGGGTTCATGAG-AGAATAGGTCAACATAAAG
64 GGTAAATTTATAATGTAACCGGTA-AAATATA-CGGGTTAATGAGCA-AATAGGTCAACATAAAG
* * * * * * *
4979968 TATCGACACTTTTTTAATTTGAGTCGATACATTTTTCCAAAAGGAATG-GCAAATGAGGTGTACG
126 TATCGACACTCTTTAAATATGAGTCGATACATTTTTCCAAAA-GAAAGCACAAACGAGGTGCACG
*
4980032 CTTAAAG
190 CATAAAG
* * *
4980039 TGTCGATACATTTGTAAAAAGTATCGATCCTCGAAACATCGAAATCGATAATTATTATGTAACAG
1 TGTCGATACATTT-TAAAAAGTATCGATCCTCGAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
4980104 GTAAATTTATAATGTAACCGGTTAAAATATACTGGTTAATTAGCAAATAGGTCTACATTATGTAT
65 GTAAATTTATAATGTAACCGG-TAAAATATACGGGTTAATGAGCAAATAGGTCAACATAAAGTAT
* * * *
4980169 CGACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAATAAAGCACAAACGAGTTGCACGCATA
129 CGACACTCTTTAAATATGAGTCGATACATTTTTCCAAAAGAAAGCACAAACGAGGTGCACGCATA
4980234 AAG
194 AAG
* * *
4980237 TGTCGATATA-TTTAAAATTGTATCGATCC-CGAAAACATCGAAACCGAT-ATACATAATGTAAT
1 TGTCGATACATTTTAAAA-AGTATCGATCCTCG-AAACATCGAAACCGATAAT-TATAATGTAAT
*
4980299 AGGTTAATTTATAATGTAACCGGT
63 AGGTAAATTTATAATGTAACCGGT
4980323 TTAAATTTAT
Statistics
Matches: 242, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
196 10 0.04
197 60 0.25
198 87 0.36
199 77 0.32
200 8 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (196 bp):
TGTCGATACATTTTAAAAAGTATCGATCCTCGAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTATAATGTAACCGGTAAAATATACGGGTTAATGAGCAAATAGGTCAACATAAAGTATCG
ACACTCTTTAAATATGAGTCGATACATTTTTCCAAAAGAAAGCACAAACGAGGTGCACGCATAAA
G
Found at i:4980455 original size:87 final size:87
Alignment explanation
Indices: 4980356--4980518 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
4980346 AAATATATCA
*
4980356 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
4980421 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* **
4980443 ATATAAGTACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGTTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
4980508 CCGGTTAAATG
66 CCGGTTAAATG
4980519 ATATAATATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:4980490 original size:23 final size:23
Alignment explanation
Indices: 4980440--4980484 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4980430 TGCCTATTTT
* *
4980440 ATTATATAAGTACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
4980463 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCACTACCTAATA
4980485 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:4982051 original size:24 final size:24
Alignment explanation
Indices: 4982019--4982066 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4982009 ACTTAAATAT
**
4982019 GTGCTTACTTTTGTGCATTGTTCA
1 GTGCTTACTTTTGCCCATTGTTCA
4982043 GTGCTTACTTTTGCCCATTGTTCA
1 GTGCTTACTTTTGCCCATTGTTCA
4982067 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.48
Consensus pattern (24 bp):
GTGCTTACTTTTGCCCATTGTTCA
Found at i:4984468 original size:17 final size:18
Alignment explanation
Indices: 4984436--4984471 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
4984426 AAACTCACCT
4984436 AAATTAAATGACTAAAGTG
1 AAATTAAA-GACTAAAGTG
4984455 AAATTAAA-ACTAAAGTG
1 AAATTAAAGACTAAAGTG
4984472 GAGGCTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (18 bp):
AAATTAAAGACTAAAGTG
Found at i:4984595 original size:138 final size:135
Alignment explanation
Indices: 4984419--4984844 Score: 496
Period size: 138 Copynumber: 3.1 Consensus size: 135
4984409 TAGCAAGAGA
* *
4984419 ATTTTAAAAACTCACCTAAATTAAATGACTAAAGTGAAATTAAAACTAAAGTGGAGGCTCTAGTA
1 ATTTTAAAAATTCA-CTAAATTAAA-GACTAAAGTGAAATTAAAACTAAAGTGGAGGCTCTAATA
* * * * ** *
4984484 TTAATACCTAAAAAAATTCAGAATTTTATTGAATTGAATAATTAAATTAGAACATCAGGCAATGA
64 TTAAAACCTAACAAATTTTAGAATTTTATTGAATTGAATAATTAAATT-GAACATCAAACAA-AA
*
4984549 G-GATGACC
127 GTGAGGACC
* * * *
4984557 ATTTTAAAAATTCACTTAAATTAAAGGATTAAATTGAAATTAAAACTAAAGTGGAAGCTCAAATA
1 ATTTTAAAAATTCAC-TAAATTAAA-GACTAAAGTGAAATTAAAACTAAAGTGGAGGCTCTAATA
* *
4984622 TTAAAACCTAACAAATTTTAGAATTATATTGAATTGAATAATTAAATTGCAACCTCAAACAAAAG
64 TTAAAACCTAACAAATTTTAGAATTTTATTGAATTGAATAATTAAATTG-AACATCAAACAAAAG
4984687 TGAGGACC
128 TGAGGACC
* * * ** ** * *
4984695 AATTTAAAAATTAACCAAATTTTA-ACTAGGGTGAAATTAAAACTAAAATGAAGGCTCTAATATT
1 ATTTTAAAAATTCACTAAATTAAAGACTAAAGTGAAATTAAAACTAAAGTGGAGGCTCTAATATT
* * *
4984759 AAAACCTAACAAATTTTAGTATTTTATTGAATTGAATAATTAAATTGGAACCTCAAAAAAAAGTG
66 AAAACCTAACAAATTTTAGAATTTTATTGAATTGAATAATTAAATT-GAACATCAAACAAAAGTG
*
4984824 AGGGCC
130 AGGACC
*
4984830 AATTTAAAAATTCAC
1 ATTTTAAAAATTCAC
4984845 CTGAATTTAA
Statistics
Matches: 249, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
135 111 0.45
136 1 0.00
137 10 0.04
138 127 0.51
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (135 bp):
ATTTTAAAAATTCACTAAATTAAAGACTAAAGTGAAATTAAAACTAAAGTGGAGGCTCTAATATT
AAAACCTAACAAATTTTAGAATTTTATTGAATTGAATAATTAAATTGAACATCAAACAAAAGTGA
GGACC
Found at i:4985764 original size:2 final size:2
Alignment explanation
Indices: 4985749--4985865 Score: 93
Period size: 2 Copynumber: 58.0 Consensus size: 2
4985739 TAATTTACTC
*
4985749 TA TA TA -A TA CTA TA TA -A TA TC TA T- TA TA CTA TA T- TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
4985789 GTA TT TA TA TA TA TA GTA GTA TA T- TA TA TA GTG TT TA TA TA TA
1 -TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA -TA TA TA TA TA TA
4985832 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
4985866 ATAGCATATA
Statistics
Matches: 96, Mismatches: 7, Indels: 24
0.76 0.06 0.19
Matches are distributed among these distances:
1 6 0.06
2 76 0.79
3 14 0.15
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4985812 original size:30 final size:28
Alignment explanation
Indices: 4985773--4985898 Score: 112
Period size: 30 Copynumber: 4.3 Consensus size: 28
4985763 TAATATCTAT
4985773 TATACTATATTATATAGTATTTATATATA
1 TATA-TATATTATATAGTATTTATATATA
*
4985802 TAGTAGTATATTATATAGTGTTTATATATA
1 TA-TA-TATATTATATAGTATTTATATATA
*
4985832 TATATATA-TATATA-TATATATAGTATA
1 TATATATATTATATAGTATTTATA-TATA
** ** *
4985859 TATTATAATAGCATATAACATTTATATATT
1 TA-TAT-ATATTATATAGTATTTATATATA
4985889 TATAGTATAT
1 TATA-TATAT
4985899 ACAATCTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.07
27 12 0.15
28 7 0.09
29 12 0.15
30 38 0.47
31 6 0.07
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (28 bp):
TATATATATTATATAGTATTTATATATA
Found at i:4985875 original size:17 final size:18
Alignment explanation
Indices: 4985773--4985875 Score: 75
Period size: 15 Copynumber: 6.2 Consensus size: 18
4985763 TAATATCTAT
4985773 TATACTATAT-TATATAG-
1 TATA-TATATATATATAGA
4985790 TAT-T-TATATATATAG-
1 TATATATATATATATAGA
*
4985805 TA-GTATAT-TATATAG-
1 TATATATATATATATAGA
* * *
4985820 TGTTTATATATATATATA
1 TATATATATATATATAGA
4985838 TATATATATATATATAG-
1 TATATATATATATATAGA
4985855 TATATAT-TATA-ATAGCA
1 TATATATATATATATAG-A
4985872 TATA
1 TATA
4985876 ACATTTATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.04
15 23 0.32
16 12 0.17
17 20 0.28
18 14 0.19
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (18 bp):
TATATATATATATATAGA
Found at i:4994352 original size:27 final size:27
Alignment explanation
Indices: 4994311--4994371 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4994301 AATTTGAAAC
*
4994311 ATTCAAAAGTATATAGTTATCTTTAAT
1 ATTCAAAAGTATATAATTATCTTTAAT
*
4994338 ATTCAAAAGTGTATAATTATCTTTAAT
1 ATTCAAAAGTATATAATTATCTTTAAT
4994365 ATTCAAA
1 ATTCAAA
4994372 GTTAAAGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (27 bp):
ATTCAAAAGTATATAATTATCTTTAAT
Found at i:4996544 original size:22 final size:23
Alignment explanation
Indices: 4996513--4996556 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4996503 ATGTTAGATA
*
4996513 GAAAAAATAAATAAATA-AAAAT
1 GAAAAAATAAAAAAATATAAAAT
*
4996535 GAAAAGATAAAAAAATATAAAA
1 GAAAAAATAAAAAAATATAAAA
4996557 AACAATGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (23 bp):
GAAAAAATAAAAAAATATAAAAT
Found at i:4996743 original size:3 final size:3
Alignment explanation
Indices: 4996737--4996767 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4996727 AATTAAACGC
*
4996737 ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4996768 ATTAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4996947 original size:14 final size:14
Alignment explanation
Indices: 4996924--4996957 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4996914 GAAATAAAAA
*
4996924 AATATTAATTATAT
1 AATATAAATTATAT
*
4996938 GATATAAATTATAT
1 AATATAAATTATAT
4996952 AATATA
1 AATATA
4996958 TATTTCAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AATATAAATTATAT
Found at i:4997016 original size:28 final size:27
Alignment explanation
Indices: 4996952--4997017 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
4996942 TAAATTATAT
4996952 AATATATAT-TTCAAAAAAATTTAAAC
1 AATATATATATTCAAAAAAATTTAAAC
* *
4996978 TATATATTATATTCAAAAAAGTTTTCAAA-
1 AATATA-TATATTCAAAAAA-ATTT-AAAC
4997007 AATATATATAT
1 AATATATATAT
4997018 AACTTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
27 3 0.09
28 14 0.42
29 8 0.24
30 3 0.09
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
AATATATATATTCAAAAAAATTTAAAC
Found at i:4997117 original size:37 final size:37
Alignment explanation
Indices: 4997059--4997312 Score: 234
Period size: 37 Copynumber: 6.8 Consensus size: 37
4997049 AGTTTTCAAA
*
4997059 AAAAATGTTTTTAAAACTATATATTATATAAT-TCTTC
1 AAAAATGTTTTAAAAACTATATATTATATAATGT-TTC
* * *
4997096 AAAAATGTTTTCAAAATTATATATTATATAAT-TTTAA
1 AAAAATGTTTTAAAAACTATATATTATATAATGTTT-C
* * *
4997133 AAAAATGTTTTCAAAACTATATATTATATTTAT-CTTC
1 AAAAATGTTTTAAAAACTATATATTATA-TAATGTTTC
* * *
4997170 -AAAATGTTTTAAAAACTATAAAATACATATAT-TTTC
1 AAAAATGTTTTAAAAACTATATATTATATA-ATGTTTC
* *
4997206 AAAAATATTTTAAAAACTATATATTATAT-TTGTTTTC
1 AAAAATGTTTTAAAAACTATATATTATATAATG-TTTC
*
4997243 -AAAATGTTTTAAAAATTATATAATATATATAAATGTTTTC
1 AAAAATGTTTTAAAAACTATAT-AT-TATAT-AATG-TTTC
* * *
4997283 AAACATGTTTTCAAAACCATATATTATATA
1 AAAAATGTTTTAAAAACTATATATTATATA
4997313 TATATATACT
Statistics
Matches: 181, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
35 2 0.01
36 49 0.27
37 88 0.49
38 11 0.06
39 5 0.03
40 9 0.05
41 17 0.09
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATATTATATAATGTTTC
Found at i:4997226 original size:73 final size:73
Alignment explanation
Indices: 4997059--4997311 Score: 294
Period size: 73 Copynumber: 3.4 Consensus size: 73
4997049 AGTTTTCAAA
* * * * *
4997059 AAAAATGTTTTTAAAACTATATATTATA-TAATTCTTCAAAAATGTTTTCAAAATTATATATTAT
1 AAAAATGTTTTCAAAACTATATATTATATTTA-TCTTC-AAAATGTTTTAAAAATTATAAAATAT
*
4997123 ATA-ATTTTAA
64 ATATATTTT-C
* *
4997133 AAAAATGTTTTCAAAACTATATATTATATTTATCTTCAAAATGTTTTAAAAACTATAAAATACAT
1 AAAAATGTTTTCAAAACTATATATTATATTTATCTTCAAAATGTTTTAAAAATTATAAAATATAT
4997198 ATATTTTC
66 ATATTTTC
* * * *
4997206 AAAAATATTTTAAAAACTATATATTATATTTGTTTTCAAAATGTTTTAAAAATTATATAATATAT
1 AAAAATGTTTTCAAAACTATATATTATATTTATCTTCAAAATGTTTTAAAAATTATA-AA-ATAT
*
4997271 ATAAATGTTTTC
64 AT--ATATTTTC
* *
4997283 AAACATGTTTTCAAAACCATATATTATAT
1 AAAAATGTTTTCAAAACTATATATTATAT
4997312 ATATATATAC
Statistics
Matches: 154, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
73 76 0.49
74 39 0.25
75 7 0.05
77 32 0.21
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (73 bp):
AAAAATGTTTTCAAAACTATATATTATATTTATCTTCAAAATGTTTTAAAAATTATAAAATATAT
ATATTTTC
Found at i:4997271 original size:43 final size:44
Alignment explanation
Indices: 4997223--4997328 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 44
4997213 TTTTAAAAAC
* **
4997223 TATATATTATATTTGTTTTCAAA-ATGTTTTAAAAATTATATAA
1 TATATATTATATATGTTTTCAAACATGTTTTAAAAACCATATAA
* *
4997266 TATATA-TA-A-ATGTTTTCAAACATGTTTTCAAAACCATATAT
1 TATATATTATATATGTTTTCAAACATGTTTTAAAAACCATATAA
**
4997307 TATATA-TATATATACTTTCAAA
1 TATATATTATATATGTTTTCAAA
4997329 AACTATTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
40 10 0.19
41 25 0.47
42 3 0.06
43 15 0.28
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (44 bp):
TATATATTATATATGTTTTCAAACATGTTTTAAAAACCATATAA
Found at i:4998191 original size:84 final size:83
Alignment explanation
Indices: 4997950--4998664 Score: 646
Period size: 84 Copynumber: 8.6 Consensus size: 83
4997940 TGCCTTGGGC
* ** * *
4997950 TATGCTGTAAATGATGTGCCTAAGAGCTGAGCGTAGTCGAACTCTAAGGTCTTTGTTGGAAGATA
1 TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATA
* * *
4998015 ACCCTTCTAGCCTTGAGT
66 ACCCTTCTCGACTTAAGT
* * * * **
4998033 TATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT-TGAGAGTC--T-TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTCGGAGCTGAGCGTAGTCGAACTCAAAG-GTCTTTGTTGGCAGA
4998094 TAACCCTTCTCGACTTAAGT
64 TAACCCTTCTCGACTTAAGT
* * * * * *
4998114 TATACTACAAATGATGTGCCTCGGAGATGAGCATAGTCAAACCCAAAGGTCTTTGATTGGCAGAT
1 TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG-TTGGCAGAT
4998179 AACCCTTCTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * * * *
4998198 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-GAGAGTC---ATTGGCAGA
1 TATGCTGCAAATGATGTG-CCTCGGAGCTGAGCGTAGTCGAACTCAAAG-GTCTTTGTTGGCAGA
* *
4998259 TAGCCATTCTCGACTTAAGT
64 TAACCCTTCTCGACTTAAGT
* * * *
4998279 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCAAAGGTCTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGTTGGCAGAT
* * *
4998344 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* * * * * ***
4998363 TATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGAT
1 TATGCTGCAAATGATGTG-CCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGAT
* *
4998425 AGCCCTTCTCGACTTAAGC
65 AACCCTTCTCGACTTAAGT
* * *
4998444 TATGCTGCAAATGATGTG--TCGTTGAGATGAGCGTAGTCAAACTCAAAGGTCTTGTGTTGGCAT
1 TATGCTGCAAATGATGTGCCTCG--GAGCTGAGCGTAGTCGAACTCAAAGGTCTT-TGTTGGCAG
* *
4998507 ACAACCCTTCTAGACTTAAGT
63 ATAACCCTTCTCGACTTAAGT
* * * * * * * **
4998528 TGTGCTACAAATGATATGCCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTCGGTCACAGAT
1 TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGGCAGAT
* * *
4998593 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* ** * *
4998612 TATGTTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1 TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
4998665 GACTAACAGA
Statistics
Matches: 505, Mismatches: 103, Indels: 47
0.77 0.16 0.07
Matches are distributed among these distances:
78 3 0.01
80 65 0.13
81 126 0.25
82 3 0.01
83 21 0.04
84 238 0.47
85 47 0.09
86 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
TATGCTGCAAATGATGTGCCTCGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATA
ACCCTTCTCGACTTAAGT
Found at i:4998212 original size:165 final size:164
Alignment explanation
Indices: 4997926--4998664 Score: 840
Period size: 165 Copynumber: 4.5 Consensus size: 164
4997916 ATTTTATTAA
* * ** * * ** * *
4997926 CAGATAGCCCTTCTTGCCTTGGGCTATGCTGTAAATGATGTGCCTAAGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGGAGATGAGCGTAGTCAAA
* * * * *
4997991 CTCTAAGGTCTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCTC
66 CTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCCTC
*
4998056 GAAGCTGAGTGTAATCGAACTTGAGAGTCTTTGG
131 GAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
* * * *
4998090 CAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATGTGCCTCGGAGATGAGCATAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGGAGATGAGCGTAGTCAAA
* * * *
4998155 CCCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCAAAGGTCTTTG-TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCCT
*
4998220 CGAAGCTGAGTGTAATCGAACTCGAGAGTCATTGG
130 CGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
* * *
4998255 CAGATAGCCATTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGGAGATGAGCGTAGTC-AA
* * * * **
4998320 A-TCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCC
65 ACTCAAAGGTC-TTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCC
* *
4998384 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
129 TCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
*
4998420 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG--TCGTTGAGATGAGCGTAGTCA
1 CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCG--GAGATGAGCGTAGTCA
* * *
4998483 AACTCAAAGGTCTTGTGTTGGCATACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATG-C
64 AACTCAAAGGTCTT-TGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCC
* * * * *
4998547 CTTGGAGCTTAGCGTAGTCGAACTCGA-AGGTCTTTCGG
128 CTCGAAGCTGAGTGTAATCGAACTCGAGA-GTCTTT-GG
* * * * * ** * *
4998585 TCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 ---CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGGAGATGAGCGTAGTC
* *
4998650 GAACTCGAAGGTCTT
63 AAACTCAAAGGTCTT
4998665 GACTAACAGA
Statistics
Matches: 488, Mismatches: 73, Indels: 24
0.83 0.12 0.04
Matches are distributed among these distances:
163 2 0.00
164 96 0.20
165 320 0.66
166 7 0.01
168 61 0.12
170 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (164 bp):
CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGGAGATGAGCGTAGTCAAA
CTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCCTC
GAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
Found at i:4998377 original size:249 final size:247
Alignment explanation
Indices: 4997948--4998664 Score: 671
Period size: 249 Copynumber: 2.9 Consensus size: 247
4997938 CTTGCCTTGG
* * * * * * * *
4997948 GCTATGCTGTAAATGATGTG-CCTAAGAGCTGAGCGTAGTCGAACTCTAAGGTCTTTGTTGGAAG
1 GCTATGCTGCAAATGATGTGCCCT-CGAGATGAGCGTAATCAAACTCAAAGGTC--TATTGGCAG
* * * * * * * * * *
4998012 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
63 ACAACCATTCTAGACTTAAGTTATGCTACAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAAAT
** * * * * **
4998077 -TGAGAGTCTTT-GG---CAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATGTGCCTCG
127 CAAAG-GTCTTTCGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCG
* * * * *
4998137 GAGATGAGCATAGTCAAACCCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAA
191 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT--TTGGCAGATAACCCTTCTCGACTTAA
* * * * *
4998196 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-GAGAGTC-ATTGGCAGA
1 GCTATGCTGCAAATGATGTGCCCTCG-AGATGAGCGTAATCAAACTCAAAG-GTCTATTGGCAGA
* * * * *
4998259 TAGCCATTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCA
64 CAACCATTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCA
* * * *
4998324 AAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAA
129 AAGGTCTTTCGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG-CCTCGGA
* * ** *
4998389 GCTGAGTGTAATCGAACTCGGGGGTC--TTTGGCAGATAGCCCTTCTCGACTTAA
193 GCTGAGCGTAGTCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTCGACTTAA
* * * * * *
4998442 GCTATGCTGCAAATGATGTGTCGTTGAGATGAGCGTAGTCAAACTCAAAGGTCTTGTGTTGGCAT
1 GCTATGCTGCAAATGATGTGCCCTCGAGATGAGCGTAATCAAACTCAAAGGTC---TATTGGCAG
* * * *
4998507 ACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTTAGCGTAGTCGAACTC
63 ACAACCATTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATC
* * * *
4998572 GAAGGTCTTTCGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTGAATGATGTGCCTTGGA
128 AAAGGTCTTTCGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCGGA
4998637 GCTGAGCGTAGTCGAACTCGAAGGTCTT
193 GCTGAGCGTAGTCGAACTCGAAGGTCTT
4998665 GACTAACAGA
Statistics
Matches: 382, Mismatches: 71, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
245 45 0.12
246 92 0.24
248 49 0.13
249 173 0.45
250 23 0.06
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (247 bp):
GCTATGCTGCAAATGATGTGCCCTCGAGATGAGCGTAATCAAACTCAAAGGTCTATTGGCAGACA
ACCATTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCAAA
GGTCTTTCGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCGGAGCT
GAGCGTAGTCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTCGACTTAA
Found at i:4998526 original size:330 final size:330
Alignment explanation
Indices: 4997950--4998664 Score: 958
Period size: 330 Copynumber: 2.2 Consensus size: 330
4997940 TGCCTTGGGC
** * *
4997950 TATGCTGTAAATGATGTGCCTAAGAGCTGAGCGTAGTCGAACTCTAAGGTC-TTTGTTGGAAGAT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGAAGAT
* *
4998014 AACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTG
66 AACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
*
4998079 AGAGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATGTGCCTCGGAGATGA
131 AGAGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTG-CTCGGAGATGA
* * *
4998144 GCATAGTCAAACCCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAA
195 GCATAGTCAAACCCAAAGGTCTTTGATTGGCAGACAACCCTTCTAGACTTAAGTTATGCTACAAA
* * * *
4998209 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGAGTCATT-GG-CAGATAGCCATTCTCG
260 TGATATG-CCTCGAAGCTGAGCGTAATCGAACTCGAAG-GTCATTCGGACAGATAACCATTCTAG
4998271 ACTTAAGT
323 ACTTAAGT
* *
4998279 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCAAAGGTCTTTTGGT-GACAGA
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGA-AGA
**
4998343 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
65 TAACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * * *
4998408 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-TCGTTGAGAT
130 GAGAGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCTCG--GAGAT
* * * *
4998472 GAGCGTAGTCAAACTCAAAGGTCTTGTG-TTGGCATACAACCCTTCTAGACTTAAGTTGTGCTAC
193 GAGCATAGTCAAACCCAAAGGTCTT-TGATTGGCAGACAACCCTTCTAGACTTAAGTTATGCTAC
* * * * * *
4998536 AAATGATATGCCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTCGGTCACAGATAACCCTTC
257 AAATGATATGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCATTCGG--ACAGATAACCATTC
* *
4998601 TAGCCTTGAGT
320 TAGACTTAAGT
* * *
4998612 TATGTTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
4998665 GACTAACAGA
Statistics
Matches: 336, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
328 3 0.01
329 75 0.22
330 189 0.56
331 2 0.01
333 67 0.20
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (330 bp):
TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGAAGAT
AACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
AGAGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCTCGGAGATGAG
CATAGTCAAACCCAAAGGTCTTTGATTGGCAGACAACCCTTCTAGACTTAAGTTATGCTACAAAT
GATATGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCATTCGGACAGATAACCATTCTAGACT
TAAGT
Found at i:5005385 original size:29 final size:31
Alignment explanation
Indices: 5005353--5005677 Score: 110
Period size: 37 Copynumber: 9.5 Consensus size: 31
5005343 AAAATAATTA
5005353 TATAATATATATTTCAAAAA-ATTTT-AAAC
1 TATAATATATATTTCAAAAATATTTTAAAAC
*
5005382 TAT-ATAT-TATATTCAAAAATGTTTTCAAAAC
1 TATAATATATAT-TTCAAAAATATTTT-AAAAC
*
5005413 TATATATATATAGCTTTC-AAAATGTTTTGAAAA-
1 TATA-ATATATA--TTTCAAAAATATTTT-AAAAC
* *
5005446 TATTATATA-AGTTTTCAAAAAAAAATTTTAAAAC
1 TATAATATATA--TTTC--AAAAATATTTTAAAAC
* *
5005480 TAAATATTATATAATTCTTCAAAAATGTTTTCAAAAC
1 T--ATAATATAT-A-T-TTCAAAAATATTTT-AAAAC
*
5005517 TATATATTATATAATTTTTCAAAAATGTTTTCAAAAC
1 TATA-A-TATAT-A--TTTCAAAAATATTTT-AAAAC
* *
5005554 TATATATTATATAATTTTTAAAAAATGTTTTCAAAAC
1 TATA-A-TATAT-A--TTTCAAAAATATTTT-AAAAC
*
5005591 TATATATTATATTTATCTTC-AAAATGTTTTAAAAAC
1 TATA-A-TATA--TAT-TTCAAAAATATTTT-AAAAC
**
5005627 TATACAATATATATTTTTTTTAAAATATTTTAAAAAC
1 TAT--AATATATA---TTTCAAAAATATTTT-AAAAC
5005664 TAT-ATATTATATTT
1 TATAATA-TATATTT
5005678 ATTTTCAAAA
Statistics
Matches: 248, Mismatches: 16, Indels: 61
0.76 0.05 0.19
Matches are distributed among these distances:
27 3 0.01
28 12 0.05
29 7 0.03
31 13 0.05
32 8 0.03
33 11 0.04
34 30 0.12
35 10 0.04
36 41 0.17
37 104 0.42
38 8 0.03
39 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (31 bp):
TATAATATATATTTCAAAAATATTTTAAAAC
Found at i:5005516 original size:37 final size:37
Alignment explanation
Indices: 5005393--5005750 Score: 348
Period size: 37 Copynumber: 9.9 Consensus size: 37
5005383 ATATATTATA
**
5005393 TTCAAAAATGTTTTCAAAACTATATA-TATAT-AGCT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
* *
5005428 TTC-AAAATGTTTT--GAA--A-ATATTATATAAGTT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
** * *
5005459 TTCAAAAAAAAATTTT-AAAACTAAATATTATATAATTC
1 TTC--AAAAATGTTTTCAAAACTATATATTATATAATTT
5005497 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
5005534 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
*
5005571 TTAAAAAATGTTTTCAAAACTATATATTATAT--TTAT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAATT-T
* * * *
5005607 CTTC-AAAATGTTTTAAAAACTATACAATATATATTTT
1 -TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
** * * *
5005644 TTTTAAAATATTTTAAAAACTATATATTATAT-TTATT
1 TTCAAAAATGTTTTCAAAACTATATATTATATAAT-TT
* * *
5005681 TTC-AAAATGTTTTAAAAATTATATAATATATAAATGTT
1 TTCAAAAATGTTTTCAAAACTATATATTATAT-AAT-TT
* *
5005719 TTCAAACATGTTTTCAAAACCATATATTATAT
1 TTCAAAAATGTTTTCAAAACTATATATTATAT
5005751 GTATACTTTC
Statistics
Matches: 273, Mismatches: 31, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
29 3 0.01
30 6 0.02
31 6 0.02
32 2 0.01
34 18 0.07
35 7 0.03
36 64 0.23
37 121 0.44
38 23 0.08
39 23 0.08
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (37 bp):
TTCAAAAATGTTTTCAAAACTATATATTATATAATTT
Found at i:5005638 original size:73 final size:73
Alignment explanation
Indices: 5005382--5005764 Score: 354
Period size: 73 Copynumber: 5.2 Consensus size: 73
5005372 AATTTTAAAC
* * ** *
5005382 TATATATTATATTCAAAAATGTTTTCAAAACTATAT-ATATAT-AGCTTTC-AAAATGTTTTGAA
1 TATAT-TTATCTTC-AAAATGTTTTAAAAACTATATAATATATAATTTTTCAAAAATGTTTTCAA
5005444 AA-TAT-TA-
64 AACTATATAT
*** ** * * *
5005451 TATAAGTTT-TCAAAAAAAAATTTT-AAAACTAAATATTATATAATTCTTCAAAAATGTTTTCAA
1 TAT-A-TTTATCTTCAAAATGTTTTAAAAACTATATAATATATAATTTTTCAAAAATGTTTTCAA
5005514 AACTATATAT
64 AACTATATAT
* * *
5005524 TATATAATT-T-TTCAAAAATGTTTTCAAAACTATATATTATATAATTTTTAAAAAATGTTTTCA
1 TATAT--TTATCTTC-AAAATGTTTTAAAAACTATATAATATATAATTTTTCAAAAATGTTTTCA
5005587 AAACTATATAT
63 AAACTATATAT
* * ** * *
5005598 TATATTTATCTTCAAAATGTTTTAAAAACTATACAATATATATTTTTTTTAAAATATTTTAAAAA
1 TATATTTATCTTCAAAATGTTTTAAAAACTATATAATATATAATTTTTCAAAAATGTTTTCAAAA
5005663 CTATATAT
66 CTATATAT
* * *
5005671 TATATTTATTTTCAAAATGTTTTAAAAATTATATAATATATAAATGTTTTCAAACATGTTTTCAA
1 TATATTTATCTTCAAAATGTTTTAAAAACTATATAATATAT-AAT-TTTTCAAAAATGTTTTCAA
*
5005736 AACCATATAT
64 AACTATATAT
*
5005746 TATATGTATACTTTCAAAA
1 TATATTTAT-C-TTCAAAA
5005765 ACTATTTGCA
Statistics
Matches: 256, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
67 9 0.04
68 13 0.05
69 8 0.03
70 17 0.07
71 5 0.02
72 5 0.02
73 105 0.41
74 56 0.22
75 31 0.12
77 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (73 bp):
TATATTTATCTTCAAAATGTTTTAAAAACTATATAATATATAATTTTTCAAAAATGTTTTCAAAA
CTATATAT
Found at i:5005750 original size:110 final size:108
Alignment explanation
Indices: 5005397--5005750 Score: 330
Period size: 110 Copynumber: 3.3 Consensus size: 108
5005387 ATTATATTCA
** * *
5005397 AAAATGTTTTCAAAACTATATA-TATATAGCTTTC-AAAATGTTTTGAAAA-TAT-TA-TATA-A
1 AAAATGTTTTCAAAACTATATATTATATATTTTTCAAAAATATTTTAAAAACTATATATTATATA
* ** *
5005456 GTTTTCAAAAAAAAATTTT-AAAACTAAATATTATATAAT-TCTTC
66 -TTTT-TAAAAAATGTTTTAAAAACTATATATTATA-AATATCTTC
* *
5005500 AAAAATGTTTTCAAAACTATATATTATATAATTTTTCAAAAATGTTTTCAAAACTATATATTATA
1 -AAAATGTTTTCAAAACTATATATTATAT-ATTTTTCAAAAATATTTTAAAAACTATATATTATA
* **
5005565 TAATTTTTAAAAAATGTTTTCAAAACTATATATTATATTTATCTTC
64 T-ATTTTTAAAAAATGTTTTAAAAACTATATATTATAAATATCTTC
* * * **
5005611 AAAATGTTTTAAAAACTATACAATATATATTTTTTTTAAAATATTTTAAAAACTATATATTATAT
1 AAAATGTTTTCAAAACTATATATTATATA-TTTTTCAAAAATATTTTAAAAACTATATATTATAT
** * * *
5005676 -TTATTTTCAAAATGTTTTAAAAATTATATAATATATAAATGTTTTC
65 ATT-TTTAAAAAATGTTTTAAAAACTATAT-AT-TATAAATATCTTC
*
5005722 AAACATGTTTTCAAAACCATATATTATAT
1 AAA-ATGTTTTCAAAACTATATATTATAT
5005751 GTATACTTTC
Statistics
Matches: 207, Mismatches: 28, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
104 22 0.11
105 5 0.02
106 5 0.02
107 14 0.07
108 5 0.02
109 25 0.12
110 73 0.35
111 36 0.17
112 22 0.11
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (108 bp):
AAAATGTTTTCAAAACTATATATTATATATTTTTCAAAAATATTTTAAAAACTATATATTATATA
TTTTTAAAAAATGTTTTAAAAACTATATATTATAAATATCTTC
Found at i:5010107 original size:21 final size:21
Alignment explanation
Indices: 5010060--5010131 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
5010050 TTGTAAGGCG
5010060 AGTATCGATATTG-C-TTCTC
1 AGTATCGATATTGACATTCTC
* *
5010079 TGGTATCGATACTGACATTCTC
1 -AGTATCGATATTGACATTCTC
*
5010101 AGTATCGATATTGA-ACCTCTC
1 AGTATCGATATTGACA-TTCTC
5010122 AGTATCGATA
1 AGTATCGATA
5010132 ATGGGAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.27
21 27 0.61
22 5 0.11
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (21 bp):
AGTATCGATATTGACATTCTC
Found at i:5013477 original size:32 final size:32
Alignment explanation
Indices: 5013426--5013532 Score: 198
Period size: 32 Copynumber: 3.4 Consensus size: 32
5013416 AGAATGTACA
5013426 AAATTTCATT-TCTTGAACCTAGACTAACATC
1 AAATTTCATTCTCTTGAACCTAGACTAACATC
5013457 AAATTTCATTCTCTTGAACCTAGACTAACATC
1 AAATTTCATTCTCTTGAACCTAGACTAACATC
*
5013489 AAATTTCATTCTCTTGAACCTAGACTAACAAC
1 AAATTTCATTCTCTTGAACCTAGACTAACATC
5013521 AAATTTCATTCT
1 AAATTTCATTCT
5013533 AGACCAACAA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 10 0.14
32 64 0.86
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATTTCATTCTCTTGAACCTAGACTAACATC
Found at i:5018305 original size:20 final size:20
Alignment explanation
Indices: 5018280--5018331 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
5018270 ACTAGAGAAG
5018280 AAAATCTTGAGACAGTCAAA
1 AAAATCTTGAGACAGTCAAA
*
5018300 AAAATCTTGAGACAGTCAAC
1 AAAATCTTGAGACAGTCAAA
*
5018320 AGAATCTTGAGA
1 AAAATCTTGAGA
5018332 TACCTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCTTGAGACAGTCAAA
Found at i:5026515 original size:71 final size:70
Alignment explanation
Indices: 5026421--5026552 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 70
5026411 CGAAAAAGTG
*
5026421 TAAAACTGAGCTCGACTCAACTCGAAA-ATTCACGAGCTTAAAATTTTCAAGTTTGAATGGAACT
1 TAAAACTGAGCTCGACTCAACTCGAAAGATT-ACGAGCTTAAAATTTTCAAGCTTGAATGGAACT
5026485 CAAAAT
65 CAAAAT
* * * ** *
5026491 TAAAATTGAAGCTCGACTCTACTCGAAAGCTTGTGAGCTTAAAATTTTCAAGCTTGACTGGA
1 TAAAACTG-AGCTCGACTCAACTCGAAAGATTACGAGCTTAAAATTTTCAAGCTTGAATGGA
5026553 GTTAGAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
70 7 0.13
71 44 0.83
72 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (70 bp):
TAAAACTGAGCTCGACTCAACTCGAAAGATTACGAGCTTAAAATTTTCAAGCTTGAATGGAACTC
AAAAT
Found at i:5028033 original size:8 final size:7
Alignment explanation
Indices: 5027987--5028096 Score: 53
Period size: 7 Copynumber: 14.0 Consensus size: 7
5027977 AAACAATGTT
5027987 AAATAGAA
1 AAATA-AA
5027995 AAATAAA
1 AAATAAA
5028002 TAAAT-AA
1 -AAATAAA
5028009 AAATAAA
1 AAATAAA
5028016 AAGGCA-AAA
1 AA---ATAAA
5028025 AACATAAA
1 AA-ATAAA
5028033 ATAATAAA
1 A-AATAAA
*
5028041 AAATATA
1 AAATAAA
*
5028048 TAATAATA
1 AAATAA-A
5028056 ATAATAAA
1 A-AATAAA
5028064 ATATATAAA
1 A-A-ATAAA
5028073 AAATGAATCA
1 AAAT-AA--A
*
5028083 AAAGAAA
1 AAATAAA
5028090 AAATAAA
1 AAATAAA
5028097 TAAAGACTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
6 4 0.05
7 28 0.34
8 27 0.33
9 19 0.23
10 5 0.06
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:5028041 original size:17 final size:17
Alignment explanation
Indices: 5028021--5028056 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5028011 ATAAAAAGGC
5028021 AAAAAACATAAAATAAT
1 AAAAAACATAAAATAAT
* *
5028038 AAAAAATATATAATAAT
1 AAAAAACATAAAATAAT
5028055 AA
1 AA
5028057 TAATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAACATAAAATAAT
Found at i:5028062 original size:23 final size:22
Alignment explanation
Indices: 5028028--5028085 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
5028018 GGCAAAAAAC
5028028 ATAAAATAATAAAAAATATATA
1 ATAAAATAATAAAAAATATATA
5028050 AT--AATAATAATAAAATATATA
1 ATAAAATAATAA-AAAATATATA
*
5028071 A-AAAATGAATCAAAA
1 ATAAAAT-AATAAAAA
5028086 GAAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.26
21 11 0.35
22 8 0.26
23 4 0.13
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
ATAAAATAATAAAAAATATATA
Found at i:5028072 original size:9 final size:10
Alignment explanation
Indices: 5028028--5028073 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
5028018 GGCAAAAAAC
5028028 ATAAAATAAT
1 ATAAAATAAT
*
5028038 AAAAAAT-AT
1 ATAAAATAAT
5028047 ATAATAATAAT
1 ATAA-AATAAT
5028058 AATAAAAT-AT
1 -ATAAAATAAT
5028068 ATAAAA
1 ATAAAA
5028074 AATGAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 11 0.35
10 11 0.35
11 5 0.16
12 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:5028085 original size:21 final size:21
Alignment explanation
Indices: 5028028--5028071 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
5028018 GGCAAAAAAC
5028028 ATAA-AATAATAA-AAAATAT
1 ATAATAATAATAATAAAATAT
5028047 ATAATAATAATAATAAAATAT
1 ATAATAATAATAATAAAATAT
5028068 ATAA
1 ATAA
5028072 AAAATGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATAATAATAATAAAATAT
Found at i:5028218 original size:23 final size:22
Alignment explanation
Indices: 5028184--5028235 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
5028174 ACTATGAAGT
*
5028184 AAATATAA-ATAATACTAATAA
1 AAATAAAACATAATACTAATAA
* *
5028205 TAATTAAAACATAATAGTAATAA
1 -AAATAAAACATAATACTAATAA
5028228 AAATAAAA
1 AAATAAAA
5028236 TAAAATAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATAAAACATAATACTAATAA
Found at i:5028238 original size:20 final size:21
Alignment explanation
Indices: 5028183--5028238 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
5028173 AACTATGAAG
5028183 TAAATATAAATAATACTAATAA
1 TAAATA-AAATAATACTAATAA
* *
5028205 TAATTAAAACATAATAGTAATAA
1 TAAAT-AAA-ATAATACTAATAA
5028228 -AAATAAAATAA
1 TAAATAAAATAA
5028239 AATAAGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 4 0.14
21 3 0.10
22 9 0.31
23 13 0.45
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAATAAAATAATACTAATAA
Found at i:5030084 original size:85 final size:82
Alignment explanation
Indices: 5029963--5030128 Score: 217
Period size: 83 Copynumber: 2.0 Consensus size: 82
5029953 ATAATTTTAT
* * * *
5029963 TGACAGATAACGCTTCTAGCCTTGAGTTATACTGTAAACTTGACATG-CCTTTGAGCTGAATGCA
1 TGACAGATAACCCTTATAGCCTCGAGGTATACTGTAAA--TG--ATGACCTTTGAGCTGAATGCA
5030027 ATTGAACTCGAAGGTCTTTGA
62 ATTGAACTCGAAGGTCTTTGA
* * *
5030048 TGACAGATAACCCTTATTGCCTCGAGGTATACTGTAAATGATGCACCTTTGAGCTGAGTGTAATT
1 TGACAGATAACCCTTATAGCCTCGAGGTATACTGTAAATGATG-ACCTTTGAGCTGAATGCAATT
5030113 GAACTCGAAGGTCTTT
65 GAACTCGAAGGTCTTT
5030129 TGTTGGTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
81 3 0.04
83 36 0.50
85 33 0.46
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (82 bp):
TGACAGATAACCCTTATAGCCTCGAGGTATACTGTAAATGATGACCTTTGAGCTGAATGCAATTG
AACTCGAAGGTCTTTGA
Found at i:5030187 original size:84 final size:84
Alignment explanation
Indices: 5029957--5030423 Score: 495
Period size: 84 Copynumber: 5.5 Consensus size: 84
5029947 AGCTTGATAA
* * * * * *
5029957 TTTTATTGACAGATAACGCTTCTAGCCTTGAGTTATACTGTAAACTTGACATGCCTTTGAGCTGA
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAA--TGATATGCCTTGGAGCTGA
** * * *
5030022 ATGCAATTGAACTCGAAGGTC
64 GCGTAGTCGAACTCGAAGGTC
* * * * * * * *** * *
5030043 -TTTGATGACAGATAACCCTTATTGCCTCGAGGTATACTGTAAATGATGCACCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTGAGC
* *
5030107 GTAATTGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * * * *
5030126 TTTTGTTGGTAAATAGCCCTTCTTGCCTTGAGTTATATTACAAATGTTGTTCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTGAGC
5030191 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
5030210 TTTAGTTGGCAGATAACCTTTCTAGCCTTGAGTTATGCGGCAAATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTGAGC
* *
5030275 GTAGTCGAACTTGAAGGTA
66 GTAGTCGAACTCGAAGGTC
* *
5030294 TTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTGAGC
5030359 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
5030378 TTTTGGTGGTAGATAACCCTTCTAGCCTTTAGTTATGCTGCAAATG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATG
5030424 TTGCGCCATG
Statistics
Matches: 325, Mismatches: 55, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
83 34 0.10
84 255 0.78
85 36 0.11
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:5030436 original size:19 final size:19
Alignment explanation
Indices: 5030412--5030449 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5030402 GCCTTTAGTT
5030412 ATGCTGCAAATGTTGCGCC
1 ATGCTGCAAATGTTGCGCC
5030431 ATGCTGCAAATGTTGCGCC
1 ATGCTGCAAATGTTGCGCC
5030450 TTGGAGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGCTGCAAATGTTGCGCC
Found at i:5030507 original size:103 final size:103
Alignment explanation
Indices: 5030328--5030519 Score: 314
Period size: 103 Copynumber: 1.9 Consensus size: 103
5030318 GCCTTGAGTT
* *
5030328 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGTAGATA
1 ATGCTGCAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGGTAGATA
*
5030393 ACCCTTCTAGCCTTTAGTTATGCTGCAAATGTTGCGCC
66 ACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGCGCC
* * *
5030431 ATGCTGCAAATGTTGCGCCTTGGAGCTGGGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGTAGAT
1 ATGCTGCAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-TGGTAGAT
5030495 AACCCTTCTAGCCTTGAGTTATGCT
65 AACCCTTCTAGCCTTGAGTTATGCT
5030520 ACATATGATA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 5 0.06
103 77 0.94
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (103 bp):
ATGCTGCAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGGTAGATA
ACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGCGCC
Found at i:5030564 original size:187 final size:187
Alignment explanation
Indices: 5030260--5030610 Score: 576
Period size: 187 Copynumber: 1.9 Consensus size: 187
5030250 CAAATGATAT
* *
5030260 GCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
1 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
* * *
5030325 GTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGTAG
66 GTTATGCTACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTCGAAGGTCTTTTGGTGGCAG
* *
5030390 ATAACCCTTCTAGCCTTTAGTTATGCTGCAAATGTTGCGCCATGCTGCAAATGTTGC
131 ATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGTTGCGCCATGCTGCAAATGTTGC
* * *
5030447 GCCTTGGAGCTGGGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTAGCCTTGA
1 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
* *
5030512 GTTATGCTACATATGATATGCCTTGGAGCTGAGCCTAGTCGAACTTGAAGGTCTTTTGGTGGCAG
66 GTTATGCTACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTCGAAGGTCTTTTGGTGGCAG
* *
5030577 ATAACTCTTCTAGCCTTAAGCTATGCTGTAAATG
131 ATAACCCTTCTAGCCTTAAGCTATGCTGCAAATG
5030611 ATGTGCCTTG
Statistics
Matches: 150, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
187 150 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (187 bp):
GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
GTTATGCTACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTCGAAGGTCTTTTGGTGGCAG
ATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGTTGCGCCATGCTGCAAATGTTGC
Found at i:5030649 original size:271 final size:271
Alignment explanation
Indices: 5030166--5030694 Score: 835
Period size: 271 Copynumber: 2.0 Consensus size: 271
5030156 AGTTATATTA
** * *
5030166 CAAATGTTGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCTTT
1 CAAATGTTGCGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAGTTGGCAGATAACCCTT
* *
5030231 CTAGCCTTGAGTTATGCGGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTATT
66 CTAGCCTTGAGTTATGCGACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTTGAAGGTATT
* *
5030296 TGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGT
131 TGGTTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGT
* * * *
5030361 AGTCGAACTCGAAGGTCTTTTGGTGGTAGATAACCCTTCTAGCCTTTAGTTATGCTGCAAATGTT
196 AGTCAAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGTT
5030426 GCGCCATGCTG
261 GCGCCATGCTG
* * *
5030437 CAAATGTTGCGCCTTGGAGCTGGGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATAACCCTT
1 CAAATGTTGCGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAGTTGGCAGATAACCCTT
* * *
5030502 CTAGCCTTGAGTTATGCTACATATGATATGCCTTGGAGCTGAGCCTAGTCGAACTTGAAGGTCTT
66 CTAGCCTTGAGTTATGCGACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTTGAAGGT-AT
* * *
5030567 TTGG-TGGCAGATAACTCTTCTAGCCTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCG
130 TTGGTTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCG
* *
5030631 TAGTCAAACTCGAAGGTCTTTTTGTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATG
195 TAGTCAAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATG
5030695 ATATGCCGTT
Statistics
Matches: 234, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
271 229 0.98
272 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (271 bp):
CAAATGTTGCGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAGTTGGCAGATAACCCTT
CTAGCCTTGAGTTATGCGACAAATGATATGCCTTGGAGCTGAGCCTAGTCGAACTTGAAGGTATT
TGGTTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGT
AGTCAAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGTT
GCGCCATGCTG
Found at i:5030732 original size:168 final size:165
Alignment explanation
Indices: 5030431--5031130 Score: 735
Period size: 164 Copynumber: 4.2 Consensus size: 165
5030421 ATGTTGCGCC
* * * *
5030431 ATGCTGCAAATGTTGCGCCTTGGAGCTGGGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATA
1 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT--TTGGCAGATA
* * * * ** * * **
5030496 ACCCTTCTAGCCTTGAGTTATGCTACATATGATATGCC-TTGGAGCTGAGCCTAGTCGAACTTGA
64 ACCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCGTT-GAGCTGAGTGTAATCAAACTCAA
* * * *
5030560 AGGTCTTTTGGTGGCAGATAACTCTTCTAGCCTTAAGCT
128 AGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
*
5030599 ATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGTGGCAGATA
1 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTT-TGGCAGATA
* * * * *
5030664 ACCCTTCTTGCCTTAAGCTATGCTGCAAATGATATGCCGTTGAGCTGAATGTAATCAAACTCGAA
64 ACCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCGTTGAGCTGAGTGTAATCAAACTCAAA
* * * *
5030729 GGTCTTTGTTGGCATATAACCCTTATAGTCTTGTGTT
129 GGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
* * * * * * * * *
5030766 ATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGG-GTGTTTGGCAGATAG
1 ATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGGCAGATAA
* * * * * *
5030829 TCCTTCTAGCCTTGAGTTATACCGCAAATGATGTTCCGTTGAGATGAGTGTAATCAAACTCAAAG
65 CCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCGTTGAGCTGAGTGTAATCAAACTCAAAG
*
5030894 GTCTTTGTTGGCAGATAACTCTTCTAGCCTTGAGTT
130 GTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
* * * * * * * * *
5030930 ATGCTGCAAATGATGTTCCCTTGAAACTGAGTGTAATCGAACTCGAGGGTC--TTTGGTAGATAG
1 ATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGGCAGATAA
* * * * *
5030993 CCCTTCTAGCCTTGAGCTATACTGTAAATAATGTGCCGTTGAGCTGAGTGTAATCGAACTTAAAG
65 CCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCGTTGAGCTGAGTGTAATCAAACTCAAAG
*
5031058 GTCTTTATTGGCAGATAACCCTTCTAGCCTTGAGTT
130 GTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
* * *
5031094 ATGCTACAAATGATGTGCATTGGAGCTTAGCGTAGTC
1 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
5031131 TAAGTCGGTC
Statistics
Matches: 449, Mismatches: 76, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
163 15 0.03
164 248 0.55
165 6 0.01
167 44 0.10
168 131 0.29
169 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (165 bp):
ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGGCAGATAAC
CCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCGTTGAGCTGAGTGTAATCAAACTCAAAGG
TCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
Found at i:5030919 original size:83 final size:83
Alignment explanation
Indices: 5030431--5031111 Score: 678
Period size: 84 Copynumber: 8.2 Consensus size: 83
5030421 ATGTTGCGCC
* * * * * *
5030431 ATGCTGCAAATGTTGCGCC-TTGGAGCTGGGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGAT
1 ATGCTGCAAATGATGTGCCGTT-GAGCTGAGTGTAATCAAACTCGAAGGTCTTT-GTTGGCAGAT
5030495 AACCCTTCTAGCCTTGAGTT
64 AACCCTTCTAGCCTTGAGTT
* * * ** * * * *
5030515 ATGCTACATATGATATGCC-TTGGAGCTGAGCCTAGTCGAACTTGAAGGTCTTTTGGTGGCAGAT
1 ATGCTGCAAATGATGTGCCGTT-GAGCTGAGTGTAATCAAACTCGAAGGTC-TTTGTTGGCAGAT
* * *
5030579 AACTCTTCTAGCCTTAAGCT
64 AACCCTTCTAGCCTTGAGTT
* * * *
5030599 ATGCTGTAAATGATGTGCC-TTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGTGGCAGAT
1 ATGCTGCAAATGATGTGCCGTT-GAGCTGAGTGTAATCAAACTCGAAGGTCTTTGT-TGGCAGAT
* * *
5030663 AACCCTTCTTGCCTTAAGCT
64 AACCCTTCTAGCCTTGAGTT
* * *
5030683 ATGCTGCAAATGATATGCCGTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGGCATATAA
1 ATGCTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATAA
* * *
5030748 CCCTTATAGTCTTGTGTT
66 CCCTTCTAGCCTTGAGTT
* * * * * *
5030766 ATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGG-GTGT-TTGGCAGATA
1 ATGCTGCAAATGATGTGCCGTTG-AGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATA
**
5030828 GTCCTTCTAGCCTTGAGTT
65 ACCCTTCTAGCCTTGAGTT
* * * * *
5030847 ATACCGCAAATGATGTTCCGTTGAGATGAGTGTAATCAAACTCAAAGGTCTTTGTTGGCAGATAA
1 ATGCTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATAA
*
5030912 CTCTTCTAGCCTTGAGTT
66 CCCTTCTAGCCTTGAGTT
* * * * * *
5030930 ATGCTGCAAATGATGTTCCCTTGAAACTGAGTGTAATCGAACTCGAGGGTC--T-TTGGTAGATA
1 ATGCTGCAAATGATGTGCCGTTG-AGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATA
* *
5030992 GCCCTTCTAGCCTTGAGCT
65 ACCCTTCTAGCCTTGAGTT
* * * * ** *
5031011 ATACTGTAAATAATGTGCCGTTGAGCTGAGTGTAATCGAACTTAAAGGTCTTTATTGGCAGATAA
1 ATGCTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATAA
5031076 CCCTTCTAGCCTTGAGTT
66 CCCTTCTAGCCTTGAGTT
*
5031094 ATGCTACAAATGATGTGC
1 ATGCTGCAAATGATGTGC
5031112 ATTGGAGCTT
Statistics
Matches: 492, Mismatches: 94, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
80 41 0.08
81 86 0.17
82 6 0.01
83 132 0.27
84 222 0.45
85 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (83 bp):
ATGCTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGCAGATAA
CCCTTCTAGCCTTGAGTT
Found at i:5032380 original size:101 final size:101
Alignment explanation
Indices: 5032242--5032447 Score: 290
Period size: 101 Copynumber: 2.0 Consensus size: 101
5032232 AATATCATTG
*
5032242 TATAGTATAATCACCTTTATCAGGATAGTTGAATATTATCCATAAAGGC-GAGG-CGTTTAACCA
1 TATAGTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAA-GCTG-GGACGTTTAACCA
5032305 ATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATA
64 ATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATA
* ** * * *
5032343 TATATTATAATCATTTTTATCAGGCTAGCTGAATATTATCCATAAAGCTGGGATGTTTAACTAAT
1 TATAGTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGGGACGTTTAACCAAT
* * *
5032408 TTCTCTAGAGGGACAACTTAAGCTTTATTTTATATA
66 TGCTCTAGAGGGACAACTCAAGCTTTATTGTATATA
5032444 TATA
1 TATA
5032448 ATATTATAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.04
101 89 0.96
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (101 bp):
TATAGTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGGGACGTTTAACCAAT
TGCTCTAGAGGGACAACTCAAGCTTTATTGTATATA
Found at i:5035809 original size:4 final size:4
Alignment explanation
Indices: 5035791--5035926 Score: 50
Period size: 4 Copynumber: 33.0 Consensus size: 4
5035781 AAAACAATGT
* *
5035791 TAAA TAGAA -AAA TAAA TAAA TAAA -AAA -AAGG TAAA -AACA TAAA TATA
1 TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAA-A TAAA TAAA
* * * * * * *
5035838 TATA TATA TATA T-AA T-AA TAAA AAATA TAAA AAAA TTAA TCAAAA GAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAAA T--AAA TAAA
*
5035887 TAAA GAAA TAAA TATTAA TAAA TAAAA TAAA TAAGA TAAA
1 TAAA TAAA TAAA TA--AA TAAA T-AAA TAAA TAA-A TAAA
5035927 AATCAAAGGA
Statistics
Matches: 104, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
3 14 0.13
4 67 0.64
5 17 0.16
6 6 0.06
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:5035947 original size:13 final size:12
Alignment explanation
Indices: 5035903--5035988 Score: 52
Period size: 13 Copynumber: 7.0 Consensus size: 12
5035893 AATAAATATT
*
5035903 AATAAATAAAATA
1 AATAAAGAAAA-A
*
5035916 AAT-AAGATAAA
1 AATAAAGAAAAA
5035927 AATCAAAGGAAAAA
1 AAT-AAA-GAAAAA
5035941 AATAAAGAAAAA
1 AATAAAGAAAAA
* *
5035953 TAAT-AATAAAGA
1 -AATAAAGAAAAA
**
5035965 AA-AATTAAAAA
1 AATAAAGAAAAA
5035976 AATCAAAGAAAAA
1 AAT-AAAGAAAAA
5035989 TATTATTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
11 14 0.25
12 17 0.30
13 18 0.32
14 8 0.14
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (12 bp):
AATAAAGAAAAA
Found at i:5036064 original size:14 final size:12
Alignment explanation
Indices: 5036027--5036082 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
5036017 CAATATGAAG
5036027 TAAAAATAAATAA
1 TAAAAAT-AATAA
**
5036040 TACTAATAATAA
1 TAAAAATAATAA
5036052 TTAAAACATAATAA
1 -TAAAA-ATAATAA
*
5036066 TAAAAATAAAAA
1 TAAAAATAATAA
5036078 TAAAA
1 TAAAA
5036083 TAAGAATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 16 0.44
13 13 0.36
14 7 0.19
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:5036066 original size:20 final size:18
Alignment explanation
Indices: 5036027--5036090 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
5036017 CAATATGAAG
* *
5036027 TAAAAATAAATAATACTAA
1 TAAAATTAAA-AATAATAA
5036046 TAATAATTAAAACATAATAA
1 TAA-AATTAAAA-ATAATAA
*
5036066 TAAAAATAAAAATAA-AA
1 TAAAATTAAAAATAATAA
5036083 TAAGAATT
1 TAA-AATT
5036091 TAAGGGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.13
18 7 0.18
19 11 0.29
20 15 0.39
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAATTAAAAATAATAA
Found at i:5036073 original size:26 final size:25
Alignment explanation
Indices: 5036027--5036082 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
5036017 CAATATGAAG
** *
5036027 TAAAAATAAATAATACTAATAATAAT
1 TAAAAATAAATAATAAAAATAA-AAA
5036053 TAAAACAT-AATAATAAAAATAAAAA
1 TAAAA-ATAAATAATAAAAATAAAAA
5036078 TAAAA
1 TAAAA
5036083 TAAGAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 17 0.65
27 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (25 bp):
TAAAAATAAATAATAAAAATAAAAA
Found at i:5037212 original size:2 final size:2
Alignment explanation
Indices: 5037205--5037232 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5037195 TATGAACATA
5037205 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
5037233 TATGTACTAT
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:5037393 original size:2 final size:2
Alignment explanation
Indices: 5037386--5037414 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5037376 TAGAAATTGA
5037386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5037415 AATTATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5040874 original size:2 final size:2
Alignment explanation
Indices: 5040869--5040896 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5040859 TAAAAAATTC
5040869 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
5040897 TAATTATTAT
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:5043330 original size:20 final size:20
Alignment explanation
Indices: 5043293--5043331 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5043283 ATCAAAATTA
***
5043293 TTTTTCAAAATTTTATTTTG
1 TTTTTCAAAATCCAATTTTG
5043313 TTTTTCAAAATCCAATTTT
1 TTTTTCAAAATCCAATTTT
5043332 ACTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATCCAATTTTG
Found at i:5049189 original size:53 final size:53
Alignment explanation
Indices: 5049109--5049328 Score: 307
Period size: 53 Copynumber: 4.2 Consensus size: 53
5049099 ATTGAACCTA
* *
5049109 AGTGCCGAAATGATAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
5049162 AGTGCCGAAATGGTAATTCAAAAACTCATTATAAATTCCATGGTTACATACAT
1 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGTTGCACACAT
* *
5049215 AGTGTCGAAATGGTAATT-AACAAACTCATTATGAATTCCATGGTTGCACACAC
1 AGTGCCGAAATGGTAATTCAA-AAACTCATTATGAATTCCATGGTTGCACACAT
* * * * * *
5049268 ACTGCTGAAATGGTAATTTAGAAACGCATTATTAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGTTGCACACAT
5049321 AGTGCCGA
1 AGTGCCGA
5049329 TAGTACACAT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
52 2 0.01
53 143 0.98
54 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCAAAAACTCATTATGAATTCCATGGTTGCACACAT
Found at i:5055420 original size:53 final size:53
Alignment explanation
Indices: 5055350--5055622 Score: 458
Period size: 53 Copynumber: 5.2 Consensus size: 53
5055340 ATTGCACCTA
* * * *
5055350 AGTGTCGAAATGGTAATTCACAAACTCATTATGGATTCTATAGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
*
5055403 AGTGCCAAAATGGTAATT-ATCAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCA-CAAACTCATTATGAATTCCATGGTTGCACACAT
* *
5055456 AGTGCCGAAATGGTAATTAATAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
*
5055509 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTTCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
5055562 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
5055615 AGTGCCGA
1 AGTGCCGA
5055623 TAGTACACCT
Statistics
Matches: 207, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
52 1 0.00
53 205 0.99
54 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
Found at i:5057313 original size:37 final size:36
Alignment explanation
Indices: 5057254--5057373 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
5057244 ATCCCATTAT
* *
5057254 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
5057290 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
5057326 CA-TTTTCAAATAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
5057361 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
5057374 TTAGTTGCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 28 0.37
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:5057329 original size:21 final size:21
Alignment explanation
Indices: 5057305--5057365 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
5057295 TTCAAAGAAA
5057305 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
5057326 CATTT-TCAAA---T--AAA-
1 CATTTACCAAACTTTGAAAAC
5057340 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
5057361 CATTT
1 CATTT
5057366 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
17 1 0.03
18 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:5061814 original size:37 final size:36
Alignment explanation
Indices: 5061756--5061874 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
5061746 TCCCATTATC
* *
5061756 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
*
5061792 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
5061828 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
5061863 ATTTTTTCAAAG
1 A-TTTTTCAAAG
5061875 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:5061830 original size:21 final size:21
Alignment explanation
Indices: 5061806--5061866 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
5061796 TTCAAAGAAA
5061806 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
5061827 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
5061841 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
5061862 TATTT
1 CATTT
5061867 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 9 0.30
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:5062652 original size:14 final size:14
Alignment explanation
Indices: 5062635--5062663 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5062625 TAATCCCTGT
5062635 AAATAATTCCCTAC
1 AAATAATTCCCTAC
5062649 AAATAATTCCCTAC
1 AAATAATTCCCTAC
5062663 A
1 A
5062664 TAGAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATTCCCTAC
Found at i:5066603 original size:26 final size:26
Alignment explanation
Indices: 5066567--5066621 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
5066557 GTTACCAAAT
*
5066567 GAGATCTGAAAAGCGAAAGTGGTATG
1 GAGATCTGAAAAGCGAAAGTGGGATG
5066593 GAGATCTGAAAAGCGAAAGTGGGATG
1 GAGATCTGAAAAGCGAAAGTGGGATG
5066619 GAG
1 GAG
5066622 GATTTCCCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.38, T:0.16
Consensus pattern (26 bp):
GAGATCTGAAAAGCGAAAGTGGGATG
Found at i:5068267 original size:25 final size:24
Alignment explanation
Indices: 5068223--5068278 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
5068213 TTAAATTGCA
* *
5068223 ATTTTATACAACACTATTAAAACTTC
1 ATTTT-TACAACAATATTAAAA-GTC
*
5068249 ATTTTTACAACAATTTTAAAAGTC
1 ATTTTTACAACAATATTAAAAGTC
5068273 ATTTTT
1 ATTTTT
5068279 TAAAAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
25 14 0.52
26 5 0.19
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTTACAACAATATTAAAAGTC
Found at i:5069084 original size:304 final size:304
Alignment explanation
Indices: 5068535--5069148 Score: 1104
Period size: 304 Copynumber: 2.0 Consensus size: 304
5068525 TTTTTACTAA
5068535 CTAGATATTTCTACATATGATAAAATATTGACATGACATTATTACATGTGACTAATTGATATCAC
1 CTAGATATTTCTACATATGATAAAATATTGACATGACATTATTACATGTGACTAATTGATATCAC
*
5068600 GACAACAAAAAAAATAATTAAAATATTTATATTTTATTAAATTAATCGCAACTAATTAAATGATG
66 GACAACAAAAAAAATAATTAAAATATTTATATTTTATTAAATTAACCGCAACTAATTAAATGATG
*
5068665 ACATGTTACATATGATTAGTTAAAATTAAATATTTTAAAATATGGTAGTGAAGACATATAAACTC
131 ACATGTTACATATGATTAGTTAAAATTAAATATTTTAAAATATGGTAGTGAAGACACATAAACTC
* *
5068730 CGGTCTAATGAAAAGAAGGCTCAATGTCTAACCATTAGACCAAAATACTTGTTAGTTTTTAATAT
196 AGGTCTAATGAAAAGAAGGCTCAATGTCTAACCATTAGACCAAAATACTTGTTAGATTTTAATAT
*
5068795 AGTTTGGTTCATTTTCAGTATCGAGTGCAATTAGTTTTAAGAGT
261 AGTTTGGTTCATTTTCAGTATCAAGTGCAATTAGTTTTAAGAGT
5068839 CTAGATATTTCTACATATGATAAAATATTGACATGACATTATTACATGTGACTAATTGATATCAC
1 CTAGATATTTCTACATATGATAAAATATTGACATGACATTATTACATGTGACTAATTGATATCAC
*
5068904 GACAAC-AAAAAAATAATTAAAAATATTTATATTTTATTAAGTTAACCGCAACTAATTAAATGAT
66 GACAACAAAAAAAATAATT-AAAATATTTATATTTTATTAAATTAACCGCAACTAATTAAATGAT
* * *
5068968 GACATGTTACATATGATTTGTTAAAATTAAATATTTTGAAATATGGTATTGAAGACACATAAACT
130 GACATGTTACATATGATTAGTTAAAATTAAATATTTTAAAATATGGTAGTGAAGACACATAAACT
* *
5069033 CAGGTCTAATGGAAAGAAGGCTCAATGTCTAACCATTAGACCAACATACTTGTTAGATTTTAATA
195 CAGGTCTAATGAAAAGAAGGCTCAATGTCTAACCATTAGACCAAAATACTTGTTAGATTTTAATA
5069098 TAGTTTGGTTCATTTTCAGTATCAAGTGCAATTAGTTTTAAGAGT
260 TAGTTTGGTTCATTTTCAGTATCAAGTGCAATTAGTTTTAAGAGT
*
5069143 GTAGAT
1 CTAGAT
5069149 GGTTTTGTGC
Statistics
Matches: 297, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
303 12 0.04
304 285 0.96
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (304 bp):
CTAGATATTTCTACATATGATAAAATATTGACATGACATTATTACATGTGACTAATTGATATCAC
GACAACAAAAAAAATAATTAAAATATTTATATTTTATTAAATTAACCGCAACTAATTAAATGATG
ACATGTTACATATGATTAGTTAAAATTAAATATTTTAAAATATGGTAGTGAAGACACATAAACTC
AGGTCTAATGAAAAGAAGGCTCAATGTCTAACCATTAGACCAAAATACTTGTTAGATTTTAATAT
AGTTTGGTTCATTTTCAGTATCAAGTGCAATTAGTTTTAAGAGT
Found at i:5074245 original size:14 final size:14
Alignment explanation
Indices: 5074226--5074255 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5074216 TATTTTAAAA
5074226 TTGGAAATTTTGAG
1 TTGGAAATTTTGAG
5074240 TTGGAAATTTTGAG
1 TTGGAAATTTTGAG
5074254 TT
1 TT
5074256 AAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
TTGGAAATTTTGAG
Found at i:5074261 original size:14 final size:14
Alignment explanation
Indices: 5074230--5074264 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5074220 TTAAAATTGG
**
5074230 AAATTTTGAGTTGG
1 AAATTTTGAGTTAA
5074244 AAATTTTGAGTTAA
1 AAATTTTGAGTTAA
5074258 AAATTTT
1 AAATTTT
5074265 ACTTAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (14 bp):
AAATTTTGAGTTAA
Found at i:5084612 original size:47 final size:49
Alignment explanation
Indices: 5084496--5084639 Score: 157
Period size: 47 Copynumber: 3.0 Consensus size: 49
5084486 TAGATAGATT
* * * * * * *
5084496 TGCTCCACTTCTCTTCAGGGTAGGTTAAATCTAAAGAAAAAATAGAATC
1 TGCTCTACTGCTCTTCAGGGTAGGTTAGATATAAATAAAAAATGGAATA
* * * * *
5084545 TGTTCTACTGTTCTTTAGGGTAGGTTAGAT-T-CATAAAAAATGGGATA
1 TGCTCTACTGCTCTTCAGGGTAGGTTAGATATAAATAAAAAATGGAATA
*
5084592 TGCTCTGCTGCTCTTCAGGGTAGGTTAGATATAAATAAAAAATGGAAT
1 TGCTCTACTGCTCTTCAGGGTAGGTTAGATATAAATAAAAAATGGAAT
5084640 TGTCTCCACT
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
47 37 0.49
48 2 0.03
49 37 0.49
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (49 bp):
TGCTCTACTGCTCTTCAGGGTAGGTTAGATATAAATAAAAAATGGAATA
Found at i:5085366 original size:62 final size:62
Alignment explanation
Indices: 5085215--5085455 Score: 247
Period size: 63 Copynumber: 3.9 Consensus size: 62
5085205 GGTGAAAAGG
* * * *
5085215 TCTGAATGAATGTG-GTAATCTGATTTATGCATTTGGGAAAAGTCCTCATAAGAAGGGAAAAA
1 TCTGAATGAATGCGAGTAATGTGATTCATGCATTT-GGAAAAGTCCTCATAAGAGGGGAAAAA
* * *
5085277 GTTTGAATGAATGC-AGTAATGTGATTCATGCATTTGGAAAAAGTCTTCATGAGAGGGGAAAAA
1 -TCTGAATGAATGCGAGTAATGTGATTCATGCATTTGG-AAAAGTCCTCATAAGAGGGGAAAAA
** * ** * ** *
5085340 TCTGAATGAATGCGAG-AATGCAATTCATGCATTAGGGGAAGTCCTCATGAGAGGTCAGAAA
1 TCTGAATGAATGCGAGTAATGTGATTCATGCATTTGGAAAAGTCCTCATAAGAGGGGAAAAA
** *
5085401 TCTGAATGAATATG-GTAATGTGATTCATGCATTTAGGAAAAGTCTTCATAAGAGG
1 TCTGAATGAATGCGAGTAATGTGATTCATGCATTT-GGAAAAGTCCTCATAAGAGG
5085456 TTAGAATGTC
Statistics
Matches: 147, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
60 1 0.01
61 46 0.31
62 47 0.32
63 53 0.36
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (62 bp):
TCTGAATGAATGCGAGTAATGTGATTCATGCATTTGGAAAAGTCCTCATAAGAGGGGAAAAA
Found at i:5085404 original size:61 final size:62
Alignment explanation
Indices: 5085215--5085455 Score: 186
Period size: 62 Copynumber: 3.9 Consensus size: 62
5085205 GGTGAAAAGG
** * * * * *
5085215 TCTGAATGAATGTGGTAAT-CTGATTTATGCATTTGGGAAAAGTCCTCATAAGAAGGG-AAAAA
1 TCTGAATGAATGCAGTAATGC-AATTCATGCATTAGGAAAAAGTCCTCATGAG-AGGGCAAAAA
* ** * * *
5085277 GTTTGAATGAATGCAGTAATGTGATTCATGCATTTGGAAAAAGTCTTCATGAGAGGGGAAAAA
1 -TCTGAATGAATGCAGTAATGCAATTCATGCATTAGGAAAAAGTCCTCATGAGAGGGCAAAAA
** * *
5085340 TCTGAATGAATGCGAG-AATGCAATTCATGCATTAGG-GGAAGTCCTCATGAGAGGTCAGAAA
1 TCTGAATGAATGC-AGTAATGCAATTCATGCATTAGGAAAAAGTCCTCATGAGAGGGCAAAAA
*** ** * *
5085401 TCTGAATGAATATGGTAATGTGATTCATGCATTTAGG-AAAAGTCTTCATAAGAGG
1 TCTGAATGAATGCAGTAATGCAATTCATGCA-TTAGGAAAAAGTCCTCATGAGAGG
5085456 TTAGAATGTC
Statistics
Matches: 146, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
60 1 0.01
61 43 0.29
62 52 0.36
63 50 0.34
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (62 bp):
TCTGAATGAATGCAGTAATGCAATTCATGCATTAGGAAAAAGTCCTCATGAGAGGGCAAAAA
Found at i:5088431 original size:72 final size:72
Alignment explanation
Indices: 5088314--5088457 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
5088304 ACCAAGTTTT
5088314 TCTCAACCAGGATTGGTAGAAATTTTTCAAACGTCAGTTGACGGGTTGTCGAAGTCTTGCAAAAT
1 TCTCAACCAGGATTGGTAGAAATTTTTCAAACGTCAGTTGACGGGTTGTCGAAGTCTTGCAAAAT
5088379 AAAAAAA
66 AAAAAAA
5088386 TCTCAACCAGGATTGGTAGAAATTTTTCAAACGTCAGTTGACGGGTTGTCGAAGTCTTGCAAAAT
1 TCTCAACCAGGATTGGTAGAAATTTTTCAAACGTCAGTTGACGGGTTGTCGAAGTCTTGCAAAAT
*
5088451 TAAAAAA
66 AAAAAAA
5088458 GATTTTACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (72 bp):
TCTCAACCAGGATTGGTAGAAATTTTTCAAACGTCAGTTGACGGGTTGTCGAAGTCTTGCAAAAT
AAAAAAA
Found at i:5101139 original size:254 final size:254
Alignment explanation
Indices: 5100680--5101193 Score: 742
Period size: 254 Copynumber: 2.0 Consensus size: 254
5100670 GTTGTGAACA
* * ** *
5100680 ATGAAACATATTTTAGAACTTGAAGCATCATTGAAAGTCATGCAATAAAATTCTCTTTTGATGAA
1 ATGATACATATTTTAGAACTTGAAGCATCATTGAAAGTCAAGCAATAAAATGATCTTTTGAGGAA
* * * * * *
5100745 GACGTTATTAAATCTTTGACAAGTAATGAGATCATACCTTTCATATCTCCTTCTTAGTCAAAAAA
66 GACGTTATTAAATCTTTGACAAGTAACGAGATCAGAACTTACATATATCCTTCCTAGTCAAAAAA
*
5100810 GGATAATCCCTTGATTTTCACTCGAAATCATTCACTGGCAACATTGAAAGACACAAACTTGACAT
131 GGATAATCCCTTGATTTTCACTCGAAATCATTCACTGCCAACATTGAAAGACACAAACTTGACAT
** *
5100875 TTCCTTTGTTAAGACATCAAAATCTTGTGCTTCCTTTTTCATGAGCAATCATCCTTGAT
196 TTCCTTTGTTAAGACATCAAAATCTTGCCCTTCCCTTTTCATGAGCAATCATCCTTGAT
* * * * *
5100934 ATGATACATATTTTAGAACTTGAAGGATTATTGAAAGTCAAGTAATGAAATGATCTTTTGAGGAT
1 ATGATACATATTTTAGAACTTGAAGCATCATTGAAAGTCAAGCAATAAAATGATCTTTTGAGGAA
* * * *
5100999 GAGGTTA-TGAATCTTTGACAAGTAACGAGATTAGAACTTACATATATCGTTCCTAGTCAAAAAA
66 GACGTTATTAAATCTTTGACAAGTAACGAGATCAGAACTTACATATATCCTTCCTAGTCAAAAAA
* * *
5101063 GGATAATCCCTTGATTTTTCACTCGAAATCATTCATTGCCAACATTGAAAGACACAGACTTGATA
131 GGATAATCCCTTGA-TTTTCACTCGAAATCATTCACTGCCAACATTGAAAGACACAAACTTGACA
* * *
5101128 TTTCTTTTGTTAAGACATCAAAATCTTGCCCTTCCCTTTTCATGAGCAGTCATTCTTGAT
195 TTTCCTTTGTTAAGACATCAAAATCTTGCCCTTCCCTTTTCATGAGCAATCATCCTTGAT
5101188 ATGATA
1 ATGATA
5101194 TTACACTCTC
Statistics
Matches: 229, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
253 62 0.27
254 167 0.73
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (254 bp):
ATGATACATATTTTAGAACTTGAAGCATCATTGAAAGTCAAGCAATAAAATGATCTTTTGAGGAA
GACGTTATTAAATCTTTGACAAGTAACGAGATCAGAACTTACATATATCCTTCCTAGTCAAAAAA
GGATAATCCCTTGATTTTCACTCGAAATCATTCACTGCCAACATTGAAAGACACAAACTTGACAT
TTCCTTTGTTAAGACATCAAAATCTTGCCCTTCCCTTTTCATGAGCAATCATCCTTGAT
Found at i:5103413 original size:56 final size:56
Alignment explanation
Indices: 5103343--5103694 Score: 586
Period size: 56 Copynumber: 6.3 Consensus size: 56
5103333 AACTTCTTAC
* *
5103343 TTCTTAG-CTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGATT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
*
5103398 TTCTTAGTTTTTGCACACAAAGTACCCATACGGAAATTCATAAACTCATTATGAAT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
* *
5103454 TTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATAAAT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
* *
5103510 TTCTTAGTTATTGCACAAAAAGTGCCCATACGGAAATTCAT--ACTCATTATGAAT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
*
5103564 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGATT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
*
5103620 TTCTTAGTTTTTGCACACAAAGTGACCATA-GAGAAATTCATAAACTCATTATGAAT
1 TTCTTAGTTTTTGCACACAAAGTGCCCATACG-GAAATTCATAAACTCATTATGAAT
5103676 TTCTTAGTTTTTGCACACA
1 TTCTTAGTTTTTGCACACA
5103695 TATAGTGTCA
Statistics
Matches: 278, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
54 51 0.18
55 8 0.03
56 219 0.79
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (56 bp):
TTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAAT
Found at i:5103628 original size:166 final size:166
Alignment explanation
Indices: 5103343--5103692 Score: 587
Period size: 166 Copynumber: 2.1 Consensus size: 166
5103333 AACTTCTTAC
* * *
5103343 TTCTTAGCTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGATTTTCTTAGTTT
1 TTCTTAGTTTTGCACAAAAAGTGCCCATACGGAAATTCAT-AACTCATTATGAATTTCTTAGTTT
5103408 TTGCACACAAAGTACCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACA
65 TTGCACACAAAGTACCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACA
*
5103473 AAGTGCCCATACGA-AAATTCATAAACTCATTATAAAT
130 AAGTGACCATA-GAGAAATTCATAAACTCATTATAAAT
5103510 TTCTTAGTTATTGCACAAAAAGTGCCCATACGGAAATTCAT-ACTCATTATGAATTTCTTAGTTT
1 TTCTTAGTT-TTGCACAAAAAGTGCCCATACGGAAATTCATAACTCATTATGAATTTCTTAGTTT
* *
5103574 TTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGATTTTCTTAGTTTTTGCACACA
65 TTGCACACAAAGTACCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACA
*
5103639 AAGTGACCATAGAGAAATTCATAAACTCATTATGAAT
130 AAGTGACCATAGAGAAATTCATAAACTCATTATAAAT
5103676 TTCTTAGTTTTTGCACA
1 TTCTTAG-TTTTGCACA
5103693 CATATAGTGT
Statistics
Matches: 173, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
165 2 0.01
166 131 0.76
167 10 0.06
168 30 0.17
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (166 bp):
TTCTTAGTTTTGCACAAAAAGTGCCCATACGGAAATTCATAACTCATTATGAATTTCTTAGTTTT
TGCACACAAAGTACCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAA
AGTGACCATAGAGAAATTCATAAACTCATTATAAAT
Done.