Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 51
Found at i:7537936 original size:20 final size:20
Alignment explanation
Indices: 7537911--7537975 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
7537901 TATCATCTTG
7537911 CTCGAAAGACTAACAGATGA
1 CTCGAAAGACTAACAGATGA
* *
7537931 CTCG-AAGATTTTAAGCATAATG-
1 CTCGAAAGA--CTAA-CA-GATGA
*
7537953 CTCGAAAGACTGACAGATGA
1 CTCGAAAGACTAACAGATGA
7537973 CTC
1 CTC
7537976 AAAACTACGT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
19 7 0.21
20 9 0.26
21 5 0.15
22 6 0.18
23 7 0.21
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
CTCGAAAGACTAACAGATGA
Found at i:7539718 original size:15 final size:16
Alignment explanation
Indices: 7539698--7539730 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7539688 AGGTGTCACA
7539698 TTGACT-TTTCAAAAC
1 TTGACTCTTTCAAAAC
*
7539713 TTGACTCTTTGAAAAC
1 TTGACTCTTTCAAAAC
7539729 TT
1 TT
7539731 ATTGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGACTCTTTCAAAAC
Found at i:7541093 original size:17 final size:21
Alignment explanation
Indices: 7541048--7541094 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7541038 ATACCCCCAT
7541048 ATCAGTATCGATACTACTTCA
1 ATCAGTATCGATACTACTTCA
7541069 ATCAGTATC-ATACTA-TTC-
1 ATCAGTATCGATACTACTTCA
7541087 ATC-GTATC
1 ATCAGTATC
7541095 CAAACTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 3 0.12
19 3 0.12
20 6 0.23
21 9 0.35
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCAGTATCGATACTACTTCA
Found at i:7543157 original size:3 final size:3
Alignment explanation
Indices: 7543149--7543190 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
7543139 ATTTATTTAT
* * *
7543149 TTA TTA TTA TTA TTA TTG TTC TTG TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7543191 ATATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7543162 original size:21 final size:20
Alignment explanation
Indices: 7543149--7543188 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
7543139 ATTTATTTAT
7543149 TTATTATTATTATTATTGTTC
1 TTATTATTATTATTATT-TTC
*
7543170 TTGTTATTATTATTATTTT
1 TTATTATTATTATTATTTT
7543189 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATTATTATTATTATTTTC
Found at i:7543589 original size:20 final size:20
Alignment explanation
Indices: 7543564--7543639 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
7543554 TCACGGAATA
*
7543564 TAAGATTATCAGTGGAAATG
1 TAAGATTACCAGTGGAAATG
* *
7543584 TAAGATTACCACT-AAGAATG
1 TAAGATTACCAGTGGA-AATG
*
7543604 TAAGATTACCAGTGGGAATG
1 TAAGATTACCAGTGGAAATG
7543624 TAAGATTACCAG-GGAA
1 TAAGATTACCAGTGGAA
7543640 TAGGATTACT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.09
20 43 0.91
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.25
Consensus pattern (20 bp):
TAAGATTACCAGTGGAAATG
Found at i:7543624 original size:40 final size:40
Alignment explanation
Indices: 7543559--7543634 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
7543549 TTGATTCACG
*
7543559 GAATATAAGATTATCAGTGGAAATGTAAGATTACCACTAA
1 GAATATAAGATTACCAGTGGAAATGTAAGATTACCACTAA
* *
7543599 GAATGTAAGATTACCAGTGGGAATGTAAGATTACCA
1 GAATATAAGATTACCAGTGGAAATGTAAGATTACCA
7543635 GGGAATAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (40 bp):
GAATATAAGATTACCAGTGGAAATGTAAGATTACCACTAA
Found at i:7543833 original size:37 final size:37
Alignment explanation
Indices: 7543792--7543866 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
7543782 GTTGAAAAAT
* *
7543792 ATTTATAT-ATTTTCTTTACAAACTTTAAATTCATAAA
1 ATTTATATAATTTTCTTTACAAAATTTAAAAT-ATAAA
*
7543829 ATTTATATAATTTTTTTTACAAAATTTAAAATATAAA
1 ATTTATATAATTTTCTTTACAAAATTTAAAATATAAA
7543866 A
1 A
7543867 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTATATAATTTTCTTTACAAAATTTAAAATATAAA
Found at i:7550837 original size:5 final size:5
Alignment explanation
Indices: 7550827--7550988 Score: 263
Period size: 5 Copynumber: 31.4 Consensus size: 5
7550817 TGCATAATAC
7550827 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
7550877 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
7550927 ATATT ATATT ATATT ATATT ATATT ATTACTAT ATATT ACTA-T ATATT
1 ATATT ATATT ATATT ATATT ATATT A-TA-T-T ATATT A-TATT ATATT
7550975 ACTATT ATTATT AT
1 A-TATT A-TATT AT
7550989 TTTTATTAAA
Statistics
Matches: 150, Mismatches: 1, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
4 2 0.01
5 128 0.85
6 15 0.10
7 3 0.02
8 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:7552277 original size:9 final size:8
Alignment explanation
Indices: 7552231--7552300 Score: 68
Period size: 8 Copynumber: 8.2 Consensus size: 8
7552221 TATGCATATA
*
7552231 TTATATTT
1 TTATTTTT
*
7552239 TCATTTTT
1 TTATTTTT
7552247 TTATTTTGT
1 TTATTTT-T
*
7552256 TTTTGTTTT
1 TTAT-TTTT
7552265 TTATTTCTT
1 TTATTT-TT
7552274 TTATTTTGT
1 TTATTTT-T
*
7552283 TTATTTTG
1 TTATTTTT
7552291 TTATTTTT
1 TTATTTTT
7552299 TT
1 TT
7552301 TAATTTAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
8 24 0.47
9 24 0.47
10 3 0.06
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (8 bp):
TTATTTTT
Found at i:7552306 original size:18 final size:17
Alignment explanation
Indices: 7552242--7552318 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 17
7552232 TATATTTTCA
*
7552242 TTTTTTTATTTTGTTTT
1 TTTTTTTATTTTGTTAT
*
7552259 TGTTTTTTATTTCTTTTAT
1 T-TTTTTTATTT-TGTTAT
*
7552278 TTTGTTTATTTTGTTAT
1 TTTTTTTATTTTGTTAT
*
7552295 TTTTTTTAATTTAGTTAAT
1 TTTTTTT-ATTTTGTT-AT
7552314 TTTTT
1 TTTTT
7552319 GGGTTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
17 12 0.24
18 26 0.52
19 12 0.24
ACGTcount: A:0.13, C:0.01, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTTTATTTTGTTAT
Found at i:7552316 original size:36 final size:35
Alignment explanation
Indices: 7552241--7552318 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
7552231 TTATATTTTC
* ** *
7552241 ATTTTTTTATTTTGTTTTTGTTTTTTATTTCTTTT
1 ATTTTTTTATTTTGTTTTTGTTTTTAATTTAGTTA
7552276 ATTTTGTTTATTTTGTTATTT-TTTTTAATTTAGTTA
1 ATTTT-TTTATTTTGTT-TTTGTTTTTAATTTAGTTA
7552312 ATTTTTT
1 ATTTTTT
7552319 GGGTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 7 0.19
36 27 0.73
37 3 0.08
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.78
Consensus pattern (35 bp):
ATTTTTTTATTTTGTTTTTGTTTTTAATTTAGTTA
Found at i:7557593 original size:20 final size:20
Alignment explanation
Indices: 7557568--7557613 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7557558 CAACAACTTT
*
7557568 AGAAACTTTATCTCATACTC
1 AGAAACTCTATCTCATACTC
7557588 AGAAACTCTATCTCATACTC
1 AGAAACTCTATCTCATACTC
7557608 AGAAAC
1 AGAAAC
7557614 AGTCATGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (20 bp):
AGAAACTCTATCTCATACTC
Found at i:7560154 original size:28 final size:28
Alignment explanation
Indices: 7560123--7560182 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7560113 ATAAGGAGAA
*
7560123 AAAATAAAAT-AATAAAACAAATAAACAT
1 AAAATAAAATGAA-AAAACAAATAAAAAT
* **
7560151 AAAATGAAATGAAAAAATGAATAAAAAT
1 AAAATAAAATGAAAAAACAAATAAAAAT
7560179 AAAA
1 AAAA
7560183 ATGAGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (28 bp):
AAAATAAAATGAAAAAACAAATAAAAAT
Found at i:7560238 original size:23 final size:23
Alignment explanation
Indices: 7560189--7560239 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7560179 AAAAATGAGA
* *
7560189 AAAAAAGAATAAAAAACTAAGAG
1 AAAAAAGAAAAAAAAACTAAGAC
*
7560212 AAAATAGAAAAAAAAACATAA-AC
1 AAAAAAGAAAAAAAAAC-TAAGAC
7560235 AAAAA
1 AAAAA
7560240 TAAAAAGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAACTAAGAC
Found at i:7560406 original size:22 final size:22
Alignment explanation
Indices: 7560356--7560412 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
7560346 AATATTATGT
*
7560356 AAAATAAATAAATATATGTACA
1 AAAATAAATAAATATATGGACA
* *
7560378 TATATAAATAAATAT-TAGGACA
1 AAAATAAATAAATATAT-GGACA
7560400 AAAATAAAATAAA
1 AAAAT-AAATAAA
7560413 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.04
22 20 0.71
23 7 0.25
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAATAAATAAATATATGGACA
Found at i:7560443 original size:5 final size:5
Alignment explanation
Indices: 7560400--7560428 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7560390 TATTAGGACA
7560400 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
7560429 GGAGATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:7560510 original size:10 final size:10
Alignment explanation
Indices: 7560495--7560530 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
7560485 TAATAGTTTT
*
7560495 AATAAAATTA
1 AATAAAAATA
7560505 AATAAAAATA
1 AATAAAAATA
7560515 AATAAAAATA
1 AATAAAAATA
7560525 AA-AAAA
1 AATAAAA
7560531 TAATCACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 4 0.16
10 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AATAAAAATA
Found at i:7561796 original size:36 final size:35
Alignment explanation
Indices: 7561754--7561951 Score: 189
Period size: 36 Copynumber: 5.5 Consensus size: 35
7561744 AGTTTGGTTG
* ** *
7561754 TTGTTTCATGAGAAACGATCTTGAGGGAGACAAAAT
1 TTGTTTCAAGAGAAACG-TCTCAAGAGAGACAAAAT
* * *
7561790 TTGTTTCAAGAAAAATGGTCTCAAGTGAGACAAAAT
1 TTGTTTCAAGAGAAA-CGTCTCAAGAGAGACAAAAT
* *
7561826 ATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAAC-GTCTCAAGAGAGACAAAAT
*
7561862 TTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAAC-GTCTCAAGAGAGACAAAAT
* * * * * *
7561898 TCGTTCCAAGGGAAACTATATCAAGAGAGACAGAAT
1 TTGTTTCAAGAGAAAC-GTCTCAAGAGAGACAAAAT
* *
7561934 TCGTTTCAAGGGAAACGT
1 TTGTTTCAAGAGAAACGT
7561952 TTTCAAAGTT
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
35 1 0.01
36 137 0.99
37 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACGTCTCAAGAGAGACAAAAT
Found at i:7561944 original size:72 final size:72
Alignment explanation
Indices: 7561780--7561949 Score: 234
Period size: 72 Copynumber: 2.4 Consensus size: 72
7561770 GATCTTGAGG
** ** * * *
7561780 GAGACAAAATTTGTTTCAAGAAAAATGGTCTCAAGTGAGACAAAATATGTTTCAAGGGAAACTGT
1 GAGACAAAATTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAATATGTTCCAAGGGAAACTAT
*
7561845 CTCAAGA
66 ATCAAGA
7561852 GAGACAAAATTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAAT-TCGTTCCAAGGGAAACTA
1 GAGACAAAATTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAATAT-GTTCCAAGGGAAACTA
7561916 TATCAAGA
65 TATCAAGA
* *
7561924 GAGACAGAATTCGTTTCAAGGGAAAC
1 GAGACAAAATTTGTTTCAAGGGAAAC
7561950 GTTTTCAAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 1 0.01
72 86 0.99
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (72 bp):
GAGACAAAATTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAATATGTTCCAAGGGAAACTAT
ATCAAGA
Found at i:7562016 original size:37 final size:38
Alignment explanation
Indices: 7561955--7562032 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
7561945 GAAACGTTTT
* *
7561955 CAAAGTTTATGTTTCAAGAGAAACTGTCTAAAGGGAGA
1 CAAAATTTATGTTTCAAGAGAAACTATCTAAAGGGAGA
*
7561993 CAAAATTT-TGTTTCAAG-GTAAACTATCTCAAGGGAGA
1 CAAAATTTATGTTTCAAGAG-AAACTATCTAAAGGGAGA
7562030 CAA
1 CAA
7562033 CTTTCTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 1 0.03
37 28 0.78
38 7 0.19
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (38 bp):
CAAAATTTATGTTTCAAGAGAAACTATCTAAAGGGAGA
Found at i:7563767 original size:95 final size:95
Alignment explanation
Indices: 7563630--7563815 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 95
7563620 TTGTATAAAT
7563630 ATTATAATCACCTTTATCAGACTAGCAGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGC
1 ATTATAATCACCTTTATCAGACTAGCAGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGC
*
7563695 TCTAGAGGAATAACTCAAGCTTTATTTTAC
66 TCTAGAGGAACAACTCAAGCTTTATTTTAC
* * * * *
7563725 ATTATAATCACCTTTATCAGACTAGCTGAATCTTATCCATAAAGTCGGGGTGTTTAACCAATTTC
1 ATTATAATCACCTTTATCAGACTAGCAGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGC
* * *
7563790 TTTAGAGGGACAGCTCAAGCTTTATT
66 TCTAGAGGAACAACTCAAGCTTTATT
7563816 GTATATATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (95 bp):
ATTATAATCACCTTTATCAGACTAGCAGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGC
TCTAGAGGAACAACTCAAGCTTTATTTTAC
Found at i:7566989 original size:11 final size:11
Alignment explanation
Indices: 7566973--7567000 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7566963 CAAATAAAAT
7566973 AATAAACATAA
1 AATAAACATAA
7566984 AATAAACATAA
1 AATAAACATAA
7566995 AATAAA
1 AATAAA
7567001 ACAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAACATAA
Found at i:7567044 original size:26 final size:24
Alignment explanation
Indices: 7566998--7567061 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
7566988 AACATAAAAT
* *
7566998 AAAACAAA-ACAAAAAATGAATACA
1 AAAACAAAGAGAAAAAAAGAATA-A
7567022 AATAA-AAATGAGAAAAAAAGAATAA
1 AA-AACAAA-GAGAAAAAAAGAATAA
7567047 AAAACAAAGAGAAAA
1 AAAACAAAGAGAAAA
7567062 TAGAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 14 0.41
25 8 0.24
26 12 0.35
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.08
Consensus pattern (24 bp):
AAAACAAAGAGAAAAAAAGAATAA
Found at i:7567089 original size:28 final size:28
Alignment explanation
Indices: 7567048--7567105 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
7567038 AAAGAATAAA
*
7567048 AAACAAAGAGAAAATA-GAAAA-GAAACAT
1 AAACAAAAAGAAAA-AGGAAAAGGAAA-AT
*
7567076 AAACAAAAATAAAAAGGAAAAGGAAAAT
1 AAACAAAAAGAAAAAGGAAAAGGAAAAT
7567104 AA
1 AA
7567106 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (28 bp):
AAACAAAAAGAAAAAGGAAAAGGAAAAT
Found at i:7567254 original size:22 final size:22
Alignment explanation
Indices: 7567204--7567260 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
7567194 AATATTATGT
*
7567204 AAAATAAATAAATATATGTACA
1 AAAATAAATAAATATATGGACA
* *
7567226 TATATAAATAAATAT-TAGGACA
1 AAAATAAATAAATATAT-GGACA
7567248 AAAATAAAATAAA
1 AAAAT-AAATAAA
7567261 ATAAAAGGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.04
22 20 0.71
23 7 0.25
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAATAAATAAATATATGGACA
Found at i:7568472 original size:2 final size:2
Alignment explanation
Indices: 7568465--7568510 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
7568455 TTTGTTAATA
* *
7568465 AT AT AT AT A- AT AT AT AC AT A- AA AT A- 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
7568504 AT AT AT A
1 AT AT AT A
7568511 CATGCTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:7574162 original size:22 final size:22
Alignment explanation
Indices: 7574137--7574178 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
7574127 CATTAACTTT
7574137 AAAATCTTTTATTCTAATAAAA
1 AAAATCTTTTATTCTAATAAAA
7574159 AAAATCTTTTATTCTAATAA
1 AAAATCTTTTATTCTAATAA
7574179 TGTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATCTTTTATTCTAATAAAA
Found at i:7574712 original size:34 final size:35
Alignment explanation
Indices: 7574669--7574736 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
7574659 AAAGATAAAT
*
7574669 TTATGATTTGAA-ACATAAATAATTTTTT-TTATTA
1 TTATAATTTGAATA-ATAAATAATTTTTTATTATTA
* *
7574703 TTATAATTTGAATATTAAATTATTTTTTATTATT
1 TTATAATTTGAATAATAAATAATTTTTTATTATT
7574737 TCATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (35 bp):
TTATAATTTGAATAATAAATAATTTTTTATTATTA
Found at i:7577045 original size:24 final size:24
Alignment explanation
Indices: 7577013--7577069 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
7577003 AGCTAATATT
*
7577013 CTTCTTCTTGATCTACCACTTATG
1 CTTCATCTTGATCTACCACTTATG
7577037 CTTCATCTTGATCTACCACTTATG
1 CTTCATCTTGATCTACCACTTATG
7577061 CTTCATCTT
1 CTTCATCTT
7577070 TTTGTTGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.18, C:0.30, G:0.07, T:0.46
Consensus pattern (24 bp):
CTTCATCTTGATCTACCACTTATG
Found at i:7581293 original size:85 final size:85
Alignment explanation
Indices: 7581199--7581356 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
7581189 AGATAATTCC
* * *
7581199 TAAAATAATATCTTAAATCCTAATTAAAACACTTAA-AACTATTTAAACTAAAATACCTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACAC-TAACAACTATTTAAACTAAAAAAACTAAAACA
7581263 AAGATAAAATAAAATAATATT
65 AAGATAAAATAAAATAATATT
* * * * *
7581284 TAAATTAATATCCTAAATCCTAATTGAAATACTAACATCTATTTAAACTAAAAAAACTAAAGCAA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTAACAACTATTTAAACTAAAAAAACTAAAACAA
7581349 AGATAAAA
66 AGATAAAA
7581357 ATTATTGTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 3 0.05
85 61 0.95
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (85 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTAACAACTATTTAAACTAAAAAAACTAAAACAA
AGATAAAATAAAATAATATT
Found at i:7585070 original size:20 final size:20
Alignment explanation
Indices: 7585045--7585111 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
7585035 TTCGTACATG
7585045 GATGCACAACAGGATGCATC
1 GATGCACAACAGGATGCATC
*
7585065 GATGCACAGCAGGATGCATC
1 GATGCACAACAGGATGCATC
*
7585085 GATGCACAGA-AGGATACATC
1 GATGCACA-ACAGGATGCATC
*
7585105 TATGCAC
1 GATGCAC
7585112 TAATTGCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.16
Consensus pattern (20 bp):
GATGCACAACAGGATGCATC
Found at i:7585179 original size:22 final size:23
Alignment explanation
Indices: 7585146--7585189 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7585136 ATGGATGCAC
7585146 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
* *
7585169 TGCA-GGTGCATGGATGTACTA
1 TGCATGGTGCATCGATGCACTA
7585190 CAAGGATGCA
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:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:7585201 original size:21 final size:21
Alignment explanation
Indices: 7585135--7585230 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
7585125 TGTTTGAGTA
* *
7585135 CATGGATGCACTGCATGG-TG
1 CATGGATGCACTACAAGGATG
*
7585155 CATCGATGCACTAGTGC-AGG-TG
1 CATGGATGCACTA---CAAGGATG
*
7585177 CATGGATGTACTACAAGGATG
1 CATGGATGCACTACAAGGATG
* * *
7585198 CATGGATGCACTGCAGGGGTG
1 CATGGATGCACTACAAGGATG
7585219 CATGGATGCACT
1 CATGGATGCACT
7585231 TTGATACCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 14 0.23
21 31 0.50
22 15 0.24
23 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
CATGGATGCACTACAAGGATG
Found at i:7585331 original size:29 final size:29
Alignment explanation
Indices: 7585310--7585367 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
7585300 AAACTTTGAA
7585310 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
7585339 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
7585368 TGCCTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:7585357 original size:30 final size:30
Alignment explanation
Indices: 7585310--7585369 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
7585300 AAACTTTGAA
7585310 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
7585339 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
7585370 CCTTAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:7585774 original size:65 final size:63
Alignment explanation
Indices: 7585675--7585863 Score: 190
Period size: 65 Copynumber: 3.0 Consensus size: 63
7585665 TGTACCAATC
* *
7585675 CATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGCATTTCATGCATCGATGCACA-
1 CATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGCATTTGATGCATCGATGCACAG
7585736 T
63 T
* *
7585737 ACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCATCAATGCACC
1 --CATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATTTGATGCATCGATGCA-C
7585801 AGT
61 AGT
* ** * *
7585804 CATGCATCGATGCACTCTGTCTATTTTGAAACATCAAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCATCGATGCAC
7585864 TCTTAGTGCA
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 43 0.41
65 53 0.50
66 5 0.05
67 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (63 bp):
CATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCATCGATGCACAGT
Found at i:7585863 original size:17 final size:19
Alignment explanation
Indices: 7585841--7585883 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
7585831 GAAACATCAA
*
7585841 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
7585858 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
7585877 ATGCACT
1 ATGCACT
7585884 GAGAGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:7593000 original size:65 final size:63
Alignment explanation
Indices: 7592931--7593090 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
7592921 AATTAAATTG
* *
7592931 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-
7592995 A
63 A
* * * *
7592996 AACATCGAATGTATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGA
* *
7593060 AACATCGAATGCACTTGGTGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
7593091 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 28 0.33
65 50 0.60
66 5 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGA
Found at i:7593090 original size:17 final size:17
Alignment explanation
Indices: 7593062--7593110 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
7593052 TATTTTGAAA
*
7593062 CATCGAATGCACTTGGTG
1 CATCG-ATGCACTTAGTG
7593080 CATCGATGCACTCTTAGTG
1 CATCGATGCA--CTTAGTG
*
7593099 CATCAATGCACT
1 CATCGATGCACT
7593111 GGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 15 0.56
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (17 bp):
CATCGATGCACTTAGTG
Found at i:7598626 original size:85 final size:82
Alignment explanation
Indices: 7598537--7598720 Score: 271
Period size: 85 Copynumber: 2.2 Consensus size: 82
7598527 ATATAATTCC
*
7598537 TAAAATAATATCTTAAATACTAATTAAAACACTTAA-AACTATTTAAACTAAAATACCTAAAACA
1 TAAAATAATATCCTAAATACTAATTAAAACAC-TAACAACTATTTAAACTAAAATACCTAAAACA
7598601 AAGATAAAATAAAATAATATT
65 AAGATAAAAT---ATAATATT
* * * *
7598622 TAAAATAATATCCTAAATCCTAATTGAAATACTAACATCTATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCCTAAATACTAATTAAAACACTAACAACTATTTAAACTAAAATACCTAAAACAA
7598687 AGATAAAATATAATATT
66 AGATAAAATATAATATT
*
7598704 TAAAATATTATCCTAAA
1 TAAAATAATATCCTAAA
7598721 ACTTGAGTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
82 24 0.26
84 3 0.03
85 65 0.71
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (82 bp):
TAAAATAATATCCTAAATACTAATTAAAACACTAACAACTATTTAAACTAAAATACCTAAAACAA
AGATAAAATATAATATT
Found at i:7599396 original size:51 final size:51
Alignment explanation
Indices: 7599264--7599397 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
7599254 AATGAGAACA
* * * *
7599264 TTGTTGTGTGAAGATGGTGATGATGTAGATAAAGATAGACGTATGGATGTG
1 TTGTTATGTGGAGATGGTGATGATGTAGATGAAGATAGAAGTATGGATGTG
* * * *
7599315 TTGTTATGTGGAGATGATGATGATGAAGATGTAGATGGAAGTATGG-TAGTG
1 TTGTTATGTGGAGATGGTGATGATGTAGATGAAGATAGAAGTATGGAT-GTG
*
7599366 TTGTTATGTGGAGATGGTAATGATGTAGATGA
1 TTGTTATGTGGAGATGGTGATGATGTAGATGA
7599398 TGTGTCGCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 1 0.01
51 69 0.99
ACGTcount: A:0.29, C:0.01, G:0.36, T:0.34
Consensus pattern (51 bp):
TTGTTATGTGGAGATGGTGATGATGTAGATGAAGATAGAAGTATGGATGTG
Found at i:7600932 original size:17 final size:17
Alignment explanation
Indices: 7600912--7600959 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
7600902 AGCATAGTGA
7600912 CAAAATTAAAACAAATG
1 CAAAATTAAAACAAATG
7600929 CAAAATTAAAACAAATG
1 CAAAATTAAAACAAATG
7600946 CAAAATT-AAACAAA
1 CAAAATTAAAACAAA
7600960 CAATTTTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 7 0.23
17 24 0.77
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.17
Consensus pattern (17 bp):
CAAAATTAAAACAAATG
Found at i:7601311 original size:2 final size:2
Alignment explanation
Indices: 7601271--7601299 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7601261 TCTATTTGTC
7601271 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7601300 ACGAGCTCTC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7606030 original size:10 final size:10
Alignment explanation
Indices: 7606009--7606078 Score: 83
Period size: 10 Copynumber: 7.1 Consensus size: 10
7605999 AATTTGATAG
7606009 AAAAATGAAAA
1 AAAAATG-AAA
7606020 AAAAATG-AA
1 AAAAATGAAA
7606029 AAAAATGAAA
1 AAAAATGAAA
7606039 AAAAATG--A
1 AAAAATGAAA
7606047 AAAAATGAAA
1 AAAAATGAAA
*
7606057 AAAAATAATAA
1 AAAAATGA-AA
*
7606068 AAAAATTAAA
1 AAAAATGAAA
7606078 A
1 A
7606079 GGCAAAATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.15
9 9 0.17
10 20 0.38
11 16 0.30
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:7606031 original size:18 final size:19
Alignment explanation
Indices: 7606009--7606061 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
7605999 AATTTGATAG
7606009 AAAAATGAAAAAAAAATGAA
1 AAAAATGAAAAAAAAATG-A
7606029 AAAAATG-AAAAAAAATGA
1 AAAAATGAAAAAAAAATGA
7606047 AAAAATGAAAAAAAA
1 AAAAATGAAAAAAAA
7606062 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.25
19 17 0.53
20 7 0.22
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAATGAAAAAAAAATGA
Found at i:7606062 original size:18 final size:19
Alignment explanation
Indices: 7606009--7606062 Score: 92
Period size: 18 Copynumber: 2.8 Consensus size: 19
7605999 AATTTGATAG
7606009 AAAAATGAAAAAAAAATGAA
1 AAAAATG-AAAAAAAATGAA
7606029 AAAAATGAAAAAAAATG-A
1 AAAAATGAAAAAAAATGAA
7606047 AAAAATGAAAAAAAAT
1 AAAAATGAAAAAAAAT
7606063 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 17 0.50
19 10 0.29
20 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAAATGAAAAAAAATGAA
Found at i:7606070 original size:9 final size:9
Alignment explanation
Indices: 7606018--7606060 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
7606008 GAAAAATGAA
7606018 AAAAAAATG
1 AAAAAAATG
7606027 AAAAAAATG
1 AAAAAAATG
7606036 AAAAAAAATG
1 -AAAAAAATG
7606046 -AAAAAATG
1 AAAAAAATG
7606054 AAAAAAA
1 AAAAAAA
7606061 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 15 0.47
10 9 0.28
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:7606077 original size:9 final size:9
Alignment explanation
Indices: 7606018--7606078 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
7606008 GAAAAATGAA
*
7606018 AAAAAAATG
1 AAAAAAATT
*
7606027 AAAAAAATG
1 AAAAAAATT
*
7606036 AAAAAAAAT
1 AAAAAAATT
* *
7606045 GAAAAAATGA
1 AAAAAAAT-T
7606055 AAAAAAATAAT
1 AAAAAAAT--T
7606066 AAAAAAATT
1 AAAAAAATT
7606075 AAAA
1 AAAA
7606079 GGCAAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 27 0.64
10 7 0.17
11 8 0.19
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
AAAAAAATT
Found at i:7606078 original size:8 final size:8
Alignment explanation
Indices: 7606019--7606059 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
7606009 AAAAATGAAA
7606019 AAAAAATG
1 AAAAAATG
7606027 AAAAAAATG
1 -AAAAAATG
7606036 AAAAAAAATG
1 --AAAAAATG
7606046 AAAAAATG
1 AAAAAATG
7606054 AAAAAA
1 AAAAAA
7606060 AATAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 14 0.45
9 8 0.26
10 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:7606078 original size:19 final size:18
Alignment explanation
Indices: 7606009--7606070 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
7605999 AATTTGATAG
7606009 AAAAATGAAAAAAAAATGAA
1 AAAAATG-AAAAAAAAT-AA
*
7606029 AAAAATGAAAAAAAATGA
1 AAAAATGAAAAAAAATAA
7606047 AAAAATGAAAAAAAATAA
1 AAAAATGAAAAAAAATAA
7606065 TAAAAA
1 -AAAAA
7606071 AATTAAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
18 18 0.46
19 14 0.36
20 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAAAAAATAA
Found at i:7606629 original size:2 final size:2
Alignment explanation
Indices: 7606622--7606696 Score: 123
Period size: 2 Copynumber: 37.5 Consensus size: 2
7606612 GGTTCTAGTG
7606622 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
* * *
7606664 TA TA TA TA TA TA TA TA CA TA CA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7606697 GCGTATAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7607592 original size:2 final size:2
Alignment explanation
Indices: 7607587--7607663 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
7607577 ACACACACAC
7607587 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
7607629 AT AT AT 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 AT AT AT A
7607664 CAAAAGCTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7628998 original size:3 final size:3
Alignment explanation
Indices: 7628965--7629017 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
7628955 GCAAAATCAT
* * *
7628965 TAA T-A TAA TTAA TAA AAA TAT TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7629010 TAAA TAA T
1 T-AA TAA T
7629018 TATACGATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7629584 original size:106 final size:106
Alignment explanation
Indices: 7629283--7630333 Score: 1559
Period size: 106 Copynumber: 10.0 Consensus size: 106
7629273 GTTTCGATGT
* * *
7629283 CAATATCCTTCGCTGTGAAGTTGAAATTGCCT-TCGAAACTG-GAA--AGTTTGTTGACAACCAA
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAAGTTGTTTGTTGACAACC-A
* * * * * *
7629344 TC-GTCCCTTCGTTTGTGAAGTTGAACTTGTGCTGTCTCGAGTC
64 GCGGTCCCTTCG-TCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* * *
7629387 TAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAATCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* * * * *
7629446 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTC-TGGAGTC
* * * * *
7629487 CAAGATCCTTCGCTGAGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
7629552 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* * *
7629593 CAATATCCTTTGTTGGGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
7629658 GGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* *
7629699 CAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
7629764 GGTCCCTTCGTCGTGAAGTTGAACATACGTTGCCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
*
7629805 CAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
7629870 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* *
7629911 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
7629976 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* * * *
7630017 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
7630082 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* *
7630123 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
7630188 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* *
7630229 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* * *
7630294 GGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGT
7630334 GGCACGATAT
Statistics
Matches: 872, Mismatches: 64, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
100 56 0.06
101 24 0.03
102 6 0.01
103 4 0.00
104 31 0.04
105 5 0.01
106 746 0.86
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
Found at i:7635478 original size:3 final size:3
Alignment explanation
Indices: 7635445--7635497 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
7635435 GCAAAATCAT
* * *
7635445 TAA T-A TAA TTAA TAA AAA TAT TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7635490 TAAA TAA T
1 T-AA TAA T
7635498 TATACGATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7636725 original size:20 final size:21
Alignment explanation
Indices: 7636684--7636727 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7636674 TAAGAGAATA
* *
7636684 TTTTATTTAAAAGTATTTTAT
1 TTTTATTTAAAAATATTATAT
7636705 TTTTATTTAAAAATA-TATAT
1 TTTTATTTAAAAATATTATAT
7636725 TTT
1 TTT
7636728 GTGTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTATTTAAAAATATTATAT
Found at i:7637156 original size:3 final size:3
Alignment explanation
Indices: 7637134--7637250 Score: 87
Period size: 3 Copynumber: 38.0 Consensus size: 3
7637124 CCATTCTTGT
* *
7637134 TTA TTA TGT- TTA TTA ATA TTA TTA ATA TTA TTA TTA TTA TTAA TCTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA
* * * * * *
7637181 TTTA TTA -AA TTA TTA TTA ATA TTA ATA TTA ATA TTA ATA TTA ATA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7637226 TTA TGT- TTA TTAA TTA TTA TTA TTA
1 TTA T-TA TTA TT-A TTA TTA TTA TTA
7637251 ATACAAGAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
2 3 0.03
3 74 0.83
4 10 0.11
5 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:7637167 original size:12 final size:12
Alignment explanation
Indices: 7637143--7637253 Score: 107
Period size: 12 Copynumber: 8.8 Consensus size: 12
7637133 TTTATTATGT
7637143 TTATTAATATTA
1 TTATTAATATTA
* *
7637155 TTAATATTATTA
1 TTATTAATATTA
*
7637167 TTATTATTAATCTA
1 TTATTAAT-AT-TA
7637181 TTTATTAA-ATTA
1 -TTATTAATATTA
7637193 TTATTAATATTA
1 TTATTAATATTA
*
7637205 ATATTAATATTA
1 TTATTAATATTA
*
7637217 ATATTAATATTA
1 TTATTAATATTA
7637229 TGTTTATTAATTATTA
1 ---TTATTAA-TATTA
7637245 TTATTAATA
1 TTATTAATA
7637254 CAAGAATATA
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
11 7 0.08
12 48 0.56
13 11 0.13
14 2 0.02
15 12 0.14
16 5 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:7638721 original size:30 final size:31
Alignment explanation
Indices: 7638685--7638769 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 31
7638675 GTTTTTACTG
7638685 TTTAGTCATTTAAATGTCTATTTTTGT-TAT
1 TTTAGTCATTTAAATGTCTATTTTTGTCTAT
* *
7638715 TTTAGTCCTTTAAATGTCT-TTTTTTTCTAT
1 TTTAGTCATTTAAATGTCTATTTTTGTCTAT
* *
7638745 TTTAGT-ACTTAAAGTTTCTATTTTT
1 TTTAGTCATTTAAA-TGTCTATTTTT
7638770 TTGCTGTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.23
30 31 0.66
31 5 0.11
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.61
Consensus pattern (31 bp):
TTTAGTCATTTAAATGTCTATTTTTGTCTAT
Found at i:7638770 original size:30 final size:30
Alignment explanation
Indices: 7638701--7638843 Score: 93
Period size: 30 Copynumber: 4.8 Consensus size: 30
7638691 CATTTAAATG
* *
7638701 TCTATTTTTGT-TATTTTAGTCCTTTAAA-TG
1 TCTATTTTT-TCTATTTTAGTAC-TTAAAGTT
*
7638731 TCTTTTTTTTCTATTTTAGTACTTAAAGTT
1 TCTATTTTTTCTATTTTAGTACTTAAAGTT
* *
7638761 TCTATTTTTTTGCT-GTTTAG-ACCTTTAAGTT
1 TCTA-TTTTTT-CTATTTTAGTA-CTTAAAGTT
* * * *
7638792 TTTGTTTTTTCCA-TTTAGT-CTCTTAAGTT
1 TCTATTTTTTCTATTTTAGTACT-TAAAGTT
*
7638821 TCTGTTTTTTCTATTTTAG-ACTT
1 TCTATTTTTTCTATTTTAGTACTT
7638844 TATTTTATCA
Statistics
Matches: 92, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.02
29 31 0.34
30 36 0.39
31 21 0.23
32 2 0.02
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.62
Consensus pattern (30 bp):
TCTATTTTTTCTATTTTAGTACTTAAAGTT
Found at i:7638809 original size:29 final size:29
Alignment explanation
Indices: 7638735--7638845 Score: 100
Period size: 29 Copynumber: 3.7 Consensus size: 29
7638725 TAAATGTCTT
* * *
7638735 TTTTTTCTATTTTAGTACTTAAAGTTTCTAT
1 TTTTTTCCATTTTAG-ACTTTAAGTTTCT-G
* *
7638766 TTTTTTGC-TGTTTAGACCTTTAAGTTTTTG
1 TTTTTTCCAT-TTTAGA-CTTTAAGTTTCTG
*
7638796 TTTTTTCCA-TTTAGTCTCTTAAGTTTCTG
1 TTTTTTCCATTTTAGACT-TTAAGTTTCTG
*
7638825 TTTTTTCTATTTTAGACTTTA
1 TTTTTTCCATTTTAGACTTTA
7638846 TTTTATCAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 2 0.03
29 26 0.40
30 16 0.25
31 21 0.32
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (29 bp):
TTTTTTCCATTTTAGACTTTAAGTTTCTG
Found at i:7639146 original size:24 final size:23
Alignment explanation
Indices: 7639119--7639204 Score: 59
Period size: 26 Copynumber: 3.4 Consensus size: 23
7639109 ATATTCGATA
7639119 ATTTTATTTATTTCACATTTATTT
1 ATTTTATTT-TTTCACATTTATTT
*
7639143 ATTTTGAGTATTTTTCATCGTTT-TTT
1 ATTTT-A-T-TTTTTCA-CATTTATTT
*
7639169 CATTTTTATTTTTTTCA-TTTTATTGT
1 -A-TTTTA-TTTTTTCACATTTATT-T
7639195 ATTTTATTTT
1 ATTTTATTTT
7639205 ATCTTGGTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
23 4 0.08
24 13 0.25
25 4 0.08
26 17 0.33
27 9 0.18
28 4 0.08
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (23 bp):
ATTTTATTTTTTCACATTTATTT
Found at i:7642164 original size:20 final size:20
Alignment explanation
Indices: 7642141--7642200 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
7642131 AAATACAATA
*
7642141 AATAACATTATTTATTAAAT
1 AATAAAATTATTTATTAAAT
*
7642161 AATAATAA-TATTTTTTAAA-
1 AATAA-AATTATTTATTAAAT
* *
7642180 AATAAAATAATTTATTTAAT
1 AATAAAATTATTTATTAAAT
7642200 A
1 A
7642201 TTATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 16 0.50
21 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAAATTATTTATTAAAT
Found at i:7642177 original size:23 final size:21
Alignment explanation
Indices: 7642140--7642198 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
7642130 TAAATACAAT
* *
7642140 AAATAACATTATTTATTAAATA
1 AAATAATATTATTTA-AAAATA
*
7642162 ATAATAATATTTTTTAAAAATA
1 A-AATAATATTATTTAAAAATA
7642184 AAATAAT-TTATTTAA
1 AAATAATATTATTTAA
7642199 TATTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.22
21 6 0.19
22 7 0.22
23 12 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATATTATTTAAAAATA
Found at i:7642403 original size:57 final size:57
Alignment explanation
Indices: 7642289--7642405 Score: 137
Period size: 57 Copynumber: 2.1 Consensus size: 57
7642279 AAGATAAAAG
* * * **
7642289 TATTATAAATTATGTTAATTATTTATTAAAACAAGAATAATATATTATTAATTATAT
1 TATTATAAATTATGTTAATTATTTATTAAAACAAAAATAATATATAAATAAGAATAT
* * * *
7642346 TATTATAAATTATGTTAATTATTTTTTAAAATAAAAATACTAT-TAAAATAGGAATAT
1 TATTATAAATTATGTTAATTATTTATTAAAACAAAAATAATATAT-AAATAAGAATAT
7642403 TAT
1 TAT
7642406 ATTATATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 1 0.02
57 49 0.98
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (57 bp):
TATTATAAATTATGTTAATTATTTATTAAAACAAAAATAATATATAAATAAGAATAT
Found at i:7647606 original size:82 final size:82
Alignment explanation
Indices: 7647503--7647657 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
7647493 TTTTTACAAC
*
7647503 AAACGCCGCAATTTAATGGTAAATTAGCGGCGTTTATACCACAAACGCCGCAATAGATTA-ACAA
1 AAACGCCGCAA-TTAATGGTAAATTAGCAGCGTTTATACCACAAACGCCGCAATAGATTACACAA
7647567 ATAGTGGCGTTTTAGCCA
65 ATAGTGGCGTTTTAGCCA
*
7647585 AAACGCCGCAA-TAGATCGGTAAATTAGCAGCGTTTATACCACAAACGCTGCAATAGATTACACA
1 AAACGCCGCAATTA-AT-GGTAAATTAGCAGCGTTTATACCACAAACGCCGCAATAGATTACACA
*
7647649 TATAGTGGC
64 AATAGTGGC
7647658 ATTTATTCTT
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
80 2 0.03
81 2 0.03
82 52 0.78
83 11 0.16
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (82 bp):
AAACGCCGCAATTAATGGTAAATTAGCAGCGTTTATACCACAAACGCCGCAATAGATTACACAAA
TAGTGGCGTTTTAGCCA
Found at i:7647663 original size:42 final size:41
Alignment explanation
Indices: 7647470--7647785 Score: 179
Period size: 42 Copynumber: 7.6 Consensus size: 41
7647460 AAAAGGCTGT
* * * *
7647470 AATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCCGC
1 AATAGA-TTAACATATAGTGGCGTTTATACCACAAACGCCGC
*
7647512 AATTTA-ATGGTAA-AT-TAGCGGCGTTTATACCACAAACGCCGC
1 AA--TAGAT--TAACATATAGTGGCGTTTATACCACAAACGCCGC
*
7647554 AATAGATTAACAAATAGTGGCGTTT-TAGCCA-AAACGCCGC
1 AATAGATTAACATATAGTGGCGTTTATA-CCACAAACGCCGC
** *
7647594 AATAGATCGGTAA-AT-TAGCAGCGTTTATACCACAAACGCTGC
1 AATAGAT---TAACATATAGTGGCGTTTATACCACAAACGCCGC
* * *
7647636 AATAGATTACACATATAGTGGCATTTATTCTTA-AAACGCCGC
1 AATAGATTA-ACATATAGTGGCGTTTATAC-CACAAACGCCGC
* * * * * *
7647678 AATAGTTATAATAAATAGTGGCGTTTTTA-GACAAACACCGC
1 AATAGAT-TAACATATAGTGGCGTTTATACCACAAACGCCGC
* * * *** *
7647719 AATAGTGTTAATCA-ATAGTGGTGTTTTTTTAACAAACGCCAC
1 AATAG-ATTAA-CATATAGTGGCGTTTATACCACAAACGCCGC
7647761 AATA-ATGTAATCA-ATAGTGGCGTTT
1 AATAGAT-TAA-CATATAGTGGCGTTT
7647786 TTTTGTATAA
Statistics
Matches: 219, Mismatches: 32, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
39 5 0.02
40 24 0.11
41 75 0.34
42 102 0.47
43 9 0.04
44 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (41 bp):
AATAGATTAACATATAGTGGCGTTTATACCACAAACGCCGC
Found at i:7647809 original size:41 final size:41
Alignment explanation
Indices: 7647669--7647809 Score: 151
Period size: 41 Copynumber: 3.4 Consensus size: 41
7647659 TTTATTCTTA
* * * *
7647669 AAACGCCGCAATAGTTATAATAAATAGTGGCG-TTTTTAGAC
1 AAACGCCGCAATA-ATGTAATCAATAGTGGCGTTTTTTTGAC
* * * *
7647710 AAACACCGCAATAGTGTTAATCAATAGTGGTGTTTTTTTAAC
1 AAACGCCGCAATAATG-TAATCAATAGTGGCGTTTTTTTGAC
* *
7647752 AAACGCCACAATAATGTAATCAATAGTGGCGTTTTTTTGTAT
1 AAACGCCGCAATAATGTAATCAATAGTGGCGTTTTTTTG-AC
7647794 AAACGCCGCAA-AATGT
1 AAACGCCGCAATAATGT
7647810 TAAATATATA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 51 0.61
42 31 0.37
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (41 bp):
AAACGCCGCAATAATGTAATCAATAGTGGCGTTTTTTTGAC
Found at i:7648344 original size:51 final size:51
Alignment explanation
Indices: 7648283--7648383 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
7648273 GGTAATTAGC
* * * *
7648283 GGCGTTTGTATCTAGAAACGCCGCTATAGA-TCTGACATTTTGTGGCGTTTTT
1 GGCGTTTGTATCCAAAAACGCCGCTATAAACTCT-AC-TTTAGTGGCGTTTTT
7648335 GGCG-TTGTATCCAAAAACGCCGCTATAAACTCTACTTTAGTGGCGTTTT
1 GGCGTTTGTATCCAAAAACGCCGCTATAAACTCTACTTTAGTGGCGTTTT
7648384 GAATGCAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 13 0.30
51 24 0.55
52 7 0.16
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (51 bp):
GGCGTTTGTATCCAAAAACGCCGCTATAAACTCTACTTTAGTGGCGTTTTT
Found at i:7648529 original size:42 final size:42
Alignment explanation
Indices: 7648349--7648666 Score: 372
Period size: 42 Copynumber: 7.8 Consensus size: 42
7648339 TTGTATCCAA
* *
7648349 AAACGCCGCTATAAACTC-TACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * * * *
7648390 AAACGCCTCTAAAGACTCGTACTTTAGTAGCATTTT-TATAT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
7648431 AAACGCCGCTATAGACTAGTACTTTAGTGGCATTTT-TATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
7648472 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
7648514 AAACGCCACTATAGA--C--AC---GGTGGCGTTTT-TATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
7648548 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
7648590 AAACGCCGCTATAGACTCGTTCTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
7648632 AAACGCTGGTA-ATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTATA-GACTCGTACTTTAGTGGCGTTT
7648667 GTATTTACAA
Statistics
Matches: 236, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
34 17 0.07
35 10 0.04
36 1 0.00
38 4 0.02
40 1 0.00
41 98 0.42
42 105 0.44
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
Found at i:7648557 original size:76 final size:76
Alignment explanation
Indices: 7648457--7648605 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
7648447 TAGTACTTTA
7648457 GTGGCATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGCCA
1 GTGGCATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGCCA
7648522 CTATAGACACG
66 CTATAGACACG
* *
7648533 GTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGCCG
1 GTGGCATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGCCA
7648598 CTATAGAC
66 CTATAGAC
7648606 TCGTTCTTTA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (76 bp):
GTGGCATTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGCCA
CTATAGACACG
Found at i:7648560 original size:34 final size:35
Alignment explanation
Indices: 7648498--7648563 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
7648488 TCGTACTTTA
*
7648498 GTGGCGTTTTGAATGCAAACGCCACTATAGACACG
1 GTGGCGTTTTGAATACAAACGCCACTATAGACACG
* *
7648533 GTGGCGTTTT-TATACAAACGCCGCTATAGAC
1 GTGGCGTTTTGAATACAAACGCCACTATAGAC
7648564 TCGTACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (35 bp):
GTGGCGTTTTGAATACAAACGCCACTATAGACACG
Found at i:7651199 original size:21 final size:21
Alignment explanation
Indices: 7651173--7651254 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
7651163 ATGAAGTAAG
* * *
7651173 GGAAGCAGAGAGAGCAGCAAC
1 GGAAGCACAGAGAGAAGCAGC
* *
7651194 GGAAGCAGAGAAAGAAGCAGC
1 GGAAGCACAGAGAGAAGCAGC
*
7651215 GGCAGCACAGAGAGAAGCAGC
1 GGAAGCACAGAGAGAAGCAGC
*
7651236 GGCAGCACAGAGAGAAGCA
1 GGAAGCACAGAGAGAAGCA
7651255 TCATATCAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.43, C:0.20, G:0.38, T:0.00
Consensus pattern (21 bp):
GGAAGCACAGAGAGAAGCAGC
Found at i:7651791 original size:43 final size:42
Alignment explanation
Indices: 7651728--7652051 Score: 319
Period size: 43 Copynumber: 7.5 Consensus size: 42
7651718 GTCGCAAGAC
* * * * * *
7651728 ATCAACACCCACTGCTGCGTTTTAGCGAAAAACGCCGCTAAAC
1 ATCAACACCTATTGCGGCGTTTTA-TGACAAACGCCGCTAAAT
* * * *
7651771 ATCATA-ACCTATTGCGGCGTTTGTCTGAAAAATGCTGCTAAAT
1 ATCA-ACACCTATTGCGGCGTTT-TATGACAAACGCCGCTAAAT
* * *
7651814 ATTAACACCTATTACGACGTTTTTATGACAAACGCCGCTAAAT
1 ATCAACACCTATTGCGGCG-TTTTATGACAAACGCCGCTAAAT
* * *
7651857 ATCAACACCTATTGCAGCGTTTGTATGAAAAACGCTGCTAAAT
1 ATCAACACCTATTGCGGCGTTT-TATGACAAACGCCGCTAAAT
* * *
7651900 ATTAACACCTATTGCGGCATTTTTATGACAAACGTCGCTAAAT
1 ATCAACACCTATTGCGGC-GTTTTATGACAAACGCCGCTAAAT
**
7651943 ATCAATTCCTATTGCGGCGTTTTTATGACAAACGCCGCTAAAT
1 ATCAACACCTATTGCGGCG-TTTTATGACAAACGCCGCTAAAT
* * *
7651986 ATGAACACCTATTGCGGCGTTTGTCA-CACAAACGCCACTAAAT
1 ATCAACACCTATTGCGGCGTTT-T-ATGACAAACGCCGCTAAAT
* *
7652029 ATCAATACCTATTGTGGCGTTTT
1 ATCAACACCTATTGCGGCGTTTT
7652052 TTGTGAAAAA
Statistics
Matches: 232, Mismatches: 40, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
42 8 0.03
43 215 0.93
44 9 0.04
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCAACACCTATTGCGGCGTTTTATGACAAACGCCGCTAAAT
Found at i:7652052 original size:86 final size:86
Alignment explanation
Indices: 7651757--7652050 Score: 394
Period size: 86 Copynumber: 3.4 Consensus size: 86
7651747 TTTTAGCGAA
* * *
7651757 AAACGCCGCTAAACATC-ATAACCTATTGCGGCGTTTGTCTGAAAAATGCTGCTAAATATTAACA
1 AAACGCCGCTAAATATCAAT-ACCTATTGCGGCGTTTGTATGAAAAACGCTGCTAAATATTAACA
* *
7651821 CCTATTACGACGTTTTTATGAC
65 CCTATTGCGGCGTTTTTATGAC
* *
7651843 AAACGCCGCTAAATATCAACACCTATTGCAGCGTTTGTATGAAAAACGCTGCTAAATATTAACAC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTATGAAAAACGCTGCTAAATATTAACAC
*
7651908 CTATTGCGGCATTTTTATGAC
66 CTATTGCGGCGTTTTTATGAC
* * * * * *
7651929 AAACGTCGCTAAATATCAATTCCTATTGCGGCGTTTTTATGACAAACGCCGCTAAATATGAACAC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTATGAAAAACGCTGCTAAATATTAACAC
* *
7651994 CTATTGCGGCGTTTGTCA-CAC
66 CTATTGCGGCGTTT-TTATGAC
* *
7652015 AAACGCCACTAAATATCAATACCTATTGTGGCGTTT
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTT
7652051 TTTGTGAAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
86 180 0.98
87 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (86 bp):
AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTATGAAAAACGCTGCTAAATATTAACAC
CTATTGCGGCGTTTTTATGAC
Found at i:7652052 original size:129 final size:129
Alignment explanation
Indices: 7651728--7652061 Score: 370
Period size: 129 Copynumber: 2.6 Consensus size: 129
7651718 GTCGCAAGAC
* * * * *
7651728 ATCAACACCCACTGCTGCGTTT-TAGCGAAAAACGCCGCTAAACATC-ATAACCTATTGCGGCGT
1 ATCAACACCTATTGCAGCGTTTGTATC-AAAAACGCCGCTAAATATCAAT-ACCTATTGCGGCGT
* * * *
7651791 TTGTCTGAAAAATGCTGCTAAATATTAACACCTATTACGACGTTTTTATGACAAACGCCGCTAAA
64 TTTTATGAAAAACGCTGCTAAATATCAACACCTATTACGACGTTTTTATGACAAACGCCGCTAAA
7651856 T
129 T
* * * * *
7651857 ATCAACACCTATTGCAGCGTTTGTATGAAAAACGCTGCTAAATATTAACACCTATTGCGGCATTT
1 ATCAACACCTATTGCAGCGTTTGTATCAAAAACGCCGCTAAATATCAATACCTATTGCGGCGTTT
* ** * *
7651922 TTATGACAAACG-TCGCTAAATATCAATTCCTATTGCGGCGTTTTTATGACAAACGCCGCTAAAT
66 TTATGAAAAACGCT-GCTAAATATCAACACCTATTACGACGTTTTTATGACAAACGCCGCTAAAT
* * * * *
7651986 ATGAACACCTATTGCGGCGTTTGTCA-CACAAACGCCACTAAATATCAATACCTATTGTGGCGTT
1 ATCAACACCTATTGCAGCGTTTGT-ATCAAAAACGCCGCTAAATATCAATACCTATTGCGGCG-T
*
7652050 TTTTGTGAAAAA
64 TTTTATGAAAAA
7652062 ATGCCACGAA
Statistics
Matches: 169, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
128 1 0.01
129 153 0.91
130 15 0.09
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (129 bp):
ATCAACACCTATTGCAGCGTTTGTATCAAAAACGCCGCTAAATATCAATACCTATTGCGGCGTTT
TTATGAAAAACGCTGCTAAATATCAACACCTATTACGACGTTTTTATGACAAACGCCGCTAAAT
Found at i:7653727 original size:131 final size:131
Alignment explanation
Indices: 7653566--7653806 Score: 356
Period size: 131 Copynumber: 1.8 Consensus size: 131
7653556 TAATAACACG
* * * * *
7653566 GTTCCTACGCGATGAGGATGACTGGTTATCTAGGGGTGACATGGCTCCTACGTAATGAGGAGGTC
1 GTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGACACGGATCCTACATAATAAGGAGGTC
* * *
7653631 TAGTTGGAGGATGACACGGTTCCTACGTGATGAGGATGACATGCCCTATTTAGGGATGATAACAT
66 TAGTCGGAGGATGACACGGTTCCTACGCGATGAGGATAACATGCCCTATTTAGGGATGATAACAT
7653696 A
131 A
* * *
7653697 GTTCCTACGTGATGAGGACGACTGGTTATCTAGTGGTGACACGGATCCTACATGATAAGGAGGTC
1 GTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGACACGGATCCTACATAATAAGGAGGTC
* * *
7653762 TGGTCGGGGGATGACACGGTTCCTATGCGATGAGGATAACATGCC
66 TAGTCGGAGGATGACACGGTTCCTACGCGATGAGGATAACATGCC
7653807 ATCTATAGGG
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 96 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (131 bp):
GTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGACACGGATCCTACATAATAAGGAGGTC
TAGTCGGAGGATGACACGGTTCCTACGCGATGAGGATAACATGCCCTATTTAGGGATGATAACAT
A
Found at i:7653747 original size:43 final size:42
Alignment explanation
Indices: 7653561--7653757 Score: 137
Period size: 43 Copynumber: 4.5 Consensus size: 42
7653551 GAGGGTAATA
*
7653561 ACACGGTTCCTACGCGATGAGGATGACTGGTTATCTAGGGGTG
1 ACACGGTTCCTACGTGATGAGGATGACTGGTTATCTA-GGGTG
* * * * * * ** *
7653604 ACATGGCTCCTACGTAATGAGGAGGTCTAG-T-TGGAGGATG
1 ACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAGGGTG
** *
7653644 ACACGGTTCCTACGTGATGAGGATGACATGCCCTATTTAGGGATG
1 ACACGGTTCCTACGTGATGAGGATGAC-TG-GTTATCTAGGG-TG
** *
7653689 ATAACATAGTTCCTACGTGATGAGGACGACTGGTTATCTAGTGGTG
1 ---ACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAG-GGTG
* * *
7653735 ACACGGATCCTACATGATAAGGA
1 ACACGGTTCCTACGTGATGAGGA
7653758 GGTCTGGTCG
Statistics
Matches: 114, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
40 26 0.23
41 3 0.03
42 1 0.01
43 42 0.37
44 4 0.04
45 2 0.02
46 8 0.07
47 4 0.04
48 24 0.21
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (42 bp):
ACACGGTTCCTACGTGATGAGGATGACTGGTTATCTAGGGTG
Found at i:7654363 original size:37 final size:36
Alignment explanation
Indices: 7654278--7654384 Score: 171
Period size: 36 Copynumber: 3.0 Consensus size: 36
7654268 GAGAAAAAAA
* * *
7654278 TGTCTCAAGCGAGATGAAATTTATTTTGAGAGAAAT
1 TGTCTCAAGCGAGATAAAATTTGTTTTTAGAGAAAT
7654314 TGTCTCAAGCGAGATAAAATTTGTTTTTAGAGAAAGT
1 TGTCTCAAGCGAGATAAAATTTGTTTTTAGAGAAA-T
7654351 TGTCTCAAGCGAGATAAAATTTGTTTTTA-AGAAA
1 TGTCTCAAGCGAGATAAAATTTGTTTTTAGAGAAA
7654385 ACTATCTCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 37 0.55
37 30 0.45
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGCGAGATAAAATTTGTTTTTAGAGAAAT
Found at i:7654374 original size:21 final size:21
Alignment explanation
Indices: 7654313--7654374 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
7654303 TTGAGAGAAA
7654313 TTGTCTCAAGCGAGATAAAAT
1 TTGTCTCAAGCGAGATAAAAT
* ** *
7654334 TTGTTTTTA--GAG---AAAG
1 TTGTCTCAAGCGAGATAAAAT
7654350 TTGTCTCAAGCGAGATAAAAT
1 TTGTCTCAAGCGAGATAAAAT
7654371 TTGT
1 TTGT
7654375 TTTTAAGAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 9 0.32
18 3 0.11
19 3 0.11
21 13 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (21 bp):
TTGTCTCAAGCGAGATAAAAT
Found at i:7654398 original size:36 final size:36
Alignment explanation
Indices: 7654273--7654400 Score: 159
Period size: 36 Copynumber: 3.5 Consensus size: 36
7654263 TCTCAGAGAA
* * * *
7654273 AAAAATGTCTCAAGCGAGATGAAATTT-ATTTTGAG
1 AAAATTGTCTCAAGCGAGATAAAATTTGTTTTTAAG
7654308 AGAAATTGTCTCAAGCGAGATAAAATTTGTTTTTAGAG
1 A-AAATTGTCTCAAGCGAGATAAAATTTGTTTTTA-AG
*
7654346 AAAGTTGTCTCAAGCGAGATAAAATTTGTTTTTAAG
1 AAAATTGTCTCAAGCGAGATAAAATTTGTTTTTAAG
* * *
7654382 AAAACTATCTCTAGCGAGA
1 AAAATTGTCTCAAGCGAGA
7654401 CAACACTTTG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
35 1 0.01
36 41 0.51
37 36 0.44
38 3 0.04
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (36 bp):
AAAATTGTCTCAAGCGAGATAAAATTTGTTTTTAAG
Found at i:7655805 original size:4 final size:4
Alignment explanation
Indices: 7655796--7655894 Score: 198
Period size: 4 Copynumber: 24.8 Consensus size: 4
7655786 GCCTTATTGT
7655796 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7655844 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7655892 ATA
1 ATA
7655895 TATATATATA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 95 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:7655899 original size:2 final size:2
Alignment explanation
Indices: 7655892--7655919 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7655882 ACATACATAC
7655892 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
7655920 TCTGGGTATA
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:7660001 original size:20 final size:20
Alignment explanation
Indices: 7659948--7660001 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
7659938 ATTCATTTTT
**
7659948 TTATTTTAATTTAGTCACTA
1 TTATTTTAATTTAACCACTA
* *
7659968 TTAGTTTTTTATTTAACCACTG
1 TTA--TTTTAATTTAACCACTA
7659990 TTATTTTAATTT
1 TTATTTTAATTT
7660002 TTGCATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (20 bp):
TTATTTTAATTTAACCACTA
Found at i:7660114 original size:30 final size:30
Alignment explanation
Indices: 7660079--7660176 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
7660069 TTCACCTTGG
*
7660079 TGTTTTTGCTGTTTTAGTCCTTTAAATTTA
1 TGTTTTTGCTGTTTTAGTCCTTTAAGTTTA
** *
7660109 TGTTTTCACTGTTTTAG-CCTTTTAAGTTTT
1 TGTTTTTGCTGTTTTAGTCC-TTTAAGTTTA
** * *
7660139 TGTTTTTGCCATTTTAATCCTTTAAGTTCA
1 TGTTTTTGCTGTTTTAGTCCTTTAAGTTTA
7660169 TGTTTTTG
1 TGTTTTTG
7660177 TTAGATCTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
29 2 0.04
30 51 0.93
31 2 0.04
ACGTcount: A:0.15, C:0.12, G:0.13, T:0.59
Consensus pattern (30 bp):
TGTTTTTGCTGTTTTAGTCCTTTAAGTTTA
Found at i:7661196 original size:21 final size:20
Alignment explanation
Indices: 7661172--7661211 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7661162 TCACTAACTT
*
7661172 TTTCCTTTCATTTTTGTTTTC
1 TTTCATTTCATTTTT-TTTTC
*
7661193 TTTCATTTTATTTTTTTTT
1 TTTCATTTCATTTTTTTTT
7661212 ATCATTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.07, C:0.12, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCATTTCATTTTTTTTTC
Found at i:7661207 original size:16 final size:16
Alignment explanation
Indices: 7661170--7661207 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
7661160 TCTCACTAAC
7661170 TTTTTCCTTTCATTTT
1 TTTTTCCTTTCATTTT
7661186 TGTTTT-CTTTCATTTT
1 T-TTTTCCTTTCATTTT
7661202 ATTTTT
1 -TTTTT
7661208 TTTTATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTCCTTTCATTTT
Found at i:7662609 original size:15 final size:14
Alignment explanation
Indices: 7662576--7662612 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
7662566 GGATCAATAT
7662576 TTTTGCATA-TGCA
1 TTTTGCATATTGCA
7662589 -TTTGCATATTTGCA
1 TTTTGCATA-TTGCA
7662603 TTTTGCATAT
1 TTTTGCATAT
7662613 GGATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTGCATATTGCA
Found at i:7664987 original size:200 final size:201
Alignment explanation
Indices: 7664644--7665082 Score: 650
Period size: 200 Copynumber: 2.2 Consensus size: 201
7664634 CTGTTCGTGA
* * * **
7664644 CATAGCTCAAGGTGAGAAGAGTTATCTGTCAATGAAAACTTTCAAGTTTGATTACATTCAGCTCG
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTTGATTACATTCAGCTCG
* * * *
7664709 ATGATACATCAACTGTATGGTAGCAGTGATGAACTACTTTTCGGTTGAATTTTAAATCGAGGTCT
66 ATGATACATCAACTGCATGGTAGCAGCGATGAACTACTTTCCAGTTGAATTTTAAATCGAGGTCT
* * * *
7664774 TTAAGTCAAGAAGAAGACCTGGGTT-AGCTGCGATTTAGTAACAATGAACTATAT-CCAGTCAAA
131 TTAAGTCAAGAAGAAGACCTGGGTTGA-CTGCGAATTAGCAACAAGGAACTATATCCCAATCAAA
7664837 TTTACAG
195 TTTACAG
* * *
7664844 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCGAGTTTGATTCCTTTCAGCTCG
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTTGATTACATTCAGCTCG
*
7664909 ATGATACATCGACTGCATGGTAGCAGCGATGAACTACTTTCCAGTTGAATTTTAAA-CTGAGGTC
66 ATGATACATCAACTGCATGGTAGCAGCGATGAACTACTTTCCAGTTGAATTTTAAATC-GAGGTC
*
7664973 TTTAAGTCAAGAAGAAGACCTGGGTTGACTGCGAATTAGCAAGAAGGAACTATATCCCAATCAAA
130 TTTAAGTCAAGAAGAAGACCTGGGTTGACTGCGAATTAGCAACAAGGAACTATATCCCAATCAAA
*
7665038 TTTATAG
195 TTTACAG
* *
7665045 CATAGCTCAAGGCGAAAAGGGCTATCTATCAACAAAAA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAA
7665083 ACCTTTGATA
Statistics
Matches: 215, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
199 1 0.00
200 163 0.76
201 51 0.24
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (201 bp):
CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTTGATTACATTCAGCTCG
ATGATACATCAACTGCATGGTAGCAGCGATGAACTACTTTCCAGTTGAATTTTAAATCGAGGTCT
TTAAGTCAAGAAGAAGACCTGGGTTGACTGCGAATTAGCAACAAGGAACTATATCCCAATCAAAT
TTACAG
Found at i:7665186 original size:46 final size:47
Alignment explanation
Indices: 7665114--7665218 Score: 158
Period size: 46 Copynumber: 2.3 Consensus size: 47
7665104 GTAACAAATC
* * *
7665114 TTGTCTCCCTTGAGACATTTTCTCTTGAAACAC-AAAATCTTTGAAT
1 TTGTTTCCCTTGAGACAATTTCTCTTGAAACACAAAAATATTTGAAT
7665160 TTGTTTCCCTTGAGACAATTTCTCTTGAAACACAAAAATATTTGAAT
1 TTGTTTCCCTTGAGACAATTTCTCTTGAAACACAAAAATATTTGAAT
* *
7665207 TTATTTCACTTG
1 TTGTTTCCCTTG
7665219 GAACAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 31 0.58
47 22 0.42
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (47 bp):
TTGTTTCCCTTGAGACAATTTCTCTTGAAACACAAAAATATTTGAAT
Found at i:7665237 original size:68 final size:67
Alignment explanation
Indices: 7665159--7665389 Score: 283
Period size: 67 Copynumber: 3.5 Consensus size: 67
7665149 AATCTTTGAA
* * * * * *
7665159 TTTGTTTCCCTTGAGACAATTTCTCTTGAAACACAAAAATATTTGAATTTATTTCACTTGGAACA
1 TTTGTCTCCCTTGAGACAATTTCTCTTGAAACAC-AAAATCTTTGAATCTGTTTCCCTTGAAACA
7665224 AAT
65 AAT
* * * *
7665227 TTTGTCTCCCTTGAGACAATTTCTCTTGAAAGACAAAATCGTTAAATCTGTTTCCCTTCAAACAA
1 TTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGAATCTGTTTCCCTTGAAACAA
*
7665292 AG
66 AT
* *
7665294 TTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTTGAATCTGTTTCCCTTGAAATAA
1 TTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGAATCTGTTTCCCTTGAAACAA
7665357 AT
66 AT
*
7665359 TTTGTAT--CTTGAGACAATTT-TCCTTGAAACA
1 TTTGTCTCCCTTGAGACAATTTCT-CTTGAAACA
7665390 AGAAATTTTA
Statistics
Matches: 141, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
62 1 0.01
63 16 0.11
64 2 0.01
65 37 0.26
66 2 0.01
67 51 0.36
68 32 0.23
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (67 bp):
TTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTTGAATCTGTTTCCCTTGAAACAA
AT
Found at i:7665967 original size:91 final size:92
Alignment explanation
Indices: 7665863--7666034 Score: 269
Period size: 91 Copynumber: 1.9 Consensus size: 92
7665853 CACTCAAGGG
*
7665863 ATCAACATTTCCAGTGGGGAGTTCATAATAAGAATAACTCAT-TCAACA-AGGGAGAAG-TAGTT
1 ATCAACATTTCCAGTGGAGAGTTCATAATAAGAATAACTCATCT-AACAGAGGGAGAAGAT-GTT
7665925 CATAATGAGAAGAACTTGCTCAACCTTGC
64 CATAATGAGAAGAACTTGCTCAACCTTGC
* *
7665954 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCTGACAGAGGGAGAAGATGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATAAGAATAACTCATCTAACAGAGGGAGAAGATGTTCA
*
7666019 TAATGAGAAGAGCTTG
66 TAATGAGAAGAACTTG
7666035 TTCGACCTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
91 43 0.58
92 30 0.41
93 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (92 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATAAGAATAACTCATCTAACAGAGGGAGAAGATGTTCA
TAATGAGAAGAACTTGCTCAACCTTGC
Found at i:7666162 original size:69 final size:69
Alignment explanation
Indices: 7666051--7666242 Score: 348
Period size: 69 Copynumber: 2.8 Consensus size: 69
7666041 CTAATGCTCG
7666051 ATACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
1 ATACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
*
7666116 AGGA
66 AGCA
*
7666120 ATACAACACTAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
1 ATACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
7666185 AGCA
66 AGCA
* *
7666189 ATACAACTCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
1 ATACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
7666243 TCAACTTTAC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 119 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (69 bp):
ATACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
AGCA
Found at i:7667991 original size:30 final size:30
Alignment explanation
Indices: 7667956--7668056 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
7667946 TGCACCTTGG
* *
7667956 TGTTTTTGCTATTTTAGTCCTTTAAATTTT
1 TGTTTTTGCTATTTTAGTCCTTTAAGTTTA
* * *
7667986 TGTTTTCGCTGTTTTAG-CCTTTTAAGTTTC
1 TGTTTTTGCTATTTTAGTCC-TTTAAGTTTA
* * *
7668016 TGTTTTTGCCATTTTAATCCTTTAAGTTCA
1 TGTTTTTGCTATTTTAGTCCTTTAAGTTTA
7668046 TGTTTTTGCTA
1 TGTTTTTGCTA
7668057 GATATCTTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
29 2 0.03
30 54 0.93
31 2 0.03
ACGTcount: A:0.15, C:0.14, G:0.13, T:0.58
Consensus pattern (30 bp):
TGTTTTTGCTATTTTAGTCCTTTAAGTTTA
Found at i:7668996 original size:25 final size:27
Alignment explanation
Indices: 7668968--7669017 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
7668958 AACTAATTCG
*
7668968 AATTAAAATAACAT-AAT-AAAATAAC
1 AATTAAAATAAAATAAATGAAAATAAC
*
7668993 AATTAAATTAAAATAAATGAAAATA
1 AATTAAAATAAAATAAATGAAAATA
7669018 TTAGACCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 3 0.14
27 6 0.29
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (27 bp):
AATTAAAATAAAATAAATGAAAATAAC
Found at i:7675782 original size:20 final size:20
Alignment explanation
Indices: 7675757--7675826 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
7675747 CTAGAAAAGA
7675757 AGTATCGATATTATTCTTAC
1 AGTATCGATATTATTCTTAC
* **
7675777 AGTATCGATACTATAT-GAAC
1 AGTATCGATATTAT-TCTTAC
* * **
7675797 AATATCGATATTGTTCTTGT
1 AGTATCGATATTATTCTTAC
7675817 AGTATCGATA
1 AGTATCGATA
7675827 CCCTAGGTAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (20 bp):
AGTATCGATATTATTCTTAC
Found at i:7681333 original size:3 final size:3
Alignment explanation
Indices: 7681327--7681358 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7681317 TATTAATTAC
7681327 AAT AAT -AT AAT -AT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7681359 TAACTATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:7689580 original size:22 final size:23
Alignment explanation
Indices: 7689555--7689598 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7689545 AATATTTTAT
*
7689555 TAATG-AATATGCTCAAAAAATA
1 TAATGTAATATGCTAAAAAAATA
7689577 TAATGTAATATGCTAAAAAAAT
1 TAATGTAATATGCTAAAAAAAT
7689599 GCTTATGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.30
Consensus pattern (23 bp):
TAATGTAATATGCTAAAAAAATA
Found at i:7702290 original size:20 final size:20
Alignment explanation
Indices: 7702265--7702324 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
7702255 TTTTTGTGCA
*
7702265 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
7702285 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
7702306 GAATGGGAACCGATACCCC
1 G-A-GGGAACCGATACCCC
7702325 ATGGGGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 1 0.03
23 14 0.42
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:7705831 original size:24 final size:25
Alignment explanation
Indices: 7705789--7705839 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
7705779 CACCTAAGTG
*
7705789 CCGCGTAGAGATTTTTCCCGAAGGA
1 CCGCGTAGAGATTTGTCCCGAAGGA
7705814 CCGCGTAGA-ATTTGTCCCGAAGGA
1 CCGCGTAGAGATTTGTCCCGAAGGA
7705838 CC
1 CC
7705840 ACATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (25 bp):
CCGCGTAGAGATTTGTCCCGAAGGA
Found at i:7706072 original size:29 final size:30
Alignment explanation
Indices: 7706030--7706099 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
7706020 ACATAATTTA
* * *
7706030 TATCGCATAGACATAACA-TTCCTTACCTT
1 TATCACATAAACATAACATTTCCATACCTT
**
7706059 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATAACA-TTTCCATACCTT
*
7706090 TATCCCATAA
1 TATCACATAA
7706100 TTCATATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 14 0.42
31 19 0.58
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (30 bp):
TATCACATAAACATAACATTTCCATACCTT
Found at i:7712634 original size:24 final size:25
Alignment explanation
Indices: 7712592--7712642 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
7712582 CACCTAAGTG
* *
7712592 CCGCGTAGAGATTTGTCCCGAATGA
1 CCGCGTAGAGATTTATCCCGAAGGA
7712617 CCGCGTAGA-ATTTATCCCGAAGGA
1 CCGCGTAGAGATTTATCCCGAAGGA
7712641 CC
1 CC
7712643 ACATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (25 bp):
CCGCGTAGAGATTTATCCCGAAGGA
Found at i:7712875 original size:29 final size:29
Alignment explanation
Indices: 7712833--7712901 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
7712823 ACATAATTTA
* *
7712833 TATCGCATAGACATAACA-TTCCATACCTT
1 TATCACATAAACATAACATTTCCATACC-T
**
7712862 TATCACATAAACATTTCATTTTCCATACCT
1 TATCACATAAACATAACA-TTTCCATACCT
*
7712892 TATCCCATAA
1 TATCACATAA
7712902 TTCATATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 14 0.42
30 10 0.30
31 9 0.27
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
TATCACATAAACATAACATTTCCATACCT
Found at i:7714627 original size:2 final size:2
Alignment explanation
Indices: 7714620--7714691 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
7714610 ACCCTAAAGC
7714620 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
7714662 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7714692 CTTTAATAAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7717091 original size:16 final size:17
Alignment explanation
Indices: 7717070--7717103 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7717060 ATTTTTTATT
*
7717070 ATTTAACATG-AAAATA
1 ATTTAAAATGTAAAATA
7717086 ATTTAAAATGTAAAATA
1 ATTTAAAATGTAAAATA
7717103 A
1 A
7717104 AAATAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (17 bp):
ATTTAAAATGTAAAATA
Found at i:7717859 original size:25 final size:23
Alignment explanation
Indices: 7717808--7717864 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
7717798 GTTGTAATAT
* * *
7717808 ATTTATACATATAAATTTTTTTT
1 ATTTATAAATATAAATATTTTTA
7717831 ATTTATAGAATATATAATATTTTTA
1 ATTTATA-AATATA-AATATTTTTA
7717856 ATTTATAAA
1 ATTTATAAA
7717865 CTTAAAATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.24
24 7 0.24
25 15 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTATAAATATAAATATTTTTA
Found at i:7719022 original size:25 final size:25
Alignment explanation
Indices: 7718994--7719041 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7718984 GAAAAACGAG
7718994 CAAGAACATATAAATTCACGATTGT
1 CAAGAACATATAAATTCACGATTGT
7719019 CAAGAACATATAAATTCACGATT
1 CAAGAACATATAAATTCACGATT
7719042 CCCTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (25 bp):
CAAGAACATATAAATTCACGATTGT
Found at i:7720662 original size:41 final size:41
Alignment explanation
Indices: 7720617--7720825 Score: 217
Period size: 41 Copynumber: 5.1 Consensus size: 41
7720607 CCTATTATGG
* *
7720617 CGTTTGTATAAAAATGCCACTGAAGTTCGAGTCTTTAGCGA
1 CGTTTGTATAAAAATACCACTAAAGTTCGAGTCTTTAGCGA
* * *
7720658 CGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGC-A
1 CGTTTGTATAAAAATACCACTAAAGTTCGAGTCTTTAGCGA
*
7720698 CGTTTGTATAAAAATACCACTAAAGTAT-GAGTCTTTAGTGA
1 CGTTTGTATAAAAATACCACTAAAGT-TCGAGTCTTTAGCGA
* * * * **
7720739 CATTTGTATACAAACACCACTAAAGTGCGAGTCTTTAGTAA
1 CGTTTGTATAAAAATACCACTAAAGTTCGAGTCTTTAGCGA
* * * * * *
7720780 CGTTTATATAAAAGTGCCACTAAAATAT-GAGTATTTAGCGG
1 CGTTTGTATAAAAATACCACTAAAGT-TCGAGTCTTTAGCGA
7720821 CGTTT
1 CGTTT
7720826 TTGCTTAAAA
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 35 0.25
41 103 0.75
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (41 bp):
CGTTTGTATAAAAATACCACTAAAGTTCGAGTCTTTAGCGA
Found at i:7720666 original size:205 final size:207
Alignment explanation
Indices: 7720284--7720691 Score: 540
Period size: 205 Copynumber: 2.0 Consensus size: 207
7720274 GTAAACTTGC
7720284 GGTGTTTGTAGATACAAACACCACTAATGTACAGATAAATTACGACATTTAGTCAAAAAGCGCCA
1 GGTGTTTGTA-ATACAAACACCACTAATGTACAGATAAATTACGACATTTAGTCAAAAAGCGCCA
* * *
7720349 TTACAGTATGAATCTCTTACGACATTTTTTCAAAAACGCTATTATACATATGTCCTATTATGGCG
65 TTACAGTATGAATCTCTTACGACATTTTTTCAAAAACACCATTATACATATGCCCTATTATGGCG
* * *
7720414 TTCGTATAAAAACGCCACTAAAGTCTGAGTCTATATCAGCATTTGTATAAAAACGCTACTAAAAT
130 TTCGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCAGCATTTGTATAAAAACACCACTAAAAT
7720479 ACGAGTCTTTAGT
195 ACGAGTCTTTAGT
* ** * *
7720492 GGTGTTTGT-ATACAAACGCCACTAATGTATTGATAAATT--GTAGCGTTTATTCAAAAA-CGCC
1 GGTGTTTGTAATACAAACACCACTAATGTACAGATAAATTACG-A-CATTTAGTCAAAAAGCGCC
* * * *
7720553 ATTATAGTATGAATCTCTTACGGCATTTTTTCAAAAACACCATTATATATGTGCCCTATTATGGC
64 ATTACAGTATGAATCTCTTACGACATTTTTTCAAAAACACCATTATACATATGCCCTATTATGGC
* * * * *
7720618 GTTTGTATAAAAATGCCACTGAAGT-TCGAGTCTTTAGC-GACGTTTGTATAAAAACACCACTAA
129 GTTCGTATAAAAACGCCACTAAAGTCT-GAGTCTATAGCAG-CATTTGTATAAAAACACCACTAA
*
7720681 AGTACGAGTCT
192 AATACGAGTCT
7720692 ATAGCACGTT
Statistics
Matches: 175, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
204 3 0.02
205 124 0.71
206 39 0.22
208 9 0.05
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (207 bp):
GGTGTTTGTAATACAAACACCACTAATGTACAGATAAATTACGACATTTAGTCAAAAAGCGCCAT
TACAGTATGAATCTCTTACGACATTTTTTCAAAAACACCATTATACATATGCCCTATTATGGCGT
TCGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCAGCATTTGTATAAAAACACCACTAAAATA
CGAGTCTTTAGT
Found at i:7720730 original size:81 final size:82
Alignment explanation
Indices: 7720617--7720825 Score: 278
Period size: 81 Copynumber: 2.6 Consensus size: 82
7720607 CCTATTATGG
*
7720617 CGTTTGTATAAAAATGCCACTGAAGT-TCGAGTCTTTAGCGACGTTTGTATAAAAACACCACTAA
1 CGTTTGTATAAAAATGCCACTAAAGTAT-GAGTCTTTAGCGACGTTTGTATAAAAACACCACTAA
*
7720681 AGTACGAGTCTATAG-CA
65 AGTACGAGTCTATAGTAA
* * * *
7720698 CGTTTGTATAAAAATACCACTAAAGTATGAGTCTTTAGTGACATTTGTATACAAACACCACTAAA
1 CGTTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACACCACTAAA
* *
7720763 GTGCGAGTCTTTAGTAA
66 GTACGAGTCTATAGTAA
* * * * *
7720780 CGTTTATATAAAAGTGCCACTAAAATATGAGTATTTAGCGGCGTTT
1 CGTTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGACGTTT
7720826 TTGCTTAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
81 70 0.64
82 40 0.36
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (82 bp):
CGTTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACACCACTAAA
GTACGAGTCTATAGTAA
Found at i:7721033 original size:13 final size:13
Alignment explanation
Indices: 7721015--7721042 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7721005 TTAGTATAAC
7721015 TTTAAAAGTCACT
1 TTTAAAAGTCACT
7721028 TTTAAAAGTCACT
1 TTTAAAAGTCACT
7721041 TT
1 TT
7721043 AATTGTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
TTTAAAAGTCACT
Found at i:7721043 original size:12 final size:12
Alignment explanation
Indices: 7721013--7721044 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
7721003 GTTTAGTATA
7721013 ACTTTAAAAGTC
1 ACTTTAAAAGTC
7721025 ACTTTTAAAAGTC
1 AC-TTTAAAAGTC
7721038 ACTTTAA
1 ACTTTAA
7721045 TTGTTGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (12 bp):
ACTTTAAAAGTC
Found at i:7722386 original size:71 final size:71
Alignment explanation
Indices: 7722270--7722409 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 71
7722260 AAGGATTCAG
* * * * *
7722270 GTACATTGGAGCATGCCACACGTTGGGACAGTTTGGTGGAGCATTTGAAAGACATATACAGCTCA
1 GTACATTGGAGCATGACACACATTGGAACAGCTTGGTGGAGCATTTGAAAGACATATACAACTCA
7722335 CAAATA
66 CAAATA
* **
7722341 GTACATTGGAGCATGACACACATTGGAATAGCTTGGTGGAGCATTTGGGAGACATATACAACTCA
1 GTACATTGGAGCATGACACACATTGGAACAGCTTGGTGGAGCATTTGAAAGACATATACAACTCA
7722406 CAAA
66 CAAA
7722410 CAACTCTCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (71 bp):
GTACATTGGAGCATGACACACATTGGAACAGCTTGGTGGAGCATTTGAAAGACATATACAACTCA
CAAATA
Found at i:7724904 original size:71 final size:71
Alignment explanation
Indices: 7724788--7724929 Score: 196
Period size: 71 Copynumber: 2.0 Consensus size: 71
7724778 AAGGATTCAG
* * ** *
7724788 GTACATTGGAGCATGCCATACATTGTGACAGTTTGGTGGAACATTTGGAAGACATATACAGCTCA
1 GTACATTGGAGCATGACACACATTGTGACAACTTGGTGGAACATTTGGAAGACATATACAACTCA
7724853 CAAACA
66 CAAACA
* * *
7724859 GTACATTGGAGTATGACACACATTG-GAACAACTTGGTGGAGCATTTGGGAGACATATACAACTC
1 GTACATTGGAGCATGACACACATTGTG-ACAACTTGGTGGAACATTTGGAAGACATATACAACTC
7724923 ACAAACA
65 ACAAACA
7724930 ACTCTCAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.02
71 61 0.98
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (71 bp):
GTACATTGGAGCATGACACACATTGTGACAACTTGGTGGAACATTTGGAAGACATATACAACTCA
CAAACA
Found at i:7730434 original size:21 final size:20
Alignment explanation
Indices: 7730402--7730447 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
7730392 ACAAGCTAAT
*
7730402 TAAAGATGTGACATGA-ATG
1 TAAATATGTGACATGATATG
7730421 ATAAATATGCTGACATGATATG
1 -TAAATATG-TGACATGATATG
7730443 TAAAT
1 TAAAT
7730448 GATATGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 13 0.57
22 3 0.13
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (20 bp):
TAAATATGTGACATGATATG
Found at i:7732335 original size:17 final size:17
Alignment explanation
Indices: 7732313--7732352 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7732303 ATACACCACA
* **
7732313 AAAATACATCATTCTCT
1 AAAATACACCATTAACT
7732330 AAAATACACCATTAACT
1 AAAATACACCATTAACT
7732347 AAAATA
1 AAAATA
7732353 TTCTTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATACACCATTAACT
Found at i:7735203 original size:17 final size:17
Alignment explanation
Indices: 7735181--7735215 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7735171 TACTACCTCA
7735181 ATCGTTTTATGTTCCAT
1 ATCGTTTTATGTTCCAT
7735198 ATCGTTTTATGTTCCAT
1 ATCGTTTTATGTTCCAT
7735215 A
1 A
7735216 CCAAGGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (17 bp):
ATCGTTTTATGTTCCAT
Found at i:7748091 original size:22 final size:22
Alignment explanation
Indices: 7748076--7748117 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7748066 ACTTAACATT
7748076 TAAA-AAAAT-AAAACTTAAAA
1 TAAATAAAATGAAAACTTAAAA
7748096 TAAATAAAATGAAAACTTAAAA
1 TAAATAAAATGAAAACTTAAAA
7748118 AGATAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAATAAAATGAAAACTTAAAA
Found at i:7748095 original size:15 final size:16
Alignment explanation
Indices: 7748075--7748104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7748065 TACTTAACAT
7748075 TTAAAA-AAATAAAAC
1 TTAAAATAAATAAAAC
7748090 TTAAAATAAATAAAA
1 TTAAAATAAATAAAA
7748105 TGAAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TTAAAATAAATAAAAC
Done.