Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 413 of 433
Found at i:127157781 original size:15 final size:15
Alignment explanation
Indices: 127157735--127157796 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
127157725 AAAAATATAT
127157735 TAAATAGA-AATATAA
1 TAAATAGATAA-ATAA
*
127157750 T-AATAGTAGAAAT-A
1 TAAATAG-ATAAATAA
127157764 TAAATAGATAAATAA
1 TAAATAGATAAATAA
*
127157779 TAATTAGATAAATAA
1 TAAATAGATAAATAA
127157794 TAA
1 TAA
127157797 TAGTATTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.29
15 27 0.66
16 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (15 bp):
TAAATAGATAAATAA
Found at i:127157791 original size:29 final size:28
Alignment explanation
Indices: 127157735--127157829 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 28
127157725 AAAAATATAT
*
127157735 TAAATAGA-AATATAATAATAGTAGAAATA
1 TAAATAGATAA-ATAATAATAG-ATAAATA
127157764 TAAATAGATAAATAATAATTAGATAAATA
1 TAAATAGATAAATAATAA-TAGATAAATA
*
127157793 -ATAATAGTATTAGAATAACAA-A-ATAAATA
1 TA-AATAG-A-TA-AATAATAATAGATAAATA
127157822 TAAATAGA
1 TAAATAGA
127157830 AACATAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
28 2 0.04
29 38 0.67
30 8 0.14
31 2 0.04
32 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.28
Consensus pattern (28 bp):
TAAATAGATAAATAATAATAGATAAATA
Found at i:127160132 original size:8 final size:9
Alignment explanation
Indices: 127160080--127160130 Score: 50
Period size: 9 Copynumber: 5.2 Consensus size: 9
127160070 CTTTTTACTC
127160080 TTTATATATT
1 TTTA-ATATT
127160090 TTT-ATAGTT
1 TTTAATA-TT
127160099 TTTAAATAAATT
1 TTT-AAT--ATT
127160111 TTTAATATT
1 TTTAATATT
127160120 TTTAATATT
1 TTTAATATT
127160129 TT
1 TT
127160131 AAAAGAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 19 0.53
10 3 0.08
11 5 0.14
12 5 0.14
13 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTAATATT
Found at i:127177518 original size:6 final size:6
Alignment explanation
Indices: 127177507--127177534 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
127177497 CATAAAGATC
127177507 AAATTT AAATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAAT
127177535 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:127182426 original size:22 final size:22
Alignment explanation
Indices: 127182398--127182442 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
127182388 TGAATCACTG
127182398 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
127182420 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
127182442 T
1 T
127182443 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:127187026 original size:22 final size:22
Alignment explanation
Indices: 127186998--127187042 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
127186988 AGGGGGAGTG
127186998 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
127187020 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
127187042 T
1 T
127187043 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:127194350 original size:24 final size:24
Alignment explanation
Indices: 127194296--127194352 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
127194286 TGATTTTCGA
*
127194296 TTTAAATTTTGATTTTTTTATTTT
1 TTTAAATTTTGATTTTGTTATTTT
*
127194320 TACTAAATTTT-ATTTTAGTTATTTT
1 T-TTAAATTTTGATTTT-GTTATTTT
127194345 TTTAAATT
1 TTTAAATT
127194353 AATGAGTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTAAATTTTGATTTTGTTATTTT
Found at i:127200142 original size:25 final size:25
Alignment explanation
Indices: 127200083--127200144 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
127200073 AATAAATATT
* * * *
127200083 TTAAATACATTTTTATTTTTTTGAA
1 TTAAATAAATTTTAATTTTTATAAA
127200108 TTAATTATAAATTTTAATTTTTATAAA
1 TTAA--ATAAATTTTAATTTTTATAAA
127200135 TTAAATAAAT
1 TTAAATAAAT
127200145 ATTATCGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.32
27 21 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAAATAAATTTTAATTTTTATAAA
Found at i:127200229 original size:17 final size:18
Alignment explanation
Indices: 127200202--127200247 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
127200192 GTTTTAAATC
127200202 TTAATTA-TAATTAATTA
1 TTAATTATTAATTAATTA
*
127200219 -TAATTTTTAATTAATTA
1 TTAATTATTAATTAATTA
127200236 TTAATTATTAAT
1 TTAATTATTAAT
127200248 CTTGAGTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTATTAATTAATTA
Found at i:127200672 original size:20 final size:21
Alignment explanation
Indices: 127200647--127200695 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
127200637 AAAATATTAG
127200647 TTAAAATTAATAAT-AGTATT
1 TTAAAATTAATAATAAGTATT
** **
127200667 TTAAAAAAAATTTTAAGTATT
1 TTAAAATTAATAATAAGTATT
127200688 TTAAAATT
1 TTAAAATT
127200696 TGTTAATATA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
TTAAAATTAATAATAAGTATT
Found at i:127200731 original size:28 final size:28
Alignment explanation
Indices: 127200700--127200777 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
127200690 AAAATTTGTT
127200700 AATATATTAAAAAGTTTTTAAAA-AATAA
1 AATAT-TTAAAAAGTTTTTAAAATAATAA
127200728 AATATTTAAATAA-TTTTGTAAAATTAATAA
1 AATATTTAAA-AAGTTTT-TAAAA-TAATAA
* *
127200758 AA-ATGTAAAAAGTATTTAAA
1 AATATTTAAAAAGTTTTTAAA
127200778 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
27 9 0.21
28 18 0.42
29 9 0.21
30 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
AATATTTAAAAAGTTTTTAAAATAATAA
Found at i:127200980 original size:14 final size:14
Alignment explanation
Indices: 127200937--127200983 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
127200927 TTATCATAAA
*
127200937 ATTTTTTGTAATTT
1 ATTTTTTATAATTT
*
127200951 -TATTTTTATAA-CT
1 AT-TTTTTATAATTT
127200964 ATTTTTTATAATTT
1 ATTTTTTATAATTT
127200978 ATTTTT
1 ATTTTT
127200984 CTTGTCTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
ATTTTTTATAATTT
Found at i:127201249 original size:22 final size:21
Alignment explanation
Indices: 127201195--127201249 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
127201185 AAAAATGGAT
* * *
127201195 TATTCATTTTTAAGGGTTTAA
1 TATTTATTTTTTAGGATTTAA
*
127201216 TATTTATATTTTAGGATTTAA
1 TATTTATTTTTTAGGATTTAA
*
127201237 TGATTTCTTTTTT
1 T-ATTTATTTTTT
127201250 GTTTTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.60
Consensus pattern (21 bp):
TATTTATTTTTTAGGATTTAA
Found at i:127205085 original size:18 final size:18
Alignment explanation
Indices: 127205062--127205098 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
127205052 AAGTTAGATG
127205062 TTTTTC-TTTTCTTCTCTT
1 TTTTTCGTTTTCTT-TCTT
127205080 TTTTTCGTTTTCTTTCTT
1 TTTTTCGTTTTCTTTCTT
127205098 T
1 T
127205099 CTTGTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCGTTTTCTTTCTT
Found at i:127211498 original size:129 final size:129
Alignment explanation
Indices: 127211266--127211560 Score: 385
Period size: 129 Copynumber: 2.3 Consensus size: 129
127211256 AAAAATCCAT
* * * * * * *
127211266 GTCAGAATGAGGTACACTTGGCATGCCATGTGCAACTGTTTGGTTATTTTATACATTTTATCAAA
1 GTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTCTAGTTATTCTATACATTTTATCAAA
* * * * * *
127211331 AAGCAACTTGGTAATTTTATTAAAAATCTCATTCATTTCTACTATTAAGAATTGGTCCTTGAAC
66 AAGAAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCATTGAAC
* * *
127211395 GTCAGAATGAGGTACACATGGCACGTCATGTGTAATTGTCTAGTTATTCTGTACATTTTATCAAA
1 GTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTCTAGTTATTCTATACATTTTATCAAA
* * * * *
127211460 AAGTAAAC-TGGCCACTCTATTAAAAGTTTCATTAATTTCTACTATTAAGAATTGGTCATTGTAT
66 AAG-AAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCATTGAAC
127211524 GTCAGAATGAGGTACACATGGCACGACATGTGTAACT
1 GTCAGAATGAGGTACACATGGCACGACATGTGTAACT
127211561 ATATGATTAT
Statistics
Matches: 143, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
129 140 0.98
130 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (129 bp):
GTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTCTAGTTATTCTATACATTTTATCAAA
AAGAAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCATTGAAC
Found at i:127213345 original size:17 final size:17
Alignment explanation
Indices: 127213323--127213357 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
127213313 AGTTTAATAG
127213323 TGTGTTTAATTAGATTT
1 TGTGTTTAATTAGATTT
127213340 TGTGTTTAATTAGATTT
1 TGTGTTTAATTAGATTT
127213357 T
1 T
127213358 TATTTACTGA
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:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TGTGTTTAATTAGATTT
Found at i:127213559 original size:16 final size:14
Alignment explanation
Indices: 127213527--127213565 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
127213517 GATTTTTGTT
127213527 TTAA-TTATATATA
1 TTAATTTATATATA
127213540 TTAATTTATAGTATTA
1 TTAATTTATA-TA-TA
127213556 TTAATTTATA
1 TTAATTTATA
127213566 ACTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 5 0.22
15 2 0.09
16 12 0.52
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTAATTTATATATA
Found at i:127214454 original size:22 final size:23
Alignment explanation
Indices: 127214412--127214454 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
127214402 TTTTTGAGTA
*
127214412 GGGTTTATGTTGAATGGAATTGG
1 GGGTTTATGTTGAATGAAATTGG
127214435 GGGTTTAT-TTG-ATAGAAATT
1 GGGTTTATGTTGAAT-GAAATT
127214455 TTGATTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 8 0.44
23 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.42
Consensus pattern (23 bp):
GGGTTTATGTTGAATGAAATTGG
Found at i:127215350 original size:12 final size:13
Alignment explanation
Indices: 127215333--127215373 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
127215323 GTGTGTTGAA
127215333 TACTGTTACTG-T
1 TACTGTTACTGAT
*
127215345 TACTGTTACTGCT
1 TACTGTTACTGAT
*
127215358 T-CCGTTACTGAT
1 TACTGTTACTGAT
127215370 TACT
1 TACT
127215374 ATTTAGGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (13 bp):
TACTGTTACTGAT
Found at i:127217808 original size:19 final size:20
Alignment explanation
Indices: 127217770--127217808 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
127217760 GGAAATTAAA
*
127217770 AATAGAAATGTCTAAAGTCTC
1 AATAGAAATATC-AAAGTCTC
127217791 AATAGAAATATC-AAGTCT
1 AATAGAAATATCAAAGTCT
127217809 ATTGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (20 bp):
AATAGAAATATCAAAGTCTC
Found at i:127221953 original size:45 final size:46
Alignment explanation
Indices: 127221858--127221963 Score: 139
Period size: 45 Copynumber: 2.3 Consensus size: 46
127221848 AATCAATAAC
*
127221858 GGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
1 GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
* *
127221904 -GTAACAGTAA-AGGTAACAGTATTCGACACACAAAGTG-TCGAAT-T
1 GGTAACAGTAACA-GTAACAGTATTCAACACACAAAGTGCT-AAATCT
127221948 GGTAACAGTAACAGTA
1 GGTAACAGTAACAGTA
127221964 GTCGGCACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
44 3 0.06
45 49 0.92
46 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (46 bp):
GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
Found at i:127222209 original size:40 final size:40
Alignment explanation
Indices: 127222163--127222249 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
127222153 AATTCATCAC
* * * *
127222163 TTCAGTAATTTCATAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* **
127222203 TTCAGTAACTTCACAATTCAATTCAGTATTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
127222243 TTCAGTA
1 TTCAGTA
127222250 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:127226516 original size:16 final size:17
Alignment explanation
Indices: 127226495--127226533 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
127226485 CTTATTTAAG
127226495 TTATAAATTAATA-ATA
1 TTATAAATTAATATATA
127226511 TTATAAATTAATATATA
1 TTATAAATTAATATATA
127226528 TATATA
1 T-TATA
127226534 TATATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 4 0.19
18 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATAAATTAATATATA
Found at i:127227933 original size:24 final size:24
Alignment explanation
Indices: 127227898--127227953 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
127227888 TCTTTCAGTT
* * *
127227898 AAACTCTATTTATTTGTTTGAATC
1 AAACTCTGTTTATTTATTTCAATC
127227922 AAACTCTGTTTATTTATTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
127227946 AAACTCTG
1 AAACTCTG
127227954 ATTAGTTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.46
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:127229180 original size:20 final size:20
Alignment explanation
Indices: 127229157--127229199 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
127229147 CCGGAGCTTC
*
127229157 CCCCCTCCCCTCTCTTCTTT
1 CCCCCTCCCCTCTCTTCTCT
* * *
127229177 CCCCGTTCCCTCTTTTCTCT
1 CCCCCTCCCCTCTCTTCTCT
127229197 CCC
1 CCC
127229200 TCCTTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (20 bp):
CCCCCTCCCCTCTCTTCTCT
Found at i:127229859 original size:18 final size:18
Alignment explanation
Indices: 127229832--127229869 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
127229822 CATATTTCAA
*
127229832 TACTATTATT-ATACTTAT
1 TACTAATATTGATAC-TAT
127229850 TACTAATATTGATACTAT
1 TACTAATATTGATACTAT
127229868 TA
1 TA
127229870 TATGTATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (18 bp):
TACTAATATTGATACTAT
Found at i:127231916 original size:22 final size:23
Alignment explanation
Indices: 127231889--127231942 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
127231879 TAAGCCTATC
127231889 TATATTTTTTTTAAAAT-ATATT
1 TATATTTTTTTTAAAATAATATT
* **
127231911 TATATTATTTTTAATTTAATATT
1 TATATTTTTTTTAAAATAATATT
127231934 TA-ATTTTTT
1 TATATTTTTT
127231943 ATTTATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATATTTTTTTTAAAATAATATT
Found at i:127239431 original size:4 final size:4
Alignment explanation
Indices: 127239418--127239447 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
127239408 TACTCAAATA
127239418 AATT AA-T AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
127239448 AAGAACCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:127245946 original size:13 final size:13
Alignment explanation
Indices: 127245928--127245961 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
127245918 AACATAATTG
127245928 GAATTTGACAGAA
1 GAATTTGACAGAA
127245941 GAATTTGACAGAA
1 GAATTTGACAGAA
127245954 GAATTTGA
1 GAATTTGA
127245962 TTAGTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (13 bp):
GAATTTGACAGAA
Found at i:127247520 original size:191 final size:192
Alignment explanation
Indices: 127247195--127247579 Score: 718
Period size: 191 Copynumber: 2.0 Consensus size: 192
127247185 AATGTTTAAG
127247195 CTTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTCTTCGAGCCTAA
1 CTTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTCTTCGAGCCTAA
* * *
127247260 TGTTTTTACCTAAATTCTCCTAAATTTTGGGTGAGTCTTTGAGTCTGGGTGGATAATCTAACCCA
66 TATTTTTACCTAAATTCTCCTAAATTTTGAGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCA
127247325 TTAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTC
131 TTAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTC
127247387 CTTAAGCTCGACTCATATTTTAAAAGGGTCT-AAATTTTTGTCCAATTTCATTCTTCGAGCCTAA
1 CTTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTCTTCGAGCCTAA
* *
127247451 TATTTTTACCTAAATTCTCCTAAATTTTGAGTGGGTCTTCGGGTCTGGGTGGATAATCTAACCCA
66 TATTTTTACCTAAATTCTCCTAAATTTTGAGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCA
127247516 TTAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTC
131 TTAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTC
127247578 CT
1 CT
127247580 ATACTAACAA
Statistics
Matches: 188, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
191 157 0.84
192 31 0.16
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (192 bp):
CTTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTCTTCGAGCCTAA
TATTTTTACCTAAATTCTCCTAAATTTTGAGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCA
TTAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTC
Found at i:127247995 original size:29 final size:29
Alignment explanation
Indices: 127247934--127248000 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
127247924 ATTAGACAAA
*
127247934 CTAAACAAAATTAAAAATTCTATAAATAT
1 CTAAACAAAATTAAAAAATCTATAAATAT
127247963 -TAAACAAAATTAAAAAATCTATAAATAT
1 CTAAACAAAATTAAAAAATCTATAAATAT
127247991 CTAAATCAAA
1 CTAAA-CAAA
127248001 TAGGTTAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 27 0.77
29 4 0.11
30 4 0.11
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.28
Consensus pattern (29 bp):
CTAAACAAAATTAAAAAATCTATAAATAT
Found at i:127248486 original size:14 final size:14
Alignment explanation
Indices: 127248467--127248505 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
127248457 AAGGTGATTG
127248467 TAGAGAAATGGCTA
1 TAGAGAAATGGCTA
127248481 TAGAGAAATGGCTA
1 TAGAGAAATGGCTA
*
127248495 TAGAGATATGG
1 TAGAGAAATGG
127248506 GTGTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.23
Consensus pattern (14 bp):
TAGAGAAATGGCTA
Found at i:127255047 original size:40 final size:41
Alignment explanation
Indices: 127254995--127255086 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 41
127254985 TGAAAAATAT
127254995 TTATATTAAAAAACACTAC-TATAAATATAATAAATA-TTTTA
1 TTATATTAAAAAA-A-TACATATAAATATAATAAATATTTTTA
127255036 TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
1 TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
*
127255077 TTTTATTAAA
1 TTATATTAAA
127255087 TATAATTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
39 3 0.06
40 18 0.38
41 27 0.56
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (41 bp):
TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
Found at i:127255245 original size:28 final size:27
Alignment explanation
Indices: 127255193--127255252 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
127255183 TTAATATAAG
127255193 TATAAATATATAATCATTATTTAACATA
1 TATAAATATATAAT-ATTATTTAACATA
*
127255221 TATAAATAATATAAT-TTTTTATAACATA
1 TATAAAT-ATATAATATTATT-TAACATA
127255249 -ATAA
1 TATAA
127255253 TATTTGGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.28
28 14 0.48
29 7 0.24
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (27 bp):
TATAAATATATAATATTATTTAACATA
Found at i:127255500 original size:30 final size:29
Alignment explanation
Indices: 127255466--127255530 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
127255456 ATTGATTTTA
* *
127255466 TTTTATTCAAACTGTTTTGTTTCTCTAATT
1 TTTTATTCAAAATATTTTGTTTCTC-AATT
* * *
127255496 TTTTATTTAAAATATTTTTTTTTTCAATT
1 TTTTATTCAAAATATTTTGTTTCTCAATT
127255525 TTTTAT
1 TTTTAT
127255531 CTAAACAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTATTCAAAATATTTTGTTTCTCAATT
Found at i:127258370 original size:63 final size:64
Alignment explanation
Indices: 127258251--127258373 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 64
127258241 CAGCTACAAG
* * * * **
127258251 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTGTTGGAGACACCTTGACTAATGCCAGA
1 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCCACTAATGCCAGA
* * * *
127258315 TTATTCCA-CTATAGTTGATTTTGAAGATTTTATTTTATTATACATACATCCACTAATGC
1 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCCACTAATGC
127258374 AAACCTATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
63 41 0.84
64 8 0.16
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (64 bp):
TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCCACTAATGCCAGA
Found at i:127259418 original size:26 final size:24
Alignment explanation
Indices: 127259391--127259438 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
127259381 TAAATCAAAT
*
127259391 TTTTTCTCCCAATTAAACTCTGATA
1 TTTTT-TCCCAATCAAACTCTGATA
*
127259416 TTTTTTCCCAGTCAAACTCTGAT
1 TTTTTTCCCAATCAAACTCTGAT
127259439 TACTTTAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTTTTCCCAATCAAACTCTGATA
Found at i:127260182 original size:26 final size:26
Alignment explanation
Indices: 127260152--127260287 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
127260142 TGATACAAAT
*
127260152 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127260178 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127260204 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127260230 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127260256 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127260282 TGATAA
1 TGATAA
127260288 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127264362 original size:22 final size:22
Alignment explanation
Indices: 127264337--127264406 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
127264327 CTATATCAAT
127264337 AATTATATTAATAATTTATAAA
1 AATTATATTAATAATTTATAAA
*
127264359 AATTAAATTAAATTAATATTA-AAA
1 AATTATATT-AA-TAAT-TTATAAA
*
127264383 AA--ATATCAA-AATTTATATAA
1 AATTATATTAATAATTTATA-AA
127264403 AATT
1 AATT
127264407 CAAATGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 4 0.11
21 2 0.05
22 11 0.29
23 2 0.05
24 9 0.24
25 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTATATTAATAATTTATAAA
Found at i:127266257 original size:29 final size:28
Alignment explanation
Indices: 127266224--127266295 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
127266214 TTGAGTTTTC
127266224 TTTGTTAAATTTTGCTA-TTAGCTTTGTAT
1 TTTGTTAAATTTTG-TATTTAG-TTTGTAT
* *
127266253 TTTGTGAAAGTTTTGTATTTAGTTTTTAT
1 TTTGTTAAA-TTTTGTATTTAGTTTGTAT
*
127266282 TTTTTTAAATTTTG
1 TTTGTTAAATTTTG
127266296 AAATTTTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.14
29 23 0.62
30 9 0.24
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (28 bp):
TTTGTTAAATTTTGTATTTAGTTTGTAT
Found at i:127267732 original size:48 final size:50
Alignment explanation
Indices: 127267675--127267777 Score: 174
Period size: 48 Copynumber: 2.1 Consensus size: 50
127267665 TGATACAAAT
127267675 TGATAATGGGTTAGGTAAATGTTCCATG-AATGGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGAAATGGTTAGGTAAATGTTCCA
*
127267723 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGA-AATGGTTAGGTAAATGTTCCA
127267774 TGAT
1 TGAT
127267778 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
48 28 0.55
50 15 0.29
51 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (50 bp):
TGATAATGGGTTAGGTAAATGTTCCATGAAATGGTTAGGTAAATGTTCCA
Found at i:127267740 original size:25 final size:25
Alignment explanation
Indices: 127267675--127267777 Score: 158
Period size: 25 Copynumber: 4.2 Consensus size: 25
127267665 TGATACAAAT
127267675 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
127267701 TG--AATGGTTAGGTAAAT-TTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
127267723 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
127267749 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
127267774 TGAT
1 TGAT
127267778 GGGAATTTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
22 7 0.10
23 12 0.17
24 6 0.08
25 33 0.46
26 14 0.19
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:127274817 original size:26 final size:26
Alignment explanation
Indices: 127274788--127274860 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
127274778 TGATACAAAT
127274788 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
127274814 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127274840 TGATAATGGGTTAGGTAAATG
1 TGATAATGGGTTAGGTAAATG
127274861 ATAATGGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127274863 original size:19 final size:19
Alignment explanation
Indices: 127274839--127274879 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
127274829 TAAATATTCC
127274839 ATGATAATGGGTTAGGTAA
1 ATGATAATGGGTTAGGTAA
*
127274858 ATGATAATGGTTTAGGTAA
1 ATGATAATGGGTTAGGTAA
127274877 ATG
1 ATG
127274880 TTCATGATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (19 bp):
ATGATAATGGGTTAGGTAA
Found at i:127276879 original size:137 final size:134
Alignment explanation
Indices: 127276607--127276890 Score: 460
Period size: 137 Copynumber: 2.1 Consensus size: 134
127276597 TGAGCTATTC
* *
127276607 CCCACATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTGAAATGGCCTATGGGCCGTACTG
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTGAAATGGCCTATGGGCCATACTG
127276672 TTATCTGAATAAGGGACTAAGGCCCAGTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TTATCTGAATAAGGGACTAAGGCCCAGTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
127276737 GTTA
131 GTTA
* *
127276741 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTA-TTTGAAAT-GGCCTATGGGCCATAC
* * *
127276806 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCTAGTACC
64 TGTTATCTGAATAAGGGACTAAGGCCCAG-TTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
127276871 ACTGTTA
128 ACTGTTA
**
127276878 CCTGAATGGGCTT
1 CCCAAATGGGCTT
127276891 AGGCCCAATG
Statistics
Matches: 138, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
134 37 0.27
135 8 0.06
136 42 0.30
137 51 0.37
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (134 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTGAAATGGCCTATGGGCCATACTG
TTATCTGAATAAGGGACTAAGGCCCAGTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTA
Found at i:127278897 original size:22 final size:24
Alignment explanation
Indices: 127278815--127278897 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 24
127278805 TAGTATTAGA
127278815 AATAATATAGTATAAAGATATATA-ACT
1 AATAATATA-TAT-AA-ATATATACA-T
*
127278842 GATAATAT-TA-AAATATATACAT
1 AATAATATATATAAATATATACAT
* *
127278864 AATATTATATATAAAT-TATTCAT
1 AATAATATATATAAATATATACAT
127278887 -ATAATATATAT
1 AATAATATATAT
127278898 TAAAAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 24 0.50
23 11 0.23
24 4 0.08
25 2 0.04
27 7 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AATAATATATATAAATATATACAT
Found at i:127279222 original size:3 final size:3
Alignment explanation
Indices: 127279214--127279297 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
127279204 ACTAATGTAC
127279214 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
127279262 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
127279298 TTGAAATACA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.03
3 78 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:127279752 original size:11 final size:12
Alignment explanation
Indices: 127279738--127279773 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
127279728 AAGAAAAAAA
127279738 GAAGAGAG-AGG
1 GAAGAGAGAAGG
127279749 GAAGAGAGAAGG
1 GAAGAGAGAAGG
127279761 G-AGAGAGAAGG
1 GAAGAGAGAAGG
127279772 GA
1 GA
127279774 GCGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:127279799 original size:37 final size:37
Alignment explanation
Indices: 127279758--127279828 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
127279748 GGAAGAGAGA
127279758 AGGGAGAGAGAAGGGAGCGGGGAAGGGGAATCCGGCC
1 AGGGAGAGAGAAGGGAGCGGGGAAGGGGAATCCGGCC
127279795 AGGGAGAGAGAAGGGAGCGGGGAAGGGGAATCCG
1 AGGGAGAGAGAAGGGAGCGGGGAAGGGGAATCCG
127279829 ACCGACCGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.55, T:0.03
Consensus pattern (37 bp):
AGGGAGAGAGAAGGGAGCGGGGAAGGGGAATCCGGCC
Found at i:127280000 original size:17 final size:17
Alignment explanation
Indices: 127279980--127280018 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
127279970 AAATAAAATA
*
127279980 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
127279997 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
127280014 AAAAT
1 AAAAT
127280019 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:127288960 original size:24 final size:24
Alignment explanation
Indices: 127288933--127288981 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
127288923 AAGAACAAAA
127288933 AAAAAGGAGACCAAAAGAGAGCGT
1 AAAAAGGAGACCAAAAGAGAGCGT
127288957 AAAAAGGAGACCAAAAGAGAGCGT
1 AAAAAGGAGACCAAAAGAGAGCGT
127288981 A
1 A
127288982 TTTTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.29, T:0.04
Consensus pattern (24 bp):
AAAAAGGAGACCAAAAGAGAGCGT
Found at i:127292660 original size:27 final size:28
Alignment explanation
Indices: 127292629--127292682 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
127292619 GGCTACCAAA
*
127292629 ACAGATAAT-GTGACAGAGTCACCAGAT
1 ACAGATAATCGTGACAGAGCCACCAGAT
*
127292656 ACAGATAATCGTGGCAGAGCCACCAGA
1 ACAGATAATCGTGACAGAGCCACCAGA
127292683 ACCACCAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (28 bp):
ACAGATAATCGTGACAGAGCCACCAGAT
Found at i:127292706 original size:36 final size:37
Alignment explanation
Indices: 127292648--127292720 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
127292638 GTGACAGAGT
127292648 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
* * *
127292685 CACCAGAT-CAGATATTTGTGGCATAGCCACCAGAAC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
127292721 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.15
Consensus pattern (37 bp):
CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
Found at i:127294372 original size:26 final size:26
Alignment explanation
Indices: 127294336--127294469 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
127294326 CATGAAATTC
*
127294336 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
127294362 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
127294388 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
127294414 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
127294440 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
127294466 TTAT
1 TTAT
127294470 AAATTTGTAT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:127297935 original size:46 final size:44
Alignment explanation
Indices: 127297876--127297990 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
127297866 ACAGGACAGA
* *
127297876 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
127297922 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
127297966 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
127297991 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:127297971 original size:44 final size:45
Alignment explanation
Indices: 127297876--127298009 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
127297866 ACAGGACAGA
* *
127297876 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
127297922 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
127297966 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
127298010 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:127304057 original size:46 final size:44
Alignment explanation
Indices: 127303998--127304112 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
127303988 ACAGGACAGA
* *
127303998 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
127304044 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
127304088 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
127304113 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:127304093 original size:44 final size:45
Alignment explanation
Indices: 127303998--127304131 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
127303988 ACAGGACAGA
* *
127303998 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
127304044 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
127304088 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
127304132 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:127310056 original size:19 final size:19
Alignment explanation
Indices: 127310036--127310077 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
127310026 TTGTTTTGCA
*
127310036 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
127310056 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
127310075 TTC
1 TTC
127310078 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:127318271 original size:86 final size:85
Alignment explanation
Indices: 127318123--127318428 Score: 407
Period size: 86 Copynumber: 3.6 Consensus size: 85
127318113 AGAATGGTGT
* *
127318123 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
127318188 TATCTCCCTAAGCAGTAGTGG-
65 TATCTCCCTAAGCAGTAG-GGA
*
127318209 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
1 AACAGATCGAAGACGAAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
127318274 TATCTCCCTAAGCAGTAGGGA
65 TATCTCCCTAAGCAGTAGGGA
* ** * * *
127318295 AACAGATCGAAGACAAAGGGCTTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
1 AACAGATCGAAGACGAAGACCTTAA-ACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATC
* *
127318360 TTAACCCCCTAAGCAGTAGGGA
64 TTATCTCCCTAAGCAGTAGGGA
* * ** * *
127318382 AACAGATCGAAGATGATGGGCTTTAACCCCTAAGTAGTAGGGTAACA
1 AACAGATCGAAGACGAAGACCTTAAACCCCTAAGCAGTAGGGTAACA
127318429 AGCTAAATTT
Statistics
Matches: 199, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
85 7 0.04
86 142 0.71
87 50 0.25
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (85 bp):
AACAGATCGAAGACGAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTT
ATCTCCCTAAGCAGTAGGGA
Found at i:127318386 original size:43 final size:42
Alignment explanation
Indices: 127318151--127318530 Score: 216
Period size: 43 Copynumber: 8.8 Consensus size: 42
127318141 AACCTTAAAT
* * * * * *
127318151 CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGAGCTTAACC
* * * ** * *
127318193 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAAC
1 CCCTAAGCAGTAG-GGTAACAG-GCTAA-ATTACAG-AGCTTAACC
* * * * *
127318237 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGAGCTTAACC
* * * * * *
127318279 CCCTAAGCAGTAGGGAAACAGATCGAAGA-CAAAGGGCTTAACCC
1 CCCTAAGCAGTAGGGTAACAG-GCTAA-ATTACAGAGCTTAA-CC
*
127318323 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGAGCTTAACC
* * * * * *
127318366 CCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGGCTTTAA-C
1 CCCTAAGCAGTAGGGTAACAG-GCTAA-ATTACAGAGC-TTAACC
* *
127318409 CCCTAAGTAGTAGGGTAACAAGCTAAATTTAC-GAGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGAGC-TTAACC
* *
127318452 CCCTAAGCAGTAGGGTAACAAGCTAAATTTAC-GAGCCTTAACT
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGAG-CTTAACC
* * *
127318495 CCCTAAGCCGTAGGGTAATAGGTTGAAAATTACAGA
1 CCCTAAGCAGTAGGGTAACAGGCT--AAATTACAGA
127318531 TCTTGCCTCC
Statistics
Matches: 256, Mismatches: 61, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 58 0.23
43 124 0.48
44 67 0.26
45 6 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGAGCTTAACC
Found at i:127318450 original size:86 final size:86
Alignment explanation
Indices: 127318123--127318471 Score: 393
Period size: 86 Copynumber: 4.0 Consensus size: 86
127318113 AGAATGGTGT
** * * * * *
127318123 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
1 AACAGATCGAAGACGAAG-GGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
* *
127318187 TTATCTCCCTAAGCAGTAGTGG-
65 TTAACCCCCTAAGCAGTAG-GGA
* ** * * *
127318209 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATC
1 AACAGATCGAAGACGAAG-GGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
* *
127318273 TTATCTCCCTAAGCAGTAGGGA
65 TTAACCCCCTAAGCAGTAGGGA
*
127318295 AACAGATCGAAGACAAAGGGC-TTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 AACAGATCGAAGACGAAGGGCTTTAA--CCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
127318359 CTTAACCCCCTAAGCAGTAGGGA
64 CTTAACCCCCTAAGCAGTAGGGA
* * * * *
127318382 AACAGATCGAAGATGATGGGCTTTAACCCCTAAGTAGTAGGGTAACAAGCTAAATTTAC-GAGCT
1 AACAGATCGAAGACGAAGGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC-
*
127318446 TTAACCCCCTAAGCAGTAGGGT
65 TTAACCCCCTAAGCAGTAGGGA
127318468 AACA
1 AACA
127318472 AGCTAAATTT
Statistics
Matches: 238, Mismatches: 19, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
84 3 0.01
85 6 0.03
86 178 0.75
87 47 0.20
88 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
AACAGATCGAAGACGAAGGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCT
TAACCCCCTAAGCAGTAGGGA
Found at i:127318499 original size:86 final size:86
Alignment explanation
Indices: 127318123--127318512 Score: 326
Period size: 86 Copynumber: 4.5 Consensus size: 86
127318113 AGAATGGTGT
* * * * * * * * *
127318123 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
1 AACAGAGCGAAGATGACGAGCCTT-AACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATC
* *
127318187 TTATCTCCCTAAGCAGTAGTGG-
65 TTAACCCCCTAAGCAGTAG-GGA
* * * * * * * *
127318209 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATC
1 AACAGAGCGAAGATGACGAGCCTT-AACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATC
* *
127318273 TTATCTCCCTAAGCAGTAGGGA
65 TTAACCCCCTAAGCAGTAGGGA
* ** * * *
127318295 AACAGATCGAAGACAAAG-GGCTTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 AACAGAGCGAAGATGACGAGCCTTAA--CCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGAT
127318359 CTTAACCCCCTAAGCAGTAGGGA
64 CTTAACCCCCTAAGCAGTAGGGA
* * * * * *
127318382 AACAGATCGAAGATGATGGGCTTTAACCCCTAAGTAGTAGGGTAACAAGCTAAATTTAC-GAGCT
1 AACAGAGCGAAGATGACGAGCCTTAACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATC-
*
127318446 TTAACCCCCTAAGCAGTAGGGT
65 TTAACCCCCTAAGCAGTAGGGA
* * *
127318468 AACA-AGCTAA-ATTTACGAGCCTTAACTCCCTAAGCCGTAGGGTAA
1 AACAGAGCGAAGA-TGACGAGCCTTAAC-CCCTAAGCAGTAGGGTAA
127318513 TAGGTTGAAA
Statistics
Matches: 268, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
84 3 0.01
85 22 0.08
86 194 0.72
87 44 0.16
88 5 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (86 bp):
AACAGAGCGAAGATGACGAGCCTTAACCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATCT
TAACCCCCTAAGCAGTAGGGA
Found at i:127318725 original size:134 final size:134
Alignment explanation
Indices: 127318485--127318830 Score: 586
Period size: 134 Copynumber: 2.6 Consensus size: 134
127318475 TAAATTTACG
* *
127318485 AGCCTTAACTCCC-TAAGCCGTAGGGTAATAGGTTGAAAATTACAGATCTTGCCTCCCTGAAGTT
1 AGCCTTAAC-CCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTT
* * *
127318549 GCAGTGGAGCAGATCAGAGACGACGAATCTCGCTTTTCTGAAGTAGCAGTGAAGCAGATTCAAGC
65 GCAGTGGAGCAGATCAGAGACGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGC
127318614 CACCA
130 CACCA
127318619 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
1 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
* *
127318684 CAGTGGAGCAGATCAGAGATGACGAATCTCACTTTCCTGAAGTTGCAGTGAAACAGATTCAAGCC
66 CAGTGGAGCAGATCAGAGACGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGCC
127318749 ACCA
131 ACCA
* * *
127318753 AGCCTTAACCCCTTAAGCAGAAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCTCTGGAGTTG
1 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
127318818 CAGTGGAGCAGAT
66 CAGTGGAGCAGAT
127318831 TGAATTAGCG
Statistics
Matches: 201, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 3 0.01
134 198 0.99
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (134 bp):
AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
CAGTGGAGCAGATCAGAGACGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGCC
ACCA
Found at i:127318899 original size:44 final size:46
Alignment explanation
Indices: 127318841--127318975 Score: 150
Period size: 51 Copynumber: 2.9 Consensus size: 46
127318831 TGAATTAGCG
* *
127318841 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC-T-ATA
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATCACA
* *
127318885 AATCCTATAC-CTCTGAAGTTGCAGTAGGGTCAGATCAAATCTGCCATCACA
1 AATCCTAT-CTCTCTGAAGTTGCAGTAGAG-CAGATTAAA---G-CATCACA
*
127318936 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
127318976 CATTACCATC
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
44 25 0.33
45 9 0.12
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 10 0.13
51 27 0.36
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (46 bp):
AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATCACA
Found at i:127322927 original size:25 final size:25
Alignment explanation
Indices: 127322899--127322954 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
127322889 TAATATAAAT
* *
127322899 TATTTGAAATATAATATATTTGTAA
1 TATTTGAAATATAATACATTTATAA
*
127322924 TATTTTG-AATATATTACATTTATAA
1 TA-TTTGAAATATAATACATTTATAA
127322949 -ATTTGA
1 TATTTGA
127322955 CAGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.15
24 1 0.04
25 17 0.65
26 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (25 bp):
TATTTGAAATATAATACATTTATAA
Found at i:127329051 original size:107 final size:105
Alignment explanation
Indices: 127328817--127329054 Score: 275
Period size: 105 Copynumber: 2.2 Consensus size: 105
127328807 CTTACTCTTG
* * ** *
127328817 AGCAATAACATGAAGAATTATAATGCCTTGGTCATGTTGTCAGCATCGAGTAAGCAGCAATAAGT
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTCAGCATCGAGTAAGCAAAAATAAGC
* *
127328882 ATGCAATGTAATGTATCCCTTCCTAGGCGATCTACGAGTA
66 ATGCAATGTAATGTACCCCTGCCTAGGCGATCTACGAGTA
* * * *
127328922 AGCAGTAACGTGAAGAAATATAATGTCTTGGTCATGCTGTCTA-CATTGAGTAAGCAAAAATAAG
1 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTC-AGCATCGAGTAAGCAAAAATAAG
* * * *
127328986 CATGCAAACCT-TGATGTACCCCTGGCTAGGTGATGC-ATGAGTA
65 CATGC-AA--TGTAATGTACCCCTGCCTAGGCGAT-CTACGAGTA
127329029 AGCAATAACATGAAGAAATATAATGC
1 AGCAATAACATGAAGAAATATAATGC
127329055 ATTTGTCGTG
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
105 58 0.53
106 3 0.03
107 47 0.43
108 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (105 bp):
AGCAATAACATGAAGAAATATAATGCCTTGGTCATGCTGTCAGCATCGAGTAAGCAAAAATAAGC
ATGCAATGTAATGTACCCCTGCCTAGGCGATCTACGAGTA
Found at i:127329072 original size:107 final size:104
Alignment explanation
Indices: 127328817--127329191 Score: 301
Period size: 107 Copynumber: 3.5 Consensus size: 104
127328807 CTTACTCTTG
* **
127328817 AGCAATAACATGAAGAATTATAATGCCTTGGTCATGTTGTC-AGCATCGAGTAAGCAGCAATAAG
1 AGCAATAACATGAAGAAATATAATG-CTTGGTCATGTTGTCTA-CATCGAGTAAGCAAAAATAAG
* * *
127328881 TATGCAATGTAATGTATCCCTTCCTAGGCGATCTACGAGTA
64 CATGCAATGTAATGTACCCCTGCCTAGGCGATCTACGAGTA
* * * *
127328922 AGCAGTAACGTGAAGAAATATAATGTCTTGGTCATGCTGTCTACATTGAGTAAGCAAAAATAAGC
1 AGCAATAACATGAAGAAATATAATG-CTTGGTCATGTTGTCTACATCGAGTAAGCAAAAATAAGC
* * * *
127328987 ATGCAAACCT-TGATGTACCCCTGGCTAGGTGATGC-ATGAGTA
65 ATGC-AA--TGTAATGTACCCCTGCCTAGGCGAT-CTACGAGTA
* * * * * *
127329029 AGCAATAACATGAAGAAATATAATGCATTTGTCGTGTTATCTACATCAAGTAAG-AAGTAATGAG
1 AGCAATAACATGAAGAAATATAATGC-TTGGTCATGTTGTCTACATCGAGTAAGCAA-AAATAAG
* * ** * * * * *
127329093 TATAGGAAACTGACGAACCCCTTCCTAGGCGATGC-ACAAGTA
64 CAT-GCAATGTAATGTACCCCTGCCTAGGCGAT-CTACGAGTA
* * * * *
127329135 AGCAATGACATAAAGAAATATAATGCTTTGGTCATGTTGTCCACATCAAGTAGGCAA
1 AGCAATAACATGAAGAAATATAATGC-TTGGTCATGTTGTCTACATCGAGTAAGCAA
127329192 TAATGGGTAT
Statistics
Matches: 217, Mismatches: 43, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
105 58 0.27
106 77 0.35
107 79 0.36
108 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (104 bp):
AGCAATAACATGAAGAAATATAATGCTTGGTCATGTTGTCTACATCGAGTAAGCAAAAATAAGCA
TGCAATGTAATGTACCCCTGCCTAGGCGATCTACGAGTA
Found at i:127329151 original size:106 final size:106
Alignment explanation
Indices: 127328817--127329232 Score: 317
Period size: 106 Copynumber: 3.9 Consensus size: 106
127328807 CTTACTCTTG
* * * * * ** *
127328817 AGCAATAACATGAAGAATTATAATGCCTTGGTCATGTTGT-CAGCATCGAGTAAGCAGCAATAAG
1 AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCA-CATCAAGTAAGCAATAATGAG
** * * * * *
127328881 TATGC-AATGTAATGTATCCCTTCCTAGGCGAT-CTACGAGTA
65 TATGCGAAACTGACGAACCCCTTCCTAGGCGATGC-ACAAGTA
* * * * * * ** * *
127328922 AGCAGTAACGTGAAGAAATATAATG-TCTTGGTCATGCTGTCTACATTGAGTAAGCAAAAATAAG
1 AGCAATAACATAAAGAAATATAATGCT-TTGGTCATGTTATCCACATCAAGTAAGCAATAATGAG
* * * ** * **
127328986 CATGC-AAACCTTGATGTACCCCTGGCTAGGTGATGCATGAGTA
65 TATGCGAAA-C-TGACGAACCCCTTCCTAGGCGATGCACAAGTA
* * *
127329029 AGCAATAACATGAAGAAATATAATGCATTT-GTCGTGTTATCTACATCAAGTAAG-AAGTAATGA
1 AGCAATAACATAAAGAAATATAATGC-TTTGGTCATGTTATCCACATCAAGTAAGCAA-TAATGA
127329092 GTATAG-GAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
64 GTAT-GCGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
* * * *
127329135 AGCAATGACATAAAGAAATATAATGCTTTGGTCATGTTGTCCACATCAAGTAGGCAATAATGGGT
1 AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCACATCAAGTAAGCAATAATGAGT
* * *
127329200 ATGCGAACCTGATGTACCCCTTCCTAGGCGATG
66 ATGCGAAACTGACGAACCCCTTCCTAGGCGATG
127329233 AACAGGAACA
Statistics
Matches: 253, Mismatches: 45, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
105 62 0.25
106 107 0.42
107 76 0.30
108 7 0.03
109 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (106 bp):
AGCAATAACATAAAGAAATATAATGCTTTGGTCATGTTATCCACATCAAGTAAGCAATAATGAGT
ATGCGAAACTGACGAACCCCTTCCTAGGCGATGCACAAGTA
Found at i:127333523 original size:31 final size:31
Alignment explanation
Indices: 127333481--127333547 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
127333471 AACTTACTAA
*
127333481 TAATTTAGTGACCAAGTGTGGAATTTACCCT
1 TAATTTAGTGACCAAGTGTGCAATTTACCCT
* *
127333512 TAATTTGGTGACCTAGTGTGCAATTTACCCT
1 TAATTTAGTGACCAAGTGTGCAATTTACCCT
127333543 TAATT
1 TAATT
127333548 AAATTCTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (31 bp):
TAATTTAGTGACCAAGTGTGCAATTTACCCT
Found at i:127340728 original size:16 final size:14
Alignment explanation
Indices: 127340693--127340723 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
127340683 TTTACTTTAT
*
127340693 AAAATATTCATATA
1 AAAAAATTCATATA
127340707 AAAAAATTCATATA
1 AAAAAATTCATATA
127340721 AAA
1 AAA
127340724 CAAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTCATATA
Found at i:127341047 original size:152 final size:157
Alignment explanation
Indices: 127340877--127341358 Score: 661
Period size: 152 Copynumber: 3.0 Consensus size: 157
127340867 AAGGAACCAT
127340877 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
1 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
*
127340942 AAAACATCAAAT-TAAAAAAAAAAGA-AGGAAACAGTAACCACGAACAAAACGAAAGAATCAAAA
66 AAAACATCAAATATAAAAAAAAAAGAGAGGAAACAGTAACCACGAACAAAACGAAAGATTCAAAA
127341005 TCCAGGAAACACAAACAAATGGATTAA
131 TCCAGGAAACACAAACAAATGGATTAA
*
127341032 -ATCA-T-AAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
1 CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
*
127341094 AAAACATCATATTATAAAAAAAAAAGGAAGAGGAAACAGTAACAACGAGTCAACGAACAAAACGA
66 AAAACATCA-AATATAAAAAAAAAA-G-AGAGGAAACAGT---AAC----C-ACGAACAAAACGA
*
127341159 AAGATTCAAAATCTAGGAAACACAAACAAAT-GATTTATA
120 AAGATTCAAAATCCAGGAAACACAAACAAATGGA-TTA-A
* * *
127341198 TCATAATTCAAAAAATAAACATCATATAGATCTTCGAAACTAACATAAAAATGCAAATAAGATCC
1 -CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCC
* * *
127341263 TAAAACATCAAATTATAAAAAAAAAAAAAGAGGAAACAGTAACAACGAAAAAAACGAAAGATTCA
65 TAAAACATCAAA-TAT-AAAAAAAAAAGAGAGGAAACAGTAACCACGAACAAAACGAAAGATTCA
* *
127341328 AAATCCAGGAAATACACAACAAATGAATTAA
128 AAATCCAGGAAACACA-AACAAATGGATTAA
127341359 TAGATAAAAA
Statistics
Matches: 289, Mismatches: 15, Indels: 40
0.84 0.04 0.12
Matches are distributed among these distances:
152 66 0.23
153 3 0.01
154 14 0.05
155 1 0.00
156 1 0.00
157 10 0.03
160 3 0.01
161 35 0.12
162 10 0.03
163 1 0.00
164 3 0.01
165 45 0.16
166 4 0.01
168 3 0.01
169 14 0.05
170 66 0.23
171 10 0.03
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (157 bp):
CATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCT
AAAACATCAAATATAAAAAAAAAAGAGAGGAAACAGTAACCACGAACAAAACGAAAGATTCAAAA
TCCAGGAAACACAAACAAATGGATTAA
Found at i:127341265 original size:170 final size:162
Alignment explanation
Indices: 127340875--127341359 Score: 676
Period size: 170 Copynumber: 3.0 Consensus size: 162
127340865 AAAAGGAACC
127340875 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
1 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
*
127340940 CTAAAACATCAAAT-TAAAAAAAAAAG-A-AGGAAACAGT---AAC-CACGAACAAAACGAAAGA
66 CTAAAACATCAATTATAAAAAAAAAAGAAGAGGAAACAGTAACAACGCACGAACAAAACGAAAGA
*
127340998 ATCAAAATCCAGGAAACACAAACAAATGGATTA
131 TTCAAAATCCAGGAAACACAAACAAAT-GATTA
*
127341031 A--ATCA-T-AAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
1 ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
127341092 CTAAAACATCATATTATAAAAAAAAAAGGAAGAGGAAACAGTAACAACGAGTCAACGAACAAAAC
66 CTAAAACATCA-ATTATAAAAAAAAAA-GAAGAGGAAACAGTAACAAC--G-C-ACGAACAAAAC
*
127341157 GAAAGATTCAAAATCTAGGAAACACAAACAAATGATTTA
125 GAAAGATTCAAAATCCAGGAAACACAAACAAATGA-TTA
* * *
127341196 TATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAACTAACATAAAAATGCAAATAAGAT
1 -ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAAT
*
127341261 CCTAAAACATCAAATTATAAAAAAAAAAAAAGAGGAAACAGTAACAACG-A--AA-AAAACGAAA
65 CCTAAAACATC-AATTATAAAAAAAAAAGAAGAGGAAACAGTAACAACGCACGAACAAAACGAAA
*
127341322 GATTCAAAATCCAGGAAATACACAACAAATGAATTA
129 GATTCAAAATCCAGGAAACACA-AACAAATG-ATTA
127341358 AT
1 AT
127341360 AGATAAAAAA
Statistics
Matches: 296, Mismatches: 11, Indels: 39
0.86 0.03 0.11
Matches are distributed among these distances:
152 66 0.22
153 3 0.01
154 14 0.05
155 1 0.00
156 2 0.01
157 10 0.03
160 3 0.01
161 31 0.10
162 13 0.04
163 1 0.00
164 4 0.01
165 45 0.15
166 1 0.00
167 1 0.00
168 3 0.01
169 20 0.07
170 77 0.26
171 1 0.00
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.18
Consensus pattern (162 bp):
ATCATAATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATC
CTAAAACATCAATTATAAAAAAAAAAGAAGAGGAAACAGTAACAACGCACGAACAAAACGAAAGA
TTCAAAATCCAGGAAACACAAACAAATGATTA
Found at i:127343426 original size:46 final size:46
Alignment explanation
Indices: 127343356--127343579 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
127343346 TTCGACATGA
* * * * *
127343356 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
* * ** * *
127343402 TGTCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTGTCACGT
127343449 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
* *
127343495 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
127343541 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
127343580 ATTAGAGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 117 0.74
47 40 0.25
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
Found at i:127343515 original size:93 final size:91
Alignment explanation
Indices: 127343356--127343576 Score: 298
Period size: 93 Copynumber: 2.4 Consensus size: 91
127343346 TTCGACATGA
* * * * * *
127343356 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACGTTGCCATGGTATCATTCAAC
** * *
127343421 CATGGTCTTATTCATTTCCCCGTCACGT
65 CATGGTCTTACACATTT-CACATCACGT
*
127343449 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACGTTGCCATGGTATCATTCAAC
* *
127343514 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCACATCACGT
127343541 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
127343577 TCTATTAGAG
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 46 0.40
93 68 0.60
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACGTTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACATCACGT
Found at i:127345668 original size:11 final size:11
Alignment explanation
Indices: 127345652--127345703 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
127345642 TATACTAAAT
127345652 AAATAATAATA
1 AAATAATAATA
*
127345663 AAATAAT-ATT
1 AAATAATAATA
* *
127345673 AAATATCTCATA
1 AAATA-ATAATA
*
127345685 AAATATTAATA
1 AAATAATAATA
127345696 AAATAATA
1 AAATAATA
127345704 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:127346285 original size:16 final size:16
Alignment explanation
Indices: 127346246--127346286 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
127346236 AAATTGGAAA
*
127346246 GATAGAAAATTAAAGG
1 GATAGAAAATTAAAAG
*
127346262 GGTAGAAAATTAAAAG
1 GATAGAAAATTAAAAG
*
127346278 GATGGAAAA
1 GATAGAAAA
127346287 CATAAATCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (16 bp):
GATAGAAAATTAAAAG
Found at i:127347043 original size:22 final size:24
Alignment explanation
Indices: 127347017--127347062 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
127347007 ATTTAATCAT
127347017 TTTATT-TTA-ATTTTTAAAATAA
1 TTTATTCTTATATTTTTAAAATAA
*
127347039 TTTATTCCTTATATTTTTATAATA
1 TTTATT-CTTATATTTTTAAAATA
127347063 TTATTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATTCTTATATTTTTAAAATAA
Found at i:127347338 original size:13 final size:13
Alignment explanation
Indices: 127347322--127347347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127347312 AATTAATTTA
127347322 ATTATTTTTTAAT
1 ATTATTTTTTAAT
127347335 ATTATTTTTTAAT
1 ATTATTTTTTAAT
127347348 TAAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATTTTTTAAT
Found at i:127347606 original size:24 final size:23
Alignment explanation
Indices: 127347579--127347634 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
127347569 TTTCTTATAT
*
127347579 TTTAATTTTTAATATAAT-TTATTC
1 TTTAATTTTT--TATAATATTATTA
127347603 TTTATATTTTTTATAATATTATTA
1 TTTA-ATTTTTTATAATATTATTA
*
127347627 ATTAATTT
1 TTTAATTT
127347635 AAATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAATTTTTTATAATATTATTA
Found at i:127348595 original size:29 final size:29
Alignment explanation
Indices: 127348562--127348621 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
127348552 AATTTGATCT
* *
127348562 TATTTTTTTAATGTTATTAATTAGTTTAA
1 TATTTTTATAATGTTATTAATTAGTTAAA
*
127348591 TATTTTTATGATGTTATTAATTAGTTAAA
1 TATTTTTATAATGTTATTAATTAGTTAAA
127348620 TA
1 TA
127348622 GTTAATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (29 bp):
TATTTTTATAATGTTATTAATTAGTTAAA
Found at i:127353641 original size:17 final size:17
Alignment explanation
Indices: 127353597--127353647 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
127353587 GTTTTCAAGT
*
127353597 AAACAATGGGGAAGAAG
1 AAACAATGGGAAAGAAG
**
127353614 AAATTAT-GGAAAGAAG
1 AAACAATGGGAAAGAAG
127353630 AAACAATGGGAAAGAAG
1 AAACAATGGGAAAGAAG
127353647 A
1 A
127353648 TCAAAGACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.57, C:0.04, G:0.29, T:0.10
Consensus pattern (17 bp):
AAACAATGGGAAAGAAG
Found at i:127353771 original size:38 final size:37
Alignment explanation
Indices: 127353721--127353795 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
127353711 AATTGGAAAT
127353721 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTC-AAAAAATAATA
127353759 TAATAATTTTAATAATTTTATATTTCAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAATAATA
127353796 GTTTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 11 0.30
38 26 0.70
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
TAATAATTTTAATAATTTTATATTTCAAAAAATAATA
Found at i:127353774 original size:17 final size:17
Alignment explanation
Indices: 127353752--127353806 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
127353742 ATTTCAAAAA
127353752 AATAATATAATAATTTT
1 AATAATATAATAATTTT
* * *
127353769 AATAATTTTAT-ATTTC
1 AATAATATAATAATTTT
* *
127353785 AA-AAAATAATAGTTTT
1 AATAATATAATAATTTT
127353801 AATAAT
1 AATAAT
127353807 TTTAAAATCA
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
15 5 0.19
16 11 0.41
17 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AATAATATAATAATTTT
Found at i:127353801 original size:32 final size:35
Alignment explanation
Indices: 127353721--127353810 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 35
127353711 AATTGGAAAT
127353721 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTC---AAAATAATA
127353759 TAATAATTTTAATAATTTTATATTTC-AAA-AA-A
1 TAATAATTTTAATAATTTTATATTTCAAAATAATA
*
127353791 TAATAGTTTTAATAATTTTA
1 TAATAATTTTAATAATTTTA
127353811 AAATCATTAG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
32 20 0.39
33 2 0.04
34 3 0.06
38 26 0.51
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (35 bp):
TAATAATTTTAATAATTTTATATTTCAAAATAATA
Found at i:127355155 original size:18 final size:20
Alignment explanation
Indices: 127355134--127355172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
127355124 TAATGTTACA
127355134 ATTTT-ATTTT-AATAATAT
1 ATTTTAATTTTAAATAATAT
127355152 ATTTTAAATTTTAAATAATAT
1 ATTTT-AATTTTAAATAATAT
127355173 TCTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAATTTTAAATAATAT
Found at i:127355182 original size:20 final size:20
Alignment explanation
Indices: 127355138--127355182 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
127355128 GTTACAATTT
*
127355138 TATTTTAATAATATATTTTA
1 TATTTTAATAATATATCTTA
*
127355158 AATTTTAAATAATAT-TCTTA
1 TATTTT-AATAATATATCTTA
127355178 TATTT
1 TATTT
127355183 CATTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTAATAATATATCTTA
Found at i:127355264 original size:24 final size:25
Alignment explanation
Indices: 127355204--127355270 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
127355194 TTTACATTAA
*
127355204 TATTTTAATAATAAATATAATTATAAAT
1 TATTTTAATAAT--ATA-AAATATAAAT
127355232 T-TTTT-ATAATATAAAATAT-AAT
1 TATTTTAATAATATAAAATATAAAT
127355254 TATTTTAATAATATAAA
1 TATTTTAATAATATAAA
127355271 TATGAGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 13 0.36
26 5 0.14
27 4 0.11
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTTAATAATATAAAATATAAAT
Found at i:127355271 original size:23 final size:23
Alignment explanation
Indices: 127355212--127355273 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
127355202 AATATTTTAA
*
127355212 TAATAAATATAATTATAAATTTTT
1 TAAT-AATATAAATATAAATTTTT
127355236 T-ATAATATAAA-ATATAATTATTT
1 TAATAATATAAATATA-AATT-TTT
127355259 TAATAATATAAATAT
1 TAATAATATAAATAT
127355274 GAGCATTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 3 0.09
22 11 0.33
23 6 0.18
24 11 0.33
25 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATAATATAAATATAAATTTTT
Found at i:127355281 original size:23 final size:24
Alignment explanation
Indices: 127355232--127355281 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
127355222 AATTATAAAT
* **
127355232 TTTTTATAATATAAAATATAATTA
1 TTTTAATAATATAAAATATAAGCA
*
127355256 TTTTAATAATAT-AAATATGAGCA
1 TTTTAATAATATAAAATATAAGCA
127355279 TTT
1 TTT
127355282 GTTTAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTAATAATATAAAATATAAGCA
Found at i:127361345 original size:21 final size:21
Alignment explanation
Indices: 127361307--127361350 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
127361297 GAGATTAACT
* * * *
127361307 AAATTTATCATATTAAATTAA
1 AAATTTATAAAATAAAATCAA
127361328 AAATTTATAAAATAAAATCAA
1 AAATTTATAAAATAAAATCAA
127361349 AA
1 AA
127361351 TAAAAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTTATAAAATAAAATCAA
Found at i:127362715 original size:16 final size:17
Alignment explanation
Indices: 127362680--127362715 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
127362670 CTTCTTAGCA
127362680 ATCA-AAAAGTAGATAT
1 ATCATAAAAGTAGATAT
127362696 -TCATAAAA-TAGATAT
1 ATCATAAAAGTAGATAT
127362711 ATCAT
1 ATCAT
127362716 CAATGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (17 bp):
ATCATAAAAGTAGATAT
Found at i:127363946 original size:15 final size:14
Alignment explanation
Indices: 127363926--127363955 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
127363916 TTTGTCATAC
127363926 TTATATATATGTATA
1 TTATATATAT-TATA
127363941 TTATATATATTATA
1 TTATATATATTATA
127363955 T
1 T
127363956 AGTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TTATATATATTATA
Found at i:127364129 original size:23 final size:23
Alignment explanation
Indices: 127364097--127364141 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
127364087 TTTAAATACT
127364097 ATATATATATGTATGTATATTTAG
1 ATATATATATGTATG-ATATTTAG
127364121 ATAT-TATATGTATGATATTTA
1 ATATATATATGTATGATATTTA
127364142 TGTTATGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 10 0.48
24 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (23 bp):
ATATATATATGTATGATATTTAG
Found at i:127364289 original size:31 final size:31
Alignment explanation
Indices: 127364248--127364345 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 31
127364238 GCATATACTG
* *
127364248 TGTAAATATTTTAAATATTGTATTTTTATTA-
1 TGTATATATTTT-AATATCGTATTTTTATTAC
127364279 TGTATATATTTTAATA-CGGATACATTTTTTATTAC
1 TGTATATATTTTAATATC-G-T--A-TTTTTATTAC
127364314 TCGTATATATATTTTAATATCGTATTTTTATT
1 T-G--TATATATTTTAATATCGTATTTTTATT
127364346 GTTATGCATA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
30 5 0.09
31 12 0.22
33 1 0.02
34 17 0.31
35 2 0.04
36 1 0.02
37 1 0.02
38 15 0.27
39 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (31 bp):
TGTATATATTTTAATATCGTATTTTTATTAC
Found at i:127364414 original size:24 final size:24
Alignment explanation
Indices: 127364368--127364414 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
127364358 CTTTAATACT
* *
127364368 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
127364392 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
127364415 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:127364681 original size:3 final size:3
Alignment explanation
Indices: 127364673--127364723 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
127364663 AATTTTACTT
* * * *
127364673 TTA TTA TTA CTA CTA -TA TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
127364720 TTA T
1 TTA T
127364724 CGTATTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:127364937 original size:3 final size:3
Alignment explanation
Indices: 127364929--127364982 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
127364919 TATCTCTAAC
127364929 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
127364973 TAC TAT TAT T
1 TAT TAT TAT T
127364983 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:127375434 original size:47 final size:47
Alignment explanation
Indices: 127375365--127375458 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
127375355 CTTCAAACGT
127375365 GCTATTGAGGTGGAACCTCAAGATGCCGAGGCATTGGGGCTATATGC
1 GCTATTGAGGTGGAACCTCAAGATGCCGAGGCATTGGGGCTATATGC
127375412 GCTATTGAGGTGGAACCTCAAGATGCCGAGGCATTGGGGCTATATGC
1 GCTATTGAGGTGGAACCTCAAGATGCCGAGGCATTGGGGCTATATGC
127375459 TGATTTCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (47 bp):
GCTATTGAGGTGGAACCTCAAGATGCCGAGGCATTGGGGCTATATGC
Found at i:127376179 original size:33 final size:33
Alignment explanation
Indices: 127376142--127376209 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
127376132 AAACTACATA
127376142 ATAAATATTGTTTTGTAATATAAGAGAATCTAT
1 ATAAATATTGTTTTGTAATATAAGAGAATCTAT
127376175 ATAAATATTGTTTTGTAATATAAGAGAATCTAT
1 ATAAATATTGTTTTGTAATATAAGAGAATCTAT
127376208 AT
1 AT
127376210 TAGTGAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.43
Consensus pattern (33 bp):
ATAAATATTGTTTTGTAATATAAGAGAATCTAT
Found at i:127377933 original size:17 final size:17
Alignment explanation
Indices: 127377910--127377948 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
127377900 TTTGATTAGA
127377910 ATAATTTCTATTTAAAAT
1 ATAATTT-TATTTAAAAT
*
127377928 -TAATTTTTTTTAAAAT
1 ATAATTTTATTTAAAAT
127377944 ATAAT
1 ATAAT
127377949 ATACTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTTATTTAAAAT
Found at i:127378092 original size:38 final size:40
Alignment explanation
Indices: 127378007--127378094 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 40
127377997 TAAAAAGTAT
* *
127378007 TTATATTAAAAACACTATTATAAATATAATAAATGGTTTA
1 TTATATTAAAAACACTATAATAAATATAATAAATGATTTA
*
127378047 TTATATTAAAAACAC-A-AATAAATATAATTAAT-ATTCTA
1 TTATATTAAAAACACTATAATAAATATAATAAATGATT-TA
*
127378085 TTGTATTAAA
1 TTATATTAAA
127378095 TATAGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.05
38 25 0.58
39 1 0.02
40 15 0.35
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTATAATAAATATAATAAATGATTTA
Found at i:127378233 original size:14 final size:15
Alignment explanation
Indices: 127378215--127378266 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 15
127378205 TAAATATATA
127378215 AATATTATTTAACAT
1 AATATTATTTAACAT
*
127378230 -ATA-TAATTAACAT
1 AATATTATTTAACAT
127378243 AATATTATTTTATAACAT
1 AATATTA--TT-TAACAT
127378261 AATATT
1 AATATT
127378267 TAGATTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 9 0.30
14 6 0.20
15 2 0.07
17 1 0.03
18 12 0.40
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTATTTAACAT
Found at i:127384548 original size:18 final size:18
Alignment explanation
Indices: 127384525--127384565 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
127384515 ATTTTACCCG
127384525 TAAAATTCTCACATAAAA
1 TAAAATTCTCACATAAAA
127384543 TAAAATTCTCACATAAAA
1 TAAAATTCTCACATAAAA
127384561 -AAAAT
1 TAAAAT
127384566 GAACAGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATTCTCACATAAAA
Found at i:127386289 original size:2 final size:2
Alignment explanation
Indices: 127386282--127386315 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
127386272 ATAATAATAC
* *
127386282 TA TA TA TA AA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127386316 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:127386554 original size:3 final size:3
Alignment explanation
Indices: 127386546--127386605 Score: 68
Period size: 3 Copynumber: 19.0 Consensus size: 3
127386536 AATAGGGGTG
*
127386546 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA
127386592 TATA TATA ATA ATA
1 -ATA -ATA ATA ATA
127386606 GTAGTCAGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 40 0.77
4 11 0.21
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127386693 original size:3 final size:3
Alignment explanation
Indices: 127386680--127386762 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
127386670 AAGGGCATAT
127386680 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
127386724 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
127386763 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:127386704 original size:12 final size:12
Alignment explanation
Indices: 127386680--127386763 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
127386670 AAGGGCATAT
127386680 ATAATAT-AATA
1 ATAATATAAATA
127386691 ATAATATAAATA
1 ATAATATAAATA
127386703 ATAATATATACATGA
1 ATAATATA-A-AT-A
127386718 GA-AATA-ATAATA
1 -ATAATATA-AATA
127386730 ATAATATAAATA
1 ATAATATAAATA
* *
127386742 ATAGTAAAAATA
1 ATAATATAAATA
*
127386754 ATAAAATAAA
1 ATAATATAAA
127386764 AAAAATAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:127386724 original size:21 final size:18
Alignment explanation
Indices: 127386685--127386744 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
127386675 CATATATAAT
*
127386685 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
127386703 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
127386724 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
127386742 ATA
1 ATA
127386745 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:127387186 original size:22 final size:22
Alignment explanation
Indices: 127387158--127387270 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 22
127387148 TTTGTAGGCA
127387158 AGTGGAGTGGTTGGGGTGGTTT
1 AGTGGAGTGGTTGGGGTGGTTT
127387180 AGTGGAGTGGTTTAGTAGGGTGG-TT
1 AGTGGAGTGG-TT-G--GGGTGGTTT
127387205 -G-GG-GTGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGG-TT-G-GG-GTGGTTT
* *
127387228 AGTGGAGTGGTTGGAGTAGTTT
1 AGTGGAGTGGTTGGGGTGGTTT
* *
127387250 AGTAGAGTGGTTGGAGTGGTT
1 AGTGGAGTGGTTGGGGTGGTT
127387271 GGAGTGGTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.03
22 48 0.62
23 7 0.09
24 4 0.05
25 6 0.08
26 10 0.13
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (22 bp):
AGTGGAGTGGTTGGGGTGGTTT
Found at i:127387191 original size:13 final size:13
Alignment explanation
Indices: 127387158--127387239 Score: 92
Period size: 13 Copynumber: 6.9 Consensus size: 13
127387148 TTTGTAGGCA
127387158 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
127387170 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
127387180 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
127387193 AGTAGG-GTGG-TT
1 AGT-GGAGTGGTTT
127387205 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
127387215 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
127387228 AGTGGAGTGGTT
1 AGTGGAGTGGTT
127387240 GGAGTAGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
9 10 0.16
10 6 0.10
11 4 0.07
12 6 0.10
13 33 0.54
14 2 0.03
ACGTcount: A:0.12, C:0.00, G:0.51, T:0.37
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:127387210 original size:35 final size:34
Alignment explanation
Indices: 127387158--127387288 Score: 169
Period size: 35 Copynumber: 3.9 Consensus size: 34
127387148 TTTGTAGGCA
*
127387158 AGTGGAGTGGTTGGGGTGGTTTAGTGGAGTGGTTT
1 AGTGG-GTGGTTGGAGTGGTTTAGTGGAGTGGTTT
*
127387193 AGTAGGGTGGTTGGGGTGGTTTAGTGGAGTGGTTT
1 AGT-GGGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
* *
127387228 AGTGGAGTGGTTGGAGTAGTTTAGTAGAGTGG-TT
1 AGTGG-GTGGTTGGAGTGGTTTAGTGGAGTGGTTT
*
127387262 -G-GAGTGGTTGGAGTGGTTTAGTGGAGT
1 AGTGGGTGGTTGGAGTGGTTTAGTGGAGT
127387289 AAAGATATTT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 22 0.25
32 1 0.01
33 1 0.01
34 4 0.05
35 58 0.66
36 2 0.02
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.36
Consensus pattern (34 bp):
AGTGGGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
Found at i:127387244 original size:9 final size:9
Alignment explanation
Indices: 127387230--127387279 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
127387220 AGTGGTTTAG
127387230 TGGAGTGGT
1 TGGAGTGGT
*
127387239 TGGAGTAGTT
1 TGGAGT-GGT
127387249 TAGTAGAGTGGT
1 T-G--GAGTGGT
127387261 TGGAGTGGT
1 TGGAGTGGT
127387270 TGGAGTGGT
1 TGGAGTGGT
127387279 T
1 T
127387280 TAGTGGAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 23 0.66
10 3 0.09
11 2 0.06
12 3 0.09
13 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (9 bp):
TGGAGTGGT
Found at i:127387787 original size:44 final size:44
Alignment explanation
Indices: 127387545--127388173 Score: 423
Period size: 44 Copynumber: 14.3 Consensus size: 44
127387535 TTGAGTTCTT
* *
127387545 AATCTGCT-TCTTCGA-TCTGTTCCCTATAAACACAGGGATGCCA
1 AATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCA
* * * * *
127387588 AATCTACTGTCTTCAACTTGATCCCTATAAACACAGGGATGCAA
1 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
* *
127387632 AATCTGCTATCTTCAACTTGTTCCCTATAAGTACAGGGATTCC-
1 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
** ** * * * **
127387675 -ATGCTGAAATCTTTGA-TCTGCTTCACC-GTAAGCATAGGAATGTTA
1 AAT-CTGCTATCTTCAACT-TG-TTC-CCTATAAGCACAGGGATGCCA
* * *
127387720 GATTTGCTATCTTCGA-TCTGTTCCCTATAAGCACAGGGATGCCA
1 AATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCA
* *
127387764 AATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-
1 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
** * * * * *
127387807 -ATGCTGAAATCTTCGA-TCTGCTTCACTGTAAGCACAGGAATGTCA
1 AAT-CTGCTATCTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCA
* * * *
127387852 GATCTGCTATCTTCGA-TCTGTTCCCTATAAGCATAGGGATGCTA
1 AATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCA
* * *
127387896 AATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-
1 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
** * * * * *
127387939 -ATGCTGAAATCTTCGA-TCTGCTTCACTGTAAGCACAGGAATGTCA
1 AAT-CTGCTATCTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCA
* *
127387984 GATCTGCTATCTTCGA-TCTGTTCCCTATAAGCACAGGGATGCCA
1 AATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCA
127388028 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCC-
1 AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
** * ** * * * *
127388071 -ATGCTGAAATCTTCGATCTACTTCACC-GTAAGCACATGAATGTCA
1 AAT-CTGCTATCTTC-AACTTGTTC-CCTATAAGCACAGGGATGCCA
* * * *
127388116 GATCTACTATCTTCGA-TCTGTTCCCTATAAACACAGGGATGCCA
1 AATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCA
*
127388160 AATCTGCAATCTTC
1 AATCTGCTATCTTC
127388174 GATCTGCTCT
Statistics
Matches: 456, Mismatches: 101, Indels: 57
0.74 0.16 0.09
Matches are distributed among these distances:
42 11 0.02
43 52 0.11
44 326 0.71
45 59 0.13
46 8 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
Found at i:127387795 original size:88 final size:88
Alignment explanation
Indices: 127387545--127388179 Score: 487
Period size: 88 Copynumber: 7.2 Consensus size: 88
127387535 TTGAGTTCTT
* * * *
127387545 AATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTGTCTTCAACTTGA
1 AATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
* *
127387609 TCCCTATAAACACAGGGATGCAA
66 TCCCTATAAGCACAGGGATGCTA
* * * ** **
127387632 AATCTGCTATCTTC-AACTTGTTCCCTATAAGTACAGGGATTCC--ATGCTGAAATCTTTGA-TC
1 AATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTATCTTCAACT-
* * * *
127387693 TGCTTCACC-GTAAGCATAGGAATGTTA
63 TG-TTC-CCTATAAGCACAGGGATGCTA
* * * *
127387720 GATTTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGT
1 AATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
127387785 TCCCTATAAGCACAGGGATGC--
66 TCCCTATAAGCACAGGGATGCTA
* ** * * * * * *
127387806 CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TC
1 AAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACT-
*
127387870 TGTTCCCTATAAGCATAGGGATGCTA
63 TGTTCCCTATAAGCACAGGGATGCTA
* * * * ** *
127387896 AATCTGTTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TC
1 AATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTATCTTCAACT-
* * *
127387957 TGCTTCACTGTAAGCACAGGAATG-TCA
63 TG-TTCCCTATAAGCACAGGGATGCT-A
*
127387984 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
1 AATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
127388049 TCCCTATAAGCACAGGGATGC--
66 TCCCTATAAGCACAGGGATGCTA
* ** * * * * * * * *
127388070 CATGCTGAAATCTTCGATCTACTTCACC-GTAAGCACATGAATGTCAGATCTACTATCTTCGA-T
1 AAT-CTGCTATCTTCGATCT-GTTC-CCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACT
* *
127388133 CTGTTCCCTATAAACACAGGGATGCCA
63 -TGTTCCCTATAAGCACAGGGATGCTA
*
127388160 AATCTGCAATCTTCGATCTG
1 AATCTGCTATCTTCGATCTG
127388180 CTCTCCGCCG
Statistics
Matches: 430, Mismatches: 87, Indels: 61
0.74 0.15 0.11
Matches are distributed among these distances:
86 9 0.02
87 67 0.16
88 291 0.68
89 53 0.12
90 10 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (88 bp):
AATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
TCCCTATAAGCACAGGGATGCTA
Found at i:127387838 original size:132 final size:132
Alignment explanation
Indices: 127387609--127388173 Score: 932
Period size: 132 Copynumber: 4.3 Consensus size: 132
127387599 TTCAACTTGA
* * * *
127387609 TCCCTATAAACACAGGGATGCAAAATCTGCTATCTTCAACTTGTTCCCTATAAGTACAGGGATTC
1 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
* * * *
127387674 CATGCTGAAATCTTTGATCTGCTTCACCGTAAGCATAGGAATGTTAGATTTGCTATCTTCGATCT
66 CATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
127387739 GT
131 GT
* *
127387741 TCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGC
1 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
*
127387806 CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
66 CATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
127387871 GT
131 GT
* * * * *
127387873 TCCCTATAAGCATAGGGATGCTAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGC
1 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
*
127387938 CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
66 CATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
127388003 GT
131 GT
127388005 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
1 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
* * *
127388070 CATGCTGAAATCTTCGATCTACTTCACCGTAAGCACATGAATGTCAGATCTACTATCTTCGATCT
66 CATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
127388135 GT
131 GT
* *
127388137 TCCCTATAAACACAGGGATGCCAAATCTGCAATCTTC
1 TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTC
127388174 GATCTGCTCT
Statistics
Matches: 408, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 408 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGC
CATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
GT
Found at i:127388543 original size:205 final size:205
Alignment explanation
Indices: 127388191--127388679 Score: 807
Period size: 205 Copynumber: 2.4 Consensus size: 205
127388181 TCTCCGCCGC
* *
127388191 TACAGAGATGCCAAATTATCTTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * * *
127388256 TCTTCGATTTTCTCCTTGTAAGCATAAGGATGGCAAACCATCTTGGATCTGCTTCAGTATAAACA
66 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
* *
127388321 TTTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATACCAGACTTCAATTTGT
*
127388386 TCTCTGACAA
196 TCTCTAACAA
* * *
127388396 TACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCATGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
127388461 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
66 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
* * * * * *
127388526 TCTGAAGGTTGGATCTGCTATGTGTCTGCCTTCCGTTGAAGTGGAGATACTAGACTTCGATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATACCAGACTTCAATTTGT
127388591 TCTCTAACAA
196 TCTCTAACAA
*
127388601 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATA
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
127388666 TCTTCGATTTGCTC
66 TCTTCGATTTGCTC
127388680 TCTGCCTGAT
Statistics
Matches: 262, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 262 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATACCAGACTTCAATTTGT
TCTCTAACAA
Found at i:127388942 original size:61 final size:64
Alignment explanation
Indices: 127388824--127388948 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 64
127388814 TCGTGTATCC
127388824 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
* * *
127388888 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
127388949 TTATTGTAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 30 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.35
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
Found at i:127392753 original size:15 final size:15
Alignment explanation
Indices: 127392733--127392771 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
127392723 GTGTATATAC
*
127392733 ATATATATGTAT-TTT
1 ATATATAT-TATGTAT
127392748 ATATATATTATGTAT
1 ATATATATTATGTAT
127392763 ATATATATT
1 ATATATATT
127392772 TTAATGCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (15 bp):
ATATATATTATGTAT
Found at i:127394835 original size:12 final size:12
Alignment explanation
Indices: 127394818--127394853 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
127394808 ATTCATTTGA
127394818 CATTCATGCATT
1 CATTCATGCATT
*
127394830 CATTCATGCATC
1 CATTCATGCATT
*
127394842 CATTCATTCATT
1 CATTCATGCATT
127394854 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Done.