Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold376
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: 900718
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 6
Found at i:1672 original size:13 final size:13
Alignment explanation
Indices: 1650--1739 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
1640 GGCAGTAGCT
*
1650 TTGTAGCGATACA
1 TTGTATCGATACA
1663 TTGTATCGATACAATA
1 TTGTATCGATAC---A
1679 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1695 TTGTATCGATACAATA
1 TTGTATCGATAC---A
1711 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1727 TTGTATCGATACA
1 TTGTATCGATACA
1740 ATACTTATGT
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 34 0.53
14 2 0.03
16 4 0.06
18 2 0.03
19 22 0.34
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1688 original size:19 final size:19
Alignment explanation
Indices: 1664--1780 Score: 114
Period size: 19 Copynumber: 6.7 Consensus size: 19
1654 AGCGATACAT
1664 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
1683 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
1696 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
1715 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
1728 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
* *
1747 TGTATCGATACATTTACTATT
1 TGTATCGATACA-ATACT-TA
1768 TGTATCGATACAA
1 TGTATCGATACAA
1781 ATTGTTGAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 27
0.73 0.03 0.24
Matches are distributed among these distances:
13 22 0.27
14 2 0.02
16 4 0.05
18 2 0.02
19 34 0.42
20 4 0.05
21 13 0.16
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:1697 original size:32 final size:32
Alignment explanation
Indices: 1651--1760 Score: 211
Period size: 32 Copynumber: 3.4 Consensus size: 32
1641 GCAGTAGCTT
*
1651 TGTAGCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAATACTTA
1683 TGTATCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAATACTTA
1715 TGTATCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAATACTTA
1747 TGTATCGATACATT
1 TGTATCGATACATT
1761 TACTATTTGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAATACTTA
Found at i:4294 original size:21 final size:21
Alignment explanation
Indices: 4236--4312 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
4226 CTGCCAGCAA
* * *
4236 AATGTATCGATATATTCACAT
1 AATGTATCGAAAAATTTACAT
* *
4257 AATATATC-AATACATTTACAT
1 AATGTATCGAA-AAATTTACAT
*
4278 AATGTATCGAAAAATTTTCAT
1 AATGTATCGAAAAATTTACAT
*
4299 -TTGTATCGATAAAA
1 AATGTATCGA-AAAA
4313 ATAAGGGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 9 0.20
21 34 0.76
22 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (21 bp):
AATGTATCGAAAAATTTACAT
Found at i:7318 original size:11 final size:11
Alignment explanation
Indices: 7302--7350 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
7292 TCCTAACTAA
7302 TTTTTCTATTT
1 TTTTTCTATTT
7313 TTTTTCT-TTT
1 TTTTTCTATTT
*
7323 TTCTTCTATTT
1 TTTTTCTATTT
**
7334 TTTTTCTCCTT
1 TTTTTCTATTT
7345 TTTTTC
1 TTTTTC
7351 CTTTTTCCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTATTT
Found at i:7659 original size:5 final size:5
Alignment explanation
Indices: 7649--7685 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
7639 TAATAAGATT
*
7649 TAAAA TAAAA TAAAA TAAAA TAAAG TAAATA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA-A TAAAA T
7686 TAAGAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:8370 original size:163 final size:161
Alignment explanation
Indices: 7964--8417 Score: 482
Period size: 163 Copynumber: 2.8 Consensus size: 161
7954 ATTTTTTGGT
* * * *
7964 AATAAGAAAATTTCAAAGAAAAAATTCAAAACTT-ATAAAAATAAATGAATTATTGAAAATTGAT
1 AATAAGAAAATTTC-AAGAAAAAA-TAAAAAATTCATAGAAATAAATGAATT-TTGAAACTT-A-
* * *** *
8028 TTAATAAAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGGGGAATCGCCCC
61 TTAATAAAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATC-CCCA
* * *
8093 GAAAACAATTACAGAGTAAAAAACTTCCTATTTCGAA
125 AAAAACAATTACAGAATAAAAAACGTCCTATTTCGAA
* * * * * *
8130 AATATGAGAATTTCAAGGAAAAAATAAAAAACTCAAAGAAATAAATGAATTTTTAAAAACTGATT
1 AATAAGAAAATTTCAA-GAAAAAATAAAAAATTCATAGAAATAAATGAA-TTTT-GAAACTTATT
* * * * * *
8195 AATACAAATTAAAAAATAATATTTGATTAATTTTAAAAACTAAAAACCATGAAAAATCCCTAAAA
63 AATAAAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCAAAA
* * *
8260 AACATTTAC-GAAATAGAAAA-GTCCGTATTTTGAA
128 AACAATTACAG-AATAAAAAACGTCC-TATTTCGAA
* * *
8294 AATAGGAAAATTTCAAGAAAAAATAAAAAATTCATGGAAATGAATGAATTTTGAGAACTTATCTA
1 AATAAGAAAATTTCAAGAAAAAATAAAAAATTCATAGAAATAAATGAATTTTGA-AACTTAT-TA
8359 ATAAAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAAACCAAGAAAAATCC
64 ATAAAAATTAAATAATAATATTTGATAAATTTTAAAAATT-AAAAACCAAGAAAAATCC
8418 TAACTTCGCA
Statistics
Matches: 239, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
161 1 0.00
162 10 0.04
163 70 0.29
164 58 0.24
165 59 0.25
166 35 0.15
167 6 0.03
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (161 bp):
AATAAGAAAATTTCAAGAAAAAATAAAAAATTCATAGAAATAAATGAATTTTGAAACTTATTAAT
AAAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCAAAAAAC
AATTACAGAATAAAAAACGTCCTATTTCGAA
Found at i:15791 original size:13 final size:13
Alignment explanation
Indices: 15773--15811 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
15763 TAGCGACATA
15773 TATCGATACATTG
1 TATCGATACATTG
15786 TATCGATACATTG
1 TATCGATACATTG
*
15799 TATCAATACATTG
1 TATCGATACATTG
15812 GGTACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:17688 original size:19 final size:18
Alignment explanation
Indices: 17664--17719 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
17654 AAGGGGGAGA
17664 AGATAATTGTTTAAAGGGG
1 AGATAATTGTTT-AAGGGG
*
17683 AGATAATCGTTTAAGGGG
1 AGATAATTGTTTAAGGGG
*
17701 -GAGAATT-TTTAAGGGG
1 AGATAATTGTTTAAGGGG
17717 AGA
1 AGA
17720 AAAACAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 9 0.27
17 7 0.21
18 6 0.18
19 11 0.33
ACGTcount: A:0.36, C:0.02, G:0.34, T:0.29
Consensus pattern (18 bp):
AGATAATTGTTTAAGGGG
Found at i:18280 original size:19 final size:20
Alignment explanation
Indices: 18237--18289 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
18227 CACACCCAAA
*
18237 TGTATCGATACATGCTGCCT
1 TGTATCGATACATGCTGCAT
*
18257 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
18276 TGTATCGATACATG
1 TGTATCGATACATG
18290 GACAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:18376 original size:13 final size:13
Alignment explanation
Indices: 18355--18385 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18345 CGATACATGG
*
18355 TACAATGTATCGA
1 TACATTGTATCGA
18368 TACATTGTATCGA
1 TACATTGTATCGA
18381 TACAT
1 TACAT
18386 AGCTTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:19625 original size:13 final size:13
Alignment explanation
Indices: 19607--19631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19597 TGAACAGTGA
19607 TGTATCGATACAC
1 TGTATCGATACAC
19620 TGTATCGATACA
1 TGTATCGATACA
19632 TGAATAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:19800 original size:51 final size:52
Alignment explanation
Indices: 19720--19854 Score: 218
Period size: 51 Copynumber: 2.6 Consensus size: 52
19710 CTACTACCAA
*
19720 TGTATCGATACATAGTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATA-TTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
19773 TGTATCGATACATA-TTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
19824 TGTATCGATACATATTTATGTGTATCGATAC
1 TGTATCGATACATA-TT-TGTGTATCGATAC
19855 TATGCAATCT
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
51 49 0.64
53 15 0.19
54 13 0.17
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
TGTATCGATACATATTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:19849 original size:20 final size:20
Alignment explanation
Indices: 19824--19894 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
19814 GCCAATGTCC
*
19824 TGTATCGATACATATTTATG
1 TGTATCGATACATATTAATG
* *
19844 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
19864 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
19884 TGTATCGATAC
1 TGTATCGATAC
19895 TTTTCAGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.07
20 39 0.91
21 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:19960 original size:21 final size:21
Alignment explanation
Indices: 19934--19974 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19924 GTCAACCTTG
19934 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
19955 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
19975 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:20645 original size:32 final size:30
Alignment explanation
Indices: 20609--20667 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
20599 GAAATCAAAT
20609 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
20641 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
20668 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:20966 original size:13 final size:13
Alignment explanation
Indices: 20948--20973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20938 AAATTTTTTG
20948 TGTATCGATACAT
1 TGTATCGATACAT
20961 TGTATCGATACAT
1 TGTATCGATACAT
20974 ACTTTGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22809 original size:21 final size:20
Alignment explanation
Indices: 22780--22822 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22770 GGCTAGTATG
*
22780 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
22801 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
22821 GG
1 GG
22823 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:23281 original size:13 final size:13
Alignment explanation
Indices: 23263--23300 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
23253 ATAATCTCCC
23263 TGTATCGATACAG
1 TGTATCGATACAG
*
23276 TGTATCGATACAT
1 TGTATCGATACAG
23289 TGTATCGATACA
1 TGTATCGATACA
23301 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:25401 original size:15 final size:15
Alignment explanation
Indices: 25381--25411 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25371 ATTTCGTTTG
*
25381 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
25396 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
25411 G
1 G
25412 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:27243 original size:21 final size:21
Alignment explanation
Indices: 27214--27258 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27204 AAGTTTTTAT
*
27214 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
27234 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
27256 TTT
1 TTT
27259 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:30658 original size:17 final size:17
Alignment explanation
Indices: 30636--30669 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30626 TATATTTAAT
*
30636 TTATCTCATAAATATAA
1 TTATCTAATAAATATAA
*
30653 TTATCTAATAATTATAA
1 TTATCTAATAAATATAA
30670 AATACAAGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATCTAATAAATATAA
Found at i:31083 original size:20 final size:20
Alignment explanation
Indices: 31046--31118 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
31036 TTCTACAATT
*
31046 TGTATTGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTTAA
*
31067 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTTAA
* ***
31087 GGTATCGATACATGCTTGTAA
1 TGTATCGATACATAAGT-TAA
31108 TGTATCGATAC
1 TGTATCGATAC
31119 TAAACCATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.49
21 22 0.51
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAGTTAA
Found at i:31114 original size:21 final size:21
Alignment explanation
Indices: 31046--31118 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
31036 TTCTACAATT
*
31046 TGTATTGATACAATAAGT-TAA
1 TGTATCGATAC-ATAAGTGTAA
31067 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGTAA
* ***
31087 GGTATCGATACATGCTTGTAA
1 TGTATCGATACATAAGTGTAA
31108 TGTATCGATAC
1 TGTATCGATAC
31119 TAAACCATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 22 0.50
21 22 0.50
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATAAGTGTAA
Found at i:31216 original size:20 final size:19
Alignment explanation
Indices: 31169--31243 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
31159 ATATTCACTT
* *
31169 ATGTATCGATACATGCTGGTA
1 ATGTATCGATACATCCT--CA
31190 ATGTATCGATACATCACTCA
1 ATGTATCGATACATC-CTCA
* *
31210 TTGTATCGATACATTCTTCA
1 ATGTATCGATACA-TCCTCA
31230 ATGTATCGATACAT
1 ATGTATCGATACAT
31244 GTAGGCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 16 0.34
22 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATCCTCA
Found at i:36056 original size:52 final size:52
Alignment explanation
Indices: 35978--36106 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
35968 CGAAATATGG
*
35978 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
36030 AAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
36082 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
36107 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:36119 original size:52 final size:51
Alignment explanation
Indices: 35978--36126 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
35968 CGAAATATGG
35978 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
36030 AAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
36082 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
36127 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:36133 original size:13 final size:13
Alignment explanation
Indices: 36115--36139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36105 CAAAGATCAG
36115 TGTATCGATACAA
1 TGTATCGATACAA
36128 TGTATCGATACA
1 TGTATCGATACA
36140 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36152 original size:21 final size:21
Alignment explanation
Indices: 36126--36184 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
36116 GTATCGATAC
*
36126 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTAAGT
36147 AATGTATCGATACATTTAAGT
1 AATGTATCGATACATTTAAGT
36168 AATGTATCGATACATTT
1 AATGTATCGATACATTT
36185 TTTGGCAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTAAGT
Found at i:36238 original size:33 final size:33
Alignment explanation
Indices: 36201--36267 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36191 AGTAGCTTAA
36201 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
36234 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
36267 A
1 A
36268 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:36241 original size:13 final size:13
Alignment explanation
Indices: 36223--36247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36213 CAAAAAAATA
36223 TGTATCGATACAT
1 TGTATCGATACAT
36236 TGTATCGATACA
1 TGTATCGATACA
36248 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37124 original size:52 final size:52
Alignment explanation
Indices: 37056--37299 Score: 274
Period size: 52 Copynumber: 4.9 Consensus size: 52
37046 GTTAAAGATG
* *
37056 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * *
37108 AAGACGCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
*
37160 AAGGCGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * * *
37204 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACAGTGGACTTAAAGGT-ACCA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-CA
* *
37255 AAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGACTTAAA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
37300 AGAAGACGCT
Statistics
Matches: 161, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
43 35 0.22
46 1 0.01
47 1 0.01
49 1 0.01
52 123 0.76
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (52 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
Found at i:37276 original size:95 final size:95
Alignment explanation
Indices: 37113--37296 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
37103 TGACAAAGAC
* *
37113 GCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCGATATGCTGA
1 GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
*
37178 TTCAAGGCCAGCGATATTGGACTTGGAGGT
66 TTCAAAGCCAGCGATATTGGACTTGGAGGT
* * * *
37208 GCCAATGTGCTGATTCAAGGCCAGCTACAGT-GGACTTAAAGG-T-ACCAAAGGTGCCAATATGC
1 GCCAATATGCTGATCCAAGGCCAGCGACA-TAGGACTT-AAGGATGA-CAAAGGCGCCAATATGC
37270 TGATTCAAAGCCAGCGATATTGGACTT
63 TGATTCAAAGCCAGCGATATTGGACTT
37297 AAAAGAAGAC
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
94 1 0.01
95 73 0.92
96 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (95 bp):
GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
TTCAAAGCCAGCGATATTGGACTTGGAGGT
Found at i:37376 original size:28 final size:28
Alignment explanation
Indices: 37323--37410 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
37313 AACTTGTGTG
*
37323 GGCTTTTAAAAGGCTTG-CA-TCAACTTGT
1 GGCTTTTAAAAGG-GTGCCACT-AACTTGT
* *
37351 GTGCTTTT-AAAGGTTGCCACTGACTTGT
1 G-GCTTTTAAAAGGGTGCCACTAACTTGT
37379 AGGCTTTTGAAAAGGGTGCCACTAACTTGT
1 -GGCTTTT-AAAAGGGTGCCACTAACTTGT
37409 GG
1 GG
37411 GCTTAAAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 3 0.06
28 20 0.39
29 10 0.20
30 18 0.35
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (28 bp):
GGCTTTTAAAAGGGTGCCACTAACTTGT
Found at i:37443 original size:34 final size:35
Alignment explanation
Indices: 37405--37479 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
37395 TGCCACTAAC
* *
37405 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
* *
37439 TTGTGAGCTTACAAAAGAAAAAGAGTGCCATGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
37474 TTGTGG
1 TTGTGG
37480 ACTTTGGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (35 bp):
TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:37647 original size:57 final size:58
Alignment explanation
Indices: 37474--37885 Score: 364
Period size: 57 Copynumber: 7.2 Consensus size: 58
37464 TGCCATGGAG
* * * * * *
37474 TTGTGGACTTTGGAAAA-GATGCCACTGACTTGTGGGCGTCGAAAAAGGGTGCCACTGAT
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTG--AAAGGTTGCCACTGAC
* * * * *
37533 TTGTGGGCTTT-G--AAGGTTGCCACTGACTTGT-GACTTTGGAAAAGATGCCACCGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAGGTTGCCACTGAC
* * * * *
37588 TTGTGGGCGTCGGAAAAGGGTGCCACTGATTTATGGGCTTTG-AAGGTTGCCACTAAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGAC
* * * * * *
37645 TTGTGGACTTTGGAAAA-GATGCCACCGACTTGTGGG-TGTCGAAAAAGGGTGCCACTGAT
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCT-TTG--AAAGGTTGCCACTGAC
* * * *
37704 TTGTGGGCTTT-G--AAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGTTGCCACTGAC
*
37760 TTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGCTTTG-AAGGTTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGAC
* *** * *
37817 TTGTGGACTTT-GAAAAATATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGTTGCCACTGAC
37875 TTGTGGGCTTT
1 TTGTGGGCTTT
37886 TGAAGGGTGA
Statistics
Matches: 285, Mismatches: 51, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
55 22 0.08
56 76 0.27
57 83 0.29
58 43 0.15
59 61 0.21
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (58 bp):
TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGAC
Found at i:37676 original size:86 final size:86
Alignment explanation
Indices: 37474--37891 Score: 660
Period size: 86 Copynumber: 4.9 Consensus size: 86
37464 TGCCATGGAG
*
37474 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGAAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
37539 GCTTTGAAGGTTGCCACTGAC
66 GCTTTGAAGGTTGCCACTGAC
* *
37560 TTGT-GACTTTGGAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTATGG
1 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
*
37624 GCTTTGAAGGTTGCCACTAAC
66 GCTTTGAAGGTTGCCACTGAC
* * *
37645 TTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGTGTCGAAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
37710 GCTTTGAAGGTTGCCACTGAC
66 GCTTTGAAGGTTGCCACTGAC
* * *
37731 TTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
37796 GCTTTGAAGGTTGCCACTGAC
66 GCTTTGAAGGTTGCCACTGAC
* * ** * * *
37817 TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGGC-TTTGAAAAAGATGCCACTGACTTGTGG
1 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
37881 GCTTTTGAAGG
66 GC-TTTGAAGG
37892 GTGAGGAATG
Statistics
Matches: 311, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
85 106 0.34
86 205 0.66
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGGAAAAGGGTGCCACTGATTTGTGG
GCTTTGAAGGTTGCCACTGAC
Found at i:37764 original size:115 final size:115
Alignment explanation
Indices: 37474--37885 Score: 349
Period size: 115 Copynumber: 3.6 Consensus size: 115
37464 TGCCATGGAG
* * * * * * *
37474 TTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCGTCGAAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGACTTTGAAAAA-GATGCCACTGACTTGTGG
* * * * * * *
37539 GCTTT-G--AAGGTTGCCACTGACTTGT-GACTTTGGAAAAGATGCCACCGAC
65 GCTTTGGAAAAGGATGCCACCGACTTGTGGGC-TTCG-AAGGGTGCCACTGAC
* ** *** * * * * * *
37588 TTGTGGGCGTCGGAAAAGGGTGCCACTGATTTATGGGCTTTG--AAGGTTGCCACTAACTTGTGG
1 TTGTGGAC-TTTGAAAAATATGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGG
* *
37651 ACTTTGGAAAA-GATGCCACCGACTTGTGGG-TGTCGAAAAAGGGTGCCACTGAT
65 GCTTTGGAAAAGGATGCCACCGACTTGTGGGCT-TCG---AAGGGTGCCACTGAC
* **
37704 TTGTGGGCTTTG-AAGGT-TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGG
1 TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGG
* * * * *
37767 CTTTGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGAC
66 CTTTGGAAAAGGATGCCACCGACTTGTGGGCTTCGAAGGGTGCCACTGAC
*
37817 TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGG
1 TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGG
37882 CTTT
66 CTTT
37886 TGAAGGGTGA
Statistics
Matches: 240, Mismatches: 44, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
112 19 0.08
113 47 0.20
114 29 0.12
115 106 0.44
116 38 0.16
117 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (115 bp):
TTGTGGACTTTGAAAAATATGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGG
CTTTGGAAAAGGATGCCACCGACTTGTGGGCTTCGAAGGGTGCCACTGAC
Found at i:39359 original size:11 final size:11
Alignment explanation
Indices: 39343--39380 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
39333 GTTGTTGTTG
39343 TTTTTTTCTGT
1 TTTTTTTCTGT
39354 TTTTTTTCT-T
1 TTTTTTTCTGT
*
39364 TTTTTTCTATGT
1 TTTTTT-TCTGT
39376 TTTTT
1 TTTTT
39381 ATTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 7 0.29
11 11 0.46
12 6 0.25
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (11 bp):
TTTTTTTCTGT
Found at i:39366 original size:20 final size:20
Alignment explanation
Indices: 39343--39387 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
39333 GTTGTTGTTG
* * *
39343 TTTTTTTCTGTTTTTTTTCT
1 TTTTTTTCTATGTTTTTTAT
39363 TTTTTTTCTATGTTTTTTAT
1 TTTTTTTCTATGTTTTTTAT
39383 TTTTT
1 TTTTT
39388 ATTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTTTCTATGTTTTTTAT
Found at i:53263 original size:52 final size:52
Alignment explanation
Indices: 53174--53302 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
53164 CGAAATATGG
* *
53174 AAATTTGCCTGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
53226 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
53278 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
53303 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:53315 original size:52 final size:51
Alignment explanation
Indices: 53174--53322 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
53164 CGAAATATGG
*
53174 AAATTTGCCTGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
53226 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
53278 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
53323 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:53329 original size:13 final size:13
Alignment explanation
Indices: 53311--53335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53301 CAAAGATCAG
53311 TGTATCGATACAA
1 TGTATCGATACAA
53324 TGTATCGATACA
1 TGTATCGATACA
53336 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53413 original size:33 final size:33
Alignment explanation
Indices: 53376--53442 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
53366 AGTAGCTTAA
*
53376 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
* ***
53409 ATTGTATCAATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
53442 A
1 A
53443 AATCATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAAAAAAATATGTATCGATAC
Found at i:56242 original size:13 final size:13
Alignment explanation
Indices: 56220--56254 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
56210 ACAATAAATG
56220 TATCGATACAATC
1 TATCGATACAATC
* *
56233 TATTGATACAATG
1 TATCGATACAATC
56246 TATCGATAC
1 TATCGATAC
56255 CTGCCTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (13 bp):
TATCGATACAATC
Found at i:56367 original size:20 final size:19
Alignment explanation
Indices: 56324--56376 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
56314 CATAAGTAAA
* * *
56324 TGTATCGATACGTATTATT
1 TGTATCGATACATTTTAGT
56343 TGTATCGATACATTTTAGGT
1 TGTATCGATACATTTTA-GT
56363 TGTATCGATACATT
1 TGTATCGATACATT
56377 CTGGGTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATTTTAGT
Found at i:56383 original size:20 final size:20
Alignment explanation
Indices: 56342--56383 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
56332 TACGTATTAT
*
56342 TTGTATCGATACATTTTAGG
1 TTGTATCGATACATTCTAGG
*
56362 TTGTATCGATACATTCTGGG
1 TTGTATCGATACATTCTAGG
56382 TT
1 TT
56384 TTTAACCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTCTAGG
Found at i:58450 original size:20 final size:21
Alignment explanation
Indices: 58425--58479 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
58415 ATATCGATAC
*
58425 AATGTATCGATACATG-ACCA-
1 AATGTATCGATACATGCA-AAG
* *
58445 AATGTATCAATACTTGCAAAG
1 AATGTATCGATACATGCAAAG
58466 AATGTATCGATACA
1 AATGTATCGATACA
58480 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGCAAAG
Found at i:58545 original size:19 final size:21
Alignment explanation
Indices: 58520--58573 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
58510 CCTTAACTGT
58520 TTGTATCGATACAT-A-CAAGA
1 TTGTATCGATACATGACCAA-A
58540 -TGTATCGATACATGACCAAA
1 TTGTATCGATACATGACCAAA
58560 TTGTATCGATACAT
1 TTGTATCGATACAT
58574 TGGCTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.42
20 2 0.06
21 16 0.52
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACATGACCAAA
Found at i:60162 original size:3 final size:3
Alignment explanation
Indices: 60147--60177 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
60137 AACCATCAAG
*
60147 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
60178 GTGACTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:64919 original size:24 final size:25
Alignment explanation
Indices: 64891--64946 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
64881 TCATCAAAAT
64891 CATCAA-CAAAAATAGTTTTTAATC
1 CATCAATCAAAAATAGTTTTTAATC
*
64915 CATCAAATCTAAAATAGTTTTTAATC
1 CATC-AATCAAAAATAGTTTTTAATC
64941 CATCAA
1 CATCAA
64947 ATCTATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 21 0.72
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
CATCAATCAAAAATAGTTTTTAATC
Found at i:64932 original size:26 final size:26
Alignment explanation
Indices: 64899--64951 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
64889 ATCATCAACA
64899 AAAATAGTTTTTAATCCATCAAATCT
1 AAAATAGTTTTTAATCCATCAAATCT
64925 AAAATAGTTTTTAATCCATCAAATCT
1 AAAATAGTTTTTAATCCATCAAATCT
64951 A
1 A
64952 TCTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (26 bp):
AAAATAGTTTTTAATCCATCAAATCT
Found at i:65215 original size:20 final size:22
Alignment explanation
Indices: 65190--65234 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
65180 GAAGCACTCA
65190 CCAGGTCGCAACC-GGCA-CCC
1 CCAGGTCGCAACCGGGCAGCCC
*
65210 CCAGGTCGCATCCGGGCAGCCC
1 CCAGGTCGCAACCGGGCAGCCC
65232 CCA
1 CCA
65235 CACTCACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.18, C:0.49, G:0.27, T:0.07
Consensus pattern (22 bp):
CCAGGTCGCAACCGGGCAGCCC
Found at i:66781 original size:52 final size:52
Alignment explanation
Indices: 66703--66803 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
66693 CAATATGTTG
66703 ATACAAGGAGAATGACTATACACGAGCTTGAACATAACGGTAAGATCATAAA
1 ATACAAGGAGAATGACTATACACGAGCTTGAACATAACGGTAAGATCATAAA
* * *
66755 ATACAAGGAGAATGATTGTACACGAGCTTGAACATAATGGTAAGATCAT
1 ATACAAGGAGAATGACTATACACGAGCTTGAACATAACGGTAAGATCAT
66804 GGAATGATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (52 bp):
ATACAAGGAGAATGACTATACACGAGCTTGAACATAACGGTAAGATCATAAA
Found at i:67413 original size:21 final size:21
Alignment explanation
Indices: 67385--67442 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
67375 AAAAATTATC
* *
67385 CAAATGTATCGATACATTTGTG
1 CAAATGTATCGATACA-TTCTA
67407 C-AATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
67427 CAAATGTATCGATACA
1 CAAATGTATCGATACA
67443 GGGTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 4 0.12
21 28 0.85
22 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:67502 original size:19 final size:19
Alignment explanation
Indices: 67478--67545 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
67468 AATTCAACAA
67478 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
67497 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
67512 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
67529 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
67546 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:67517 original size:13 final size:13
Alignment explanation
Indices: 67499--67523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67489 ACATAAGTTT
67499 TGTATCGATACAA
1 TGTATCGATACAA
67512 TGTATCGATACA
1 TGTATCGATACA
67524 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67521 original size:32 final size:32
Alignment explanation
Indices: 67480--67542 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
67470 TTCAACAATT
*
67480 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
67512 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
67543 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:67590 original size:20 final size:20
Alignment explanation
Indices: 67565--67631 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
67555 GCCAAGGAAA
67565 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTTTCTG
67585 TGTATCGATACA------T-
1 TGTATCGATACATTTTTCTG
67598 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTTTCTG
67618 TGTATCGATACATT
1 TGTATCGATACATT
67632 GTGTCGATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
14 1 0.03
19 1 0.03
20 26 0.65
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTG
Found at i:67603 original size:13 final size:13
Alignment explanation
Indices: 67585--67611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67575 CATTTTTCTG
67585 TGTATCGATACAT
1 TGTATCGATACAT
67598 TGTATCGATACAT
1 TGTATCGATACAT
67611 T
1 T
67612 TTTCTGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67607 original size:33 final size:33
Alignment explanation
Indices: 67565--67664 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
67555 GCCAAGGAAA
67565 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTTTTCTGTGTATCGATACAT
67598 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTTTTCTGTGTATCGATACAT
* *** *
67631 TGTGTCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATTTTTCTGTGTATCGATACAT
67664 T
1 T
67665 TGGAAATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATTTTTCTGTGTATCGATACAT
Found at i:70065 original size:51 final size:53
Alignment explanation
Indices: 70001--70341 Score: 206
Period size: 52 Copynumber: 6.5 Consensus size: 53
69991 AGTTTCTCAA
* * * *
70001 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
70052 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * * *
70106 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCC-AC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** *** * * * * *
70158 CCCGTT-ATTTTCGAGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 TTC-TTCACAATC--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * *
70212 TT-TTCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
70265 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
70317 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
70342 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 47, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
50 4 0.02
51 35 0.16
52 88 0.40
53 38 0.17
54 46 0.21
55 5 0.02
56 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:70145 original size:27 final size:26
Alignment explanation
Indices: 70115--70189 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
70105 TTTCTTCACA
70115 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTT-ATC
*
70142 ATCGGGGATACTCC-ACCCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATC
*
70167 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
70190 GTTTTATTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 4 0.09
26 8 0.19
27 25 0.58
28 6 0.14
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCCGTTATC
Found at i:70325 original size:104 final size:103
Alignment explanation
Indices: 70006--70342 Score: 308
Period size: 104 Copynumber: 3.2 Consensus size: 103
69996 CTCAATTCTC
* * * *
70006 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
70070 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * ** * * * ** **
70111 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCC-A--CCCCGTTATTTTCGA
1 CACAATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATC--
* * * * *
70172 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
70216 CCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
70281 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
70321 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
70343 TCGTTATTTC
Statistics
Matches: 178, Mismatches: 39, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
103 6 0.03
104 46 0.26
105 45 0.25
106 46 0.26
107 6 0.03
108 29 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:70415 original size:108 final size:107
Alignment explanation
Indices: 70065--70416 Score: 294
Period size: 108 Copynumber: 3.3 Consensus size: 107
70055 TCTATAATCG
* * *
70065 GGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCA
1 GGGATACTCCAACCCCGATTTTA-TTCCCAAAAACACCAATTT-TTCACAATCGGGGATACTCCA
* * * * * *
70130 ACCCCGTTA-ATCATCGGGGATACTCC-ACCCCGTTATTTTCGAG
64 ACCTCGTTATTTCATCGGGGATACTCCAACCCCATTA-CTTCAAT
* * * *
70173 GGGATACTCCAACCCCGGTTTTATT-GCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTCCCAAAAACACCAATTTTT-CACAATCGGGGATACTCCAA
* * * * ** * *
70237 CCCTGGTTTTATTT--TC---AAAACGCCAA---TTTTCCTTTAAT
65 -CCTCG--TTATTTCATCGGGGATACTCCAACCCCATTACTTCAAT
* * * *
70275 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCA
1 --GGGATACTCCAACCCCGATTTTATTCCCAAAAACACCAATTTTTCACAATCGGGGATACTCCA
70340 ACCTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCAAT
64 ACCTCGTTATTTCATCGGGGATACTCCAACCCCATTACTT-CAAT
**
70385 GGGATACTCCAACCCCGGCTTTATTCCCAAAA
1 GGGATACTCCAACCCCGATTTTATTCCCAAAA
70417 TATTGATTTC
Statistics
Matches: 187, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
101 6 0.03
102 3 0.02
103 8 0.04
104 42 0.22
105 21 0.11
106 40 0.21
107 5 0.03
108 50 0.27
109 8 0.04
110 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (107 bp):
GGGATACTCCAACCCCGATTTTATTCCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCAAT
Found at i:70449 original size:211 final size:210
Alignment explanation
Indices: 70001--70450 Score: 609
Period size: 211 Copynumber: 2.1 Consensus size: 210
69991 AGTTTCTCAA
* *
70001 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCTCCACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
* *
70066 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
65 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * * * *
70131 CCCCGTTAATCATCGGGGATACTCCACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTA
130 CCCCGTTAATCATCGGGGATACTCCACCCCATTACTTCCAAGGGGATACTCCAACCCCGGCTTTA
* *
70196 TTGCTAAAACACTAAT
195 TTCCCAAAACACTAAT
* * * *
70212 TTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCG
1 TTCTCCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCG
*
70277 GGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCA
64 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
70340 ACCTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCAATGGGATACTCCAACCCCGGCT
129 ACCCCGTTA-ATCATCGGGGATACTCC-ACCCCATTACTTCCAAGGGGATACTCCAACCCCGGCT
* * *
70405 TTATTCCCAAAATATTGAT
192 TTATTCCCAAAACACTAAT
* * *
70424 TTCT-CATAATTGGGGATAGTCCAACCC
1 TTCTCCACAATCGGGGATACTCCAACCC
70451 CGTTATTTTC
Statistics
Matches: 209, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
210 30 0.14
211 96 0.46
212 83 0.40
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (210 bp):
TTCTCCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGG
GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCACCCCATTACTTCCAAGGGGATACTCCAACCCCGGCTTTAT
TCCCAAAACACTAAT
Found at i:80131 original size:14 final size:14
Alignment explanation
Indices: 80104--80156 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
80094 ACCTTCTCTT
*
80104 CAAAAAAAAAAAAA
1 CAAAAGAAAAAAAA
*
80118 CAAAAGAAACAAAA
1 CAAAAGAAAAAAAA
*
80132 C-AAAGAAAAAGAGA
1 CAAAAGAAAAA-AAA
*
80146 GAAAAGAAAAA
1 CAAAAGAAAAA
80157 GAACCTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 8 0.25
14 15 0.47
15 9 0.28
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (14 bp):
CAAAAGAAAAAAAA
Found at i:81439 original size:176 final size:176
Alignment explanation
Indices: 81132--82444 Score: 1869
Period size: 176 Copynumber: 7.4 Consensus size: 176
81122 TTCAGTCCTT
* * * *
81132 AAAGAGTAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCATG
1 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
*
81197 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAACAGCGGGACGC
66 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
81262 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
131 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
*
81308 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCATG
1 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
*
81373 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAACAGCGGGACGC
66 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
*
81438 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCT
131 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
*
81484 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
1 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
* * *
81549 ACGCCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTACTCAAAAAGCGGGACGC
66 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
*
81614 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCT
131 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
*
81660 AAAGAGCAGGACCCCTTTTAAAGCACACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
1 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
* *
81725 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGC
66 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
* * * *
81790 CATTTCTTTGAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
131 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCC
* * * * * *
81836 AAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCATAG
1 AAAGAGCAGGA--CC---CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAG
* * *
81900 AGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCA
60 AGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCG
* * * *
81959 GGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTC
125 GGACGCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCC
* * * *
82012 AAAGAGCAAGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAG
1 AAAGAGC-AG--GAC--C-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
* *
82077 AGCAGGACGCCTT-TTCTTTTAAAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAAC
60 AGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
*
82140 GAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
124 GGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
*
82193 AAAGAGCAGGACCCCTTTTAAAGCGCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
1 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
* * *
82258 ACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGC
66 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
* * * *
82323 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTC
131 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCC
* * *
82369 AAAGAGCAGGTCGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT-CTAGTCCTCAAAGA
1 AAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
*
82433 GCGGGACGCCTT
61 GCAGGACGCCTT
82445 TCGTAGGGAT
Statistics
Matches: 1033, Mismatches: 74, Indels: 56
0.89 0.06 0.05
Matches are distributed among these distances:
175 124 0.12
176 657 0.64
177 46 0.04
178 5 0.00
179 2 0.00
180 27 0.03
181 110 0.11
182 58 0.06
183 4 0.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (176 bp):
AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
Found at i:81666 original size:297 final size:294
Alignment explanation
Indices: 81145--82445 Score: 1855
Period size: 297 Copynumber: 4.4 Consensus size: 294
81135 GAGTAGGACA
* * *
81145 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCATGACGCCTTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AATCCTCAAAGAGCAGGACG-C--CT-CT
*
81209 TTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAACAGCGGGACGCCTTTTCTTTCAA
61 TTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAA
81274 AGCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACA
126 AGCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACA
*
81339 AGTTGGTGGCACTTCCCAGTCCTCAAAGAGCATGACGCCTTCTCCTTTTAAAGCCCACACAAGTT
191 AGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTT
* * * *
81404 GGTGGCATTTTCCAGTCCTCAAACAGCGGGACGCCTT-T
256 GGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * * *
81442 TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCC-CTAAAGAGCAGGAC-CC-CTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTC-AAAGAGCAGGACGCCTCTTTT
* * * * *
81503 AAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTCTTCTTTTAAAG
64 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAG
* * * * * *
81568 CCCACACAAGTTGGTGGCA-TTTTCCAGTACTCAAAAAGCGGGACGCCTTTTCTTTCAAAGCCCA
128 CCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCA
* *
81632 CACAAGTTGGTGGCACCTTTCC-GTCC-CTAAAGAGCAGGA---C--C-CCTTTTAAAGCACACA
187 CACAAGTTGGTGGCA-CTTCCCAGTCCTC-AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACA
81689 CAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
250 CAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
81734 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCATTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCC---TCTTT
* *
81799 GAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTCAAAG
63 TAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAG
*
81864 CCCACACAAGTTGGTGGCACCTTTCCGTCCCCATAGAGCAGGACCCCTTTTAAAGCCCACACAAG
128 CCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAG
81929 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGG
193 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGG
* *
81994 TGGCACTTCCCAGTCCTCAAAGAGCAAGATGCCTTCT
258 TGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
82031 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCC---TCTTT
* *
82096 TAAAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACGAGACGCCTTTTCTTTCAAA
63 T-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAA
*
82160 GCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCGCACACAA
127 GCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAA
*
82225 GTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTG
192 GTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTG
* * *
82290 GTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTT-T
257 GTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
* *
82327 TCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGTCGCCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCC---TCTTT
** *
82392 TAAAGCCCACACAAGTTGGTGGCA-CCTCTAGTCCTCAAAGAGCGGGACGCCTTT
63 TAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTT
82446 CGTAGGGATC
Statistics
Matches: 908, Mismatches: 65, Indels: 64
0.88 0.06 0.06
Matches are distributed among these distances:
290 5 0.01
291 159 0.18
292 88 0.10
293 6 0.01
294 2 0.00
295 32 0.04
296 128 0.14
297 475 0.52
298 9 0.01
299 4 0.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (294 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTCTTTTAA
AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCC
ACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTG
GTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
CACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
Found at i:81846 original size:236 final size:237
Alignment explanation
Indices: 81146--82444 Score: 1654
Period size: 236 Copynumber: 5.5 Consensus size: 237
81136 AGTAGGACAC
*
81146 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCATGACGCCTTCTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTCAAAGAGCAGGACG-C--CT-CTT
* * * * *
81210 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAACAGCGGGACGCCTT-TTCTTTCAA
61 TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAA
* *
81274 AGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGAC-CC---CTTTTAAAGCCC
126 AGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCC
* * * *
81334 ACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCATGACGCCTTCTC
190 ACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTT-TT
* * * *
81383 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAACAGCGGGACGCCTTTTCTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCC---TCTTTT
81448 AAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCC-CTAAAGAGCAGGA---C--C-CCTTTTAA
63 AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTC-AAAGAGCAGGACGCCTTCTCCTTTTAA
*
81505 AGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTCTTCTTTTAAAGCC
126 AGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCC-T-TTCTTTTAAAGCC
* * *
81570 CACACAAGTTGGTGGCATTTTCCAGTACTCAAAAAGCGGGACGCCTTTT
189 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
*
81619 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCC-CTAAAGAGCAGGAC-CC-CTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTC-AAAGAGCAGGACGCCTCTTTTA
* *
81680 AAGCACACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
64 AAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
* * * *
81745 CCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCATTTCTTTGAAAGCCCACA
129 CCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACA
* *
81810 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTTT
193 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
81855 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCATAGAGCAGGAC-CC-CTTTTAA
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTTTAA
*
81917 AGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCC
65 AGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCC
* *
81982 CACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGATGCCTTCTCCTTTTAAAGCCCACA
130 CACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACA
*
82047 CAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTT
193 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
82092 CTTTTAAAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAAC-GAGACGCCTTTTCTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAG-GACGCC---TCTT
* *
82155 TCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGA---C--C-CCTTTTA
61 TTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
*
82213 AAGCGCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
125 AAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGC
* *
82278 CCACATAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTT
188 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
82328 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGTCGCCTTTTCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCC---TCTTTT
* * *
82393 AAAGCCCACACAAGTTGGTGGCAC-CTCTAGTCCTCAAAGAGCGGGACGCCTT
63 AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTT
82445 TCGTAGGGAT
Statistics
Matches: 953, Mismatches: 65, Indels: 85
0.86 0.06 0.08
Matches are distributed among these distances:
230 10 0.01
231 84 0.09
232 3 0.00
233 1 0.00
234 4 0.00
235 26 0.03
236 507 0.53
237 258 0.27
238 11 0.01
239 1 0.00
242 43 0.05
243 5 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (237 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTTTAAA
GCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCC
ACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAA
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:83251 original size:20 final size:21
Alignment explanation
Indices: 83226--83280 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
83216 GTATCGATAC
*
83226 AATGTATCGATACATG-ACCA-
1 AATGTATCGATACATGCA-AAG
*
83246 AATGTATCGATACTTGCAAAG
1 AATGTATCGATACATGCAAAG
83267 AATGTATCGATACA
1 AATGTATCGATACA
83281 GGTGATTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGCAAAG
Found at i:83253 original size:33 final size:33
Alignment explanation
Indices: 83194--83258 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
83184 ACACCTTCAG
* *
83194 ATGTATCGATACATAATGCACAGTATCGATACA
1 ATGTATCGATACATAATCCAAAGTATCGATACA
*
83227 ATGTATCGATACATGA-CCAAATGTATCGATAC
1 ATGTATCGATACATAATCCAAA-GTATCGATAC
83259 TTGCAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACATAATCCAAAGTATCGATACA
Found at i:84840 original size:75 final size:76
Alignment explanation
Indices: 84761--85084 Score: 282
Period size: 75 Copynumber: 4.2 Consensus size: 76
84751 CAATCTTTCA
* **
84761 TCTCGGGGATACTCCAACCCCATTAATTCCAAGAGGATACTCCAATCATGTTTTTATTTTCAAAA
1 TCTCGGGGATACTCCAACCCCATTAATTCCAAGAGGATACTCCAACCCCGTTTTTATTTTCAAAA
84826 TATTAAA-TTT
66 TATTAAATTTT
** * ** * **
84836 TCTCGAAGATACTCCAACCCCATTATTTTTGAAG-GGATACTCTAACCCTATTTTTATTTT-AAA
1 TCTCGGGGATACTCCAACCCCATTA-ATTCCAAGAGGATACTCCAACCCCGTTTTTATTTTCAAA
84899 A-ATTAGGAATTTT
65 ATATTA--AATTTT
* * *** * * * *
84912 T-TTGGAGAATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGTTTTTATTTTCAAA
1 TCTCGG-GGATACTCCAACCCCATTAATTCCAAGAGGATACTCCAACCCCGTTTTTATTTTCAAA
84976 ATATTAAATTTT
65 ATATTAAATTTT
* * * ** * *
84988 TCATCTTAGGGATATTCCAACCCCATCAATTCTGAGAAGATACTCCAACCCCGTTTTTATTTCCA
1 TC-TC--GGGGATACTCCAACCCCATTAATTCCAAGAGGATACTCCAACCCCGTTTTTATTTTCA
85053 AAATATTAAATTTT
63 AAATATTAAATTTT
* *
85067 TCTTGGGGGTACT-CAACC
1 TCTCGGGGATACTCCAACC
85085 TCGTTATTTT
Statistics
Matches: 198, Mismatches: 39, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
73 4 0.02
74 4 0.02
75 60 0.30
76 59 0.30
77 4 0.02
78 6 0.03
79 60 0.30
80 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (76 bp):
TCTCGGGGATACTCCAACCCCATTAATTCCAAGAGGATACTCCAACCCCGTTTTTATTTTCAAAA
TATTAAATTTT
Found at i:84952 original size:76 final size:73
Alignment explanation
Indices: 84768--85066 Score: 208
Period size: 76 Copynumber: 3.9 Consensus size: 73
84758 TCATCTCGGG
* * * ***
84768 GATACTCCAACCCCATTA-ATTCCAAGAGGATACTCCAATCATGTTTTTATTTTCAAAATATTAA
1 GATACTCCAACCCCATTATTTTCGAAG-GGATACTCCAACCCCATTTTTATTTT-AAAA-ATTAA
84832 ATTTTCTCGAA
63 ATTTTCTCGAA
* * *
84843 GATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCCTATTTTTATTTTAAAAATTAGGAA
1 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTATTTTAAAAATTA--AA
* * *
84908 TTTTTTTGGA
64 TTTTCTCGAA
*** * *
84918 GAATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGTTTTTATTTTCAAAATATTAA
1 G-ATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTATTTT-AAAA-ATTAA
* *
84983 ATTTTTCATCTTAGG
63 A-TTTTC-TC-GA-A
* * * * * *
84998 GATATTCCAACCCCATCA-ATTCTG-AGAAGATACTCCAACCCCGTTTTTATTTCCAAAATATTA
1 GATACTCCAACCCCATTATTTTC-GAAG-GGATACTCCAACCCCATTTTTATTT-TAAAA-ATTA
85061 AATTTT
62 AATTTT
85067 TCTTGGGGGT
Statistics
Matches: 179, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
73 4 0.02
74 4 0.02
75 50 0.28
76 51 0.28
77 8 0.04
78 13 0.07
79 48 0.27
80 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (73 bp):
GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTATTTTAAAAATTAAATT
TTCTCGAA
Found at i:87130 original size:4 final size:4
Alignment explanation
Indices: 87113--87142 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
87103 ATTGAGGTGC
*
87113 TTAT TTAT TCAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
87143 TGCTTTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:93825 original size:122 final size:123
Alignment explanation
Indices: 93599--94291 Score: 511
Period size: 122 Copynumber: 5.3 Consensus size: 123
93589 GGACACTTTT
* * * *
93599 TTTTTCTTTTAAAGCCCAAACAAGCTGGTGGTA-CCTTTTAAAGTCTTCAAAGAGCAGGACACTT
1 TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTT--AGTCTTCAAAGAGCAGG--A-TG
*
93663 TCTTTT-TTTTTAAAAGCCCACACAAGCTGGTGGCATCTTTTAGTCCTCAAAGAGCAAGATGGC
61 TCTTTTCTTTTT-AAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGGC
* *
93726 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTTAGTCTTCAAAGAGCAGGATGCCTTT
1 TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCTTCAAAGAGCAGGATGTCTTT
* * * * *
93790 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTC
66 TCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGGC
* * * * *
93848 TTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGTAGGACACTTTC
1 TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCTTCAAAGAGCAGG--A-TGTC
* * * * **
93912 TTTTCTTTTTTAAAGCCCACACAAGTTGGTAGCACCTCTTAGTCCTCAAAGAGCAGGACACTCAC
63 TTTTC-TTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCA--AGA-T-GG
93977 C
123 C
* **
93978 TTTTCCTTTAAAAG-CCACACAAGCTGGTGGCACCTCTTATCTTTTCAATTCTCAAAGAGCAGGA
1 TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC-CTT-T-TAGTC---T-TCAAAGAGCAGGA
* * ** * * *
94042 TGTTTTTTTCCTTTTAAAGCGTACGCAAGATGGTGGCACCTTTTAGTCCTCAAAGAGCAGAACAC
59 TG-TCTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGC--AAGA-
**
94107 TCGTT
120 T-GGC
* * * *
94112 TTTTCTTTTTAAAAGCCCATACAAGCTGGTGGCACATGTTATCCTTTTCAATCCTCAAAGAGCAG
1 TTTTCCTTTT-AAAGCCCACACAAGCTGGTGGCAC-------CCTTTT-AGTCTTCAAAGAGCAG
* *
94177 GATG-CTTTTTCTTTTTAAAGCCCACAGAAGCTGGTGGCATCTCTTACCCTTTCAGTCCTCATAG
57 GATGTC-TTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-C-C-T----TTT-AGTCCTCAAAG
94241 AG-AAGGAT-GC
113 AGCAA-GATGGC
* * * *
94251 TTTTTCTTTTTAAAGCCCACACGAGTTGGCGGCACCCTTTT
1 -TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTT
94292 CCCTCTAAAG
Statistics
Matches: 459, Mismatches: 66, Indels: 77
0.76 0.11 0.13
Matches are distributed among these distances:
122 105 0.23
123 5 0.01
124 1 0.00
125 24 0.05
126 44 0.10
127 35 0.08
128 1 0.00
129 17 0.04
130 15 0.03
131 3 0.01
132 7 0.02
133 3 0.01
134 56 0.12
135 11 0.02
136 46 0.10
137 27 0.06
138 1 0.00
139 21 0.05
140 11 0.02
141 6 0.01
142 4 0.01
143 4 0.01
144 12 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (123 bp):
TTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCTTCAAAGAGCAGGATGTCTTT
TCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGGC
Found at i:93954 original size:65 final size:64
Alignment explanation
Indices: 93568--94146 Score: 583
Period size: 61 Copynumber: 9.0 Consensus size: 64
93558 AACCTTTTAT
* * * * *
93568 CCTTTTAGTCCTCAAAGAGCAGGACACTTTTTTTTTCTTTTAAAGCCCAAACAAGCTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * *
93632 CCTTTTAAAGTCTTCAAAGAGCAGGACACTTTCTTTT-TTTTTAAAAGCCCACACAAGCTGGTGG
1 CCTTTT--AGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTT-AAAGCCCACACAAGCTGGTGG
93696 CA
63 CA
* * * *
93698 TCTTTTAGTCCTCAAAGAGCA--AGA-TGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* *
93759 CCTTTTAGTCTTCAAAGAGCAGG--A-TGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * *
93820 CCTTTTAGTCCTCAAAGAGTAGG--AC-GTCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * * * *
93881 CCTTTTAGTCCTCAAAGAGTAGGACACTTTCTTTTCTTTTTTAAAGCCCACACAAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTC-CTTTTAAAGCCCACACAAGCTGGTGGCA
* ** *
93946 CCTCTTAGTCCTCAAAGAGCAGGACACTCACCTTTTCCTTTAAAAG-CCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACT-GTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * * ** * *
94010 CCTCTTATCTTTTCAATTCTCAAAGAGCAGG--A-TGTTTTTTTCCTTTTAAAGCGTACGCAAGA
1 ---C----CTTTT-AGTCCTCAAAGAGCAGGACACTG-TCTTTTCCTTTTAAAGCCCACACAAGC
94072 TGGTGGCA
57 TGGTGGCA
* * * *
94080 CCTTTTAGTCCTCAAAGAGCAGAACACTCGTTTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGC
1 CCTTTTAGTCCTCAAAGAGCAGGACACT-GTCTTTTCCTTTT-AAAGCCCACACAAGCTGGTGGC
94145 A
64 A
94146 C
1 C
94147 ATGTTATCCT
Statistics
Matches: 435, Mismatches: 53, Indels: 52
0.81 0.10 0.10
Matches are distributed among these distances:
61 161 0.37
62 20 0.05
63 7 0.02
64 44 0.10
65 74 0.17
66 79 0.18
67 2 0.00
69 14 0.03
70 15 0.03
71 4 0.01
72 15 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (64 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACTGTCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
Found at i:94142 original size:66 final size:64
Alignment explanation
Indices: 93568--94215 Score: 560
Period size: 61 Copynumber: 10.0 Consensus size: 64
93558 AACCTTTTAT
* * * *
93568 CCTTTTAGTCCTCAAAGAGCAGGACACTTTTTTTTTCTTTTAAAGCCCAAACAAGCTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* *
93632 CCTTTTAAAGTCTTCAAAGAGCAGGACACT-TTCTTTT-TTTTTAAAAGCCCACACAAGCTGGTG
1 CCTTTT--AGTCCTCAAAGAGCAGGACACTGTT-TTTTCCTTTT-AAAGCCCACACAAGCTGGTG
93695 GCA
62 GCA
* * ** *
93698 TCTTTTAGTCCTCAAAGAGCA--AGA-TGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* **
93759 CCTTTTAGTCTTCAAAGAGCAGG--A-TGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * * *
93820 CCTTTTAGTCCTCAAAGAGTAGG--AC-GTCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * * *
93881 CCTTTTAGTCCTCAAAGAGTAGGACACT-TTCTTTTCTTTTTTAAAGCCCACACAAGTTGGTAGC
1 CCTTTTAGTCCTCAAAGAGCAGGACACTGTT-TTTTC-CTTTTAAAGCCCACACAAGCTGGTGGC
93945 A
64 A
* *** *
93946 CCTCTTAGTCCTCAAAGAGCAGGACACTCACCTTTTCCTTTAAAAG-CCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACT-GTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
* * ** * *
94010 CCTCTTATCTTTTCAATTCTCAAAGAGCAGG--A-TGTTTTTTTCCTTTTAAAGCGTACGCAAGA
1 ---C----CTTTT-AGTCCTCAAAGAGCAGGACACTG-TTTTTTCCTTTTAAAGCCCACACAAGC
94072 TGGTGGCA
57 TGGTGGCA
* * *
94080 CCTTTTAGTCCTCAAAGAGCAGAACACTCGTTTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGC
1 CCTTTTAGTCCTCAAAGAGCAGGACACT-GTTTTTTCCTTTT-AAAGCCCACACAAGCTGGTGG-
94145 ACATGTTA
63 -C-----A
* * * *
94153 TCCTTTTCAATCCTCAAAGAGCAGG--A-TGCTTTTTCTTTTTAAAGCCCACAGAAGCTGGTGGC
1 -CCTTTT-AGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGC
94215 A
64 A
94216 TCTCTTACCC
Statistics
Matches: 487, Mismatches: 57, Indels: 81
0.78 0.09 0.13
Matches are distributed among these distances:
61 160 0.33
62 20 0.04
63 9 0.02
64 42 0.09
65 76 0.16
66 73 0.15
67 2 0.00
68 2 0.00
69 14 0.03
70 34 0.07
71 16 0.03
72 16 0.03
73 2 0.00
74 6 0.01
75 15 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (64 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACTGTTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
Found at i:94168 original size:75 final size:69
Alignment explanation
Indices: 94080--94272 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
94070 GATGGTGGCA
* * *
94080 CCTTTTAGTCCTCAAAGAGCAGAACACTCGTTTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGC
1 CCTTTTAATCCTCAAAGAGCAG--CA-T-GCTTTTTCTTTTT-AAAGCCCACACAAGCTGGTGGC
94145 ACATGTTAT
61 ACATGTTAT
* *
94154 CCTTTTCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACAGAAGCTGGTGGCATC-
1 CCTTTT-AATCCTCAAAGAGCAGCATGCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-CA
* *
94218 TCTTAC
64 TGTTAT
* * * * *
94224 CCTTTCAGTCCTCATAGAGAAGGATGCTTTTTCTTTTTAAAGCCCACAC
1 CCTTTTAATCCTCAAAGAGCAGCATGCTTTTTCTTTTTAAAGCCCACAC
94273 GAGTTGGCGG
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
69 39 0.37
70 30 0.29
71 13 0.12
72 1 0.01
73 1 0.01
74 6 0.06
75 15 0.14
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (69 bp):
CCTTTTAATCCTCAAAGAGCAGCATGCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACATG
TTAT
Found at i:94257 original size:69 final size:70
Alignment explanation
Indices: 94111--94272 Score: 229
Period size: 69 Copynumber: 2.3 Consensus size: 70
94101 GAACACTCGT
* * * *
94111 TTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGCACATGTTATCCTTTTCAATCCTCAAAGAGCA
1 TTTTTCTTTTT-AAAGCCCACACAAGCTGGTGGCACATCTTATCCCTTTCAATCCTCAAAGAGAA
94176 GGATGC
65 GGATGC
* * *
94182 TTTTTCTTTTTAAAGCCCACAGAAGCTGGTGGCATC-TCTTA-CCCTTTCAGTCCTCATAGAGAA
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-CATCTTATCCCTTTCAATCCTCAAAGAGAA
94245 GGATGC
65 GGATGC
94251 TTTTTCTTTTTAAAGCCCACAC
1 TTTTTCTTTTTAAAGCCCACAC
94273 GAGTTGGCGG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 45 0.55
70 25 0.30
71 12 0.15
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (70 bp):
TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACATCTTATCCCTTTCAATCCTCAAAGAGAAG
GATGC
Found at i:95498 original size:3 final size:3
Alignment explanation
Indices: 95492--95524 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
95482 AAAAAGAAAG
95492 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
95525 TGAAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:96995 original size:25 final size:26
Alignment explanation
Indices: 96967--97015 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
96957 AATCATTAAA
*
96967 GTTTTTGAA-GGGATACTCCAACCTC
1 GTTTTTCAAGGGGATACTCCAACCTC
96992 GTTTTTCAAGGGGATACTCCAACC
1 GTTTTTCAAGGGGATACTCCAACC
97016 CCACCATCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (26 bp):
GTTTTTCAAGGGGATACTCCAACCTC
Found at i:97125 original size:53 final size:53
Alignment explanation
Indices: 97020--97149 Score: 158
Period size: 53 Copynumber: 2.4 Consensus size: 53
97010 CCAACCCCAC
* *
97020 CATCTCTTAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCCAATTTTT
1 CATCT-TTA-GGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCAAATTTCT
* *
97075 CATCTTTAGGGATACTCCAACCTCGTTTTTACTTCTTAAAA-ATCAAAATTTCT
1 CATCTTTAGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATC-AAATTTCT
*
97128 -ATC-TTCGAGGATACTCCAACCC
1 CATCTTTAG-GGATACTCCAACCC
97150 TACCATTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
51 3 0.04
52 19 0.28
53 37 0.55
54 3 0.04
55 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (53 bp):
CATCTTTAGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCAAATTTCT
Found at i:97299 original size:79 final size:78
Alignment explanation
Indices: 97084--97457 Score: 243
Period size: 79 Copynumber: 4.7 Consensus size: 78
97074 TCATCTTTAG
* * ** * * *
97084 GGATACTCCAACCTCGTTTTTACTTCTTAAAA-ATCAAAATTTCTATCTTCGAGGATACTCCAA-
1 GGATACTCCAACCCCGTTTTTATTTC-TAAAATATCAATTTTTC-ACCATCGAGGATACTCTAAC
* **
97147 CCC-TACCATTTTCGAGG
64 CCCGTA--A-TTCCGAAA
* * * * * ** * *
97164 GGATATTCCAACCCCATTTTTATTTCAAAAATATTAAAATTTTCA-TTTTGAAGATACTCTAACC
1 GGATACTCCAACCCCGTTTTTATTTCTAAAATA-TCAATTTTTCACCATCGAGGATACTCTAACC
*
97228 CCATCAATTCCGAAA
65 CCGT-AATTCCGAAA
* * * * * * *
97243 GAATATTCCAATCCCGTTTTTATTCCCAAAATATCAATTTTTCACCATCGAGGATACTCCAACCT
1 GGATACTCCAACCCCGTTTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCTAACCC
* * * *
97308 CGTTATTTCTAAG
66 CGTAATTCCGAAA
* * * * * *
97321 GGATACTCTAACCCCGTTTTTTATTTTTAAAATATTATTTTTTCACCATCAAAGATACTCTAACC
1 GGATACTCCAACCCCG-TTTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCTAACC
* * *
97386 CCGTTATTTCTGAGA
65 CCG-TAATTCCGAAA
* * *
97401 GGATACTCCAACCCCATTTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATA
1 GGATACTCCAACCCC-GTTTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATA
97458 TTCCAACCTT
Statistics
Matches: 224, Mismatches: 61, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
78 27 0.12
79 108 0.48
80 79 0.35
81 9 0.04
82 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCTAACCC
CGTAATTCCGAAA
Found at i:97443 original size:80 final size:80
Alignment explanation
Indices: 97156--97503 Score: 285
Period size: 79 Copynumber: 4.4 Consensus size: 80
97146 ACCCTACCAT
* * * * * ** *
97156 TTTC-GAGGGGATATTCCAACCCCA-TTTTTATTTCAAAAATATTAAAATTTTCA-TTTTGAAGA
1 TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATA-TCAATTTTTCACCATCGAAGA
* * *
97218 TACTCTAACCCCATCA
65 TACTCCAACCCCGTTA
* * * * * * * * * *
97234 ATTCCGAAAGAATATTCCAATCCC-GTTTTTATTCCCAAAATATCAATTTTTCACCATCGAGGAT
1 TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATATCAATTTTTCACCATCGAAGAT
*
97298 ACTCCAACCTCGTTA
66 ACTCCAACCCCGTTA
* * * * * * *
97313 TTTCTAAG-GGATACTCTAACCCCGTTTTTTATTTTTAAAATATTATTTTTTCACCATCAAAGAT
1 TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATATCAATTTTTCACCATCGAAGAT
*
97377 ACTCTAACCCCGTTA
66 ACTCCAACCCCGTTA
* **
97392 TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGAT
1 TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATATCAATTTTTCACCATCGAAGAT
* **
97457 ATTCCAACCTTGTTA
66 ACTCCAACCCCGTTA
* *
97472 TTT-TCGAGGGGATACTCCAACCCTATTGTTTT
1 TTTCT-GAGAGGATACTCCAACCCCATT-TTTT
97504 TGAGGGGATA
Statistics
Matches: 212, Mismatches: 51, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
78 23 0.11
79 104 0.49
80 81 0.38
81 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (80 bp):
TTTCTGAGAGGATACTCCAACCCCATTTTTTATTTCTAAAATATCAATTTTTCACCATCGAAGAT
ACTCCAACCCCGTTA
Found at i:97491 original size:28 final size:28
Alignment explanation
Indices: 97451--97526 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
97441 TTTCACCATC
* * *
97451 GGGGATATTCCAACCTTGTTATTTTCGA
1 GGGGATACTCCAACCCTATTATTTTCGA
* *
97479 GGGGATACTCCAACCCTATTGTTTTTGA
1 GGGGATACTCCAACCCTATTATTTTCGA
*
97507 GGGGATACTCTAACCCTATT
1 GGGGATACTCCAACCCTATT
97527 TTTACCTCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (28 bp):
GGGGATACTCCAACCCTATTATTTTCGA
Found at i:99755 original size:15 final size:15
Alignment explanation
Indices: 99737--99766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99727 ATATAAATAT
*
99737 TACATAAAAATAAAG
1 TACATAAAAACAAAG
99752 TACATAAAAACAAAG
1 TACATAAAAACAAAG
99767 AAAAAGGGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
TACATAAAAACAAAG
Found at i:102647 original size:51 final size:51
Alignment explanation
Indices: 102579--103618 Score: 461
Period size: 51 Copynumber: 20.5 Consensus size: 51
102569 AAATCGATAG
* * * *
102579 GGCTTTACCT-CTCTATATAAGTGCCGACTAATGTAGACTTTGACCCTATAA
1 GGCTTGACCTCCT-TATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * * *
102630 AGCATGACCTCCTTATATAGGTGCCAACTACTG-CGATTTTTGACTTTATAA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGA-CTTTGACTCTATAA
* * *
102681 GGCTTGACCTCCCTATATAGGTGCCAGCTAATGTGGACTTTGACTCTATAA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * *
102732 GGCTTGACCTCTTTATACAAATGCCAACTAATGTGGACTTCGACTCTATAG
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * ** *
102783 GGCTTAACCTCCTTATACAGGTAG-CAACTAATAT-GAATGTCAACTTTAT-A
1 GGCTTGACCTCCTTATATAAGT-GCCAACTAATGTGGACT-TTGACTCTATAA
* * * * * * * *
102833 GAGCTTGA-CTTCTCTGTACAGGTGCTAACTATTGTAGATTTTGACTCTATAA
1 G-GCTTGACCTCCT-TATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * *
102885 GGATTAACCT-CTCTATAT-AGTGTCAATTAATAT-G--TTAATAACTCTATAA
1 GGCTTGACCTCCT-TATATAAGTGCCAACTAATGTGGACTT--TGACTCTATAA
* * * * * * * *
102934 GGCTTGACCTCCCTATACAAGTGCCACCTAATGCGAACTTCGACTTTATTA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * *
102985 GGCTTGACCTCCTTATATAGGTGCTAGCTAATGTGAACTTCGACTTTATAA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * ** * * *
103036 GGCTTGACCTCCTTATACAGGTGCCAGTTCATATGGACTTCCG-CTCTATAA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTT-TGACTCTATAA
* * * * * * * *
103087 GGCTTAACCTTCC-TATACAGGTGCTAATTAATATAGACTTCGACTCTATAA
1 GGCTTGACC-TCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * **
103138 GGCTTTACCTCCTTATACAGGTGTCAACTAATGTGGGTTTTGACTCTAT-A
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
** * ** * * * *
103188 GGCCTTGACCT-CTCTATACGAGTGCCAGCTTGTATAGACTTAGACTCTATAG
1 GG-CTTGACCTCCT-TATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * * * * *
103240 GGCTTGACCTTCTTATGTAGGTGCCAGCTAATGTAGATTTTGACTTTGTAG
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * * ** *
103291 GGCTTGACCTCTTTTTACAGGTG-CAGCTAATGTGGACTTCAACTCTACAA
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* ** * ** ** * *
103341 GGCTTGACTTATTTATATAAGTGCCAGCTAACATTTA-TTTCAACTCTATAG
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTT-GACTCTATAA
** * * * * ** *
103392 GGCTTGA-CTTTTCTATATAGGTACCAGCTAGTGTGGACTTCAACTCTATAT
1 GGCTTGACCTCCT-TATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* ** * *
103443 GGCTTGTCCT-CTT-TATACAGCTGCCAAC-AATTGTGGACTTCAACTTTATAG
1 GGCTTGACCTCCTTATATA-AG-TGCCAACTAA-TGTGGACTTTGACTCTATAA
* * * * * * * * *
103494 GGTTTGACATCCTTATACATGTGCTAACTAATATGGGCTTTGACTTTATAG
1 GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
* * * * *
103545 GGTTTAACCT-TTTATATAGGT-CTCAACTAATGTGGACTTTGACTTTATAA
1 GGCTTGACCTCCTTATATAAGTGC-CAACTAATGTGGACTTTGACTCTATAA
* * *
103595 AGCTTGACCTCCCTATATAGGTGC
1 GGCTTGACCTCCTTATATAAGTGC
103619 TTAATTAGTT
Statistics
Matches: 759, Mismatches: 190, Indels: 79
0.74 0.18 0.08
Matches are distributed among these distances:
47 2 0.00
49 28 0.04
50 124 0.16
51 568 0.75
52 32 0.04
53 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (51 bp):
GGCTTGACCTCCTTATATAAGTGCCAACTAATGTGGACTTTGACTCTATAA
Found at i:102757 original size:102 final size:102
Alignment explanation
Indices: 102579--104126 Score: 791
Period size: 102 Copynumber: 15.4 Consensus size: 102
102569 AAATCGATAG
* * * * * * * * * *
102579 GGCTTTACCTCTCTATATAAGTGCCGACTAATGTAGACTTTGACCCTATAAAGCATGACCTCCTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * *
102644 ATATAGGTGCCAACTACTG-CGATTTTTGACTTTATAA
66 ATACAGGTGCCAACTAATGTGGA-TTTTGACTTTATAA
* *
102681 GGCTTGACCTCCCTATATAGGTGCCAGCTAATGTGGACTTTGACTCTATAAGGCTTGACCTCTTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
** * * * *
102746 ATACAAATGCCAACTAATGTGGACTTCGACTCTATAG
66 ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * * ** * *
102783 GGCTTAACCTCCTTATACAGGTAG-CAACTAATAT-GAATGTCAACTTTAT-AGAGCTTGACTTC
1 GGCTTGACCTCCCTATATAGGT-GCCAACTAATATGGACT-TTGACTCTATAAG-GCTTGACCTC
* * * * * *
102845 TCTGTACAGGTGCTAACTATTGTAGATTTTGACTCTATAA
63 TTTATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * * * * *
102885 GGATTAACCTCTCTATATA-GTGTCAATTAATAT-G--TTAATAACTCTATAAGGCTTGACCTCC
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTT--TGACTCTATAAGGCTTGACCTCT
* * * * * * * *
102946 CTATACAAGTGCCACCTAATGCGAACTTCGACTTTATTA
64 TTATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * * * * * *
102985 GGCTTGACCTCCTTATATAGGTGCTAGCTAATGTGAACTTCGACTTTATAAGGCTTGACCTCCTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
** * * ** *
103050 ATACAGGTGCCAGTTCATATGGACTTCCG-CTCTATAA
66 ATACAGGTGCCAACTAATGTGGA-TTTTGACTTTATAA
* * * * * * * * *
103087 GGCTTAACCTTCCTATACAGGTGCTAATTAATATAGACTTCGACTCTATAAGGCTTTACCTCCTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * *
103152 ATACAGGTGTCAACTAATGTGGGTTTTGACTCTAT-A
66 ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * ** * * *
103188 GGCCTTGACCTCTCTATA-CGAGTGCCAGCTTGTATAGACTTAGACTCTATAGGGCTTGACCT-T
1 GG-CTTGACCTCCCTATATAG-GTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCT
** * * * *
103251 CTTATGTAGGTGCCAGCTAATGTAGATTTTGACTTTGTAG
64 -TTATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
** * * * * ** * * *
103291 GGCTTGACCTCTTTTTACAGGTG-CAGCTAATGTGGACTTCAACTCTACAAGGCTTGACTTATTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * * ** ** ** * *
103355 ATATAAGTGCCAGCTAACATTTATTTCAACTCTATAG
66 ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* ** * * * * ** * *
103392 GGCTTGACTTTTCTATATAGGTACCAGCTAGTGTGGACTTCAACTCTATATGGCTTGTCCTCTTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * ** *
103457 ATACAGCTGCCAAC-AATTGTGGACTTCAACTTTATAG
66 ATACAGGTGCCAACTAA-TGTGGATTTTGACTTTATAA
* * * * * * * * * * *
103494 GGTTTGACATCCTTATACATGTGCTAACTAATATGGGCTTTGACTTTATAGGGTTTAACCT-TTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* *
103558 ATATAGGT-CTCAACTAATGTGGACTTTGACTTTATAA
66 ATACAGGTGC-CAACTAATGTGGATTTTGACTTTATAA
* * * * * * *
103595 AGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTTGAGTTTAT-A-G---G-CC-C--
1 GGCTTGACCTCCCTATATAGGTGC-CAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTT
* * * *
103651 TATACAAGT-CCTAATTAATGTGGA-ATTGACTTTATAG
65 TATACAGGTGCC-AACTAATGTGGATTTTGACTTTATAA
* * * * * *
103688 GGCTTGACC-CCCTATATAGGTGCCAACTAATATGGGA-TTTGACTTTTTAGGGATTAACCTTTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATAT-GGACTTTGACTCTATAAGGCTTGACCTCTT
* * *
103751 TATATAGGT-CTCAACTAATGTGGACTTTGATTTTATAA
65 TATACAGGTGC-CAACTAATGTGGATTTTGACTTTATAA
* * * * * *
103789 GGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGTACTTTGATTCTATAA-G---G--C-C-T
1 GGCTTGACCTCCCTATATAGGTGC-CAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTT
* * ** * *
103846 TATACAAGTCCCAGTTAATGTGGA-GTTGACTTTA-AT
65 TATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * * * * **
103882 GGCTTGACCTCCCTATATAGGTGCCAATTAATGTAGATTTTGACTTTACAAGGCTTGACCTCCCT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * *
103947 ATACAAGTGCCAATTAATGTAGATTTTGACTTTATAA
66 ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
** * * * * * * * * * *
103984 GGCTTGACCTCTGTATGTATGTGCTAGCTAATGTAGACTTCGACTTTGTAAGGCTTGACCTCCTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
* * * * *
104049 ATACATGTGCCAACTAATGTAGACTTTGACTCTATAG
66 ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
* * * * * *
104086 GGCTTGACCTCCTTATAGAAGTGCTAGCTGATATGGACTTT
1 GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTT
104127 AACTGGATAA
Statistics
Matches: 1105, Mismatches: 288, Indels: 106
0.74 0.19 0.07
Matches are distributed among these distances:
91 15 0.01
92 35 0.03
93 47 0.04
94 27 0.02
95 19 0.02
96 4 0.00
97 3 0.00
98 2 0.00
99 2 0.00
100 101 0.09
101 188 0.17
102 636 0.58
103 24 0.02
104 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (102 bp):
GGCTTGACCTCCCTATATAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACCTCTTT
ATACAGGTGCCAACTAATGTGGATTTTGACTTTATAA
Found at i:102857 original size:153 final size:151
Alignment explanation
Indices: 102579--104125 Score: 543
Period size: 153 Copynumber: 10.3 Consensus size: 151
102569 AAATCGATAG
* * * * * * * * * *
102579 GGCTTTACCTCTCTATATAAGTGCC-GACTAATGTAGACTTTGACCCTATAAAGCATGACCTCCT
1 GGCTTGACCTCTTTATACAAGTGCCAG-CTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT
* * ** * * *
102643 TATATAGGTGCCAACTACTGCGATTTTTGACTTTATA-AGGCTTGACCTCCCTATATAGGTGCCA
65 TATACAGGTGCCAACTAATATGA-ATTCGACTTTATAGA-GCTTGACCT-CCTATACAGGTGCCA
102707 GCTAATGTGGACTTTGACTCTATAA
127 GCTAATGTGGACTTTGACTCTATAA
* * * *
102732 GGCTTGACCTCTTTATACAAATGCCAACTAATGTGGACTTCGACTCTATAGGGCTTAACCTCCTT
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCTT
* * * * *
102797 ATACAGGTAG-CAACTAATATGAATGTCAACTTTATAGAGCTTGACTTCTCTGTACAGGTGCTAA
66 ATACAGGT-GCCAACTAATATGAAT-TCGACTTTATAGAGCTTGACCTC-CTATACAGGTGCCAG
* * *
102861 CTATTGTAGATTTTGACTCTATAA
128 CTAATGTGGACTTTGACTCTATAA
* * * * * ** * * * * *
102885 GGATTAACCTCTCTATA-TAGTGTCAATTAATATGTTA-AT-AACTCTATAAGGCTTGACCTCCC
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATG-GACTTCGACTCTATAAGGCTTAACCTCCT
* * ** * *
102947 TATACAAGTGCCACCTAATGCGAACTTCGACTTTATTAG-GCTTGACCTCCTTATATAGGTGCTA
65 TATACAGGTGCCAACTAATATGAA-TTCGACTTTA-TAGAGCTTGACCTCC-TATACAGGTGCCA
* * *
103011 GCTAATGTGAACTTCGACTTTATAA
127 GCTAATGTGGACTTTGACTCTATAA
* * * *
103036 GGCTTGACCTCCTTATACAGGTGCCAGTTCATATGGACTTCCG-CTCTATAAGGCTTAACCTTCC
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTT-CGACTCTATAAGGCTTAACC-TCC
* * * * * *
103100 -TATACAGGTGCTAATTAATATAGACTTCGACTCTATA-AGGCTTTACCTCCTTATACAGGTGTC
64 TTATACAGGTGCCAACTAATAT-GAATTCGACTTTATAGA-GCTTGACCTCC-TATACAGGTGCC
* **
103163 AACTAATGTGGGTTTTGACTCTAT-A
126 AGCTAATGTGGACTTTGACTCTATAA
* * ** * * * * *
103188 GGCCTTGACCTCTCTATACGAGTGCCAGCTTGTATAGACTTAGACTCTATAGGGCTTGACCTTCT
1 GG-CTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT
** * * * * * * * *
103253 TATGTAGGTGCCAGCTAATGTAGATTTTGACTTTGTAGGGCTTGACCTCTTTTTACAGGTG-CAG
65 TATACAGGTGCCAACTAATAT-GAATTCGACTTTATAGAGCTTGACCTC-CTATACAGGTGCCAG
** *
103317 CTAATGTGGACTTCAACTCTACAA
128 CTAATGTGGACTTTGACTCTATAA
* * * * ** * * * * **
103341 GGCTTGACTTATTTATATAAGTGCCAGCTAACATTTATTTCAACTCTATAGGGCTTGA-CTTTTC
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT-
* * * * * * * * * * *
103405 TATATAGGTACCAGCTAGTGTGGACTTCAACTCTATATG-GCTTGTCCTCTTTATACAGCTGCCA
65 TATACAGGTGCCAACTAATAT-GAATTCGACTTTATA-GAGCTTGACCTC-CTATACAGGTGCCA
* ** * *
103469 AC-AATTGTGGACTTCAACTTTATAG
127 GCTAA-TGTGGACTTTGACTCTATAA
* * * * * * * * * * * *
103494 GGTTTGACATCCTTATACATGTGCTAACTAATATGGGCTTTGACTTTATAGGGTTTAACCT-TTT
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCTT
* * * * * * *
103558 ATATAGGT-CTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAGGTGCTTA
66 ATACAGGTGC-CAACTAATAT-GAATTCGACTTTATAGAGCTTGACCT-CCTATACAGGTGC-CA
** * * * *
103622 ATTAGTTTGGACTTTGAGTTTAT-A
127 GCTAATGTGGACTTTGACTCTATAA
** * * * * * *
103646 -G---G-CC-C--TATACAAGT-CCTAATTAATGTGGAATT-GACTTTATAGGGCTTGACC-CCC
1 GGCTTGACCTCTTTATACAAGTGCC-AGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT
* * * * * * * ** *
103700 TATATAGGTGCCAACTAATATGGGATTTGACTTTTTAGGGATTAACCTTTTTATATAGGT-CTCA
65 TATACAGGTGCCAACTAATAT-GAATTCGACTTTATAGAGCTTGACC-TCCTATACAGGTGC-CA
* * *
103764 ACTAATGTGGACTTTGATTTTATAA
127 GCTAATGTGGACTTTGACTCTATAA
** * * * ** * * * * *
103789 GGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGTACTTTGATTCTATAAGG--------CCT
1 GGCTTGACCTCTTTATACAAGTGC-CAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT
* * ** * * *
103846 TATACAAGTCCCAGTTAATGTGGAGTT-GACTTTA-ATG-GCTTGACCTCCCTATATAGGTGCCA
65 TATACAGGTGCCAACTAATAT-GAATTCGACTTTATA-GAGCTTGACCT-CCTATACAGGTGCCA
** * * * *
103908 ATTAATGTAGATTTTGACTTTACAA
127 GCTAATGTGGACTTTGACTCTATAA
** ** * * * * * *
103933 GGCTTGACCTCCCTATACAAGTGCCAATTAATGTAGATTTTGACTTTATAAGGCTTGACCT-CTG
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCT-
** * * * * * * *
103997 TATGTATGTGCTAGCTAATGTAGACTTCGACTTTGTA-AGGCTTGACCTCCTTATACATGTGCCA
65 TATACAGGTGCCAACTAATAT-GAATTCGACTTTATAGA-GCTTGACCTCC-TATACAGGTGCCA
* * *
104061 ACTAATGTAGACTTTGACTCTATAG
127 GCTAATGTGGACTTTGACTCTATAA
* * * *
104086 GGCTTGACCTCCTTATAGAAGTGCTAGCTGATATGGACTT
1 GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTT
104126 TAACTGGATA
Statistics
Matches: 1052, Mismatches: 275, Indels: 134
0.72 0.19 0.09
Matches are distributed among these distances:
142 22 0.02
143 87 0.08
144 82 0.08
145 8 0.01
146 22 0.02
147 2 0.00
148 3 0.00
149 1 0.00
150 4 0.00
151 129 0.12
152 218 0.21
153 464 0.44
154 10 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (151 bp):
GGCTTGACCTCTTTATACAAGTGCCAGCTAATATGGACTTCGACTCTATAAGGCTTAACCTCCTT
ATACAGGTGCCAACTAATATGAATTCGACTTTATAGAGCTTGACCTCCTATACAGGTGCCAGCTA
ATGTGGACTTTGACTCTATAA
Found at i:103085 original size:202 final size:201
Alignment explanation
Indices: 102723--103096 Score: 438
Period size: 202 Copynumber: 1.9 Consensus size: 201
102713 GTGGACTTTG
** * *
102723 ACTCTATAAGGCTTGACCTCTTTATACAAATGCCAACTAATGTGGACTTCGACTCTATAGGGCTT
1 ACTCTATAAGGCTTGACCTCCCTATACAAATGCCAACTAATGCGAACTTCGACTCTATAGGGCTT
* *
102788 AACCTCCTTATACAGGTAGCAACTAATATGAATGTCAACTTTATAGAGCTTGACTTCTCTGTACA
66 AACCTCCTTATACAGGTAGCAACTAATATGAATGTCAACTTTATAGAGCTTGACTCCTCTATACA
* **
102853 GGTGCTAACTATTGTAGATTTTGACTCTATAAGGATTAACCTCTCTATATAGTGTCAATTAATAT
131 GGTGCCAACTATTG-AGATTCCGACTCTATAAGGATTAACCTCTCTATATAGTGTCAATTAATAT
102918 GTTAATA
195 GTTAATA
* * *
102925 ACTCTATAAGGCTTGACCTCCCTATACAAGTGCCACCTAATGCGAACTTCGACTTTATTA-GGCT
1 ACTCTATAAGGCTTGACCTCCCTATACAAATGCCAACTAATGCGAACTTCGACTCTA-TAGGGCT
* * * * *
102989 TGACCTCCTTATATAGGT-GCTAGCTAATGTGAACT-TCGACTTTATA-AGGCTTGACCTCCT-T
65 TAACCTCCTTATACAGGTAGC-AACTAATATGAA-TGTCAACTTTATAGA-GCTTGA-CTCCTCT
** *
103050 ATACAGGTGCCAGTTCATATG-GACTTCCG-CTCTATAAGGCTTAACCT
126 ATACAGGTGCCAACT-AT-TGAGA-TTCCGACTCTATAAGGATTAACCT
103097 TCCTATACAG
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
201 3 0.02
202 127 0.88
203 12 0.08
204 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (201 bp):
ACTCTATAAGGCTTGACCTCCCTATACAAATGCCAACTAATGCGAACTTCGACTCTATAGGGCTT
AACCTCCTTATACAGGTAGCAACTAATATGAATGTCAACTTTATAGAGCTTGACTCCTCTATACA
GGTGCCAACTATTGAGATTCCGACTCTATAAGGATTAACCTCTCTATATAGTGTCAATTAATATG
TTAATA
Found at i:103183 original size:304 final size:304
Alignment explanation
Indices: 102624--103205 Score: 712
Period size: 304 Copynumber: 1.9 Consensus size: 304
102614 GACTTTGACC
* * * * ** *
102624 CTATAAAGCATGACCTCCTTATATAGGTGCCAACTACTGCGATTTTTGACTTTATAAGGCTTGAC
1 CTATAAAGCATGACCTCCCTATACAAGTGCCAACTAATGCGAACTTCGACTTTATAAGGCTTGAC
* * *
102689 CTCCCTATATAGGTGCCAGCTAATGTGGACTTTGACTCTATAAGGCTTGACCTCTTTATACAAAT
66 CTCCCTATATAGGTGCCAGCTAATGTGAACTTCGACTCTATAAGGCTTGACCTCCTTATACAAAT
* *
102754 GCCAACTAATGTGGACTTCGACTCTATAGGGCTTAACCTCCTTATACAGGTAGCAACTAATATGA
131 GCCAACTAATATGGACTTCGACTCTATAAGGCTTAACCTCCTTATACAGGTAGCAACTAATATGA
* * * *
102819 ATGTCAACTTTATAGAGCTTGACTTCTCTGTACAGGTGCTAACTATTGTAGATTTTGACTCTATA
196 ATGTCAACTCTATAGAGCTTGACTCCTCTATACAGGTGCTAACTAATGTAGATTTTGACTCTAT-
102884 AGG-ATTAACCTCTCTATATAGTGTCAATTAATATGTTAATAACT
260 AGGCATTAACCTCTCTATATAGTGTCAATTAATATGTTAATAACT
* * * *
102928 CTATAAGGCTTGACCTCCCTATACAAGTGCCACCTAATGCGAACTTCGACTTTATTAGGCTTGAC
1 CTATAAAGCATGACCTCCCTATACAAGTGCCAACTAATGCGAACTTCGACTTTATAAGGCTTGAC
* * * **
102993 CTCCTTATATAGGTGCTAGCTAATGTGAACTTCGACTTTATAAGGCTTGACCTCCTTATACAGGT
66 CTCCCTATATAGGTGCCAGCTAATGTGAACTTCGACTCTATAAGGCTTGACCTCCTTATACAAAT
** * *
103058 GCCAGTTCATATGGACTTCCG-CTCTATAAGGCTTAACCTTCC-TATACAGGT-GCTAATTAATA
131 GCCAACTAATATGGACTT-CGACTCTATAAGGCTTAACC-TCCTTATACAGGTAGC-AACTAATA
* * * * *
103120 TAGACT-TCGACTCTATA-AGGCTTTACCTCCT-TATACAGGTG-TCAACTAATGTGGGTTTTGA
193 T-GAATGTCAACTCTATAGA-GCTTGA-CTCCTCTATACAGGTGCT-AACTAATGTAGATTTTGA
* *
103181 CTCTATAGGCCTTGACCTCTCTATA
254 CTCTATAGGCATTAACCTCTCTATA
103206 CGAGTGCCAG
Statistics
Matches: 234, Mismatches: 36, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
303 7 0.03
304 215 0.92
305 12 0.05
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (304 bp):
CTATAAAGCATGACCTCCCTATACAAGTGCCAACTAATGCGAACTTCGACTTTATAAGGCTTGAC
CTCCCTATATAGGTGCCAGCTAATGTGAACTTCGACTCTATAAGGCTTGACCTCCTTATACAAAT
GCCAACTAATATGGACTTCGACTCTATAAGGCTTAACCTCCTTATACAGGTAGCAACTAATATGA
ATGTCAACTCTATAGAGCTTGACTCCTCTATACAGGTGCTAACTAATGTAGATTTTGACTCTATA
GGCATTAACCTCTCTATATAGTGTCAATTAATATGTTAATAACT
Found at i:103767 original size:194 final size:194
Alignment explanation
Indices: 103485--103913 Score: 639
Period size: 194 Copynumber: 2.2 Consensus size: 194
103475 GTGGACTTCA
* * * * * * * *
103485 ACTTTATAGGGTTTGACATCCTTATACATGTGCTAACTAATATGGGCTTTGACTTTATAGGGTTT
1 ACTTTATAGGGCTTGAC-CCCCTATATAGGTGCCAACTAATATGGGATTTGACTTTATAGGGATT
103550 AACCTTTTATATAGGTCTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAG
65 AACCTTTTATATAGGTCTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAG
*
103615 GTGCTTAATTAGTTTGGACTTTGAGTT-TAT-AGGCCCTATACAAGTCCTAATTAATGTGGAATT
130 GTGCTTAATTAGTTTGGACTTTGA-TTCTATAAGGCCCTATACAAGTCCCAATTAATGTGGAATT
103678 G
194 G
*
103679 ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGGGATTTGACTTTTTAGGGATTA
1 ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGGGATTTGACTTTATAGGGATTA
* *
103744 ACCTTTTTATATAGGTCTCAACTAATGTGGACTTTGATTTTATAAGGCTTGACCTCCCTATATAG
66 ACC-TTTTATATAGGTCTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAG
* * * *
103809 GTGCTTAATTAGTTTGTACTTTGATTCTATAAGGCCTTATACAAGTCCCAGTTAATGTGGAGTTG
130 GTGCTTAATTAGTTTGGACTTTGATTCTATAAGGCCCTATACAAGTCCCAATTAATGTGGAATTG
* *
103874 ACTTTA-ATGGCTTGACCTCCCTATATAGGTGCCAATTAAT
1 ACTTTATAGGGCTTGACC-CCCTATATAGGTGCCAACTAAT
103914 GTAGATTTTG
Statistics
Matches: 213, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
193 45 0.21
194 111 0.52
195 57 0.27
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (194 bp):
ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGGGATTTGACTTTATAGGGATTA
ACCTTTTATATAGGTCTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAGG
TGCTTAATTAGTTTGGACTTTGATTCTATAAGGCCCTATACAAGTCCCAATTAATGTGGAATTG
Found at i:103806 original size:51 final size:51
Alignment explanation
Indices: 103666--103813 Score: 151
Period size: 51 Copynumber: 2.9 Consensus size: 51
103656 AAGTCCTAAT
* * *
103666 TAATGTGGAATTGACTTTATAGGGCTTGACC-CCCTATATAGGTGC-CAAC
1 TAATGTGGATTTGATTTTATAAGGCTTGACCTCCCTATATAGGTGCTCAAC
* * * * ***
103715 TAATATGGGATTTGACTTTT-TAGGGATTAACCTTTTTATATAGGT-CTCAAC
1 TAATGT-GGATTTGA-TTTTATAAGGCTTGACCTCCCTATATAGGTGCTCAAC
103766 TAATGTGGACTTTGATTTTATAAGGCTTGACCTCCCTATATAGGTGCT
1 TAATGTGGA-TTTGATTTTATAAGGCTTGACCTCCCTATATAGGTGCT
103814 TAATTAGTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
49 5 0.06
50 25 0.32
51 45 0.58
52 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (51 bp):
TAATGTGGATTTGATTTTATAAGGCTTGACCTCCCTATATAGGTGCTCAAC
Found at i:103895 original size:93 final size:95
Alignment explanation
Indices: 103572--103994 Score: 351
Period size: 93 Copynumber: 4.4 Consensus size: 95
103562 AGGTCTCAAC
*
103572 TAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTT
1 TAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTT
* * *
103637 GAGTTTAT-AGGCCCTATACAAGTCCTAAT
66 GACTTTATAAGGCCTTATACAAGTCCCAAT
* * * * * *
103666 TAATGTGGA-ATTGACTTTATAGGGCTTGACC-CCCTATATAGGTGC-CAACTAATATGGGA-TT
1 TAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGT-TTGGACTT
* * * * * *
103727 TGACTTTTTAGGGATTAACCTTTTTATATAGGTCTCAAC
65 TGACTTTATAAGG-----CC---TTATACAAGTCCCAAT
* *
103766 TAATGTGGACTTTGATTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGTACTTT
1 TAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTT
*
103831 GA-TTCTATAAGGCCTTATACAAGTCCCAGT
66 GACTT-TATAAGGCCTTATACAAGTCCCAAT
* * * * * * *
103861 TAATGTGGA-GTTGACTTTA-ATGGCTTGACCTCCCTATATAGGTGC-CAATTAATGTAGATTTT
1 TAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTT
* *
103923 GACTTTACAAGGCTTGACCTCCCTATACAAGTGCCAAT
66 GACTTTATAA-G---G-CCT---TATACAAGTCCCAAT
* *
103961 TAATGTAGATTTTGACTTTATAAGGCTTGACCTC
1 TAATGTGGACTTTGACTTTATAAGGCTTGACCTC
103995 TGTATGTATG
Statistics
Matches: 257, Mismatches: 46, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
91 14 0.05
92 37 0.14
93 47 0.18
94 17 0.07
95 20 0.08
96 1 0.00
97 5 0.02
98 2 0.01
100 40 0.16
101 28 0.11
102 31 0.12
103 15 0.06
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (95 bp):
TAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAGGTGCTTAATTAGTTTGGACTTT
GACTTTATAAGGCCTTATACAAGTCCCAAT
Found at i:103946 original size:51 final size:51
Alignment explanation
Indices: 103871--104102 Score: 268
Period size: 51 Copynumber: 4.6 Consensus size: 51
103861 TAATGTGGAG
* * * * *
103871 TTGACTTTA-ATGGCTTGACCTCCCTATATAGGTGCCAATTAATGTAGATT
1 TTGACTTTATAAGGCTTGACCTCCCTATACATGTGCCAACTAATGTAGACT
* * * *
103921 TTGACTTTACAAGGCTTGACCTCCCTATACAAGTGCCAATTAATGTAGATT
1 TTGACTTTATAAGGCTTGACCTCCCTATACATGTGCCAACTAATGTAGACT
** ** * *
103972 TTGACTTTATAAGGCTTGACCTCTGTATGTATGTGCTAGCTAATGTAGACT
1 TTGACTTTATAAGGCTTGACCTCCCTATACATGTGCCAACTAATGTAGACT
* * *
104023 TCGACTTTGTAAGGCTTGACCTCCTTATACATGTGCCAACTAATGTAGACT
1 TTGACTTTATAAGGCTTGACCTCCCTATACATGTGCCAACTAATGTAGACT
* * *
104074 TTGACTCTATAGGGCTTGACCTCCTTATA
1 TTGACTTTATAAGGCTTGACCTCCCTATA
104103 GAAGTGCTAG
Statistics
Matches: 156, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
50 9 0.06
51 147 0.94
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (51 bp):
TTGACTTTATAAGGCTTGACCTCCCTATACATGTGCCAACTAATGTAGACT
Found at i:103983 original size:195 final size:194
Alignment explanation
Indices: 103485--103994 Score: 580
Period size: 195 Copynumber: 2.6 Consensus size: 194
103475 GTGGACTTCA
* * * * * * * * * * *
103485 ACTTTATAGGGTTTGACATCCTTATACATGTGCTAACTAATATGGGCTTTGACTTTATAGGGTTT
1 ACTTTATAGGGCTTGAC-CCCCTATATAGGTGCCAACTAATATGAGATTTGACTTTACAAGGATT
** * * *
103550 AACCT-TTTATATAGGTCTCAACTAATGTGGACTTTGACTTTATAAAGCTTGACCTCCCTATATA
65 AACCTCCCTATACAAGTCTCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATA
*
103614 GGTGCTTAATTAGTTTGGACTTTGAGTTTATAGGCCCTATACAAGTCCTAATTAATGTGGAATTG
130 GGTGCTTAATTAGTTTGGACTTTGAGTTTATAGGCCCTATACAAGTCCCAATTAATGTGGAATTG
* ** *
103679 ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGGGATTTGACTTTTTAGGGATTA
1 ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGAGATTTGACTTTACAAGGATTA
*** * * *
103744 ACCTTTTTATATAGGTCTCAACTAATGTGGACTTTGATTTTATAAGGCTTGACCTCCCTATATAG
66 ACCTCCCTATACAAGTCTCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAG
* * * *
103809 GTGCTTAATTAGTTTGTACTTTGA-TTCTATAAGGCCTTATACAAGTCCCAGTTAATGTGGAGTT
131 GTGCTTAATTAGTTTGGACTTTGAGTT-TAT-AGGCCCTATACAAGTCCCAATTAATGTGGAATT
103873 G
194 G
* * * *
103874 ACTTTA-ATGGCTTGACCTCCCTATATAGGTGCCAATTAATGT-AGATTTTGACTTTACAAGGCT
1 ACTTTATAGGGCTTGACC-CCCTATATAGGTGCCAACTAATATGAGA-TTTGACTTTACAAGGAT
* * * *
103937 TGACCTCCCTATACAAGTGC-CAATTAATGTAGATTTTGACTTTATAAGGCTTGACCTC
64 TAACCTCCCTATACAAGT-CTCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTC
103995 TGTATGTATG
Statistics
Matches: 276, Mismatches: 34, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
193 46 0.17
194 112 0.41
195 117 0.42
196 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (194 bp):
ACTTTATAGGGCTTGACCCCCTATATAGGTGCCAACTAATATGAGATTTGACTTTACAAGGATTA
ACCTCCCTATACAAGTCTCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTCCCTATATAG
GTGCTTAATTAGTTTGGACTTTGAGTTTATAGGCCCTATACAAGTCCCAATTAATGTGGAATTG
Found at i:105488 original size:13 final size:13
Alignment explanation
Indices: 105470--105494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105460 CATTTTATGG
105470 TGTATCGATACAA
1 TGTATCGATACAA
105483 TGTATCGATACA
1 TGTATCGATACA
105495 TACTCTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:105510 original size:32 final size:33
Alignment explanation
Indices: 105447--105514 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
105437 CGTTACAAGC
**
105447 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
105480 CAATGTATCGATACATACTCT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
105512 CAA
1 CAA
105515 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:105589 original size:20 final size:21
Alignment explanation
Indices: 105546--105598 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
105536 GCCAATGACT
**
105546 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
105567 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
105587 TGTATCGATACA
1 TGTATCGATACA
105599 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:105604 original size:13 final size:13
Alignment explanation
Indices: 105586--105614 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
105576 ACATTTGGTC
105586 ATGTATCGATACA
1 ATGTATCGATACA
105599 ATGTATCGATACA
1 ATGTATCGATACA
105612 ATG
1 ATG
105615 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:105625 original size:20 final size:20
Alignment explanation
Indices: 105600--105650 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
105590 ATCGATACAA
*
105600 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
105620 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
105640 TGTATCGATAC
1 TGTATCGATAC
105651 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:106208 original size:22 final size:21
Alignment explanation
Indices: 106166--106209 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
106156 TTTTCTTTTC
*
106166 TCTCCCCCTTAATCAAAAATT
1 TCTCCCCCTTAATAAAAAATT
*
106187 TCTCCCCCTTAGTAAAACAATT
1 TCTCCCCCTTAATAAAA-AATT
106209 T
1 T
106210 AACAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.34
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:106248 original size:17 final size:17
Alignment explanation
Indices: 106226--106259 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
106216 TTCGCACAAT
106226 AACAATTTCTTTCTCCC
1 AACAATTTCTTTCTCCC
106243 AACAATTTCTTTCTCCC
1 AACAATTTCTTTCTCCC
106260 CCTTAAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (17 bp):
AACAATTTCTTTCTCCC
Found at i:107586 original size:13 final size:13
Alignment explanation
Indices: 107568--107593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107558 CAATTTTTTG
107568 TGTATCGATACAT
1 TGTATCGATACAT
107581 TGTATCGATACAT
1 TGTATCGATACAT
107594 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107658 original size:21 final size:21
Alignment explanation
Indices: 107632--107707 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
107622 CTGCCAAGAA
*
107632 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
107653 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
107673 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
107694 ATGTATCGATACAT
1 ATGTATCGATACAT
107708 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:107678 original size:20 final size:20
Alignment explanation
Indices: 107653--107725 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
107643 CATCTTTTTT
107653 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
107673 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
107694 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
107714 ATGTATCGATAC
1 ATGTATCGATAC
107726 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:107689 original size:41 final size:41
Alignment explanation
Indices: 107632--107725 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
107622 CTGCCAAGAA
*
107632 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
107673 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
107714 ATGTATCGATAC
1 ATGTATCGATAC
107726 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:108417 original size:33 final size:32
Alignment explanation
Indices: 108346--108439 Score: 172
Period size: 33 Copynumber: 2.9 Consensus size: 32
108336 CCCGTTTATT
108346 AAAAAATCTCCCCCTTAATCAAGTAATTC-AA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCAAA
108377 AAAAAATCTCCCCCTTAATCAAGTAATTCAAAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTC-AAA
108410 AAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCA
108440 TATCAAAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 29 0.48
32 1 0.02
33 31 0.51
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (32 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCAAA
Found at i:112343 original size:15 final size:15
Alignment explanation
Indices: 112323--112353 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
112313 ATTTCGTTTG
*
112323 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
112338 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
112353 G
1 G
112354 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:116433 original size:13 final size:13
Alignment explanation
Indices: 116415--116440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116405 CAATTTTTTG
116415 TGTATCGATACAT
1 TGTATCGATACAT
116428 TGTATCGATACAT
1 TGTATCGATACAT
116441 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116505 original size:21 final size:21
Alignment explanation
Indices: 116479--116554 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
116469 CTGCCAAGAA
*
116479 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
116500 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
116520 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
116541 ATGTATCGATACAT
1 ATGTATCGATACAT
116555 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:116525 original size:20 final size:20
Alignment explanation
Indices: 116500--116572 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
116490 CATCTTTTTT
116500 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
116520 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
116541 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
116561 ATGTATCGATAC
1 ATGTATCGATAC
116573 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:116536 original size:41 final size:41
Alignment explanation
Indices: 116479--116572 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
116469 CTGCCAAGAA
*
116479 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
116520 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
116561 ATGTATCGATAC
1 ATGTATCGATAC
116573 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:118131 original size:13 final size:13
Alignment explanation
Indices: 118122--118146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118112 ATTGATATAG
118122 TGTATCGATACAA
1 TGTATCGATACAA
118135 TGTATCGATACA
1 TGTATCGATACA
118147 GAGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:124384 original size:21 final size:21
Alignment explanation
Indices: 124360--124414 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
124350 GCCAATGACT
*
124360 TGTATCGATACAATCTT-TTCA
1 TGTATCGATACAAT-TTGGTCA
124381 TGTATCGATAC-ATTTGGTCA
1 TGTATCGATACAATTTGGTCA
124401 TGTATCGATACAAT
1 TGTATCGATACAAT
124415 GTATCTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.52
21 13 0.42
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACAATTTGGTCA
Found at i:132722 original size:67 final size:68
Alignment explanation
Indices: 132600--132726 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
132590 ATTGGGTTTT
* * * * *
132600 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGACCAACAATATTGGACTTAAAGATGAAGATG
132665 AGA
66 AGA
* * * *
132668 AAAG-TGATAAAGATGCCAATATGTTGATTCACGACCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGACCAACAATATTGGACTTAAAGATGA
132727 GAAAAAAGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGACCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:132775 original size:55 final size:52
Alignment explanation
Indices: 132676--132996 Score: 251
Period size: 43 Copynumber: 6.6 Consensus size: 52
132666 GAAAAGTGAT
* * * * * * **
132676 AAAGATGCCAATATGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--A
* *
132731 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
132783 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
132830 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
132875 AAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
132922 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
132967 AAAGATGCCAAT-TGCTGATTCAAGGCCAGC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGC
132997 GATATTGGGC
Statistics
Matches: 230, Mismatches: 21, Indels: 37
0.80 0.07 0.13
Matches are distributed among these distances:
43 72 0.31
44 6 0.03
45 2 0.01
47 1 0.00
48 23 0.10
49 43 0.19
50 1 0.00
51 2 0.01
52 39 0.17
54 1 0.00
55 40 0.17
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (52 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:132903 original size:49 final size:49
Alignment explanation
Indices: 132729--133011 Score: 358
Period size: 43 Copynumber: 6.0 Consensus size: 49
132719 AAAGATGAGA
* *
132729 AAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAG
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
132778 ATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 A---AAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
132830 -----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
132873 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
132922 -----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
132965 AAAAAGATGCCAAT-TGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
133012 AGAAGATGCC
Statistics
Matches: 205, Mismatches: 14, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
43 80 0.39
44 2 0.01
48 32 0.16
49 48 0.23
52 43 0.21
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (49 bp):
AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:132915 original size:92 final size:91
Alignment explanation
Indices: 132739--133011 Score: 465
Period size: 92 Copynumber: 2.9 Consensus size: 91
132729 AAAAAGATGT
* *
132739 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AAAAGATGCCAAT-TGCTGATT
*
132804 CAAGGCCAGCTATATTGGACTTAAAGGTGC
62 CAAGGCCAGCGATATTGGACTTAAAGGTGC
132834 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCCAAT-TGCTGATTCAA
132899 GGCCAGCGATATTGGACTTAAAGGTGC
65 GGCCAGCGATATTGGACTTAAAGGTGC
132926 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCCAATTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCCAATTGCTGATTCAAG
*
132991 GCCAGCGATATTGGGCTTAAA
66 GCCAGCGATATTGGACTTAAA
133012 AGAAGATGCC
Statistics
Matches: 173, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
91 32 0.18
92 102 0.59
95 39 0.23
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (91 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCCAATTGCTGATTCAAG
GCCAGCGATATTGGACTTAAAGGTGC
Done.