Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 96 of 170
Found at i:29878749 original size:43 final size:43
Alignment explanation
Indices: 29878688--29878799 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
29878678 TTCCAATATT
29878688 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATC
1 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATC
* *
29878731 GATTTGATATTTCGTGTAAGACCATAGCTGGGCTATTGGCGTC
1 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATC
** *
29878774 GATACGAGATTTCCATGTAAGACCAT
1 GATTTGAGATTT-CGTGTAAGACCAT
29878800 GTCTGGGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 50 0.81
44 12 0.19
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATC
Found at i:29881273 original size:16 final size:17
Alignment explanation
Indices: 29881241--29881273 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29881231 TATAGAATGG
*
29881241 ATTTTGCAATTAAACAA
1 ATTTTGCAATGAAACAA
29881258 ATTTTGCAA-GAAACAA
1 ATTTTGCAATGAAACAA
29881274 GGAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (17 bp):
ATTTTGCAATGAAACAA
Found at i:29882257 original size:4 final size:4
Alignment explanation
Indices: 29882248--29882272 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29882238 AACTTGAGCC
29882248 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
29882273 GTACAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:29884915 original size:17 final size:16
Alignment explanation
Indices: 29884878--29884916 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
29884868 AATAAACAAT
29884878 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
29884893 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
29884911 TAAATT
1 TAAATT
29884917 CGAATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:29886362 original size:11 final size:12
Alignment explanation
Indices: 29886319--29886365 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
29886309 TGTTTTGTTA
29886319 CAAAATAAAATAT
1 CAAAATAAAA-AT
29886332 CAACAATAAAAAT
1 CAA-AATAAAAAT
29886345 ACAAAATAAAAAT
1 -CAAAATAAAAAT
29886358 C-AAATAAA
1 CAAAATAAA
29886366 CATAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.22
12 1 0.03
13 14 0.44
14 10 0.31
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAATAAAAAT
Found at i:29887963 original size:25 final size:26
Alignment explanation
Indices: 29887919--29887967 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
29887909 TCTCATCTCA
29887919 ATTTTACCCTTGATAAAATTTTGATG
1 ATTTTACCCTTGATAAAATTTTGATG
29887945 ATTTTACCC-TGATAAAATTTTGA
1 ATTTTACCCTTGATAAAATTTTGA
29887968 GAAAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTGATG
Found at i:29891631 original size:13 final size:13
Alignment explanation
Indices: 29891615--29891651 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
29891605 AAAAAAAACC
29891615 AAGAAAGATGAAG
1 AAGAAAGATGAAG
29891628 AAG--AG-TGAAG
1 AAGAAAGATGAAG
29891638 AAGAAAGATGAAG
1 AAGAAAGATGAAG
29891651 A
1 A
29891652 CAAAGATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 2 0.10
13 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
AAGAAAGATGAAG
Found at i:29891680 original size:39 final size:39
Alignment explanation
Indices: 29891634--29891721 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
29891624 GAAGAAGAGT
* *
29891634 GAAGAAGAAAGAT-GAAGACAAAGATA-CGTAAAAGAAAAA
1 GAAGAAGAAAAATGGAAGA-AAAGA-AGCGAAAAAGAAAAA
*
29891673 GAAGAAGAAAAATGGAAGAAAAGAAGGGAAAAAGAAAAA
1 GAAGAAGAAAAATGGAAGAAAAGAAGCGAAAAAGAAAAA
*
29891712 GAAAAAGAAA
1 GAAGAAGAAA
29891722 TACAATAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 37 0.86
40 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.05
Consensus pattern (39 bp):
GAAGAAGAAAAATGGAAGAAAAGAAGCGAAAAAGAAAAA
Found at i:29893368 original size:19 final size:19
Alignment explanation
Indices: 29893339--29893385 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
29893329 CAAACCAACC
*
29893339 AAAAGAAACCCAAAACAAGG
1 AAAA-AAACCCAAAACAAAG
*
29893359 AAAAAAACCCAAAGCAAAG
1 AAAAAAACCCAAAACAAAG
29893378 AAACAAAA
1 AAA-AAAA
29893386 AAGAAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.70, C:0.19, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAACCCAAAACAAAG
Found at i:29897610 original size:49 final size:49
Alignment explanation
Indices: 29897553--29897700 Score: 287
Period size: 49 Copynumber: 3.0 Consensus size: 49
29897543 AGTTCAAAGG
29897553 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
29897602 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
*
29897651 ATCATACATTTACAAAACATCGCCAATCAAATGCTAGATTCATTTACTA
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
29897700 A
1 A
29897701 CCTAAAGAGA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 98 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (49 bp):
ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
Found at i:29906717 original size:18 final size:18
Alignment explanation
Indices: 29906683--29906717 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29906673 ATTTCAGAAA
* *
29906683 TATGGGCCTACATGCCCG
1 TATGGGCCCACACGCCCG
29906701 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
29906718 AACTTGGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
TATGGGCCCACACGCCCG
Found at i:29915612 original size:9 final size:10
Alignment explanation
Indices: 29915598--29915643 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
29915588 AGAAGAGAAT
29915598 AGAAAAT-AA
1 AGAAAATAAA
29915607 AGAAAATAAA
1 AGAAAATAAA
*
29915617 AGAAATGTTAAA
1 AGAAA--ATAAA
29915629 A-AAAATAAA
1 AGAAAATAAA
29915638 AGAAAA
1 AGAAAA
29915644 AATTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 12 0.39
10 11 0.35
11 3 0.10
12 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (10 bp):
AGAAAATAAA
Found at i:29921431 original size:18 final size:17
Alignment explanation
Indices: 29921408--29921463 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 17
29921398 ATTTTGCATT
29921408 AATTAATTTAAAAAATTC
1 AATTAA-TTAAAAAATTC
*
29921426 AATTAATT---AAATTT
1 AATTAATTAAAAAATTC
*
29921440 ATTTAATTAAAAAA-TC
1 AATTAATTAAAAAATTC
29921456 AATTAATT
1 AATTAATT
29921464 TACTTGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.39
16 8 0.26
17 5 0.16
18 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTAATTAAAAAATTC
Found at i:29922344 original size:152 final size:152
Alignment explanation
Indices: 29922023--29922329 Score: 562
Period size: 152 Copynumber: 2.0 Consensus size: 152
29922013 GATTTGGTTA
*
29922023 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTGAAATAATACATCAAAAATTGTTAAAT
1 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATACATCAAAAATTGTTAAAT
29922088 TGTGCTTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTCAAAATTGAAATTTTAAACTTCA
66 TGTGCTTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTCAAAATTGAAATTTTAAACTTCA
*
29922153 AAGCATCAACCTCAATTAAATG
131 AAACATCAACCTCAATTAAATG
* *
29922175 AAAAAATTAAGAATTAAAGTGAAGAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
1 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATACATCAAAAATTGTTAAAT
29922240 TGTGC-TTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTTCAAAATTGAAATTTTAAACTTC
66 TGTGCTTTGTTTACCTCCTTGTCATAAGTTCTA-TTTTTTTTTCAAAATTGAAATTTTAAACTTC
29922304 AAAACATCAACCTCAATTAAATG
130 AAAACATCAACCTCAATTAAATG
29922327 AAA
1 AAA
29922330 GTGAATTATT
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
151 27 0.18
152 123 0.82
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (152 bp):
AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATACATCAAAAATTGTTAAAT
TGTGCTTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTCAAAATTGAAATTTTAAACTTCA
AAACATCAACCTCAATTAAATG
Found at i:29929064 original size:25 final size:25
Alignment explanation
Indices: 29929025--29929072 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
29929015 TTGTAGAGAG
*
29929025 AAAATTCTCTGAAGAAATTATTTCAA
1 AAAATTCTCTAAAGAAATT-TTTCAA
*
29929051 AAAATT-TCTAAAGATATTTTTC
1 AAAATTCTCTAAAGAAATTTTTC
29929073 TTATTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATTCTCTAAAGAAATTTTTCAA
Found at i:29930905 original size:36 final size:35
Alignment explanation
Indices: 29930839--29930906 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
29930829 ATATAATCTT
* * *
29930839 TGTCATATGGTATGAAAACATATCTACATATTTAC
1 TGTCACATGGCATGAAAACATACCTACATATTTAC
29930874 TGTCACATGGCATGAATAACATACCCT-CATATT
1 TGTCACATGGCATGAA-AACATA-CCTACATATT
29930907 CACTTTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.50
36 12 0.43
37 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (35 bp):
TGTCACATGGCATGAAAACATACCTACATATTTAC
Found at i:29934183 original size:481 final size:481
Alignment explanation
Indices: 29933274--29934225 Score: 1850
Period size: 481 Copynumber: 2.0 Consensus size: 481
29933264 TCTCATTGGA
*
29933274 CTACTGCCAAGCAAATCCTTTGCTATTTGATAGGCATTATTGATTATGGACTGGTATTCTCTTCC
1 CTACTGCCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
*
29933339 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
66 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTAATGATCGAAA
29933404 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
131 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
29933469 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
196 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
29933534 ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
261 ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
29933599 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
326 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
*
29933664 TTTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
391 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
29933729 TCCAAGCACCAAGTTATGAACTAGTG
456 TCCAAGCACCAAGTTATGAACTAGTG
*
29933755 CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
1 CTACTGCCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
29933820 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTAATGATCGAAA
66 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTAATGATCGAAA
*
29933885 GTCCACATTTGGCCATTGTGTTTTTTTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
131 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
29933950 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
196 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
29934015 ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
261 ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
29934080 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
326 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
*
29934145 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTGTATGTTCCT
391 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
29934210 TCCAAGCACCAAGTTA
456 TCCAAGCACCAAGTTA
29934226 CAGATATTTT
Statistics
Matches: 465, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
481 465 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (481 bp):
CTACTGCCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTAATGATCGAAA
GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
TCCAAGCACCAAGTTATGAACTAGTG
Found at i:29939325 original size:20 final size:22
Alignment explanation
Indices: 29939300--29939349 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
29939290 TTCTTACTTT
29939300 TTTTATT-C-TATTACTTAGAA
1 TTTTATTACATATTACTTAGAA
* *
29939320 TTTTATTACATTTTACTTATAA
1 TTTTATTACATATTACTTAGAA
29939342 TTTTATTA
1 TTTTATTA
29939350 AGCCCTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 1 0.04
22 18 0.69
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTATTACATATTACTTAGAA
Found at i:29946454 original size:5 final size:5
Alignment explanation
Indices: 29946444--29946474 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
29946434 AAATTTAATA
*
29946444 TATAT TATAT TATAG TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
29946475 TACTTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:29947798 original size:16 final size:16
Alignment explanation
Indices: 29947779--29947818 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
29947769 TAATATATGT
29947779 TTATATTTGTAATTTC
1 TTATATTTGTAATTTC
29947795 TTATATTTGTAATTTC
1 TTATATTTGTAATTTC
29947811 TTATATTT
1 TTATATTT
29947819 AAATATTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (16 bp):
TTATATTTGTAATTTC
Found at i:29949579 original size:203 final size:205
Alignment explanation
Indices: 29949202--29949586 Score: 445
Period size: 203 Copynumber: 1.9 Consensus size: 205
29949192 TAACTTTATA
* ** * *
29949202 ATAAAGAAGTTAATAATATTAACTATTTGGAATAACTAAAATCATTATTAAAATATAGAGACCAA
1 ATAAAGAAGTTAATAATACTAACTATTTGGAATAACTAAAATCATTAAAAAAATATAAAAACCAA
* * * * * * * * *
29949267 ATCATTTTTCAAATTAAAGTATAGAAATTATATTTTAAATTTAAGCATAATAGAAAGACTAAAAT
66 ATCATATTACAAATTAAAATATAGAAATTAAATTTCAAATTTAAACATAATAAAAAGAATAAAAC
*
29949332 TAAAATTAAACATTTTGTAAAGAAAAAAAAAACCAAATACATGTAAACAAAACCACCTTTCTTTT
131 TAAAATTAAACATTTTGTAAAGAAAAAAAAAACCAAACACATGTAAACAAAACCACCTTTCTTTT
29949397 ATATATAGTT
196 ATATATAGTT
* * *
29949407 ATAAA-AA-TTAATAGTACTAACTATTTGGATTAACTAATAAT-ATTAAAAAAATATAAAAATCA
1 ATAAAGAAGTTAATAATACTAACTATTTGGAATAACTAA-AATCATTAAAAAAATATAAAAACCA
* * ** * *
29949469 AATTATATTACAAATTAAAATATTGAGTTTAAATTTCAAATTTAAATATAATAAAAAGAATAATA
65 AATCATATTACAAATTAAAATATAGAAATTAAATTTCAAATTTAAACATAATAAAAAGAATAAAA
* * * ** **
29949534 CTGAAATTAAACAATTTTTTGAAGAAAAAAAGTA-GTAACACATGTAAACAAAA
130 CTAAAATTAAAC-ATTTTGTAAAGAAAAAAAAAACCAAACACATGTAAACAAAA
29949587 GGAAGGTCAT
Statistics
Matches: 147, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
203 120 0.82
204 22 0.15
205 5 0.03
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (205 bp):
ATAAAGAAGTTAATAATACTAACTATTTGGAATAACTAAAATCATTAAAAAAATATAAAAACCAA
ATCATATTACAAATTAAAATATAGAAATTAAATTTCAAATTTAAACATAATAAAAAGAATAAAAC
TAAAATTAAACATTTTGTAAAGAAAAAAAAAACCAAACACATGTAAACAAAACCACCTTTCTTTT
ATATATAGTT
Found at i:29951633 original size:16 final size:18
Alignment explanation
Indices: 29951612--29951649 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
29951602 GCAATGAACC
29951612 ATTTTGC-AAAAATC-AT
1 ATTTTGCTAAAAATCAAT
29951628 ATTTTGCTAAAAATCAAT
1 ATTTTGCTAAAAATCAAT
29951646 ATTT
1 ATTT
29951650 CATGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTTTGCTAAAAATCAAT
Found at i:29969473 original size:12 final size:12
Alignment explanation
Indices: 29969456--29969480 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29969446 GATCATGCTC
29969456 AAATAAGTTGAT
1 AAATAAGTTGAT
29969468 AAATAAGTTGAT
1 AAATAAGTTGAT
29969480 A
1 A
29969481 TGAGATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AAATAAGTTGAT
Found at i:29974227 original size:32 final size:31
Alignment explanation
Indices: 29974191--29974270 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
29974181 CTAGCTGCTT
29974191 TGTTCACACTCAATGGACCATCCAACTCTTGA
1 TGTTCACACTCAA-GGACCATCCAACTCTTGA
* * *
29974223 TGTTCACA-TCCAAGGGACCGTCTAAGTCTTGA
1 TGTTCACACT-CAA-GGACCATCCAACTCTTGA
29974255 TGTTCACAC-CAAGGAC
1 TGTTCACACTCAAGGAC
29974271 TTTTCAGACG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 34 0.81
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (31 bp):
TGTTCACACTCAAGGACCATCCAACTCTTGA
Found at i:29975582 original size:51 final size:51
Alignment explanation
Indices: 29975505--29975777 Score: 433
Period size: 51 Copynumber: 5.4 Consensus size: 51
29975495 CGGATCACAT
*
29975505 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
29975556 TTATCACTTGTCACTTGTTACCGATCAAATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
29975606 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
29975657 TTATAACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
29975708 TTACCACTTGTCACTTATCACTGATCAGATAAGAGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
29975758 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
29975778 AAAGTACTCA
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
50 70 0.34
51 136 0.66
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:29975618 original size:101 final size:102
Alignment explanation
Indices: 29975505--29975777 Score: 433
Period size: 101 Copynumber: 2.7 Consensus size: 102
29975495 CGGATCACAT
*
29975505 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* * *
29975570 TTGTTACCGATCAAATAAGTGTAGCT-AAGCTACCAC
66 TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
* *
29975606 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATAACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* *
29975671 TTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
66 TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
* *
29975708 TTACCACTTGTCACTTATCACTGATCAGATAAGAGTAGCTAAA-CTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
29975772 TGATCA
66 TTATCA
29975778 AAAGTACTCA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 108 0.68
102 50 0.32
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
Found at i:29975873 original size:17 final size:17
Alignment explanation
Indices: 29975851--29975883 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29975841 TATTCTCAAT
29975851 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
29975868 TCATCATACAATATAT
1 TCATCATACAATATAT
29975884 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:29978428 original size:14 final size:16
Alignment explanation
Indices: 29978409--29978446 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
29978399 AGTTGAAGTT
*
29978409 TAAAAAAAT-TTTGA-
1 TAAAAAAATATTCGAG
29978423 TAAAAAAATATTCGAG
1 TAAAAAAATATTCGAG
29978439 TAAAAAAA
1 TAAAAAAA
29978447 ACAAACAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (16 bp):
TAAAAAAATATTCGAG
Found at i:29984000 original size:47 final size:47
Alignment explanation
Indices: 29983922--29984471 Score: 893
Period size: 47 Copynumber: 11.6 Consensus size: 47
29983912 CCCTTCGGGA
* * * * * *
29983922 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29983969 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29984063 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
29984157 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATCCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29984206 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984300 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29984347 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29984396 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984443 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
29984472 TATTCAAATA
Statistics
Matches: 472, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 364 0.77
49 108 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29984250 original size:190 final size:190
Alignment explanation
Indices: 29983922--29984471 Score: 933
Period size: 190 Copynumber: 2.9 Consensus size: 190
29983912 CCCTTCGGGA
* * * * * * * *
29983922 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
29983985 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
29984050 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTATGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29984175 ACTTTCACATTCATCACATTGGCCATCCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
29984240 TCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29984300 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29984365 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
29984430 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
131 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
29984472 TATTCAAATA
Statistics
Matches: 341, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
188 47 0.14
190 275 0.81
192 19 0.06
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29986742 original size:85 final size:85
Alignment explanation
Indices: 29986613--29986791 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
29986603 TATTTTATTG
*
29986613 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29986678 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29986698 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29986763 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29986783 CCCATGCTC
1 CCCATGCTC
29986792 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:29988328 original size:32 final size:31
Alignment explanation
Indices: 29988281--29988358 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 31
29988271 CCAGCTGATT
* *
29988281 TGTTCACACCTAAGGGACCGTCTAACTCTTGA
1 TGTTCACACC-AAGGGACCGTCGAACTCCTGA
*
29988313 TGTTCACATCCAAGGGACCGTCGAAGTCCTGA
1 TGTTCACA-CCAAGGGACCGTCGAACTCCTGA
29988345 TGTTCACACCAAGG
1 TGTTCACACCAAGG
29988359 ACTTTTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.14
32 34 0.81
33 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (31 bp):
TGTTCACACCAAGGGACCGTCGAACTCCTGA
Found at i:29990844 original size:99 final size:99
Alignment explanation
Indices: 29990673--29990870 Score: 333
Period size: 99 Copynumber: 2.0 Consensus size: 99
29990663 TTGGAGAACC
29990673 ATCTAGTAAATGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGATAACCAC
1 ATCTAGTAAATGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGATAACCAC
* ** *
29990738 TATAATTAAGGGTCTCACTGAATTAGGTGTTATT
66 TATAATTAAGGGTCCCACCAAATTAGATGTTATT
* *
29990772 ATCTAGTAATTGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGGTAACCAC
1 ATCTAGTAAATGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGATAACCAC
*
29990837 TGTAATTAAGGGTCCCACCAAATTAGATGTTATT
66 TATAATTAAGGGTCCCACCAAATTAGATGTTATT
29990871 GGAGCACCCC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (99 bp):
ATCTAGTAAATGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGATAACCAC
TATAATTAAGGGTCCCACCAAATTAGATGTTATT
Found at i:30001272 original size:24 final size:24
Alignment explanation
Indices: 30001238--30001299 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
30001228 TCACAAAATT
*
30001238 CACTATCACTATCATCATAATTTA
1 CACTATTACTATCATCATAATTTA
* * *
30001262 CATTATTACTATCATCATAGTTTG
1 CACTATTACTATCATCATAATTTA
30001286 CACTATTACTATCA
1 CACTATTACTATCA
30001300 ACTTCTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (24 bp):
CACTATTACTATCATCATAATTTA
Found at i:30020462 original size:17 final size:17
Alignment explanation
Indices: 30020442--30020475 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30020432 AAACACACTC
30020442 ATTTTCTCAATGTTTTT
1 ATTTTCTCAATGTTTTT
*
30020459 ATTTTCTCCATGTTTTT
1 ATTTTCTCAATGTTTTT
30020476 CTTCTACTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTTCTCAATGTTTTT
Found at i:30025048 original size:24 final size:25
Alignment explanation
Indices: 30025021--30025067 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30025011 ACTGGTCATA
30025021 GAGAGAATTGAGGA-AGAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
* *
30025045 GAGAGATTTGGGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
30025068 GGGATTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:30025874 original size:81 final size:81
Alignment explanation
Indices: 30025739--30026135 Score: 456
Period size: 81 Copynumber: 4.9 Consensus size: 81
30025729 GAGGTCCATA
* * * * * * * *
30025739 AATGACCAAAATACCCCAATAGGGTAAAATAACCAAAATACCCCTATAGAGTAAATTGACTGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTGAAA
**
30025804 TACCCCCGTAGGGTAG
66 TACCCCTATAGGGTAG
* * *
30025820 AATGACCGAAATACTCCTATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACTGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTGAAA
30025885 TACCCCTATAGGGTAG
66 TACCCCTATAGGGTAG
* * * * * * *
30025901 AATGATCGAAATACCCCCATAGGGTAGAATGATCGAAATACCCCAATAGGATAGATTGACCGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTGAAA
* *
30025966 TACCCCAATAAGGTA-
66 TACCCCTATAGGGTAG
* * * *
30025981 AATTGATCGAAATACCCCCATAGGGTAAAATGATCGAAATAACCCTATAGGGTAAAATGA-TCAA
1 AA-TGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACT-GA
*
30026045 AATACCCCTATATGGTAG
64 AATACCCCTATAGGGTAG
** * * * **
30026063 AATGACTAAAATACCCTCATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATTGTTA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTGAAA
30026128 TACCCCTA
66 TACCCCTA
30026136 GGAGATGAAA
Statistics
Matches: 268, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 263 0.98
82 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTGAAA
TACCCCTATAGGGTAG
Found at i:30026133 original size:27 final size:27
Alignment explanation
Indices: 30025738--30026122 Score: 407
Period size: 27 Copynumber: 14.3 Consensus size: 27
30025728 AGAGGTCCAT
* * *
30025738 AAATGACCAAAATACCCCAATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * * *
30025765 AAATAACCAAAATACCCCTATAGAGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
30025792 AATTGA-CTGAAATACCCCCGTAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
* * * *
30025819 GAATGACCGAAATACTCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30025846 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30025873 AAATGA-CTGAAATACCCCTATAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
*
30025900 GAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
30025927 GAATGATCGAAATACCCCAATAGGATA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * * *
30025954 GATTGACCGAAATACCCCAATAAGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30025981 AATTGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
30026008 AAATGATCGAAATAACCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
30026035 AAATGATCAAAATACCCCTATATGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * *
30026062 GAATGA-CTAAAATACCCTCATAAGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
30026089 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
30026116 AAATGAT
1 AAATGAT
30026123 TGTTATACCC
Statistics
Matches: 305, Mismatches: 47, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 300 0.98
28 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:30036156 original size:5 final size:5
Alignment explanation
Indices: 30036146--30036170 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30036136 AGTGAGGATC
30036146 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
30036171 CTCTTATACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:30036778 original size:14 final size:14
Alignment explanation
Indices: 30036759--30036786 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30036749 GCATGGAATT
30036759 TTGAAAATGACTTC
1 TTGAAAATGACTTC
30036773 TTGAAAATGACTTC
1 TTGAAAATGACTTC
30036787 AGCAGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
TTGAAAATGACTTC
Found at i:30037764 original size:22 final size:22
Alignment explanation
Indices: 30037739--30037780 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30037729 TTCACTTAAA
* *
30037739 TTATTATTATATTGAATTTTAG
1 TTATTATTATAATAAATTTTAG
*
30037761 TTATTTTTATAATAAATTTT
1 TTATTATTATAATAAATTTT
30037781 CACAATTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATTATTATAATAAATTTTAG
Found at i:30050328 original size:18 final size:18
Alignment explanation
Indices: 30050299--30050343 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
30050289 CTATTTCTTT
30050299 TCTTTCTTCAATCTTTT-TC
1 TCTTT-TTCAAT-TTTTGTC
*
30050318 TCTTTTTCAATTTTTGTT
1 TCTTTTTCAATTTTTGTC
30050336 TCTTTTTC
1 TCTTTTTC
30050344 TCTTCTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (18 bp):
TCTTTTTCAATTTTTGTC
Found at i:30050344 original size:26 final size:27
Alignment explanation
Indices: 30050310--30050365 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30050300 CTTTCTTCAA
*
30050310 TCTTTTTCTCTT-TTTCAATTT-TTGTT
1 TCTTTTTCTCTTCTCTCAATTTCTT-TT
30050336 TCTTTTTCTCTTCTCTCAATTTCTTTT
1 TCTTTTTCTCTTCTCTCAATTTCTTTT
30050363 TCT
1 TCT
30050366 CGCTTCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 12 0.44
27 13 0.48
28 2 0.07
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (27 bp):
TCTTTTTCTCTTCTCTCAATTTCTTTT
Found at i:30052321 original size:20 final size:20
Alignment explanation
Indices: 30052296--30052333 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30052286 TAACAGTTGC
30052296 TGGCCTTTAATTCAACTTGT
1 TGGCCTTTAATTCAACTTGT
30052316 TGGCCTTTAATTCAACTT
1 TGGCCTTTAATTCAACTT
30052334 AATAATAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (20 bp):
TGGCCTTTAATTCAACTTGT
Found at i:30052545 original size:9 final size:10
Alignment explanation
Indices: 30052531--30052569 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
30052521 TGATTTAAGC
30052531 AACTAA-ATT
1 AACTAAGATT
30052540 AACTAAGATT
1 AACTAAGATT
*
30052550 AACTTA-ATT
1 AACTAAGATT
30052559 AACTAAGATT
1 AACTAAGATT
30052569 A
1 A
30052570 GTAATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (10 bp):
AACTAAGATT
Found at i:30052558 original size:19 final size:19
Alignment explanation
Indices: 30052531--30052569 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30052521 TGATTTAAGC
30052531 AACTAAATTAACTAAGATT
1 AACTAAATTAACTAAGATT
*
30052550 AACTTAATTAACTAAGATT
1 AACTAAATTAACTAAGATT
30052569 A
1 A
30052570 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
AACTAAATTAACTAAGATT
Found at i:30052588 original size:54 final size:54
Alignment explanation
Indices: 30052523--30052646 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
30052513 TAAACTAATG
* * * * *
30052523 ATTTAAGCAACTAAATTAACTAAGATTAACTTAATTAACTAAGATTAGTAATTT
1 ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
*
30052577 ATTTCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
1 ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
*
30052631 ATTCCAGCAACTAAAT
1 ATTTCAGCAACTAAAT
30052647 ACTTATTCCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (54 bp):
ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
Found at i:30052612 original size:19 final size:19
Alignment explanation
Indices: 30052585--30052623 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30052575 TTATTTCAGC
* *
30052585 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAAATG
30052604 AACTCAATTAACTAAAATG
1 AACTCAATTAACTAAAATG
30052623 A
1 A
30052624 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAAATG
Found at i:30052751 original size:20 final size:21
Alignment explanation
Indices: 30052722--30052761 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30052712 AGCTTGAAGA
* *
30052722 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
30052742 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
30052762 TTTCACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:30055441 original size:28 final size:28
Alignment explanation
Indices: 30055400--30055504 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 28
30055390 GTCTCATTAA
* *
30055400 ACTTACCCCGTGTTT-CTTATCTGGACAG
1 ACTTACCCCATGTTTAC-TATCTAGACAG
* *
30055428 ACTTACCCCATGTTTACTATCTCGACGG
1 ACTTACCCCATGTTTACTATCTAGACAG
* *
30055456 ACTTACCCTATGTTTACTATCTAGACAA
1 ACTTACCCCATGTTTACTATCTAGACAG
*
30055484 ACTTACCTCATGTTTACTATC
1 ACTTACCCCATGTTTACTATC
30055505 CCAATAGACT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (28 bp):
ACTTACCCCATGTTTACTATCTAGACAG
Found at i:30059680 original size:34 final size:34
Alignment explanation
Indices: 30059637--30059709 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
30059627 GAAAGGGTAA
30059637 GAATTCGAAGAGAATATGGTTTTGATCTGGCTGG
1 GAATTCGAAGAGAATATGGTTTTGATCTGGCTGG
30059671 GAATTCGAAGAGAATATGGTTTTGATCTGGCTGG
1 GAATTCGAAGAGAATATGGTTTTGATCTGGCTGG
30059705 GAATT
1 GAATT
30059710 ATACCGACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (34 bp):
GAATTCGAAGAGAATATGGTTTTGATCTGGCTGG
Found at i:30063988 original size:25 final size:25
Alignment explanation
Indices: 30063955--30064009 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
30063945 TATTGAATGC
30063955 ATGA-TTGACTATCGAGCTAAGCTT
1 ATGACTTGACTATCGAGCTAAGCTT
30063979 ATGACTTGACTATCGAGCTAAGCTT
1 ATGACTTGACTATCGAGCTAAGCTT
30064004 ATGACT
1 ATGACT
30064010 GTCGTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGACTTGACTATCGAGCTAAGCTT
Found at i:30067869 original size:23 final size:23
Alignment explanation
Indices: 30067842--30067889 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
30067832 AAGGTGGATA
* *
30067842 ACCAAATCTTCCACACAGACATC
1 ACCAAATATGCCACACAGACATC
* *
30067865 ACCAAATATGCCACATAGGCATC
1 ACCAAATATGCCACACAGACATC
30067888 AC
1 AC
30067890 AGGATTCGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (23 bp):
ACCAAATATGCCACACAGACATC
Found at i:30069759 original size:66 final size:66
Alignment explanation
Indices: 30069653--30069787 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
30069643 TGAGGTAGTC
* *
30069653 GTCTTGCCTACCACCCAAAAGACCCTTTCGTTTTGCCTTCCTTGGTTGTCATATTAAATTTGATT
1 GTCTTGCCTACCACCCAAAAGACCCTTTCGTTTTGCCTTCCTTGGTCGTCATATTAAACTTGATT
30069718 A
66 A
30069719 GTCTTGCCTACCACCCAAAAGACCCTTTCGTTTTGCCTTCCTTGGTCGTCATATTAAACTTGATT
1 GTCTTGCCTACCACCCAAAAGACCCTTTCGTTTTGCCTTCCTTGGTCGTCATATTAAACTTGATT
30069784 A
66 A
30069785 GTC
1 GTC
30069788 CTAGATAGAC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (66 bp):
GTCTTGCCTACCACCCAAAAGACCCTTTCGTTTTGCCTTCCTTGGTCGTCATATTAAACTTGATT
A
Found at i:30071499 original size:16 final size:16
Alignment explanation
Indices: 30071474--30071505 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30071464 CCAAAGTGCA
*
30071474 AACCCGTACAAGCACC
1 AACCCATACAAGCACC
30071490 AACCCATACAAGCACC
1 AACCCATACAAGCACC
30071506 CAACTAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.44, G:0.09, T:0.06
Consensus pattern (16 bp):
AACCCATACAAGCACC
Found at i:30076507 original size:17 final size:18
Alignment explanation
Indices: 30076479--30076528 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
30076469 CATTCGATAA
*
30076479 CATTTGCTATTTCAATAG
1 CATTTGCCATTTCAATAG
*
30076497 CA-TTGCCATTTCAATAT
1 CATTTGCCATTTCAATAG
*
30076514 CATTTGTCATTTCAA
1 CATTTGCCATTTCAA
30076529 AGTAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (18 bp):
CATTTGCCATTTCAATAG
Found at i:30083317 original size:17 final size:17
Alignment explanation
Indices: 30083283--30083318 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30083273 TGGTAATTCA
* *
30083283 AAAAATAATAGTATAAT
1 AAAAATAATAGAAAAAT
30083300 AAAAATAATAGAAAAAT
1 AAAAATAATAGAAAAAT
30083317 AA
1 AA
30083319 GAAAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAAATAATAGAAAAAT
Found at i:30084824 original size:16 final size:16
Alignment explanation
Indices: 30084803--30084836 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30084793 CTAGTTGACG
30084803 AAATTTTAAATTATTT
1 AAATTTTAAATTATTT
30084819 AAATTTTAAATTATTT
1 AAATTTTAAATTATTT
30084835 AA
1 AA
30084837 GTGAGCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTTAAATTATTT
Found at i:30089112 original size:54 final size:54
Alignment explanation
Indices: 30089025--30089134 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
30089015 GAGAGGATCA
*
30089025 AGGTAACCAAAATTAAAGCTTGGATTTGTTTGGTTAATCACTTAG-TTGTGGTTG
1 AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTT-GCTTGTGGTTG
* *
30089079 AGGTAATCGAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
1 AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
30089133 AG
1 AG
30089135 TTAGTTGTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (54 bp):
AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
Found at i:30104170 original size:3 final size:3
Alignment explanation
Indices: 30104162--30104209 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
30104152 CAGACCTTGA
30104162 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30104210 TTGAGTTCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30110176 original size:21 final size:21
Alignment explanation
Indices: 30110144--30110184 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30110134 AGGCTCGAGG
30110144 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
30110165 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
30110185 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:30116893 original size:16 final size:16
Alignment explanation
Indices: 30116856--30116895 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
30116846 TTAATAAAAT
* *
30116856 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
30116872 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
30116888 TAAAATTA
1 TAAAATTA
30116896 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:30116967 original size:66 final size:66
Alignment explanation
Indices: 30116884--30117082 Score: 313
Period size: 66 Copynumber: 3.1 Consensus size: 66
30116874 AAATTAATTG
*
30116884 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
30116949 A
66 A
*
30116950 TCAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
30117015 A
66 A
* *
30117016 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACGTTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
30117074 A
66 A
30117075 TTAGTAAA
1 TTAGTAAA
30117083 ACAAACTTGA
Statistics
Matches: 128, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
59 45 0.35
62 1 0.01
63 3 0.02
65 2 0.02
66 77 0.60
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:30117189 original size:22 final size:24
Alignment explanation
Indices: 30117149--30117192 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30117139 AAATAAACTT
30117149 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
30117173 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
30117193 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:30117814 original size:11 final size:11
Alignment explanation
Indices: 30117798--30117823 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30117788 TGTACTTTCC
30117798 TAAAATAAATT
1 TAAAATAAATT
30117809 TAAAATAAATT
1 TAAAATAAATT
30117820 TAAA
1 TAAA
30117824 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATAAATT
Found at i:30117960 original size:21 final size:21
Alignment explanation
Indices: 30117934--30117988 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
30117924 CATAAAAGAG
*
30117934 AAAAAAATA-CAAACAATGTC
1 AAAAAAATATCAAACAATATC
30117954 AAAAAAATATCAAACAATATC
1 AAAAAAATATCAAACAATATC
*
30117975 AGAAAAATATCAAA
1 AAAAAAATATCAAA
30117989 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAATATCAAACAATATC
Found at i:30117990 original size:10 final size:10
Alignment explanation
Indices: 30117935--30117991 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
30117925 ATAAAAGAGA
30117935 AAAAAATA-C
1 AAAAAATATC
* *
30117944 AAACAATGTC
1 AAAAAATATC
30117954 AAAAAAATATC
1 -AAAAAATATC
*
30117965 AAACAATATC
1 AAAAAATATC
30117975 AGAAAAATATC
1 A-AAAAATATC
30117986 AAAAAA
1 AAAAAA
30117992 AATTTAACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 6 0.15
10 16 0.41
11 17 0.44
ACGTcount: A:0.68, C:0.12, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAAAATATC
Found at i:30118124 original size:19 final size:20
Alignment explanation
Indices: 30118088--30118138 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
30118078 TTAAAAAAAT
30118088 AAAAAATACAAAAGAATATC
1 AAAAAATACAAAAGAATATC
*
30118108 AAAAAAT-CAGAAA-AATATT
1 AAAAAATACA-AAAGAATATC
30118127 AAAAAATA-AAAA
1 AAAAAATACAAAA
30118139 TCAGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAAAATACAAAAGAATATC
Found at i:30118134 original size:29 final size:27
Alignment explanation
Indices: 30118081--30118134 Score: 63
Period size: 29 Copynumber: 1.9 Consensus size: 27
30118071 CATAAAGTTA
*
30118081 AAAAAATAAAAAATACAAAAGAATATC
1 AAAAAATAAAAAATACAAAAAAATATC
**
30118108 AAAAAATCAGAAAAATATTAAAAAATA
1 AAAAAAT-A-AAAAATACAAAAAAATA
30118135 AAAATCAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 1 0.05
29 14 0.64
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAAATACAAAAAAATATC
Found at i:30118310 original size:25 final size:24
Alignment explanation
Indices: 30118282--30118329 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30118272 TACAAATATC
30118282 TTAACTCTCTT-TTACTATTTTTTTT
1 TTAA-TCTCTTCTTAC-ATTTTTTTT
*
30118307 TTAATTTCTTCTTACATTTTTTT
1 TTAATCTCTTCTTACATTTTTTT
30118330 CATATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (24 bp):
TTAATCTCTTCTTACATTTTTTTT
Found at i:30118342 original size:23 final size:25
Alignment explanation
Indices: 30118289--30118339 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
30118279 ATCTTAACTC
**
30118289 TCTT-TTACTATTTTTTTTTTAATT
1 TCTTCTTACTATTTTTTTCATAATT
*
30118313 TCTTCTTAC-ATTTTTTTCATATTT
1 TCTTCTTACTATTTTTTTCATAATT
30118337 TCT
1 TCT
30118340 CTTTCTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (25 bp):
TCTTCTTACTATTTTTTTCATAATT
Found at i:30125320 original size:15 final size:15
Alignment explanation
Indices: 30125284--30125327 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
30125274 GAAGTTAATT
**
30125284 TATAATTTTTTGCAA
1 TATAATTTTTTTAAA
30125299 TATTAATTTTTTTAAA
1 TA-TAATTTTTTTAAA
30125315 TATAATTCTTTTT
1 TATAATT-TTTTT
30125328 TACATTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATAATTTTTTTAAA
Found at i:30127554 original size:30 final size:30
Alignment explanation
Indices: 30127497--30127554 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30127487 CACGAGCTGG
* *
30127497 CACATGGGGGTGTGTCCAACCCGTGTGGCT
1 CACATGGGCGTGTGTCCAACCCATGTGGCT
**
30127527 CACATGGGCGTGTGTCCAGGCCATGTGG
1 CACATGGGCGTGTGTCCAACCCATGTGG
30127555 ATCCTGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTGTGTCCAACCCATGTGGCT
Found at i:30128151 original size:3 final size:3
Alignment explanation
Indices: 30128138--30128184 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
30128128 ACTAGGCAGT
* * *
30128138 AGA ATA AGA AGA AGA AGA AGA AG- AGA AAA AGA AAA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30128184 A
1 A
30128185 ATGGAGATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:30128169 original size:14 final size:15
Alignment explanation
Indices: 30128138--30128185 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
30128128 ACTAGGCAGT
* *
30128138 AGAATAAGAAGAAGA
1 AGAAAAAGAAGAAAA
*
30128153 AGAAGAAG-AGAAAA
1 AGAAAAAGAAGAAAA
30128167 AGAAAAAGAAG-AAA
1 AGAAAAAGAAGAAAA
30128181 AGAAA
1 AGAAA
30128186 TGGAGATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (15 bp):
AGAAAAAGAAGAAAA
Found at i:30128169 original size:17 final size:17
Alignment explanation
Indices: 30128144--30128178 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30128134 CAGTAGAATA
* *
30128144 AGAAGAAGAAGAAGAAG
1 AGAAAAAGAAAAAGAAG
30128161 AGAAAAAGAAAAAGAAG
1 AGAAAAAGAAAAAGAAG
30128178 A
1 A
30128179 AAAGAAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAG
Found at i:30128175 original size:20 final size:20
Alignment explanation
Indices: 30128146--30128185 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30128136 GTAGAATAAG
* *
30128146 AAGAAGAAGAAGAAGAGAAA
1 AAGAAAAAGAAGAAAAGAAA
30128166 AAGAAAAAGAAGAAAAGAAA
1 AAGAAAAAGAAGAAAAGAAA
30128186 TGGAGATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAGAAA
Found at i:30135628 original size:28 final size:28
Alignment explanation
Indices: 30135586--30135641 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
30135576 GGAAAACTTC
*
30135586 ATGTTTTCTTTTATAATATATTTTTCTT
1 ATGTTTTCTTCTATAATATATTTTTCTT
30135614 ATGTTTTCTTCTATAATATATTTTTCTT
1 ATGTTTTCTTCTATAATATATTTTTCTT
30135642 TGTCTGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (28 bp):
ATGTTTTCTTCTATAATATATTTTTCTT
Found at i:30136965 original size:46 final size:46
Alignment explanation
Indices: 30136934--30137272 Score: 303
Period size: 46 Copynumber: 7.4 Consensus size: 46
30136924 TTAATAGAGA
30136934 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * * **
30136980 TGTTAAAGTGTTGCAAATTGATGTATTTAAATGTTGTGTATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
*
30137026 TGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * * ** *
30137072 TGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTAG-AAATTG-AG
1 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TTGTAAATTGAAG
* * * * * * *
30137118 ATGTT-TA-TCGCTG-TAATTGAGGTGTATAAATGTTCTTAATTG-GG
1 -TGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * * *
30137162 ATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAG
1 -TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * ** * * * *
30137209 TGTTTAATTGCTATAAATTGATGTGCTCAAATGATGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
*
30137255 TGTTTAAGTGCTGCAAAT
1 TGTTAAAGTGCTGCAAAT
30137273 AATATATAAT
Statistics
Matches: 236, Mismatches: 48, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
43 1 0.00
44 25 0.11
45 8 0.03
46 166 0.70
47 34 0.14
48 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (46 bp):
TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
Found at i:30137212 original size:23 final size:23
Alignment explanation
Indices: 30136948--30137261 Score: 234
Period size: 23 Copynumber: 13.7 Consensus size: 23
30136938 AAAGTGCTGC
30136948 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
30136971 AAATTGAAGTG-TTAAAGTGTTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
* *
30136994 AAATTGATGTATTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
** *
30137017 GTATTGAAGTG-TTAAAGTGTTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
30137040 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
30137063 AAATTGAAGTGTTTTAA-GTACTGC
1 AAATTGAAGTGTTTAAATGT--TGT
* ** *
30137087 AAATTGAATTGTTTAGTTGCTAG-
1 AAATTGAAGTGTTTAAATG-TTGT
*
30137110 AAATTG-AGATGTTT--ATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GTTGT
* * *
30137132 -AATTGAGGTGTATAAATGTTCT
1 AAATTGAAGTGTTTAAATGTTGT
* *
30137154 TAATTG-GGATG-TTAAAGTGTTGT
1 AAATTGAAG-TGTTTAAA-TGTTGT
* *
30137177 AAGTTGAGGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
30137200 AAATTGAAGTGTTTAATTGCTAT
1 AAATTGAAGTGTTTAAATGTTGT
* * * *
30137223 AAATTGATGTGCTCAAATGATGT
1 AAATTGAAGTGTTTAAATGTTGT
30137246 AAATTGAAGTGTTTAA
1 AAATTGAAGTGTTTAA
30137262 GTGCTGCAAA
Statistics
Matches: 227, Mismatches: 45, Indels: 38
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.05
22 24 0.11
23 157 0.69
24 33 0.15
25 1 0.00
26 1 0.00
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:30141336 original size:58 final size:57
Alignment explanation
Indices: 30141202--30141338 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 57
30141192 TTAATTCATA
**
30141202 TAATAATAATTATATTAAGAA-ATTTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATA-TGGTTAAATTATATATTATTTTATTAAATTATATT
* * *
30141260 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATT
30141318 TAATAATAATCT-TATTAAAAT
1 TAATAATAAT-TATATTAAAAT
30141339 TTAATAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
57 17 0.24
58 52 0.74
59 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.52
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATT
Found at i:30161240 original size:42 final size:42
Alignment explanation
Indices: 30161131--30161256 Score: 198
Period size: 43 Copynumber: 3.0 Consensus size: 42
30161121 CGCTTACAGA
* *
30161131 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
30161173 AAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
* * *
30161216 AAAAAATGCCGCTACAGATCATGTTATTTAGCGGCGCTTAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT
30161257 TTCACAAACG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 38 0.49
43 40 0.51
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
Found at i:30161707 original size:12 final size:12
Alignment explanation
Indices: 30161699--30161729 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30161689 TCTGCTTTTA
30161699 TCGCTGCTTCTC
1 TCGCTGCTTCTC
30161711 TCGCTGCTTCTC
1 TCGCTGCTTCTC
30161723 TCGCTGC
1 TCGCTGC
30161730 GGCCTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.19, T:0.39
Consensus pattern (12 bp):
TCGCTGCTTCTC
Found at i:30161755 original size:21 final size:21
Alignment explanation
Indices: 30161714--30161782 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
30161704 GCTTCTCTCG
*
30161714 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
30161735 TTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* ** *
30161756 CTGCTTCCCTCATTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
30161777 CTGCTT
1 CTGCTT
30161783 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:30167265 original size:9 final size:9
Alignment explanation
Indices: 30167248--30167604 Score: 215
Period size: 9 Copynumber: 41.9 Consensus size: 9
30167238 AATTTATACA
30167248 TTATGTAAG
1 TTATGTAAG
*
30167257 TTGTGTAAG
1 TTATGTAAG
30167266 TTATGTAAG
1 TTATGTAAG
*
30167275 TTGTGTAAG
1 TTATGTAAG
**
30167284 TTGCGTAAG
1 TTATGTAAG
*
30167293 TTGTGT-A-
1 TTATGTAAG
* *
30167300 TTATGAAAC
1 TTATGTAAG
30167309 TTATGTAAG
1 TTATGTAAG
*
30167318 TTATGT--C
1 TTATGTAAG
30167325 TTATGTAAG
1 TTATGTAAG
* *
30167334 TTATGCAAA
1 TTATGTAAG
30167343 TTATGT-A-
1 TTATGTAAG
30167350 TTATGTAAG
1 TTATGTAAG
30167359 TTATGTAAG
1 TTATGTAAG
*
30167368 TTGTGT-A-
1 TTATGTAAG
*
30167375 TTATATAAG
1 TTATGTAAG
30167384 TTATGTAAG
1 TTATGTAAG
*
30167393 TTGTGT-A-
1 TTATGTAAG
30167400 TTATGTAAG
1 TTATGTAAG
30167409 TTATGTAAG
1 TTATGTAAG
* **
30167418 TTTTTGT-TT
1 -TTATGTAAG
30167427 TTATGT-A-
1 TTATGTAAG
*
30167434 TTATGTAAC
1 TTATGTAAG
*
30167443 TTATTTAA-
1 TTATGTAAG
*
30167451 TATATGTAGG
1 T-TATGTAAG
*
30167461 GTATGTATTA-
1 TTATGTA--AG
*
30167471 TTATGTAAC
1 TTATGTAAG
* *
30167480 TTATTTAAT
1 TTATGTAAG
*
30167489 TTATGTAGG
1 TTATGTAAG
*
30167498 GTATGTAAG
1 TTATGTAAG
30167507 TTATGTAAG
1 TTATGTAAG
30167516 TTATGT-A-
1 TTATGTAAG
*
30167523 TTATTTACA-
1 TTATGTA-AG
*
30167532 -CATGTAAG
1 TTATGTAAG
*
30167540 TTGTGT-A-
1 TTATGTAAG
30167547 TTATGTAAG
1 TTATGTAAG
*
30167556 TTATGCAAG
1 TTATGTAAG
30167565 TTATGT-A-
1 TTATGTAAG
* *
30167572 TTAAGTAGG
1 TTATGTAAG
30167581 TTATGTAAG
1 TTATGTAAG
30167590 TTATGT-A-
1 TTATGTAAG
30167597 TTATGTAA
1 TTATGTAA
30167605 ATTAATATAT
Statistics
Matches: 270, Mismatches: 51, Indels: 55
0.72 0.14 0.15
Matches are distributed among these distances:
7 53 0.20
8 26 0.10
9 180 0.67
10 11 0.04
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30167328 original size:25 final size:25
Alignment explanation
Indices: 30167247--30167604 Score: 268
Period size: 25 Copynumber: 14.4 Consensus size: 25
30167237 TAATTTATAC
* *
30167247 ATTATGTAAGTTGTGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
* **
30167272 AAGTTGTGTAAGTTGCGTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTGTGT
* * *
30167299 ATTATGAAACTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
* * * *
30167324 CTTATGTAAGTTATGCAAATTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
30167349 ATTATGTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTGTGT
*
30167374 ATTATATAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTGTGT
*
30167399 ATTATGTAAGTTATGTAAGTTTTTGTT
1 ATTATGTAAGTTATGTAAG-TTGTG-T
* * * *
30167426 TTTATGT-A-TTATGTAACTTATTT
1 ATTATGTAAGTTATGTAAGTTGTGT
* *
30167449 AATATATGTAGGGTATGT-A----T-T
1 -AT-TATGTAAGTTATGTAAGTTGTGT
* * * *
30167470 ATTATGTAACTTATTTAATTTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
* *
30167495 AGGGTATGTAAGTTATGTAAGTTATGT
1 A--TTATGTAAGTTATGTAAGTTGTGT
* *
30167522 ATTATTTACA--CATGTAAGTTGTGT
1 ATTATGTA-AGTTATGTAAGTTGTGT
* *
30167546 ATTATGTAAGTTATGCAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
* * *
30167571 ATTAAGTAGGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTGTGT
30167596 ATTATGTAA
1 ATTATGTAA
30167605 ATTAATATAT
Statistics
Matches: 265, Mismatches: 49, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
19 10 0.04
20 3 0.01
21 1 0.00
22 1 0.00
23 2 0.01
24 24 0.09
25 161 0.61
26 9 0.03
27 54 0.20
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (25 bp):
ATTATGTAAGTTATGTAAGTTGTGT
Found at i:30167378 original size:16 final size:16
Alignment explanation
Indices: 30167309--30167604 Score: 94
Period size: 16 Copynumber: 17.5 Consensus size: 16
30167299 ATTATGAAAC
*
30167309 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTA
*
30167325 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG--TA
30167343 TTATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
*
30167358 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
30167375 TTATATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
30167392 GTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
* *
30167408 GTTATGTAAGTTTTTGTTT
1 -TTATGTAAG-TTATG-TA
30167427 TTATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
*
30167442 CTTATTTAA-TATATGTA
1 -TTATGTAAGT-TATGTA
*
30167459 GGGTATGTATTA-TTATGTAA
1 --TTATGTA--AGTTATGT-A
* *
30167479 CTTATTTAATTTATGTA
1 -TTATGTAAGTTATGTA
*
30167496 GGGTATGTAAGTTATGTAA
1 --TTATGTAAGTTATGT-A
*
30167515 GTTATGT-A-TTATTTA
1 -TTATGTAAGTTATGTA
** *
30167530 CACATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
30167547 TTATGTAAGTTATGCAA
1 TTATGTAAGTTATG-TA
*
30167564 GTTATGT-A-TTAAGTA
1 -TTATGTAAGTTATGTA
30167579 GGTTATGTAAGTTATGTA
1 --TTATGTAAGTTATGTA
30167597 TTATGTAA
1 TTATGTAA
30167605 ATTAATATAT
Statistics
Matches: 212, Mismatches: 38, Indels: 60
0.68 0.12 0.19
Matches are distributed among these distances:
14 1 0.00
15 11 0.05
16 93 0.44
17 21 0.10
18 67 0.32
19 15 0.07
20 4 0.02
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:30167418 original size:34 final size:35
Alignment explanation
Indices: 30167248--30167604 Score: 197
Period size: 34 Copynumber: 10.2 Consensus size: 35
30167238 AATTTATACA
* *
30167248 TTATGTAAGTTGTGTAAGTTATGTAAGTTGTGTAAG
1 TTATGTAAGTTATGT-AGTTATGTAAGTTATGTAAG
** * * *
30167284 TTGCGTAAGTTGTGTA-TTATGAAACTTATGTAAG
1 TTATGTAAGTTATGTAGTTATGTAAGTTATGTAAG
* * *
30167318 TTATGT--CTTATGTAAGTTATGCAAATTATGT-A-
1 TTATGTAAGTTATGT-AGTTATGTAAGTTATGTAAG
* *
30167350 TTATGTAAGTTATGTAAGTTGTGT-A-TTATATAAG
1 TTATGTAAGTTATGT-AGTTATGTAAGTTATGTAAG
*
30167384 TTATGTAAGTTGTGTA-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAGTTATGTAAGTTATGTAAG
* ** * *
30167418 TTTTTGT-TTTTATGTA-TTATGTAACTTATTTAA-
1 -TTATGTAAGTTATGTAGTTATGTAAGTTATGTAAG
* * * * * *
30167451 TATATGTAGGGTATGTATTATTATGTAACTTATTTAAT
1 T-TATGTAAGTTATGTA--GTTATGTAAGTTATGTAAG
* * *
30167489 TTATGTAGGGTATGTAAGTTATGTAAGTTATGTATTAT
1 TTATGTAAGTTATGT-AGTTATGTAAGTTATGTA--AG
* *
30167527 TTACACATGTAAGTTGTGTA-TTATGTAAGTTATGCAAG
1 TT----ATGTAAGTTATGTAGTTATGTAAGTTATGTAAG
*
30167565 TTATGT-A-TTAAGTAGGTTATGTAAGTTATGT-A-
1 TTATGTAAGTTATGTA-GTTATGTAAGTTATGTAAG
30167597 TTATGTAA
1 TTATGTAA
30167605 ATTAATATAT
Statistics
Matches: 257, Mismatches: 39, Indels: 53
0.74 0.11 0.15
Matches are distributed among these distances:
32 33 0.13
33 13 0.05
34 112 0.44
35 6 0.02
36 27 0.11
37 31 0.12
38 9 0.04
40 15 0.06
41 1 0.00
42 10 0.04
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (35 bp):
TTATGTAAGTTATGTAGTTATGTAAGTTATGTAAG
Found at i:30167478 original size:37 final size:37
Alignment explanation
Indices: 30167432--30167504 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
30167422 TGTTTTTATG
30167432 TATTATGTAACTTATTTAATATATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATATATGTAGGGTATGTAT
*
30167469 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATATATGTAGGGTATGTA
30167505 AGTTATGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATATATGTAGGGTATGTAT
Found at i:30167968 original size:213 final size:213
Alignment explanation
Indices: 30167601--30168025 Score: 823
Period size: 213 Copynumber: 2.0 Consensus size: 213
30167591 TATGTATTAT
30167601 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
*
30167666 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTAAATTAT
66 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTAAATTAT
30167731 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
131 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
30167796 TAAATATAGCTTACATAC
196 TAAATATAGCTTACATAC
30167814 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
*
30167879 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
66 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTAAATTAT
*
30167944 GGGTGGAGAGGTATATGTGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
131 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
30168009 TAAATATAGCTTACATA
196 TAAATATAGCTTACATA
30168026 AGAAATCTTT
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 209 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (213 bp):
GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTAAATTAT
GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
TAAATATAGCTTACATAC
Found at i:30170837 original size:115 final size:116
Alignment explanation
Indices: 30170681--30170943 Score: 278
Period size: 116 Copynumber: 2.3 Consensus size: 116
30170671 ATTTATTTCC
* * * * * *
30170681 TTTGCGGCGTTTTTATAAAAAACGCCGCTAATACCAATAAACAAT-ATAAAAATGATGTTGTTTT
1 TTTGCGGCGTTTATGT-AAAACCGCCGCTAATACCAATAAAC-ATCATAAAAACGACGTCGTTTT
* * * * * *
30170745 GTCTAAC-TTTCAACCAAATAATAAAAGTAAACGACGTCGTATTACAGAAATT
64 GTCGAACTTTTCAACCAAAGAAGAAAACTAAACGACGTCGTATTAAAGAAATA
** * *
30170797 TTTGCGGCGTTTATGTAAAACCGCCGCTAATACCGGTAAACATCATCAAAGCGACGTCGTTTTGT
1 TTTGCGGCGTTTATGTAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGT
* * * *
30170862 CGAACTTTTCGACCAGAGCAGAAAACTAAACGATGTCGTATTAAAGAAATA
66 CGAACTTTTCAACCAAAGAAGAAAACTAAACGACGTCGTATTAAAGAAATA
* * *
30170913 TTTGCTGCGTTTTAGGAAAAACCGCCGCTAA
1 TTTGCGGCG-TTTATGTAAAACCGCCGCTAA
30170944 AGCCTCGAGC
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
114 2 0.02
115 42 0.35
116 58 0.48
117 19 0.16
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (116 bp):
TTTGCGGCGTTTATGTAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGT
CGAACTTTTCAACCAAAGAAGAAAACTAAACGACGTCGTATTAAAGAAATA
Found at i:30172514 original size:41 final size:40
Alignment explanation
Indices: 30172448--30172602 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 40
30172438 ATGACACAGT
* * *
30172448 ATTACCGGCGCTT-TTCCAAAAACGCCACTAATGACCAGATC
1 ATTAGCGGCGCTTATT--AAAAACGCCACTAAAGACCAGAGC
* * *
30172489 ATTAGTGGCGCTTATTAAAAGACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTATTAAAA-ACGCCACTAAAGACCAGAGC
* * * * *
30172530 ATTAGCGGTGCTTATAAGAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCGCTTATTA-AAAACGCCACTAAAGACCAGAGC
** *
30172571 ATTAGCGGCGCTTTACGAAAATCGCCACTAAA
1 ATTAGCGGCGC-TTATTAAAAACGCCACTAAA
30172603 AGGTCCGAGA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
40 4 0.04
41 82 0.86
42 9 0.09
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (40 bp):
ATTAGCGGCGCTTATTAAAAACGCCACTAAAGACCAGAGC
Found at i:30178410 original size:17 final size:17
Alignment explanation
Indices: 30178379--30178431 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
30178369 GGACCCATAT
30178379 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
30178397 GCCCGTGTGGCCCACAC
1 GCCCATGTGGCCCACAC
*
30178414 GCCCATTTGGCCCACAC
1 GCCCATGTGGCCCACAC
30178431 G
1 G
30178432 GCCTGGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 25 0.78
18 7 0.22
ACGTcount: A:0.15, C:0.45, G:0.26, T:0.13
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:30182159 original size:39 final size:39
Alignment explanation
Indices: 30182088--30182163 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
30182078 CATATTGCAT
* * *
30182088 ATATAATCACCTAACATACAAGCATTTATCACAATACCC
1 ATATAATCACATAACATACAAACATATATCACAATACCC
** *
30182127 ATATAATCACATAACATTTAAACATATGTCACAATAC
1 ATATAATCACATAACATACAAACATATATCACAATAC
30182164 TCGAAAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.28
Consensus pattern (39 bp):
ATATAATCACATAACATACAAACATATATCACAATACCC
Found at i:30182332 original size:66 final size:67
Alignment explanation
Indices: 30182219--30182370 Score: 207
Period size: 66 Copynumber: 2.3 Consensus size: 67
30182209 ATAAACACAT
* * * * * * *
30182219 ATCACAATACACATATGTTCATAATTTAGGATAATTTGCATAACAACCACATACTTATTTGGGCA
1 ATCACATTACACATATATACAT-ATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACA
30182284 TAC
65 TAC
*
30182287 ATCACATTACACATATATACAT-TTTAAGATAATTTGCATAGCAACCACATACTCATTTAGACAT
1 ATCACATTACACATATATACATATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACAT
*
30182351 TC
66 AC
30182353 ATCACATTACACATATAT
1 ATCACATTACACATATAT
30182371 CACAATACAC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
66 56 0.75
68 19 0.25
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (67 bp):
ATCACATTACACATATATACATATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACAT
AC
Found at i:30189871 original size:85 final size:86
Alignment explanation
Indices: 30189723--30189882 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 86
30189713 AGTGTATTGT
* * * *
30189723 GGTAAACTGCTGTACAAACATGTTGTAGTTTAAACTGCCAGATCAAATAATAGTACATAGCAAAG
1 GGTAAACTGCTGTACAAACAAGTTGTAGTTTAAACTACCAGATCAAATAATAATACACAGCAAAG
30189788 CTGACGTACATGTGAAAGTGC
66 CTGACGTACATGTGAAAGTGC
* * *
30189809 GGTAAACTGCTGTACAAATAAGTTGTAG-TTAAACTACCAGATCAGATAATAATACGCAGCAAAG
1 GGTAAACTGCTGTACAAACAAGTTGTAGTTTAAACTACCAGATCAAATAATAATACACAGCAAAG
*
30189873 CTGATGTACA
66 CTGACGTACA
30189883 AGTGGTATAG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 40 0.61
86 26 0.39
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (86 bp):
GGTAAACTGCTGTACAAACAAGTTGTAGTTTAAACTACCAGATCAAATAATAATACACAGCAAAG
CTGACGTACATGTGAAAGTGC
Found at i:30189937 original size:87 final size:85
Alignment explanation
Indices: 30189752--30189938 Score: 212
Period size: 85 Copynumber: 2.2 Consensus size: 85
30189742 ATGTTGTAGT
* * * * *
30189752 TTAAACTGCCAGATCAAATAATAGTACATAGCAAAGCTGACGTACATGTGAAAGTGCGGTAAACT
1 TTAAACTGCCAGATCAAATAATAATACACAGCAAAGCTGACGTACAAGTGAAAGTACGGTAAACC
* * **
30189817 GCTGTACAAATAAGTTGTAG
66 ACTATACAAATAAGTTACAG
* * * * *
30189837 TTAAACTACCAGATCAGATAATAATACGCAGCAAAGCTGATGTACAAGTGGTATAGTACGGTAAA
1 TTAAACTGCCAGATCAAATAATAATACACAGCAAAGCTGACGTACAAGT-G-AAAGTACGGTAAA
**
30189902 CCACTATACTGATAAGTTACAG
64 CCACTATACAAATAAGTTACAG
30189924 TTAAACTGCCAGATC
1 TTAAACTGCCAGATC
30189939 TGATCAGAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 42 0.51
86 1 0.01
87 40 0.48
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (85 bp):
TTAAACTGCCAGATCAAATAATAATACACAGCAAAGCTGACGTACAAGTGAAAGTACGGTAAACC
ACTATACAAATAAGTTACAG
Found at i:30191191 original size:6 final size:6
Alignment explanation
Indices: 30191180--30191269 Score: 180
Period size: 6 Copynumber: 15.0 Consensus size: 6
30191170 AGAATGAGCC
30191180 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
30191228 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
30191270 GATTAAAAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 84 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:30191278 original size:1 final size:1
Alignment explanation
Indices: 30191180--30191267 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
30191170 AGAATGAGCC
* * * * * * * * * * *
30191180 AAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
30191245 AAAAATAAAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
30191268 TAGATTAAAA
Statistics
Matches: 59, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (1 bp):
A
Found at i:30191788 original size:23 final size:23
Alignment explanation
Indices: 30191762--30191809 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30191752 CATATAAACA
* *
30191762 AACATGTTCATGAATGTTAAATG
1 AACATGTTCATGAACGCTAAATG
*
30191785 AACATGTTCGTGAACGCTAAATG
1 AACATGTTCATGAACGCTAAATG
30191808 AA
1 AA
30191810 TCGAGCCCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (23 bp):
AACATGTTCATGAACGCTAAATG
Found at i:30195165 original size:50 final size:51
Alignment explanation
Indices: 30195070--30195165 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 51
30195060 AAAGGAAAGG
*
30195070 AATGGTAAGTGTTCAAAATGAACTATGTCATGTATTTATGAAAATGATTGA
1 AATGGTAAGTGTTCAAAATGAACTATGTCATATATTTATGAAAATGATTGA
* * * *
30195121 AATGGTAAGT-TTCCAAATGAAAGTATGT-TTATATTTATGGAAATG
1 AATGGTAAGTGTTCAAAATG-AACTATGTCATATATTTATGAAAATG
30195166 TGAATGACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 22 0.56
51 17 0.44
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (51 bp):
AATGGTAAGTGTTCAAAATGAACTATGTCATATATTTATGAAAATGATTGA
Found at i:30199819 original size:28 final size:27
Alignment explanation
Indices: 30199658--30199843 Score: 187
Period size: 27 Copynumber: 6.9 Consensus size: 27
30199648 AATGATCGAT
* * * *
30199658 TACCCCCAAAGGGTAAAGTTACTGATA
1 TACCCTCAAAGGGTAAAATTACCGAAA
* * *
30199685 TA-CCTCCGAAGGGTAAAATTATCGAAT
1 TACCCT-CAAAGGGTAAAATTACCGAAA
* * *
30199712 TACCCCCAAAGGATAAAATTACCAAAA
1 TACCCTCAAAGGGTAAAATTACCGAAA
* * *
30199739 TACTCTCGAAGGATAAAATTACCGAAA
1 TACCCTCAAAGGGTAAAATTACCGAAA
*
30199766 TATCC-CAAAGGGTAAAATTACCGAAA
1 TACCCTCAAAGGGTAAAATTACCGAAA
*
30199792 TACCCTAAAAGGGTAAAAATTACCGAAA
1 TACCCTCAAAGGGT-AAAATTACCGAAA
* *
30199820 TACCCTCGAAGGGTAAAATGACCG
1 TACCCTCAAAGGGTAAAATTACCG
30199844 TTATACCCCT
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 25 0.19
27 77 0.60
28 27 0.21
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
TACCCTCAAAGGGTAAAATTACCGAAA
Found at i:30199837 original size:81 final size:81
Alignment explanation
Indices: 30199666--30199843 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
30199656 ATTACCCCCA
* * * * * * *
30199666 AAGGGTAAAGTTACTGATATACCTCCGAAGGGTAAAATTATCGAATTACCCCCAAAGGATAAAAT
1 AAGGGTAAAATTACCGAAATACCTCCAAAGGGTAAAATTACCGAAATACCCCAAAAGGATAAAAT
*
30199731 TACCAAAATACTCTCG
66 TACCAAAATACCCTCG
* * * *
30199747 AAGGATAAAATTACCGAAATATC-CCAAAGGGTAAAATTACCGAAATACCCTAAAAGGGTAAAAA
1 AAGGGTAAAATTACCGAAATACCTCCAAAGGGTAAAATTACCGAAATACCCCAAAAGGAT-AAAA
*
30199811 TTACCGAAATACCCTCG
65 TTACCAAAATACCCTCG
*
30199828 AAGGGTAAAATGACCG
1 AAGGGTAAAATTACCG
30199844 TTATACCCCT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 30 0.37
81 51 0.63
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (81 bp):
AAGGGTAAAATTACCGAAATACCTCCAAAGGGTAAAATTACCGAAATACCCCAAAAGGATAAAAT
TACCAAAATACCCTCG
Found at i:30200559 original size:17 final size:17
Alignment explanation
Indices: 30200537--30200576 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
30200527 GTTAGACAGT
30200537 TCGGAGCTGCGTGGGAC
1 TCGGAGCTGCGTGGGAC
*
30200554 TCGGAGCTGTGTGGGAC
1 TCGGAGCTGCGTGGGAC
30200571 TCGGAG
1 TCGGAG
30200577 AGGGCCACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.47, T:0.20
Consensus pattern (17 bp):
TCGGAGCTGCGTGGGAC
Found at i:30200798 original size:30 final size:28
Alignment explanation
Indices: 30200763--30200832 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
30200753 TCAAACGCTC
*
30200763 AGTTTTCGCAACTCATTTTTTTAAATATCA
1 AGTTTTCGCAACTCATTTGTTTAAAT-T-A
* * *
30200793 CGTTTTCGTAAATCATTTGTTTAAATTA
1 AGTTTTCGCAACTCATTTGTTTAAATTA
30200821 AGTTTTCGCAAC
1 AGTTTTCGCAAC
30200833 AATAAGGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 10 0.30
29 1 0.03
30 22 0.67
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (28 bp):
AGTTTTCGCAACTCATTTGTTTAAATTA
Found at i:30207297 original size:15 final size:14
Alignment explanation
Indices: 30207277--30207306 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30207267 AGAATGAAGG
30207277 AAAACCCTAAGAATT
1 AAAACCCTAA-AATT
30207292 AAAACCCTAAAATT
1 AAAACCCTAAAATT
30207306 A
1 A
30207307 TGTGTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAACCCTAAAATT
Found at i:30210055 original size:27 final size:27
Alignment explanation
Indices: 30209999--30210056 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
30209989 AGAGCATATG
* * *
30209999 TGGGTCAAAACCCACTACAATATTATT
1 TGGGTCAAAACCCACTACAAAATCAAT
*
30210026 TGGGTCACAACCCA-TAACAAAATCAAT
1 TGGGTCAAAACCCACT-ACAAAATCAAT
30210053 TGGG
1 TGGG
30210057 CCTAGCCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (27 bp):
TGGGTCAAAACCCACTACAAAATCAAT
Found at i:30210662 original size:27 final size:27
Alignment explanation
Indices: 30210632--30210704 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
30210622 TTACCCTATA
30210632 AGGGGATTTCGA-TAATTTTTCAAACTG
1 AGGGGATTT-GAGTAATTTTTCAAACTG
* * *
30210659 AGGGTATTTTAGTAATTTTTTAAACTG
1 AGGGGATTTGAGTAATTTTTCAAACTG
* *
30210686 -GGGGTACTTCAGTAATTTT
1 AGGGG-ATTTGAGTAATTTT
30210705 ACAAGTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGGATTTGAGTAATTTTTCAAACTG
Found at i:30214339 original size:12 final size:12
Alignment explanation
Indices: 30214322--30214347 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30214312 GCTTATGCAA
30214322 AATTTTTATTTT
1 AATTTTTATTTT
30214334 AATTTTTATTTT
1 AATTTTTATTTT
30214346 AA
1 AA
30214348 GTAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTTTTATTTT
Found at i:30215317 original size:27 final size:26
Alignment explanation
Indices: 30215285--30215362 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 26
30215275 TAACTGACCG
30215285 AATTACCCCCACAAGGTAAAATGACTA
1 AATTACCCCCACAAGGTAAAATGAC-A
30215312 AATTACCCCCAC-AGGATAAAATGAACA
1 AATTACCCCCACAAGG-TAAAATG-ACA
*
30215339 AATTACCCCCACAGGGTAAAATGA
1 AATTACCCCCACAAGGTAAAATGA
30215363 TTGTTATACC
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 4 0.09
27 39 0.83
28 4 0.09
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.17
Consensus pattern (26 bp):
AATTACCCCCACAAGGTAAAATGACA
Found at i:30216924 original size:24 final size:24
Alignment explanation
Indices: 30216881--30216951 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
30216871 GACAAATGAA
*
30216881 AAAATAATAATATAGT-ATAACTTTT
1 AAAATAATAATACA-TAATAA-TTTT
*
30216906 -AAGTAATAATACATAATAATTTT
1 AAAATAATAATACATAATAATTTT
* *
30216929 AAAATAATAATACACAATGATTT
1 AAAATAATAATACATAATAATTT
30216952 CGAAAATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.13
24 34 0.87
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAAATAATAATACATAATAATTTT
Found at i:30219539 original size:29 final size:29
Alignment explanation
Indices: 30219476--30219543 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
30219466 TAATCAACCA
30219476 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30219505 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30219534 CGCACACTTA
1 CGCACACTTA
30219544 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30219684 original size:29 final size:30
Alignment explanation
Indices: 30219645--30219723 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30219635 CTTAATAATC
30219645 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30219675 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30219704 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30219724 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30227698 original size:29 final size:29
Alignment explanation
Indices: 30227636--30227702 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
30227626 AATCAACCAT
30227636 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
30227665 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
30227694 GCACACTTA
1 GCACACTTA
30227703 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:30227843 original size:29 final size:30
Alignment explanation
Indices: 30227804--30227882 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30227794 CTTAATAATC
30227804 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30227834 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30227863 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30227883 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30232058 original size:6 final size:6
Alignment explanation
Indices: 30232047--30232078 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
30232037 AAGCATGTTA
30232047 TATCTG TATCTG TATCTG TATTCTG TATCTG T
1 TATCTG TATCTG TATCTG TA-TCTG TATCTG T
30232079 TTTTGGGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (6 bp):
TATCTG
Found at i:30232073 original size:13 final size:12
Alignment explanation
Indices: 30232047--30232078 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
30232037 AAGCATGTTA
30232047 TATCTGTATCTG
1 TATCTGTATCTG
30232059 TATCTGTATTCTG
1 TATCTGTA-TCTG
30232072 TATCTGT
1 TATCTGT
30232079 TTTTGGGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (12 bp):
TATCTGTATCTG
Found at i:30232299 original size:21 final size:21
Alignment explanation
Indices: 30232275--30232315 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30232265 ATGGTAGGAT
30232275 TCTGTATATT-TGATCTGCATA
1 TCTGTA-ATTGTGATCTGCATA
*
30232296 TCTGTAATTGTTATCTGCAT
1 TCTGTAATTGTGATCTGCAT
30232316 CTAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (21 bp):
TCTGTAATTGTGATCTGCATA
Found at i:30235757 original size:193 final size:193
Alignment explanation
Indices: 30235442--30235927 Score: 534
Period size: 195 Copynumber: 2.5 Consensus size: 193
30235432 ATGTCGTTTT
* * * * *
30235442 TAATATTGCACGTGTTTTGCAAAGAACAATCTTATAATTTATGTAATTTATGGGGTTCAAATATA
1 TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTAT-GGATTCAAATATA
* * * ** * *
30235507 AATTATTGT-GTTCATTCATTCATATGCAATTCTTTACGTTACACGTACTTGTGAAGATTGATCA
65 AATTATTGTCG-TCATTCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCA
* * * *
30235571 GATAGTGGATTTGA-TTTT-GTGTTAAAATAAAAACTATAGTATTCATTTATTCTTATGCAGTTC
129 GATAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTT-
30235634 C
193 C
* ** *
30235635 TAATATTACATGTGTTTTGCAAAGATGGATATTATAATTTATTTAATTTACGAGATTCAAATATA
1 TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTATG-GATTCAAATATA
* * * **
30235700 AATTATTATCGTCATGT-ATTCATATGTAGTTATCAATATTACTCGTGTTTGTGAAGATCGATCA
65 AATTATTGTCGTCAT-TCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCA
* * * * * * * *
30235764 TATAATTGATTTTATTTTTAGAGTTCAAATACAAACCATCGTCTTCATTTATTATTATGTAGTTC
129 GATAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTTC
*
30235829 TCAATATTACACGTGTTTTGTC-AATATCAATCA-TATAATTTATTTAATTTATTGGATTCAAAT
1 T-AATATTACACGTGTTTTG-CAAAGATCAAT-ATTATAATTTATTTAATTTA-TGGATTCAAAT
*
30235892 ATAAATTATTGTCGTCATTCATTCATACGTAGTTAT
62 ATAAATTATTGTCGTCATTCATTCATATGTAGTTAT
30235928 TTAAATTACA
Statistics
Matches: 243, Mismatches: 40, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
192 1 0.00
193 112 0.46
194 9 0.04
195 118 0.49
196 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (193 bp):
TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTATGGATTCAAATATAA
ATTATTGTCGTCATTCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCAGA
TAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTTC
Found at i:30235910 original size:98 final size:98
Alignment explanation
Indices: 30235613--30235910 Score: 313
Period size: 98 Copynumber: 3.1 Consensus size: 98
30235603 ACTATAGTAT
* * * *
30235613 TCATTTATTCTTATGCAGTTC-CTAATATTACATGTGTTTTG-CAAAGATGGAT-ATTATAATTT
1 TCATTTATTATTATGTAGTTCTC-AATATTACACGTGTTTTGTC-AAGATCGATCA-TATAATTT
* *
30235675 ATTTAATTTA-CGAGATTCAAATATAAATTATTATCG
63 ATTTAATTTATTG-GATTCAAATATAAATTATTGTCG
* * * * *
30235711 TCATGTATTCA-TATGTAGTTATCAATATTACTCGTG-TTTGTGAAGATCGATCATATAATTGAT
1 TCATTTATT-ATTATGTAGTTCTCAATATTACACGTGTTTTGTCAAGATCGATCATATAATTTAT
* * * ** * *
30235774 TTTATTT-TTAGAGTTCAAATACAAACCATCGTCT
65 TTAATTTATTGGA-TTCAAATATAAATTATTGTCG
* *
30235808 TCATTTATTATTATGTAGTTCTCAATATTACACGTGTTTTGTCAATATCAATCATATAATTTATT
1 TCATTTATTATTATGTAGTTCTCAATATTACACGTGTTTTGTCAAGATCGATCATATAATTTATT
30235873 TAATTTATTGGATTCAAATATAAATTATTGTCG
66 TAATTTATTGGATTCAAATATAAATTATTGTCG
30235906 TCATT
1 TCATT
30235911 CATTCATACG
Statistics
Matches: 159, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
96 3 0.02
97 73 0.46
98 78 0.49
99 5 0.03
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (98 bp):
TCATTTATTATTATGTAGTTCTCAATATTACACGTGTTTTGTCAAGATCGATCATATAATTTATT
TAATTTATTGGATTCAAATATAAATTATTGTCG
Done.