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 92 of 170
Found at i:28919896 original size:24 final size:25
Alignment explanation
Indices: 28919834--28919896 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
28919824 CAAGAACCAT
*
28919834 ATAACTGGAAGCTTATGAGAGCCAA
1 ATAACTGGAAGCTCATGAGAGCCAA
* * * *
28919859 ATATCGGGATGCTCATGAGAG-CTA
1 ATAACTGGAAGCTCATGAGAGCCAA
*
28919883 ATAACTGGACGCTC
1 ATAACTGGAAGCTC
28919897 TTTCGAGCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
ATAACTGGAAGCTCATGAGAGCCAA
Found at i:28920970 original size:17 final size:16
Alignment explanation
Indices: 28920931--28920971 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
28920921 CTACAAGAAC
28920931 TCAACTTTTGCATTTTA
1 TCAA-TTTTGCATTTTA
28920948 TGCAATTTTGTCATTTTA
1 T-CAATTTTG-CATTTTA
28920966 TCAATT
1 TCAATT
28920972 AAACATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (16 bp):
TCAATTTTGCATTTTA
Found at i:28923094 original size:36 final size:36
Alignment explanation
Indices: 28923024--28923097 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
28923014 CAGCATCAAT
* * *
28923024 TAGATAGATTTGTGGTTTTGTTTATTGATAATATAC
1 TAGATAGATTTGTGGTTGTGTTTATTAAGAATATAC
*
28923060 TAGATAGATTTGTGGTTGTGTTTATTAAGGATATAC
1 TAGATAGATTTGTGGTTGTGTTTATTAAGAATATAC
28923096 TA
1 TA
28923098 ATCTACTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (36 bp):
TAGATAGATTTGTGGTTGTGTTTATTAAGAATATAC
Found at i:28928157 original size:16 final size:17
Alignment explanation
Indices: 28928136--28928168 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28928126 TTTGGGGTAA
28928136 ATTGAA-TGAAATAAAT
1 ATTGAATTGAAATAAAT
*
28928152 ATTGAATTGAGATAAAT
1 ATTGAATTGAAATAAAT
28928169 TTATCCGTAT
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:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTGAATTGAAATAAAT
Found at i:28928584 original size:25 final size:25
Alignment explanation
Indices: 28928553--28928612 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
28928543 ACAACTCATG
* * *
28928553 TGAGCATACCGATTTATAGCTCGTGA
1 TGAGCATACAGATTCACAGCTCGT-A
28928579 -GAGCATACAGATTCACAGCTCGTA
1 TGAGCATACAGATTCACAGCTCGTA
28928603 TGAGCATACA
1 TGAGCATACA
28928613 TGTACATGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (25 bp):
TGAGCATACAGATTCACAGCTCGTA
Found at i:28932321 original size:22 final size:21
Alignment explanation
Indices: 28932265--28932321 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
28932255 TAGTGCCTAG
*
28932265 TAGGCTTAGTGCTAGGGTTATT
1 TAGGCTTAGTGC-CGGGTTATT
*
28932287 CAGGCTTAGTGCCGGTGTTATT
1 TAGGCTTAGTGCCGG-GTTATT
28932309 TAGGCTTAGTGCC
1 TAGGCTTAGTGCC
28932322 TAGCAAGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.37
Consensus pattern (21 bp):
TAGGCTTAGTGCCGGGTTATT
Found at i:28932350 original size:60 final size:60
Alignment explanation
Indices: 28932244--28932356 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
28932234 AAATGAGGTA
* * * * * * *
28932244 TTATTCAGTCTTAGTGCCTAGTAGGCTTAGTGCTAGGGTTATTCAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAAGCTCAATGCCAGGGTTAATCAGGCTTAGTGCCGGTG
* *
28932304 TTATTTAGGCTTAGTGCCTAGCAAGCTCAATGCCAGTGTTAATCAGGCTTAGT
1 TTATTCAGGCTTAGTGCCTAGCAAGCTCAATGCCAGGGTTAATCAGGCTTAGT
28932357 ACTTAGCAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (60 bp):
TTATTCAGGCTTAGTGCCTAGCAAGCTCAATGCCAGGGTTAATCAGGCTTAGTGCCGGTG
Found at i:28942232 original size:37 final size:37
Alignment explanation
Indices: 28942186--28942260 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
28942176 TGTTAATTTC
* *
28942186 AAGAATTATGTAATGTTTTTAATTCTGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
*
28942223 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
28942260 A
1 A
28942261 TTTGTGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:28942273 original size:9 final size:9
Alignment explanation
Indices: 28942259--28942289 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
28942249 GTAGTGATTC
28942259 AATTTGTGT
1 AATTTGTGT
*
28942268 AATTTGGGT
1 AATTTGTGT
28942277 AATTTGTGT
1 AATTTGTGT
28942286 AATT
1 AATT
28942290 CAGTTAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (9 bp):
AATTTGTGT
Found at i:28942297 original size:9 final size:9
Alignment explanation
Indices: 28942285--28942334 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
28942275 GTAATTTGTG
*
28942285 TAATTCAGT
1 TAATTCGGT
28942294 TAATTCGGT
1 TAATTCGGT
*
28942303 TAATTTGGT
1 TAATTCGGT
*
28942312 TAATTCAGT
1 TAATTCGGT
28942321 TAATTCGGT
1 TAATTCGGT
28942330 TAATT
1 TAATT
28942335 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:28942297 original size:18 final size:18
Alignment explanation
Indices: 28942259--28942298 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
28942249 GTAGTGATTC
**
28942259 AATTTGTGTAATTTGGGT
1 AATTTGTGTAATTCAGGT
*
28942277 AATTTGTGTAATTCAGTT
1 AATTTGTGTAATTCAGGT
28942295 AATT
1 AATT
28942299 CGGTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.50
Consensus pattern (18 bp):
AATTTGTGTAATTCAGGT
Found at i:28942297 original size:27 final size:27
Alignment explanation
Indices: 28942267--28942335 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
28942257 TCAATTTGTG
* *
28942267 TAATTTGGGTAATTT-GTGTAATTCAGT
1 TAATTCGGTTAATTTGGT-TAATTCAGT
28942294 TAATTCGGTTAATTTGGTTAATTCAGT
1 TAATTCGGTTAATTTGGTTAATTCAGT
28942321 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
28942336 TTAACCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 37 0.95
28 2 0.05
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (27 bp):
TAATTCGGTTAATTTGGTTAATTCAGT
Found at i:28943198 original size:24 final size:26
Alignment explanation
Indices: 28943149--28943198 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
28943139 TGTCTTAAAA
*
28943149 ATGTCTTAGTTTATTGCGCCTTTAAT
1 ATGTCTTAGTTTATTGCGACTTTAAT
*
28943175 ATGTCTT-GTTTATTTC-ACTTTAAT
1 ATGTCTTAGTTTATTGCGACTTTAAT
28943199 TATCGTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 8 0.36
26 7 0.32
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.54
Consensus pattern (26 bp):
ATGTCTTAGTTTATTGCGACTTTAAT
Found at i:28945004 original size:37 final size:37
Alignment explanation
Indices: 28944961--28945068 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
28944951 GCTCGGACGT
* * *
28944961 AATCTCCACACGAAGTTATCGGATCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
28944998 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
28945035 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
28945069 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:28945283 original size:47 final size:47
Alignment explanation
Indices: 28945231--28945756 Score: 185
Period size: 48 Copynumber: 11.0 Consensus size: 47
28945221 TTTCACACTA
* ** *
28945231 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCTTTACCACATATATGCATGCTCACATTCACCACATTG
* * * *
28945278 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCTTTACCACATATATGCATGCTCACATTCACCACATTG
* * * *
28945325 GCCATTCGGCTTTACCACATATA--CATATCACACATAT-ATTTCACATTA
1 GCCATTCGGCTTTACCACATATATGCAT-GCTCACAT-TCA--CCACATTG
* ** *
28945373 GCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-TTCACATTC
1 GCCATTCGGCTTTACCACATATATGCAT-GCTC--ACAT-TCACCACATTG
* * * *
28945421 GCCATTCGGCTTTACCACATATA--CATATCACACATAT-ATTTCACATTA
1 GCCATTCGGCTTTACCACATATATGCAT-GCTCACAT-TCA--CCACATTG
* ** *
28945469 GCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-TTCACATTC
1 GCCATTCGGCTTTACCACATATATGCAT-GCTC--ACAT-TCACCACATTG
* * * *
28945517 GCCATTCGGCTTTACCACATATA--CATATCACACATAT-ATTTCACATTA
1 GCCATTCGGCTTTACCACATATATGCAT-GCTCACAT-TCA--CCACATTG
* ** *
28945565 GCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-TTCACATTC
1 GCCATTCGGCTTTACCACATATATGCAT-GCTC--ACAT-TCACCACATTG
* * * *
28945613 GCCATTCGGCTTTACCACATATA--CATATCACACATAT-ATTTCACATTA
1 GCCATTCGGCTTTACCACATATATGCAT-GCTCACAT-TCA--CCACATTG
* ** * *
28945661 GCCATTCGGCCTTATCACACATATATATATGGGTTCACATTCATCACATTG
1 GCCATTCGGCTTTA-C-CACATATATGCAT--GCTCACATTCACCACATTG
* * * * * * *
28945712 GCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 GCCATTCGGCTTTACCACATATATGCATGCTCACATTCACCACAT
28945757 AAAATCCTAA
Statistics
Matches: 413, Mismatches: 44, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.01
46 25 0.06
47 77 0.19
48 242 0.59
49 10 0.02
50 26 0.06
51 21 0.05
52 3 0.01
53 6 0.01
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCTTTACCACATATATGCATGCTCACATTCACCACATTG
Found at i:28945381 original size:48 final size:48
Alignment explanation
Indices: 28945317--28945690 Score: 595
Period size: 48 Copynumber: 7.8 Consensus size: 48
28945307 CTCACATTTA
*
28945317 TCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
* * *
28945365 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
*
28945413 TCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
* * *
28945461 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
*
28945509 TCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
* * *
28945557 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
*
28945605 TCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
* *
28945653 TCACATTAGCCATTCGGCCTTATCACACATATATATAT
1 TCACATTAGCCATTCGGCTTTA-C-CACATATACATAT
28945691 GGGTTCACAT
Statistics
Matches: 297, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 284 0.96
49 1 0.00
50 12 0.04
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
Found at i:28945442 original size:96 final size:96
Alignment explanation
Indices: 28945271--28945690 Score: 704
Period size: 96 Copynumber: 4.4 Consensus size: 96
28945261 TCATATTCAC
* * * * *
28945271 CACATTGGCCATTCGGCCTTATCACATATATGCAT-GCTC--ACAT-TTATCACATTGGCCATTC
1 CACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATATT-TCACATTCGCCATTC
28945332 GGCTTTACCACATATACATATCACACATATATTT
63 GGCTTTACCACATATACATATCACACATATATTT
28945366 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
28945431 TTTACCACATATACATATCACACATATATTT
66 TTTACCACATATACATATCACACATATATTT
28945462 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
28945527 TTTACCACATATACATATCACACATATATTT
66 TTTACCACATATACATATCACACATATATTT
28945558 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
28945623 TTTACCACATATACATATCACACATATATTT
66 TTTACCACATATACATATCACACATATATTT
* *
28945654 CACATTAGCCATTCGGCCTTATCACACATATATATAT
1 CACATTAGCCATTCGGCTTTA-C-CACATATACATAT
28945691 GGGTTCACAT
Statistics
Matches: 312, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
93 3 0.01
94 3 0.01
95 27 0.09
96 264 0.85
97 3 0.01
98 12 0.04
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (96 bp):
CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGC
TTTACCACATATACATATCACACATATATTT
Found at i:28945508 original size:144 final size:144
Alignment explanation
Indices: 28945216--28945690 Score: 606
Period size: 144 Copynumber: 3.3 Consensus size: 144
28945206 CACATCGCCT
* * *
28945216 ACATATTTCACACTAGCCATTCGGCTTTACCGCATATATGCAT-T-T--T-CATATTCACCACAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATATT--TCACAT
* * * * * *
28945276 TGGCCATTCGGCCTTATCACATATATGCAT-GCTCACAT-T-TATCACATTGGCCATTCGGCTTT
62 TAGCCATTCGGCTTTACCACATATA--CATATCTCACATATATTTCACATTAGCCATTCGGCTTT
28945338 ACCACATATACATATCACAC
125 ACCACATATACATATCACAC
* *
28945358 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGC
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
*
28945423 CATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACA
66 CATTCGGCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTACCACA
* *
28945488 TATACATATCTCAT
131 TATACATATCACAC
* * * *
28945502 ACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGC
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
* * *
28945567 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACA
66 CATTCGGCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTACCACA
28945632 TATACATATCACAC
131 TATACATATCACAC
* * *
28945646 ATATATTTCACATTAGCCATTCGGCCTTATCACACATATATATAT
1 ACATATTTCACATTAGCCATTCGGCTTTA-C-CACATATACATAT
28945691 GGGTTCACAT
Statistics
Matches: 294, Mismatches: 29, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
140 3 0.01
141 4 0.01
142 42 0.14
143 28 0.10
144 198 0.67
145 7 0.02
146 12 0.04
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (144 bp):
ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
CATTCGGCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTACCACA
TATACATATCACAC
Found at i:28950301 original size:26 final size:26
Alignment explanation
Indices: 28950265--28950321 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
28950255 GGATCATTAG
* *
28950265 TGGGCTTGGTGAGCTATGGTCTCTAA
1 TGGGCCTGGTGAACTATGGTCTCTAA
* *
28950291 TGGGCCTGGTGAACTGTGGTCTCTAG
1 TGGGCCTGGTGAACTATGGTCTCTAA
28950317 TGGGC
1 TGGGC
28950322 TTGGCAAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.12, C:0.18, G:0.39, T:0.32
Consensus pattern (26 bp):
TGGGCCTGGTGAACTATGGTCTCTAA
Found at i:28950333 original size:26 final size:26
Alignment explanation
Indices: 28950262--28950334 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
28950252 TAGGGATCAT
** *
28950262 TAGTGGGCTTGGTGAGCTATGGTCTC
1 TAGTGGGCTTGGCAAGCTGTGGTCTC
* * *
28950288 TAATGGGCCTGGTGAA-CTGTGGTCTC
1 TAGTGGGCTTGG-CAAGCTGTGGTCTC
28950314 TAGTGGGCTTGGCAAGCTGTG
1 TAGTGGGCTTGGCAAGCTGTG
28950335 ATCATTGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.38, T:0.32
Consensus pattern (26 bp):
TAGTGGGCTTGGCAAGCTGTGGTCTC
Found at i:28952600 original size:27 final size:27
Alignment explanation
Indices: 28952570--28952641 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
28952560 TGGTTAGCTG
28952570 TGTTCGCAGATGCT-ATTTGGCGAACTA
1 TGTTCGCAGATG-TGATTTGGCGAACTA
* **
28952597 TGTTCGCAGATGTGATTTGGTGATTTA
1 TGTTCGCAGATGTGATTTGGCGAACTA
28952624 TGTTCGCAGATGTG-TTTG
1 TGTTCGCAGATGTGATTTG
28952642 TCAAAGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.40
Consensus pattern (27 bp):
TGTTCGCAGATGTGATTTGGCGAACTA
Found at i:28955774 original size:26 final size:24
Alignment explanation
Indices: 28955723--28955771 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
28955713 TTGTAAACGG
28955723 AAAAATATATAGGATTTTTCCTAT
1 AAAAATATATAGGATTTTTCCTAT
28955747 AAAAATATATAGGATTTTTCCTAT
1 AAAAATATATAGGATTTTTCCTAT
28955771 A
1 A
28955772 TAATTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
AAAAATATATAGGATTTTTCCTAT
Found at i:28956028 original size:13 final size:14
Alignment explanation
Indices: 28956010--28956039 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
28956000 ATACTGTTAT
28956010 ATTTT-AATATTTC
1 ATTTTAAATATTTC
28956023 ATTTTAAATATTTC
1 ATTTTAAATATTTC
28956037 ATT
1 ATT
28956040 AATAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAAATATTTC
Found at i:28957292 original size:22 final size:22
Alignment explanation
Indices: 28957231--28957284 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
28957221 TAATAAATTA
*
28957231 AGTTTAATTAAAGTAATTTTCCT
1 AGTTT-ATTAAAGTAATTGTCCT
28957254 AGTTTATTAAAGTAATTGTCCT
1 AGTTTATTAAAGTAATTGTCCT
28957276 AGTTTATTA
1 AGTTTATTA
28957285 GGATAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (22 bp):
AGTTTATTAAAGTAATTGTCCT
Found at i:28964821 original size:27 final size:27
Alignment explanation
Indices: 28964790--28964908 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
28964780 CCCTAAAATA
* *
28964790 GGTAAAATGATCAAAATACCCTTATAG
1 GGTAAAATGACCAAAATACCCTCATAG
**
28964817 GGTAAAATGACTGAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCTCATAG
*
28964844 AGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCTCATAG
*
28964871 GGTAAAATGACCGAAATACCC-CTATAG
1 GGTAAAATGACCAAAATACCCTC-ATAG
*
28964898 GGTGAAATGAC
1 GGTAAAATGAC
28964909 TTTTATACCC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 80 0.99
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCTCATAG
Found at i:28964916 original size:27 final size:27
Alignment explanation
Indices: 28964886--28964941 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
28964876 AATGACCGAA
* *
28964886 ATACCCCTATAG-GGTGAAATGACTTTT
1 ATACCCCTA-AGAGATGAAATGACTGTT
28964913 ATACCCCTAAGAGATGAAATGACTGTT
1 ATACCCCTAAGAGATGAAATGACTGTT
28964940 AT
1 AT
28964942 GACCTTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (27 bp):
ATACCCCTAAGAGATGAAATGACTGTT
Found at i:28964918 original size:54 final size:54
Alignment explanation
Indices: 28964787--28964908 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
28964777 AGACCCTAAA
* * *
28964787 ATAG-GTAAAATGATCAAAATACCCTTATAGGGTAAAATGACTGAAATACCCTC
1 ATAGAGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTC
28964840 ATAGAGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCC-C
1 ATAGAGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTC
* *
28964893 TATAGGGTGAAATGAC
1 -ATAGAGTAAAATGAC
28964909 TTTTATACCC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 5 0.08
54 57 0.92
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (54 bp):
ATAGAGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTC
Found at i:28972771 original size:45 final size:45
Alignment explanation
Indices: 28972722--28972825 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
28972712 TCTTTTAGTT
28972722 ATGGTCTTACTCATCGATAGTATGATGCCATGGTGTCATTCTGCC
1 ATGGTCTTACTCATCGATAGTATGATGCCATGGTGTCATTCTGCC
* * *
28972767 ATGGTCTTACTTATCGATAGTGTGATGCCATGGTGTCTTTCTGCC
1 ATGGTCTTACTCATCGATAGTATGATGCCATGGTGTCATTCTGCC
28972812 ATGGTCTTACTCAT
1 ATGGTCTTACTCAT
28972826 GTTTAGGCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (45 bp):
ATGGTCTTACTCATCGATAGTATGATGCCATGGTGTCATTCTGCC
Found at i:28978188 original size:27 final size:27
Alignment explanation
Indices: 28978157--28978209 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
28978147 AGGTAAGTTC
28978157 ATATTAGGATTATTATCTTTATTAATG
1 ATATTAGGATTATTATCTTTATTAATG
* *
28978184 ATATTAGGGTTATTATGTTTATTAAT
1 ATATTAGGATTATTATCTTTATTAAT
28978210 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (27 bp):
ATATTAGGATTATTATCTTTATTAATG
Found at i:28989063 original size:44 final size:44
Alignment explanation
Indices: 28988975--28989065 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
28988965 GTAGGTCAAA
** * * ***
28988975 TAATATTAAAATAACTTACACTAATCTGATTTTAAGTGGGAAAC
1 TAATATTAAAATAACTTACACTAATCAAAGTTTAAATAAAAAAC
28989019 TAATATTAAAATAA-TCTACACTAATCAAAGTTTAAATAAAAAAC
1 TAATATTAAAATAACT-TACACTAATCAAAGTTTAAATAAAAAAC
28989063 TAA
1 TAA
28989066 AAACAGAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (44 bp):
TAATATTAAAATAACTTACACTAATCAAAGTTTAAATAAAAAAC
Found at i:28994134 original size:24 final size:25
Alignment explanation
Indices: 28994098--28994149 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
28994088 AAAAACTAAT
28994098 TTTCCATTGTTTCTTTT-TGTTTTC
1 TTTCCATTGTTTCTTTTCTGTTTTC
* * *
28994122 TTTCCTTTTTTTCTTTTCTTTTTTC
1 TTTCCATTGTTTCTTTTCTGTTTTC
28994147 TTT
1 TTT
28994150 TTTCTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTCCATTGTTTCTTTTCTGTTTTC
Found at i:28994135 original size:13 final size:13
Alignment explanation
Indices: 28994117--28994164 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
28994107 TTTCTTTTTG
*
28994117 TTTTCTTTCCTTT
1 TTTTCTTTTCTTT
28994130 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
*
28994143 TTTCTTTTTTCTCTT
1 TTT-TCTTTTCT-TT
28994158 TTTTCTT
1 TTTTCTT
28994165 GTTTCTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 15 0.50
14 10 0.33
15 5 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:28994145 original size:7 final size:7
Alignment explanation
Indices: 28994107--28994170 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
28994097 TTTTCCATTG
28994107 TTTCTTT
1 TTTCTTT
28994114 TTGT-TTT
1 TT-TCTTT
28994121 CTTTCCTTT
1 -TTT-CTTT
*
28994130 TTT-TCT
1 TTTCTTT
28994136 TTTCTTT
1 TTTCTTT
28994143 TTTCTTTT
1 TTTC-TTT
28994151 TTCTCTTT
1 TT-TCTTT
*
28994159 TTTCTTG
1 TTTCTTT
28994166 TTTCT
1 TTTCT
28994171 ATAATTGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 5 0.11
7 21 0.45
8 16 0.34
9 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:28994159 original size:16 final size:16
Alignment explanation
Indices: 28994138--28994170 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
28994128 TTTTTTCTTT
*
28994138 TCTTTTTTCTTTTTTC
1 TCTTTTTTCTTGTTTC
28994154 TCTTTTTTCTTGTTTC
1 TCTTTTTTCTTGTTTC
28994170 T
1 T
28994171 ATAATTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TCTTTTTTCTTGTTTC
Found at i:28995269 original size:13 final size:14
Alignment explanation
Indices: 28995244--28995272 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
28995234 TCGAATTCAG
28995244 AAATTCAACACAAC
1 AAATTCAACACAAC
28995258 AAATTC-ACACAAC
1 AAATTCAACACAAC
28995271 AA
1 AA
28995273 TGCATCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATTCAACACAAC
Found at i:29000865 original size:10 final size:10
Alignment explanation
Indices: 29000850--29000892 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
29000840 TTTTCCATTG
29000850 TTTCTTTTTT
1 TTTCTTTTTT
29000860 TTTCTTTCCTTTT
1 TTTC-TT--TTTT
*
29000873 TTTCCTTTTT
1 TTTCTTTTTT
29000883 TTTCTTTTTT
1 TTTCTTTTTT
29000893 CTTGTTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 17 0.61
11 2 0.07
12 1 0.04
13 8 0.29
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:29000876 original size:23 final size:23
Alignment explanation
Indices: 29000841--29000889 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
29000831 TAAAACTAAT
*
29000841 TTTCCATTGTTTCTTTTTTTTTC
1 TTTCCATTGTTTCCTTTTTTTTC
* *
29000864 TTTCCTTTTTTTCCTTTTTTTTC
1 TTTCCATTGTTTCCTTTTTTTTC
29000887 TTT
1 TTT
29000890 TTTCTTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTCCATTGTTTCCTTTTTTTTC
Found at i:29000878 original size:9 final size:9
Alignment explanation
Indices: 29000859--29000892 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
29000849 GTTTCTTTTT
29000859 TTTTCTTTCC
1 TTTT-TTTCC
29000869 TTTTTTTCC
1 TTTTTTTCC
*
29000878 TTTTTTTTC
1 TTTTTTTCC
29000887 TTTTTT
1 TTTTTT
29000893 CTTGTTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:29003274 original size:9 final size:9
Alignment explanation
Indices: 29003260--29003290 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29003250 GTTAAACGAA
29003260 TCGAGTTAT
1 TCGAGTTAT
*
29003269 TCGAGTTAA
1 TCGAGTTAT
29003278 TCGAGTTAT
1 TCGAGTTAT
29003287 TCGA
1 TCGA
29003291 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:29003617 original size:30 final size:31
Alignment explanation
Indices: 29003583--29003642 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
29003573 AAACCTTTTA
*
29003583 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
29003613 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
29003643 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:29006337 original size:3 final size:3
Alignment explanation
Indices: 29006329--29006374 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
29006319 ATATGTTCTT
29006329 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
29006375 GCGATCATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29021897 original size:42 final size:42
Alignment explanation
Indices: 29021743--29021889 Score: 231
Period size: 42 Copynumber: 3.5 Consensus size: 42
29021733 GCGCTTAGAT
* * * *
29021743 AAGAACATGATCTTTAGCAGCGTTTTTATCTAAGCGCCTCTA
1 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
*
29021785 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCACCGCTA
1 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
29021827 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
1 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
* *
29021869 CAGAACATGTTCTTTAGCGGC
1 AAGAACATGGTCTTTAGCGGC
29021890 ACTTTTTTAC
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTA
Found at i:29022237 original size:21 final size:21
Alignment explanation
Indices: 29022213--29022283 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
29022203 TTTTGCTCTG
**
29022213 CTCTGCTTCTTTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
29022234 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
29022255 CGT-TGCTTCCCTCGCTGCCGC
1 C-TCTGCTTCCCTCGCTGCAGC
29022276 CTCTGCTT
1 CTCTGCTT
29022284 TAAGTTGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.03, C:0.44, G:0.20, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:29027725 original size:16 final size:17
Alignment explanation
Indices: 29027676--29027903 Score: 136
Period size: 16 Copynumber: 13.6 Consensus size: 17
29027666 ACTATAAATG
29027676 AGTTATGTAAGTTATGAT
1 AGTTATGTAAGTTATG-T
* * **
29027694 A-TGATATATTTTATGT
1 AGTTATGTAAGTTATGT
29027710 A-TTATGTAAGTTATGT
1 AGTTATGTAAGTTATGT
*
29027726 AAGTTGTGT-A-TTATG-
1 -AGTTATGTAAGTTATGT
* *
29027741 AGTTATG-GAGTTATGA
1 AGTTATGTAAGTTATGT
29027757 AGTTATGT-AGTTAT-T
1 AGTTATGTAAGTTATGT
*
29027772 AATTTATGTAAGTTATGT
1 -AGTTATGTAAGTTATGT
* *
29027790 AAGTTATGTAGGCTATGT
1 -AGTTATGTAAGTTATGT
* * *
29027808 A-TTATCTAAATAATGT
1 AGTTATGTAAGTTATGT
*
29027824 AGTTA-GGAAGGTTATGT
1 AGTTATGTAA-GTTATGT
*
29027841 A-TTATGTAAGTTATTT
1 AGTTATGTAAGTTATGT
* *
29027857 AAGTTATTTAATTTATGT
1 -AGTTATGTAAGTTATGT
*
29027875 AAGTTAAGTAAGTTATGT
1 -AGTTATGTAAGTTATGT
*
29027893 AATTTATGTAA
1 -AGTTATGTAA
29027904 TTAGAAATTT
Statistics
Matches: 162, Mismatches: 34, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
14 7 0.04
15 5 0.03
16 60 0.37
17 32 0.20
18 58 0.36
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (17 bp):
AGTTATGTAAGTTATGT
Found at i:29027828 original size:42 final size:43
Alignment explanation
Indices: 29027760--29027841 Score: 98
Period size: 42 Copynumber: 1.9 Consensus size: 43
29027750 GTTATGAAGT
* * *
29027760 TATGTAGTTATTAATTTATGTAAGTTATGTAA-GTTATGTAGGC
1 TATGTAGTTATTAAATAATGTAAGTTA-GGAAGGTTATGTAGGC
29027803 TATGTA-TTATCTAAATAATGT-AGTTAGGAAGGTTATGTA
1 TATGTAGTTAT-TAAATAATGTAAGTTAGGAAGGTTATGTA
29027842 TTATGTAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 3 0.09
42 17 0.50
43 14 0.41
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (43 bp):
TATGTAGTTATTAAATAATGTAAGTTAGGAAGGTTATGTAGGC
Found at i:29027905 original size:9 final size:9
Alignment explanation
Indices: 29027711--29027903 Score: 153
Period size: 9 Copynumber: 22.9 Consensus size: 9
29027701 ATTTTATGTA
29027711 TTATGTAAG
1 TTATGTAAG
29027720 TTATGTAAG
1 TTATGTAAG
*
29027729 TTGTGT-A-
1 TTATGTAAG
29027736 TTATG--AG
1 TTATGTAAG
*
29027743 TTATG-GAG
1 TTATGTAAG
29027751 TTATG-AAG
1 TTATGTAAG
29027759 TTATGT-AG
1 TTATGTAAG
*
29027767 TTAT-TAAT
1 TTATGTAAG
29027775 TTATGTAAG
1 TTATGTAAG
29027784 TTATGTAAG
1 TTATGTAAG
*
29027793 TTATGTAGG
1 TTATGTAAG
*
29027802 CTATGT-A-
1 TTATGTAAG
* *
29027809 TTATCTAAA
1 TTATGTAAG
*
29027818 TAATGT-AG
1 TTATGTAAG
*
29027826 TTA-GGAAGG
1 TTATGTAA-G
29027835 TTATGT-A-
1 TTATGTAAG
29027842 TTATGTAAG
1 TTATGTAAG
*
29027851 TTATTTAAG
1 TTATGTAAG
* *
29027860 TTATTTAAT
1 TTATGTAAG
29027869 TTATGTAAG
1 TTATGTAAG
*
29027878 TTAAGTAAG
1 TTATGTAAG
*
29027887 TTATGTAAT
1 TTATGTAAG
29027896 TTATGTAA
1 TTATGTAA
29027904 TTAGAAATTT
Statistics
Matches: 149, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
6 1 0.01
7 21 0.14
8 32 0.21
9 94 0.63
10 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:29027989 original size:37 final size:37
Alignment explanation
Indices: 29027938--29028038 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 37
29027928 TTATAGTAAT
29027938 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
* * *
29027975 CTTAATATTGTATAAGTTATGTAATTCGATATTTTAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
*
29028012 CTTAACATTATATAAGTTATGTTAATT
1 CTTAATATTATATAAGTTATG-TAATT
29028039 TATGTAAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
37 53 0.91
38 5 0.09
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.49
Consensus pattern (37 bp):
CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
Found at i:29028046 original size:19 final size:18
Alignment explanation
Indices: 29028019--29028112 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
29028009 TATCTTAACA
29028019 TTATATAAGTTATGTTAAT
1 TTATATAAGTTATG-TAAT
*
29028038 TTATGTAAGTTATGTAA-
1 TTATATAAGTTATGTAAT
* * *
29028055 TTAGA-AATTTTATCTTAAT
1 TTATATAA-GTTAT-GTAAT
* *
29028074 ATTATATAAGTAATCTAAT
1 -TTATATAAGTTATGTAAT
29028093 ATTATATAAGTTATGTAAT
1 -TTATATAAGTTATGTAAT
29028112 T
1 T
29028113 CGAAATTTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
16 2 0.03
17 7 0.12
18 7 0.12
19 34 0.58
20 7 0.12
21 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (18 bp):
TTATATAAGTTATGTAAT
Found at i:29028136 original size:35 final size:36
Alignment explanation
Indices: 29028089--29028169 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
29028079 ATAAGTAATC
29028089 TAATATTATATAAGTTATGTAATTCGAAATTT-TCT
1 TAATATTATATAAGTTATGTAATTCGAAATTTATCT
* * *
29028124 TAATATTGTATAAGTTATGTAATTCGTATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGAAATTTATCT
29028160 TAATA-TATAT
1 TAATATTATAT
29028170 TATGTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 33 0.80
36 8 0.20
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.51
Consensus pattern (36 bp):
TAATATTATATAAGTTATGTAATTCGAAATTTATCT
Found at i:29028228 original size:20 final size:20
Alignment explanation
Indices: 29028203--29028241 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29028193 AGAAAATTTT
29028203 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
29028223 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
29028242 TATGTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:29028233 original size:287 final size:288
Alignment explanation
Indices: 29027887--29028423 Score: 951
Period size: 287 Copynumber: 1.9 Consensus size: 288
29027877 GTTAAGTAAG
* * *
29027887 TTATGTAATTTATGTAATTAGAAATTTTATCTTAATATTATTTATAGTAATCTTAATATTATATA
1 TTATGTAAGTTATGTAATGAGAAATTTTATCTTAATATTATATATAGTAATCTTAATATTATATA
29027952 AGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAA
66 AGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAA
29028017 CATTATATAAGTTATGTTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATA
131 CATTATATAAGTTATG-TAATTTA-GTAAGTTATGTAATTAGAAA-TTTATCTTAATATTA-A-A
*
29028082 AGTAATC-TAATATTATATAAGTTATGTAATTCGAAA-TTT-TCTTAATATTGTATAAGTTATGT
191 AGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATGT
29028144 AATTCGTATTTTATCTTAATATATATTATGTAT
256 AATTCGTATTTTATCTTAATATATATTATGTAT
29028177 TTATGTAAGTTATGTAA-GA-AAATTTTATCTTAATATTATATA-AGTAATCTTAATATTATATA
1 TTATGTAAGTTATGTAATGAGAAATTTTATCTTAATATTATATATAGTAATCTTAATATTATATA
29028239 AGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAA
66 AGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAA
29028304 CATTATATAAGTTATGTAATTTAGTAAGTTATGTAATTAGAAATTTATCTTAATATTAAAAGTAA
131 CATTATATAAGTTATGTAATTTAGTAAGTTATGTAATTAGAAATTTATCTTAATATTAAAAGTAA
29028369 TCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGT
196 TCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGT
29028424 AATCTTAATA
Statistics
Matches: 240, Mismatches: 4, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
282 8 0.03
283 30 0.12
284 18 0.08
285 37 0.15
286 7 0.03
287 101 0.42
288 22 0.09
289 1 0.00
290 16 0.07
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (288 bp):
TTATGTAAGTTATGTAATGAGAAATTTTATCTTAATATTATATATAGTAATCTTAATATTATATA
AGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAA
CATTATATAAGTTATGTAATTTAGTAAGTTATGTAATTAGAAATTTATCTTAATATTAAAAGTAA
TCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATGTAATTC
GTATTTTATCTTAATATATATTATGTAT
Found at i:29028276 original size:37 final size:37
Alignment explanation
Indices: 29028225--29028423 Score: 169
Period size: 37 Copynumber: 5.5 Consensus size: 37
29028215 TATAAGTAAT
29028225 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
* * *
29028262 CTTAATATTGTATAAGTTATGTAATTCGATATTTTAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
* * * *
29028299 CTTAACATTATATAAGTTATGTAATTTAGTAA-GTTA-
1 CTTAATATTATATAAGTTATGTAA-TTCGAAATTTTAC
* * * * ** * *
29028335 -TGT-A-ATTAGA-AATTTATCTTAATAT-TAAAAGTAAT
1 CT-TAATATTATATAAGTTAT-GTAAT-TCGAAATTTTAC
*
29028370 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
29028407 CTTAATATTATATAAGT
1 CTTAATATTATATAAGT
29028424 AATCTTAATA
Statistics
Matches: 129, Mismatches: 22, Indels: 22
0.75 0.13 0.13
Matches are distributed among these distances:
33 9 0.07
34 12 0.09
35 3 0.02
36 4 0.03
37 91 0.71
38 10 0.08
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (37 bp):
CTTAATATTATATAAGTTATGTAATTCGAAATTTTAC
Found at i:29028351 original size:16 final size:17
Alignment explanation
Indices: 29028312--29028351 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
29028302 AACATTATAT
*
29028312 AAGTTATGTAATTTAGT
1 AAGTTATGTAATTTAGA
29028329 AAGTTATGTAA-TTAGA
1 AAGTTATGTAATTTAGA
*
29028345 AATTTAT
1 AAGTTAT
29028352 CTTAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
AAGTTATGTAATTTAGA
Found at i:29028430 original size:20 final size:20
Alignment explanation
Indices: 29028405--29028443 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29028395 TCGAAATTTT
29028405 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
29028425 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
29028444 TATGTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:29028449 original size:202 final size:195
Alignment explanation
Indices: 29027977--29028629 Score: 669
Period size: 202 Copynumber: 3.4 Consensus size: 195
29027967 AATTTTACCT
* * * * *
29027977 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTTAAT-TTA
1 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTA
* * * * * *
29028041 TGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTAATAT-TATATAAGTT
66 TATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAAT-TCGATAT---TT
* ** * *
29028105 AT-GT-AATTCGA-AA-TTTTCTTAATATTGTATAAGTTATGTAATTCGTATTTTATCTTAATA-
127 ATCTTAAATTATATAAGTTAT-GTAAT-TTG--TAAGTTATGTAATT-G-A-TTTATCTTAATAT
*
29028165 T-ATA-TTATG
185 TAAAAGTTATG
*
29028174 T-AT-TTATGTAAGTTATGTAA---GAAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
1 TAATATTATATAAGTTATGTAATTCG-AAATTTTATCTTAATATTATATAAGTAATCTTAATATT
*
29028234 ATATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTAT
65 ATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATA-TTTAT
29028299 CTTAACATTATATAAGTTATGTAATTTAGTAAGTTATGTAATTAGAAATTTATCTTAATATTAAA
129 CTTAA-ATTATATAAGTTATGTAATTT-GTAAGTTATGTAATT-G--ATTTATCTTAATATTAAA
* *
29028364 AGTAATCT
189 AGTTAT-G
29028372 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTA
*
29028437 TATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATA-GTATCT
66 TATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTATCT
* * *
29028501 TAATATTGTATAAGTTATGTAA--T-T-CG--A--T-A-T--TTTATCTTAACATTATATAAGTT
131 TAA-ATTATATAAGTTATGTAATTTGTAAGTTATGTAATTGATTTATCTTAATATTA-A-AAGTT
29028554 ATG
193 ATG
* *
29028557 TAATATTATATAAGTTATGTAATTAGAAA-TTTATCTTAATATTATATAAGTTATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTA
29028621 TATAAGTTA
66 TATAAGTTA
29028630 AGAAATTTTA
Statistics
Matches: 400, Mismatches: 34, Indels: 57
0.81 0.07 0.12
Matches are distributed among these distances:
184 57 0.14
185 29 0.07
186 6 0.01
189 1 0.00
190 1 0.00
191 1 0.00
192 5 0.01
193 34 0.09
194 80 0.20
195 25 0.06
196 12 0.03
197 7 0.02
198 2 0.00
199 2 0.00
200 41 0.10
202 96 0.24
203 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (195 bp):
TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTA
TATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTATCT
TAAATTATATAAGTTATGTAATTTGTAAGTTATGTAATTGATTTATCTTAATATTAAAAGTTATG
Found at i:29028478 original size:37 final size:36
Alignment explanation
Indices: 29028425--29028560 Score: 202
Period size: 37 Copynumber: 3.8 Consensus size: 36
29028415 TATATAAGTA
29028425 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCG-AATTTT
* **
29028462 ATCTTAATATTGTATAAGTTATGTAATTCG-ATAGT
1 ATCTTAATATTATATAAGTTATGTAATTCGAATTTT
*
29028497 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGA-ATTTT
*
29028534 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
29028561 ATTATATAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 33 0.37
37 57 0.63
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (36 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAATTTT
Found at i:29028480 original size:57 final size:57
Alignment explanation
Indices: 29027975--29028141 Score: 234
Period size: 56 Copynumber: 3.0 Consensus size: 57
29027965 GAAATTTTAC
* * *
29027975 CTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTAT
* * * *
29028032 GTTAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTAT
*
29028088 C-TAATATTATATAAGTTATGTAATTCGAAA-TTT-TCTTAATATTGTATAAGTTAT
1 CTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTAT
29028142 GTAATTCGTA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
54 19 0.20
55 7 0.07
56 66 0.68
57 5 0.05
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (57 bp):
CTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTAT
Found at i:29028550 original size:72 final size:72
Alignment explanation
Indices: 29028425--29028560 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
29028415 TATATAAGTA
* *
29028425 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAATT
29028490 CGATAGT
66 CGATAGT
* *
29028497 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAAT
29028561 ATTATATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (72 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAATT
CGATAGT
Found at i:29028569 original size:56 final size:56
Alignment explanation
Indices: 29028496--29028629 Score: 198
Period size: 56 Copynumber: 2.4 Consensus size: 56
29028486 AATTCGATAG
* * * *
29028496 TATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGT
1 TATCGTAATATTATATAAGTTATGTAATTAGA-AATTTATCTTAACATTATATAAGT
*
29028553 TAT-GTAATATTATATAAGTTATGTAATTAGAAATTTATCTTAATATTATATAAGT
1 TATCGTAATATTATATAAGTTATGTAATTAGAAATTTATCTTAACATTATATAAGT
*
29028608 TATCTTAATATTATATAAGTTA
1 TATCGTAATATTATATAAGTTA
29028630 AGAAATTTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
55 25 0.36
56 42 0.60
57 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (56 bp):
TATCGTAATATTATATAAGTTATGTAATTAGAAATTTATCTTAACATTATATAAGT
Found at i:29031120 original size:19 final size:20
Alignment explanation
Indices: 29031096--29031139 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
29031086 GGACTACGTT
*
29031096 GGGGAACTGTTAGGGA-TTA
1 GGGGAAATGTTAGGGATTTA
*
29031115 GGGGAAATTTTAGGGATTTA
1 GGGGAAATGTTAGGGATTTA
29031135 GGGGA
1 GGGGA
29031140 GATGAGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.43, T:0.27
Consensus pattern (20 bp):
GGGGAAATGTTAGGGATTTA
Found at i:29032192 original size:21 final size:21
Alignment explanation
Indices: 29032166--29032256 Score: 78
Period size: 21 Copynumber: 4.3 Consensus size: 21
29032156 TCAAATTTCC
* *
29032166 AAACCCCTAACCCCGAACACT
1 AAACCCCTAACCCCAAAAACT
* *
29032187 AAA-CCCTAAACTCAAAAACT
1 AAACCCCTAACCCCAAAAACT
* * * *
29032207 CAAATCCCAAATCCCAAACCAC-
1 -AAACCCCTAACCCCAAA-AACT
29032229 AAACCCCTAACCCCAAAAACT
1 AAACCCCTAACCCCAAAAACT
29032250 AAACCCC
1 AAACCCC
29032257 AAACTCAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
20 15 0.28
21 27 0.50
22 10 0.19
23 2 0.04
ACGTcount: A:0.46, C:0.43, G:0.01, T:0.10
Consensus pattern (21 bp):
AAACCCCTAACCCCAAAAACT
Found at i:29032260 original size:7 final size:7
Alignment explanation
Indices: 29032164--29032260 Score: 50
Period size: 7 Copynumber: 13.9 Consensus size: 7
29032154 CCTCAAATTT
29032164 CCAAACC
1 CCAAACC
*
29032171 CCTAACC
1 CCAAACC
* *
29032178 CCGAACA
1 CCAAACC
*
29032185 CTAAACC
1 CCAAACC
* *
29032192 CTAAACT
1 CCAAACC
* *
29032199 CAAAAAC
1 CCAAACC
* *
29032206 TCAAATC
1 CCAAACC
*
29032213 CCAAATC
1 CCAAACC
29032220 CCAAACC
1 CCAAACC
*
29032227 ACAAACC
1 CCAAACC
*
29032234 CCTAACC
1 CCAAACC
**
29032241 CCAAAAA
1 CCAAACC
*
29032248 CTAAACC
1 CCAAACC
29032255 CCAAAC
1 CCAAAC
29032261 TCAAAAACCA
Statistics
Matches: 65, Mismatches: 25, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.46, C:0.43, G:0.01, T:0.09
Consensus pattern (7 bp):
CCAAACC
Found at i:29032267 original size:21 final size:21
Alignment explanation
Indices: 29032166--29032267 Score: 64
Period size: 21 Copynumber: 4.9 Consensus size: 21
29032156 TCAAATTTCC
* ** *
29032166 AAACCCCTAACCCCGAACACT
1 AAACCCCAAACCCAAAAAACT
* *
29032187 AAACCCTAAACTC-AAAAACT
1 AAACCCCAAACCCAAAAAACT
* **
29032207 CAAATCCCAAATCCCAAACCAC-
1 -AAACCCCAAA-CCCAAAAAACT
* *
29032229 AAACCCCTAACCCCAAAAACT
1 AAACCCCAAACCCAAAAAACT
*
29032250 AAACCCCAAACTCAAAAA
1 AAACCCCAAACCCAAAAA
29032268 CCAAAAATCC
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
20 12 0.20
21 41 0.69
22 2 0.03
23 4 0.07
ACGTcount: A:0.49, C:0.40, G:0.01, T:0.10
Consensus pattern (21 bp):
AAACCCCAAACCCAAAAAACT
Found at i:29033439 original size:113 final size:113
Alignment explanation
Indices: 29033208--29033540 Score: 379
Period size: 113 Copynumber: 2.9 Consensus size: 113
29033198 ACGTCCGGAT
* * * *
29033208 CATTAGCGACGCTTTTCACAAAACGCCGCTAA-AGGCCCAAAAAACACAGAAAACGGCGTCGTTG
1 CATTAGCGGCGCTTTTCAAAAAACGCCGC-AACAGGCCC-AAAAACTCAGAAAACGACGTCGTTG
* * *
29033272 GCCTTAGGTTTTTTTGCGGCGCTTTTCAGAAAACGCCGCTAAAGGCAGGAG
64 GCCTTAGG-TTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAGCCACGAG
* * *
29033323 CATTAGCGGCGCTTTTCAAAAAACGCCGCAACACGG-ACAAAAACTCAG-AAATGACGTCGTTGA
1 CATTAGCGGCGCTTTTCAAAAAACGCCGCAACA-GGCCCAAAAACTCAGAAAACGACGTCGTTGG
* * *
29033386 CCTTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCG-TTAAGTCCCCCGAG
65 CCTTAGGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAG--CCACGAG
* * * *
29033436 CATTAGCGGCG-TTTTTAGAAAAACGCCGCTACAGGTCCAAAAACTCAGTAAACGACGTCGTTGG
1 CATTAGCGGCGCTTTTCA-AAAAACGCCGCAACAGGCCCAAAAACTCAGAAAACGACGTCGTTGG
* * *
29033500 CCTTATGTTTTTTTGCGGTGCTTTTCATAAATCGCCGCTAA
65 CCTTA-GGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAA
29033541 TGCTTATTAT
Statistics
Matches: 186, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
111 4 0.02
112 34 0.18
113 59 0.32
114 29 0.16
115 56 0.30
116 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (113 bp):
CATTAGCGGCGCTTTTCAAAAAACGCCGCAACAGGCCCAAAAACTCAGAAAACGACGTCGTTGGC
CTTAGGTTTTTTGCGGCGCTTTTCAGAAATCGCCGCTAAAGCCACGAG
Found at i:29033615 original size:40 final size:40
Alignment explanation
Indices: 29033527--29033645 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 40
29033517 GTGCTTTTCA
**
29033527 TAAAT-CGCCGCTAATGCTT--AT-TATTAGCGGCG-TTTCC
1 TAAATGCGCCGCTAATG-TTCGATCT-TTAGCGGCGTTTTTG
29033564 TAAATGCGCCGCTAAT-TCTCGATCTTTAGCGGCGTTTTTG
1 TAAATGCGCCGCTAATGT-TCGATCTTTAGCGGCGTTTTTG
* *
29033604 TAAATGCGCCGCTAGTGTTCGATTTTTAGCGGCGTTTGTTG
1 TAAATGCGCCGCTAATGTTCGATCTTTAGCGGCGTTT-TTG
29033645 T
1 T
29033646 CCAAACGCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
36 1 0.01
37 6 0.09
38 10 0.14
39 11 0.16
40 37 0.53
41 5 0.07
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (40 bp):
TAAATGCGCCGCTAATGTTCGATCTTTAGCGGCGTTTTTG
Found at i:29040773 original size:25 final size:25
Alignment explanation
Indices: 29040745--29040796 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
29040735 AATGTCTTAC
*
29040745 CCTTTCAATTTCCGTAAGGCATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
29040770 CCTTTCAATTTCCGTAAGACATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
29040795 CC
1 CC
29040797 GTGCTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (25 bp):
CCTTTCAATTTCCGTAAGACATTTT
Found at i:29041153 original size:14 final size:15
Alignment explanation
Indices: 29041131--29041207 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
29041121 CAATCAAACA
29041131 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
29041145 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
29041160 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
29041180 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
29041194 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
29041208 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:29041172 original size:20 final size:20
Alignment explanation
Indices: 29041147--29041186 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29041137 AATATTTTCC
*
29041147 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
29041167 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
29041187 TCATTTTACA
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:29041192 original size:34 final size:35
Alignment explanation
Indices: 29041135--29041201 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
29041125 CAAACACCAG
*
29041135 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
29041170 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
29041202 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:29045304 original size:15 final size:15
Alignment explanation
Indices: 29045284--29045313 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29045274 GAATCCTTCA
29045284 ATTAGGGTCTAAAAT
1 ATTAGGGTCTAAAAT
29045299 ATTAGGGTCTAAAAT
1 ATTAGGGTCTAAAAT
29045314 CAGGGTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
ATTAGGGTCTAAAAT
Found at i:29051650 original size:12 final size:13
Alignment explanation
Indices: 29051632--29051664 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
29051622 TCTTTTACCA
29051632 TATTTATTATTAC
1 TATTTATTATTAC
29051645 -ATTTATTATTAC
1 TATTTATTATTAC
29051657 TATTTATT
1 TATTTATT
29051665 TATATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATTATTAC
Found at i:29052769 original size:20 final size:18
Alignment explanation
Indices: 29052722--29052770 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
29052712 TAAATTTATA
*
29052722 ATCATTTTGTTGCATTTC
1 ATCATTTTGTTACATTTC
29052740 ATCTATTTTTGTTACGATCTTC
1 ATC-A-TTTTGTTAC-AT-TTC
29052762 ATCATTTTG
1 ATCATTTTG
29052771 GTTTATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 13 0.50
21 3 0.12
22 6 0.23
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.55
Consensus pattern (18 bp):
ATCATTTTGTTACATTTC
Found at i:29056343 original size:13 final size:12
Alignment explanation
Indices: 29056324--29056363 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
29056314 AAAGGTAAAG
29056324 AAAAGAAAAGAA
1 AAAAGAAAAGAA
29056336 AAACAGAAAA-AA
1 AAA-AGAAAAGAA
29056348 AAAAGAAACAGAA
1 AAAAGAAA-AGAA
29056361 AAA
1 AAA
29056364 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 11 0.44
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:29056349 original size:17 final size:17
Alignment explanation
Indices: 29056309--29056363 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
29056299 ACTTCACTTT
* *
29056309 AAAAAAAAGGTAA-AGA
1 AAAAAAAAAGAAACAGA
29056325 AAAGAAAAGAA-AAACAGA
1 AAA-AAAA-AAGAAACAGA
29056343 AAAAAAAAAGAAACAGA
1 AAAAAAAAAGAAACAGA
29056360 AAAA
1 AAAA
29056364 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 5 0.15
17 21 0.64
18 7 0.21
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAGAAACAGA
Found at i:29057510 original size:143 final size:143
Alignment explanation
Indices: 29057245--29057511 Score: 435
Period size: 143 Copynumber: 1.9 Consensus size: 143
29057235 GTCATCATGA
* *
29057245 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTATAAATTATAGTGGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATAGCGGATCTTATC
* * *
29057310 TTCCTGAAGTTATAATGGAGCAGATTGAAACCACCAGCCTTCTCTCCTTGAAATTGCAGCGGAGC
66 TTCCTGAAGTTACAATGGAGCAGATTGAAACCACCAGCCTTATCTCCCTGAAATTGCAGCGGAGC
29057375 AGACTGAAGACAG
131 AGACTGAAGACAG
* *
29057388 CGAATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTACAAATTATAGCGGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATAGCGGATCTTATC
* * * *
29057453 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
66 TTCCTGAAGTTACAATGGAGCAGATTGAAACCACCAGCCTTATCTCCCTGAAATTGCAG
29057512 TTGGTTAGGA
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 113 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (143 bp):
CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATAGCGGATCTTATC
TTCCTGAAGTTACAATGGAGCAGATTGAAACCACCAGCCTTATCTCCCTGAAATTGCAGCGGAGC
AGACTGAAGACAG
Found at i:29057586 original size:14 final size:14
Alignment explanation
Indices: 29057567--29057596 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29057557 AAGATTCGGC
29057567 TCGGCCGGGTAGAA
1 TCGGCCGGGTAGAA
29057581 TCGGCCGGGTAGAA
1 TCGGCCGGGTAGAA
29057595 TC
1 TC
29057597 AGCCCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (14 bp):
TCGGCCGGGTAGAA
Found at i:29059260 original size:12 final size:12
Alignment explanation
Indices: 29059245--29059269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29059235 GTTATCATCG
29059245 TTATTATTTATT
1 TTATTATTTATT
29059257 TTATTATTTATT
1 TTATTATTTATT
29059269 T
1 T
29059270 ATTTTATTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:29060062 original size:33 final size:33
Alignment explanation
Indices: 29060010--29060128 Score: 152
Period size: 33 Copynumber: 3.6 Consensus size: 33
29060000 GACAGTTGTA
29060010 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
1 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
* * * *
29060043 ATTTGTTATCATTTTACAAAATTAAAGT-TG-T
1 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
* *
29060074 AATTTGTTATAATTTTACAAAATGAAAAGCTGAT
1 -ATTTGTTATAATTTCACAAAATGAAAATCTGAT
*
29060108 ATTTGTTATCATTTCACAAAA
1 ATTTGTTATAATTTCACAAAA
29060129 CAGCGCGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (33 bp):
ATTTGTTATAATTTCACAAAATGAAAATCTGAT
Found at i:29060084 original size:65 final size:65
Alignment explanation
Indices: 29060003--29060128 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
29059993 TGGTTTTGAC
* *
29060003 AGTTGTAATTTGTTATAATTTCACAAAATGAAAATCTGATATTTGTTATCATTTTACAAAATTAA
1 AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAATTAA
*
29060068 AGTTGTAATTTGTTATAATTTTACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAA
1 AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAA
29060129 CAGCGCGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (65 bp):
AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAATTAA
Found at i:29062589 original size:83 final size:85
Alignment explanation
Indices: 29062477--29062642 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
29062467 TAAACTTAAA
* * *
29062477 AAAAAAACAATTAAGCTCCTAC-TCTTTTTTCCATTCAATTGGATACTTTAATTTTCAAAATGTA
1 AAAAAAACAATTAAGCTCCTACTTCTTTTTTCCATTCAATTGGATACTTGAATTGTCAAAATGCA
* *
29062541 TTAAAAAGGCCCTCAAACTT
66 TAAAAAAGACCCTCAAACTT
* * *
29062561 AAAAAAA-AATTAAGC-CCTTGCTTTTTTTTTTCCATTCAATTGGGTACTTGAATTGTCAAAATG
1 AAAAAAACAATTAAGCTCC-TAC-TTCTTTTTTCCATTCAATTGGATACTTGAATTGTCAAAATG
29062624 CATAAAAAAGACCCTCAAA
64 CATAAAAAAGACCCTCAAA
29062643 ATTTTTCAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
82 2 0.03
83 10 0.14
84 7 0.10
85 52 0.73
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (85 bp):
AAAAAAACAATTAAGCTCCTACTTCTTTTTTCCATTCAATTGGATACTTGAATTGTCAAAATGCA
TAAAAAAGACCCTCAAACTT
Found at i:29062906 original size:29 final size:28
Alignment explanation
Indices: 29062829--29062932 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 28
29062819 AAAAAAAATC
*
29062829 AATAAAAGTTATAAAAA-ATTTAAAATTT
1 AATAAAAATTA-AAAAATATTTAAAATTT
*
29062857 AATTAAAATATAAAAAAATATTTAAAATTT
1 AA-TAAAA-ATTAAAAAATATTTAAAATTT
* * **
29062887 AATAAAAATTAGAAATATATATAAAACGT
1 AATAAAAATTA-AAAAATATTTAAAATTT
*
29062916 AA-AAAAATAAAAAAATA
1 AATAAAAATTAAAAAATA
29062933 AAAAACTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.10
28 12 0.19
29 30 0.48
30 15 0.24
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
AATAAAAATTAAAAAATATTTAAAATTT
Found at i:29063175 original size:19 final size:20
Alignment explanation
Indices: 29063129--29063172 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
29063119 TAGTATGATA
29063129 ATTTTTATAATTCTTTCACG
1 ATTTTTATAATTCTTTCACG
*
29063149 AATTTTATAATTCTTT-AC-
1 ATTTTTATAATTCTTTCACG
29063167 ATTTTT
1 ATTTTT
29063173 TATCATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 15 0.68
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTTATAATTCTTTCACG
Found at i:29063306 original size:19 final size:19
Alignment explanation
Indices: 29063265--29063308 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
29063255 TTTACAATTT
*
29063265 TTTTATAATTTTTTACGAC
1 TTTTATAATTTTTTACGAA
*
29063284 TTTTATAATCTTTTT-CTAA
1 TTTTATAAT-TTTTTACGAA
29063303 TTTTAT
1 TTTTAT
29063309 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:29063577 original size:86 final size:86
Alignment explanation
Indices: 29063468--29063638 Score: 211
Period size: 87 Copynumber: 2.0 Consensus size: 86
29063458 AAAAAGCAAT
* * *** *
29063468 GGCTTAATTGCTTTTTTGAAAAAAAGTTTGAGGG-TCTTTTTGATGCATTTTGGTAGTTCAAGTA
1 GGCTTAATTACTTTTTTG-AAAAAAGTTTGAGGGATCTTTTTGATGCATGTTAAAAGTTCAAATA
*
29063532 CCCAATTGAGTGCAAAAAAAGG
65 CACAATTGAGTGCAAAAAAAGG
* *
29063554 GGCTTAATTACTTTTTTTG-AAAAAGTTTGAGGGCATTTTTTTTATGCATGTTAAAAGTTCAAAT
1 GGCTTAATTAC-TTTTTTGAAAAAAGTTTGAGGG-ATCTTTTTGATGCATGTTAAAAGTTCAAAT
*
29063618 ATACAATTGAGTGCAAAAAAA
64 ACACAATTGAGTGCAAAAAAA
29063639 AAAAGCAGGG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 14 0.19
86 10 0.14
87 48 0.67
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (86 bp):
GGCTTAATTACTTTTTTGAAAAAAGTTTGAGGGATCTTTTTGATGCATGTTAAAAGTTCAAATAC
ACAATTGAGTGCAAAAAAAGG
Found at i:29064406 original size:9 final size:9
Alignment explanation
Indices: 29064392--29064443 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
29064382 TAAAAAATAT
*
29064392 CCGAATTAG
1 CCGAATTAA
29064401 CCGAATTAA
1 CCGAATTAA
*
29064410 CCAAATTAA
1 CCGAATTAA
29064419 CCGAATTAA
1 CCGAATTAA
29064428 CCGAATTAA
1 CCGAATTAA
*
29064437 TCGAATT
1 CCGAATT
29064444 GAATCACTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (9 bp):
CCGAATTAA
Found at i:29069300 original size:84 final size:84
Alignment explanation
Indices: 29069200--29069376 Score: 248
Period size: 84 Copynumber: 2.1 Consensus size: 84
29069190 AAAGAATATG
* * * * *
29069200 TGGAAAATAGATAATCAAATATGAGAAAGGAAAGAGAATAAT-ATATATGGAAAATAGAGATATG
1 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAAT-TGAAAAATAGAGATATG
29069264 AAAAGAAATTTAATATTTTA
65 AAAAGAAATTTAATATTTTA
29069284 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
1 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
* ** *
29069349 AAGGGTATTTAATATTTTG
66 AAAGAAATTTAATATTTTA
*
29069368 TGAAAAATA
1 TGGAAAATA
29069377 TATATCTCTA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 79 0.96
85 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.18, T:0.25
Consensus pattern (84 bp):
TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
AAAGAAATTTAATATTTTA
Found at i:29069518 original size:84 final size:84
Alignment explanation
Indices: 29069377--29069594 Score: 301
Period size: 84 Copynumber: 2.6 Consensus size: 84
29069367 GTGAAAAATA
* * * * *
29069377 TATATCTCTATTTTCCATATATGTGATTCTCTTTCTTTTCCCATATTTGATTCTCTATTTTCCAT
1 TATATCTCTATTTTACATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCAT
*
29069442 AAAATATTAAATTCTCTTT
66 AAAATATTAAATTCCCTTT
** * *
29069461 TATATCTCTATTTTTTATATTTGTTATTCTCTTTCATTTCTCATATTTGATTATCTATTTTTCAT
1 TATATCTCTATTTTACATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCAT
*
29069526 AAAATATTCAATTCCCTTT
66 AAAATATTAAATTCCCTTT
* * * *
29069545 CATATCTCTATTTTACATAGTTGTTATTTTCTTTTATTTCCCATATTTGA
1 TATATCTCTATTTTACATATTTGTTATTCTCTTTCATTTCCCATATTTGA
29069595 CTTTCCCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 117 1.00
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.56
Consensus pattern (84 bp):
TATATCTCTATTTTACATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCAT
AAAATATTAAATTCCCTTT
Found at i:29069697 original size:2 final size:2
Alignment explanation
Indices: 29069628--29069679 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
29069618 CTTTCTCCCA
29069628 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
29069670 TC TC TC TC TC
1 TC TC TC TC TC
29069680 GTCCCTCTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:29070751 original size:23 final size:23
Alignment explanation
Indices: 29070724--29070813 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
29070714 GACTTTGCCG
*
29070724 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTAT
29070747 ATCAGACACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTAT
* * * * **
29070770 TTTAGGCACCTCGTGTGTCGT-T
1 ATCAGACACTTTATGTGTCGTAT
*
29070792 -TCAGACAC-TTATGTGTCTTAT
1 ATCAGACACTTTATGTGTCGTAT
29070813 A
1 A
29070814 CTGATCAGGT
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
20 8 0.15
21 7 0.13
22 1 0.02
23 37 0.70
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (23 bp):
ATCAGACACTTTATGTGTCGTAT
Found at i:29075804 original size:26 final size:26
Alignment explanation
Indices: 29075768--29075817 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
29075758 ACCAATATTG
*
29075768 CAGCAAAGCTGCTTGTAACAGTATCT
1 CAGCAAAGCTGCCTGTAACAGTATCT
29075794 CAGCAAAGCTGCCTGTAACAGTAT
1 CAGCAAAGCTGCCTGTAACAGTAT
29075818 ACTTCCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (26 bp):
CAGCAAAGCTGCCTGTAACAGTATCT
Found at i:29083316 original size:26 final size:26
Alignment explanation
Indices: 29083249--29083316 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
29083239 AACACACCAA
* * *
29083249 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTGCCAATAACAG
*
29083275 TATCGCAGCGAAGCTGCCAATAACAG
1 TATCGCAGCAAAGCTGCCAATAACAG
* *
29083301 TATCACAGTAAAGCTG
1 TATCGCAGCAAAGCTG
29083317 TAGTAACAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAACAG
Found at i:29084975 original size:30 final size:31
Alignment explanation
Indices: 29084936--29084995 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
29084926 GGAGGTGGGA
*
29084936 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
29084967 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
29084996 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:29085226 original size:9 final size:9
Alignment explanation
Indices: 29085209--29085245 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
29085199 TATAGTTTAA
*
29085209 TATTGGAAT
1 TATTCGAAT
29085218 TATTCGAAT
1 TATTCGAAT
*
29085227 TATTCGAGT
1 TATTCGAAT
29085236 TATTCGAAT
1 TATTCGAAT
29085245 T
1 T
29085246 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29085314 original size:9 final size:9
Alignment explanation
Indices: 29085297--29085327 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29085287 TCGAGTTGAT
29085297 TCGAATAAC
1 TCGAATAAC
*
29085306 TCGATTAAC
1 TCGAATAAC
29085315 TCGAATAAC
1 TCGAATAAC
29085324 TCGA
1 TCGA
29085328 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:29087023 original size:19 final size:19
Alignment explanation
Indices: 29086986--29087023 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29086976 CTAATTAAGT
*
29086986 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
29087005 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
29087024 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:29088331 original size:19 final size:19
Alignment explanation
Indices: 29088303--29088344 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29088293 TCATCAATTA
29088303 ATTTAATAAT-ATTACTATT
1 ATTTAATAATCA-TACTATT
* *
29088322 ATTTATTAATCATATTATT
1 ATTTAATAATCATACTATT
29088341 ATTT
1 ATTT
29088345 GTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATCATACTATT
Found at i:29092712 original size:30 final size:30
Alignment explanation
Indices: 29092676--29092732 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
29092666 AATAACATAG
29092676 ATTGTAGCTTATCTCCGGACTTGTTGAGGA
1 ATTGTAGCTTATCTCCGGACTTGTTGAGGA
*
29092706 ATTGTAGCTTATCTTCGGACTTGTTGA
1 ATTGTAGCTTATCTCCGGACTTGTTGA
29092733 AGATGGTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (30 bp):
ATTGTAGCTTATCTCCGGACTTGTTGAGGA
Found at i:29094999 original size:31 final size:30
Alignment explanation
Indices: 29094964--29095066 Score: 82
Period size: 31 Copynumber: 3.4 Consensus size: 30
29094954 GATTTAGTGC
29094964 TTGGGTGACTAAAATGAAAGCGCCTTAAAAG
1 TTGGGTGACTAAAATGAAAGCG-CTTAAAAG
* * * * ** **
29094995 TTGGGTGACGAAATTGTAAG-GATTTCATT
1 TTGGGTGACTAAAATGAAAGCGCTTAAAAG
* * *
29095024 TTGGGTGACCAAAATAAAAGCTTCTTAAAAG
1 TTGGGTGACTAAAATGAAAGC-GCTTAAAAG
29095055 TTGGGTGACTAA
1 TTGGGTGACTAA
29095067 TTAGGTAGTT
Statistics
Matches: 51, Mismatches: 19, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
29 19 0.37
30 1 0.02
31 31 0.61
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (30 bp):
TTGGGTGACTAAAATGAAAGCGCTTAAAAG
Found at i:29097700 original size:88 final size:88
Alignment explanation
Indices: 29097257--29097688 Score: 659
Period size: 88 Copynumber: 4.9 Consensus size: 88
29097247 ACAAACCGGT
* * * *
29097257 AAGACTGA-AAGTCCTAACTCCCTGAACAGCAGTGAAATAGGCGGAAGATTATAAATCCTAGCTC
1 AAGACT-ATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTC
* *
29097321 CCTGGCCAGTAGTGGAATAGGTGG
65 CCTGACCAGCAGTGGAATAGGTGG
* * *
29097345 AAGACTAAAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTATAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
* * *
29097410 CAGACCAGCAGGGGAATAGGAGG
66 CTGACCAGCAGTGGAATAGGTGG
*
29097433 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGTATAGGCAGAAGATTGTAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
**
29097498 CTGACCAGCAGCAGAATAGGTGG
66 CTGACCAGCAGTGGAATAGGTGG
*
29097521 AAGACTATAACTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
*
29097586 TTGACCAGCAGTGGAATAGGTGG
66 CTGACCAGCAGTGGAATAGGTGG
* * *
29097609 AAGAATGTAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAGTCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
*
29097674 CTGAGCAGCAGTGGA
66 CTGACCAGCAGTGGA
29097689 GCAGGTTGAA
Statistics
Matches: 317, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
87 1 0.00
88 316 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.20
Consensus pattern (88 bp):
AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCC
CTGACCAGCAGTGGAATAGGTGG
Found at i:29097701 original size:44 final size:44
Alignment explanation
Indices: 29097265--29097688 Score: 524
Period size: 44 Copynumber: 9.6 Consensus size: 44
29097255 GTAAGACTGA
* *
29097265 AAGTCCTAACTCCCTGAACAGCAGTGAAATAGGCGGAAGATTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* ** * * * *
29097309 AAATCCTAGCTCCCTGGCCAGTAGTGGAATAGGTGGAAGACTAA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
29097353 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * * * * *
29097397 AAATCCTAGCTCCCAGACCAGCAGGGGAATAGGAGGAAGACTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * *
29097441 AAGTCCTAGCTCCCTGAACAGCAGTGGTATAGGCAGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * ** * *
29097485 AAATCCTAGCTCCCTGACCAGCAGCAGAATAGGTGGAAGACTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * *
29097529 AACTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * * * * *
29097573 AAATCCTAGCTCCTTGACCAGCAGTGGAATAGGTGGAAGAATGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* *
29097617 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
*
29097661 AAGTCCTAGCTCCCTGAGCAGCAGTGGA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGA
29097689 GCAGGTTGAA
Statistics
Matches: 319, Mismatches: 61, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 319 1.00
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (44 bp):
AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
Found at i:29097820 original size:88 final size:88
Alignment explanation
Indices: 29097683--29098096 Score: 677
Period size: 88 Copynumber: 4.7 Consensus size: 88
29097673 CCTGAGCAGC
* * * *
29097683 AGTGGAGCAGGTTGAAGATAGCAGATCTTACCTTCCTGCATCGAAAGCGAAGTAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29097748 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * *
29097771 AGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGCGAAGCAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29097836 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * *
29097859 AGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGTAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29097924 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * *
29097947 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACATTGAAGCAGATTGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
*
29098012 CAAGCCTTGCCTCCATCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
*
29098035 AGTGGAGCAGGTTGAAGATAGCATG-TCTTGCCTTCCTACATCGACAGTGAAGCAGATCGAAG
1 AGTGGAGCAGGTTGAAGATAGCA-GATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
29098097 CCAATGGTCC
Statistics
Matches: 307, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
88 306 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
CAAGCCTTGCCTCCCTCGGTTGT
Found at i:29097889 original size:44 final size:44
Alignment explanation
Indices: 29097753--29098067 Score: 166
Period size: 44 Copynumber: 7.2 Consensus size: 44
29097743 AGACACAAGC
*
29097753 CTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * * *
29097797 CTTGCCT-TCTTGCATCGACAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
*
29097841 CTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * *
29097885 CTTGCCTTCCT-GCATCG-ACGGTGAAGTAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCTCG-GTTGTA--GTGGAGCAGGTTGAAGATAGCAGA-T
29097929 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * *
29097973 CTTGCCTTCCTAC-ATCGACATTGAAGCAGATTGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
*
29098017 CTTGCCTCCATCGGTTGTAGTGGAGCAGGTTGAAGATAGCATG-T
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCA-GAT
29098061 CTTGCCT
1 CTTGCCT
29098068 TCCTACATCG
Statistics
Matches: 190, Mismatches: 60, Indels: 42
0.65 0.21 0.14
Matches are distributed among these distances:
43 53 0.28
44 84 0.44
45 53 0.28
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:29099093 original size:17 final size:18
Alignment explanation
Indices: 29099071--29099110 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
29099061 TTAGGTTTTG
29099071 TTTATTTATT-TATTTA-T
1 TTTATTTATTCT-TTTAGT
29099088 TTTATTTATTCTTTTAGT
1 TTTATTTATTCTTTTAGT
29099106 TTTAT
1 TTTAT
29099111 AAAACGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTATTCTTTTAGT
Found at i:29099491 original size:19 final size:19
Alignment explanation
Indices: 29099463--29099504 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29099453 TCATCAATTA
29099463 ATTTAATAAT-ATTACTATT
1 ATTTAATAATCA-TACTATT
* *
29099482 ATTTATTAATCATATTATT
1 ATTTAATAATCATACTATT
29099501 ATTT
1 ATTT
29099505 GTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATCATACTATT
Found at i:29102177 original size:23 final size:23
Alignment explanation
Indices: 29102151--29102219 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
29102141 GACTTTGCCG
29102151 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
29102174 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
* * *
29102197 TTCAGGCACCTCATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
29102220 CAGACACCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:29102243 original size:21 final size:21
Alignment explanation
Indices: 29102196--29102243 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
29102186 ATGTGTCATA
*
29102196 TTTCAGGCACCTCATGTGTCG
1 TTTCAGACACCTCATGTGTCG
* * *
29102217 TATCAGACACCTCATGTTTTG
1 TTTCAGACACCTCATGTGTCG
29102238 TTTCAG
1 TTTCAG
29102244 GCACTTATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (21 bp):
TTTCAGACACCTCATGTGTCG
Found at i:29109633 original size:45 final size:45
Alignment explanation
Indices: 29109579--29109861 Score: 234
Period size: 45 Copynumber: 6.3 Consensus size: 45
29109569 TGGTATGTTC
* * * *
29109579 CAACCATGGTCTTATACATTCCCGAAGTGATGCCATAGTATCTTT
1 CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
* * * * * * *
29109624 CCACTATGGTATTGTTCGTTATC-GATGTAATGCTATAGTATCTTT
1 CAACTATGGTCTTATTCATT-CCGGAAGTAATGCCATAGTATCTTT
** ** *
29109669 CAACTATGGTCTTATTCATTTAGGATTTAATGCCATGGTATCTTT
1 CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
* * * * * *
29109714 CAACTATAGTCTTATTCGTTTCTGGTA-TAGTGTCATAGTATCTTT
1 CAACTATGGTCTTATTC-ATTCCGGAAGTAATGCCATAGTATCTTT
* *
29109759 CAACTATGGTCTTATTCATCTCCGGAA-CAATACCATAGTATCTTT
1 CAACTATGGTCTTATTCAT-TCCGGAAGTAATGCCATAGTATCTTT
* * *
29109804 CAACTATGGTCTT-TCTCGTTCC-GAATATAATGCCATGGTATCTTT
1 CAACTATGGTCTTAT-TCATTCCGGAA-GTAATGCCATAGTATCTTT
*
29109849 CAACCATGGTCTT
1 CAACTATGGTCTT
29109862 TCTCGTTTCT
Statistics
Matches: 191, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.02
44 6 0.03
45 177 0.93
46 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
Found at i:29109868 original size:45 final size:44
Alignment explanation
Indices: 29109608--29109861 Score: 242
Period size: 45 Copynumber: 5.7 Consensus size: 44
29109598 TCCCGAAGTG
* * * * *
29109608 ATGCCATAGTATCTTTCCACTATGGTATTGTTCGTTATCGATGTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTT-CCGATATA
* * ** *
29109653 ATGCTATAGTATCTTTCAACTATGGTCTTATTCATTTAGGATTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTC-GTTCCGATATA
* * * *
29109698 ATGCCATGGTATCTTTCAACTATAGTCTTATTCGTTTCTGGTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCG-TTCCGATATA
* * * *
29109743 GTGTCATAGTATCTTTCAACTATGGTCTTATTCATCTCCGGA-ACA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGT-TCC-GATATA
*
29109788 ATACCATAGTATCTTTCAACTATGGTCTT-TCTCGTTCCGAATATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTAT-TCGTTCCG-ATATA
* *
29109833 ATGCCATGGTATCTTTCAACCATGGTCTT
1 ATGCCATAGTATCTTTCAACTATGGTCTT
29109862 TCTCGTTTCT
Statistics
Matches: 170, Mismatches: 32, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.01
44 6 0.04
45 160 0.94
46 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (44 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTTCCGATATA
Found at i:29117083 original size:24 final size:25
Alignment explanation
Indices: 29117038--29117099 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
29117028 TATACATATA
29117038 TTATAT-ATATATGCATGACTTTATC
1 TTATATAATATAT-CATGACTTTATC
* *
29117063 TTATATAATATAT-ATGGCTTTATT
1 TTATATAATATATCATGACTTTATC
* *
29117087 TTACATAGTATAT
1 TTATATAATATAT
29117100 GTAGGACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 20 0.62
25 6 0.19
26 6 0.19
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (25 bp):
TTATATAATATATCATGACTTTATC
Found at i:29117537 original size:12 final size:12
Alignment explanation
Indices: 29117513--29117545 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29117503 CGTTTCGTTA
29117513 TTTATCTTT-ATT
1 TTTAT-TTTCATT
29117525 TTTATTTTCATT
1 TTTATTTTCATT
29117537 TTTATTTTC
1 TTTATTTTC
29117546 CTTCCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTCATT
Found at i:29118642 original size:30 final size:30
Alignment explanation
Indices: 29118608--29118667 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29118598 TATAAAAAAA
*
29118608 AACTAT-CTACATATCTACATATATTTTTAT
1 AACTATGC-ACATATATACATATATTTTTAT
*
29118638 AACTATGCATATATATACATATATTTTTAT
1 AACTATGCACATATATACATATATTTTTAT
29118668 TTTCATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (30 bp):
AACTATGCACATATATACATATATTTTTAT
Found at i:29118717 original size:20 final size:20
Alignment explanation
Indices: 29118694--29118732 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29118684 TTATACATAC
29118694 GTATA-TTTTCATATATTTTT
1 GTATAGTTTT-ATATATTTTT
*
29118714 GTATAGTTTTATTTATTTT
1 GTATAGTTTTATATATTTT
29118733 ATTTATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (20 bp):
GTATAGTTTTATATATTTTT
Found at i:29122254 original size:19 final size:19
Alignment explanation
Indices: 29122213--29122255 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
29122203 TACTTCCTTT
*
29122213 TGCATTCATTTCATTCATC
1 TGCATTCATTTCATTCATA
29122232 TGCATTACATTTCATT-ATA
1 TGCATT-CATTTCATTCATA
29122251 TGCAT
1 TGCAT
29122256 CAAGTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (19 bp):
TGCATTCATTTCATTCATA
Found at i:29130424 original size:43 final size:43
Alignment explanation
Indices: 29130371--29130668 Score: 130
Period size: 44 Copynumber: 6.8 Consensus size: 43
29130361 GTAATAGTAA
* * *
29130371 AGCAGATCGAAGGCACCAGCCCTATCTCCCTGATCAGCGGCGG
1 AGCAGATCGAAGGCACCAGCCCTATCTCCCTAAGCAGCAGCGG
* * *** * * * *
29130414 AGTAGGTCGAAGGTTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGGCACCAG-CCCTATCTCCCTAAGCAGCAGCGG
* * **
29130458 AGCAGATCGAAGGCACCAGCCCTATCTCTCTTGAA-TAGCAGCAA
1 AGCAGATCGAAGGCACCAGCCCTATCTC-CCT-AAGCAGCAGCGG
** * ***** * * * *
29130502 AATAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGGCACCAG-CCCTATCTCCCTAAGCAGCAGCGG
* * *
29130546 AGCAGATCGAAGGCACTAGCCCTATCTCCCTGAGCAACAGCGG
1 AGCAGATCGAAGGCACCAGCCCTATCTCCCTAAGCAGCAGCGG
* * ***** * * * * * *
29130589 AGTAGGTCGAAGATTGTAGATCTTATCTCTCTAAGTAGTAGTGG
1 AGCAGATCGAAGGCACCAG-CCCTATCTCCCTAAGCAGCAGCGG
* *
29130633 AGTAGATCGAAGGCACCAGCCCTATCTCCCTGAGCA
1 AGCAGATCGAAGGCACCAGCCCTATCTCCCTAAGCA
29130669 ACAGAAGAGT
Statistics
Matches: 170, Mismatches: 79, Indels: 12
0.65 0.30 0.05
Matches are distributed among these distances:
43 66 0.39
44 95 0.56
45 9 0.05
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (43 bp):
AGCAGATCGAAGGCACCAGCCCTATCTCCCTAAGCAGCAGCGG
Found at i:29130444 original size:87 final size:87
Alignment explanation
Indices: 29130298--29130737 Score: 619
Period size: 87 Copynumber: 5.0 Consensus size: 87
29130288 AGTCATCATA
* * * * * *
29130298 ACCAGTCCTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGT
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
* **
29130363 AATAGTAAAGCAGATCGAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* * * *
29130385 ACCAGCCCTATCTCCCTGATCAGCGGCGGAGTAGGTCGAAGGTTGCAGATCTTATCTCCCTAAGC
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
29130450 AGTAGTGGAGCAGATCGAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* ** ** *
29130472 ACCAGCCCTATCTCTCTTGAATAGCAGCAAAATAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAGCCCTATCTC-CCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
29130537 CAGTAGTGGAGCAGATCGAAGGC
65 CAGTAGTGGAGCAGATCGAAGGC
* * * *
29130560 ACTAGCCCTATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCTCTAAGT
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
*
29130625 AGTAGTGGAGTAGATCGAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* **
29130647 ACCAGCCCTATCTCCCTGAGCAACAGAAGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
*
29130712 AGTAGTGGAGCAGATCGAAAGC
66 AGTAGTGGAGCAGATCGAAGGC
29130734 ACCA
1 ACCA
29130738 ATACCTCTAA
Statistics
Matches: 312, Mismatches: 40, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
87 235 0.75
88 77 0.25
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (87 bp):
ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGGC
Found at i:29130631 original size:175 final size:174
Alignment explanation
Indices: 29130329--29130737 Score: 604
Period size: 175 Copynumber: 2.3 Consensus size: 174
29130319 AGCAGTGGAG
* * * * **
29130329 TAGGTTGAAAATTGTAGATCTTATCTCCCTAAGTAATAGTAAAGCAGATCGAAGGCACCAGCCCT
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
* * * *
29130394 ATCTCCCTGATCAGCGGCGGAGTAGGTCGAAGGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
* * *
29130459 GCAGATCGAAGGCACCAGCCCTATCTCTCTTGAATAGCAGCAA-AA
131 GCAGATCGAAGGCACCAGCCCTATCTC-CCTGAACAACAG-AAGAA
*
29130504 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACTAGCCCT
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
* * *
29130569 ATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCTCTAAGTAGTAGTGGA
66 ATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
* * *
29130634 GTAGATCGAAGGCACCAGCCCTATCTCCCTGAGCAACAGAAGAG
131 GCAGATCGAAGGCACCAGCCCTATCTCCCTGAACAACAGAAGAA
*
29130678 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCA
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCA
29130738 ATACCTCTAA
Statistics
Matches: 211, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
173 2 0.01
174 67 0.32
175 142 0.67
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (174 bp):
TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
ATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATCGAAGGCACCAGCCCTATCTCCCTGAACAACAGAAGAA
Found at i:29132389 original size:30 final size:30
Alignment explanation
Indices: 29132355--29132414 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29132345 TTATAAAAAA
*
29132355 AACTAT-CTACATATCTACATATATTTTTAT
1 AACTATGC-ACATATATACATATATTTTTAT
* *
29132385 AACTATGCATATATATACATATGTTTTTAT
1 AACTATGCACATATATACATATATTTTTAT
29132415 TTTCATAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (30 bp):
AACTATGCACATATATACATATATTTTTAT
Found at i:29133930 original size:36 final size:36
Alignment explanation
Indices: 29133883--29133957 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
29133873 GTTATATTTT
*
29133883 GAACCATGTTAACTTGGTGAAT-TATATTATTATGGC
1 GAACCATGTTAACTTGGT-AATCTATATTAATATGGC
* * *
29133919 GAACCGTGTTAATTTGGTAATCTGTATTAATATGGC
1 GAACCATGTTAACTTGGTAATCTATATTAATATGGC
29133955 GAA
1 GAA
29133958 TTGCATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (36 bp):
GAACCATGTTAACTTGGTAATCTATATTAATATGGC
Found at i:29134343 original size:79 final size:79
Alignment explanation
Indices: 29134249--29134407 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
29134239 CATTGTGACT
29134249 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTGA
1 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTGA
29134314 TGAGCATTATGGCC
66 TGAGCATTATGGCC
*
29134328 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTGTGA
1 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTGA
29134393 TGAGCATTATGGCC
66 TGAGCATTATGGCC
29134407 T
1 T
29134408 AGAGATGTGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (79 bp):
TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTGA
TGAGCATTATGGCC
Found at i:29134736 original size:17 final size:18
Alignment explanation
Indices: 29134702--29134748 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
29134692 ATTATACTGA
*
29134702 ATGAACTGTTA-AATTGT
1 ATGAACTGTTATTATTGT
29134719 ATGAACTGTTATTA-TGT
1 ATGAACTGTTATTATTGT
*
29134736 ATAAACTGTTATT
1 ATGAACTGTTATT
29134749 TCATATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (18 bp):
ATGAACTGTTATTATTGT
Done.