Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008465.1 Hibiscus syriacus cultivar Beakdansim tig00111278_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 924357
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 2 of 5
Found at i:181540 original size:17 final size:17
Alignment explanation
Indices: 181518--181563 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
181508 AACGGTCAAC
181518 GGTCGGGTCAACAGTCG
1 GGTCGGGTCAACAGTCG
181535 GGTCGGGTCAACAGTCG
1 GGTCGGGTCAACAGTCG
181552 GGTCGGGTCAAC
1 GGTCGGGTCAAC
181564 CCGGTTCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCGGGTCAACAGTCG
Found at i:181581 original size:19 final size:19
Alignment explanation
Indices: 181557--181627 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
181547 AGTCGGGTCG
*
181557 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
181576 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
181595 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
181615 GGTCAAACCGGTT
1 GGTCAAACCGGTT
181628 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:181595 original size:10 final size:10
Alignment explanation
Indices: 181559--181627 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
181549 TCGGGTCGGG
*
181559 TCAACCCGGT
1 TCAAACCGGT
*
181569 TCAGACCGG-
1 TCAAACCGGT
181578 TCAAACCGGT
1 TCAAACCGGT
*
181588 TCAGACCGG-
1 TCAAACCGGT
181597 TCAAACCGGT
1 TCAAACCGGT
*
181607 TCAAAACTGG-
1 TC-AAACCGGT
181617 TCAAACCGGT
1 TCAAACCGGT
181627 T
1 T
181628 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:188817 original size:12 final size:12
Alignment explanation
Indices: 188788--188827 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
188778 AAAGTCAACA
*
188788 GTCAACGGTCACG
1 GTCAACGGTC-GG
188801 GTCAACGGTCGG
1 GTCAACGGTCGG
188813 GTCAACGGTCGG
1 GTCAACGGTCGG
188825 GTC
1 GTC
188828 GGGTCAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.17, C:0.28, G:0.38, T:0.17
Consensus pattern (12 bp):
GTCAACGGTCGG
Found at i:188829 original size:17 final size:17
Alignment explanation
Indices: 188807--188852 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
188797 CACGGTCAAC
*
188807 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACAGTCG
188824 GGTCGGGTCAACAGTCG
1 GGTCGGGTCAACAGTCG
188841 GGTCGGGTCAAC
1 GGTCGGGTCAAC
188853 CCGGTTCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.15, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCGGGTCAACAGTCG
Found at i:188870 original size:19 final size:19
Alignment explanation
Indices: 188846--188916 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
188836 AGTCGGGTCG
*
188846 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
188865 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
188884 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
188904 GGTCAAACCGGTT
1 GGTCAAACCGGTT
188917 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:188884 original size:10 final size:10
Alignment explanation
Indices: 188848--188916 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
188838 TCGGGTCGGG
*
188848 TCAACCCGGT
1 TCAAACCGGT
*
188858 TCAGACCGG-
1 TCAAACCGGT
188867 TCAAACCGGT
1 TCAAACCGGT
*
188877 TCAGACCGG-
1 TCAAACCGGT
188886 TCAAACCGGT
1 TCAAACCGGT
*
188896 TCAAAACTGG-
1 TC-AAACCGGT
188906 TCAAACCGGT
1 TCAAACCGGT
188916 T
1 T
188917 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:191124 original size:75 final size:75
Alignment explanation
Indices: 190989--191127 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 75
190979 AGATTTTAAG
* ** *
190989 AAAACTATAATTTATCATATTTCTATATAGATGACAAGTATTTCATTATTGAGGTCTCATAGTAT
1 AAAACTATAATTTATCATATTTCTATATAGATGACAAGTATTTCATTATTAACATATCATAGTAT
191054 TATCTCAGCA
66 TATCTCAGCA
* * * *
191064 AAAATTATAATTTATCATATTTTTATATA-ATTGATAAGTATTTTATTATTAACATATCATAGTA
1 AAAACTATAATTTATCATATTTCTATATAGA-TGACAAGTATTTCATTATTAACATATCATAGTA
191128 CTTTGTCGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 1 0.02
75 54 0.98
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (75 bp):
AAAACTATAATTTATCATATTTCTATATAGATGACAAGTATTTCATTATTAACATATCATAGTAT
TATCTCAGCA
Found at i:195978 original size:60 final size:60
Alignment explanation
Indices: 195835--196008 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 60
195825 AGTATGATTC
* ** * *
195835 TCATT-TAAATTAATCCTTAAACTTTTAAAT-GTTCTAATTTCATCCCTAAACTATGACTA
1 TCATTCTAAATTAGTCCCCAAACTTTTAAATATTTC-AATTTCATCCCCAAACTATGACTA
* * * *
195894 TCATTTTAAATTAGTCCTCTAACTTTTAAATATTTCAATTGCATCCCCAAACTATGACCT-
1 TCATTCTAAATTAGTCCCCAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGA-CTA
* * * *
195954 TCATTCTAAATTGGTCCCCAAACTTTTTGAACATTCCAATTTCAT-CCCAAACTAT
1 TCATTCTAAATTAGTCCCCAAAC-TTTTAAATATTTCAATTTCATCCCCAAACTAT
196009 ACATATATAC
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
59 5 0.05
60 70 0.72
61 22 0.23
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCCCAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACTA
Found at i:196255 original size:60 final size:61
Alignment explanation
Indices: 196178--196309 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 61
196168 GCAATTTTGA
* * *
196178 AGTCATAGTTT-AGGGATGAAATT-AGAATGTTCAAAAGTTTAAGGA-CTAGTTTAAAATGAG
1 AGTCATAGTTTGAGGGATGAAATTGA-AATGTTAAAAAATTTAAGGATC-AATTTAAAATGAG
*
196238 AGTCATAGTTTGA-GGATGAAATTGAAATTTTAAAAAATTTAAGGATCAATTTAAAATGAG
1 AGTCATAGTTTGAGGGATGAAATTGAAATGTTAAAAAATTTAAGGATCAATTTAAAATGAG
*
196298 AGTTATAGTTTG
1 AGTCATAGTTTG
196310 GAGACATAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (61 bp):
AGTCATAGTTTGAGGGATGAAATTGAAATGTTAAAAAATTTAAGGATCAATTTAAAATGAG
Found at i:196540 original size:14 final size:15
Alignment explanation
Indices: 196523--196575 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
196513 ATAATAATAC
196523 TTTTTAAAAA-TTAA
1 TTTTTAAAAAGTTAA
*
196537 TTTTTAAAAAGTCAA
1 TTTTTAAAAAGTTAA
* *
196552 TTTTAAAAAAGGTAA
1 TTTTTAAAAAGTTAA
196567 TTTTTAAAA
1 TTTTTAAAA
196576 TATTTGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 10 0.30
15 23 0.70
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (15 bp):
TTTTTAAAAAGTTAA
Found at i:199238 original size:26 final size:26
Alignment explanation
Indices: 199206--199274 Score: 129
Period size: 26 Copynumber: 2.6 Consensus size: 26
199196 TGTATCTGTA
199206 AAATGACCAAAATATCTCTGGAATGG
1 AAATGACCAAAATATCTCTGGAATGG
199232 AAATGACCAAAATATCTCTGGAATGG
1 AAATGACCAAAATATCTCTGGAATGG
199258 AAATGACCAAGAATATC
1 AAATGACCAA-AATATC
199275 ACCAAACTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 36 0.86
27 6 0.14
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (26 bp):
AAATGACCAAAATATCTCTGGAATGG
Found at i:199956 original size:27 final size:27
Alignment explanation
Indices: 199926--199988 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
199916 TAGTTTCCTT
**
199926 AAGATCTATTCAGTGATGATTCCGAAG
1 AAGATCTATTCAACGATGATTCCGAAG
*
199953 AAGATCTATTCAACGATGATTTCGAAG
1 AAGATCTATTCAACGATGATTCCGAAG
*
199980 ATGATCTAT
1 AAGATCTAT
199989 GGATAAGGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (27 bp):
AAGATCTATTCAACGATGATTCCGAAG
Found at i:203512 original size:9 final size:9
Alignment explanation
Indices: 203500--203531 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
203490 TTTTTTTAAA
203500 TTTTGGCTT
1 TTTTGGCTT
203509 TTTTGGCTTT
1 TTTTGGC-TT
203519 TTTTGGCTT
1 TTTTGGCTT
203528 TTTT
1 TTTT
203532 TGGTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.00, C:0.09, G:0.19, T:0.72
Consensus pattern (9 bp):
TTTTGGCTT
Found at i:203538 original size:9 final size:10
Alignment explanation
Indices: 203500--203539 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
203490 TTTTTTTAAA
203500 TTTTGGC-TT
1 TTTTGGCTTT
203509 TTTTGGCTTT
1 TTTTGGCTTT
203519 TTTTGGCTTT
1 TTTTGGCTTT
203529 TTTTGG-TTT
1 TTTTGGCTTT
203538 TT
1 TT
203540 ATTGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 12 0.40
10 18 0.60
ACGTcount: A:0.00, C:0.07, G:0.20, T:0.72
Consensus pattern (10 bp):
TTTTGGCTTT
Found at i:205063 original size:16 final size:17
Alignment explanation
Indices: 205029--205063 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
205019 CCATCTGGTT
205029 TTATTTTTATATTTTAAA
1 TTATTTTTATA-TTTAAA
205047 TTATTTTTATA-TTAAA
1 TTATTTTTATATTTAAA
205063 T
1 T
205064 AATAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTTTATATTTAAA
Found at i:212193 original size:11 final size:11
Alignment explanation
Indices: 212169--212216 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
212159 TTGTTTGCAA
*
212169 TTTTTTTGAATT
1 TTTTTTTG-TTT
212181 TTTTTTTGTTT
1 TTTTTTTGTTT
**
212192 TTTTTTTGCCT
1 TTTTTTTGTTT
*
212203 TTTTTTGGTTT
1 TTTTTTTGTTT
212214 TTT
1 TTT
212217 AAATAGCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.81
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:213818 original size:2 final size:2
Alignment explanation
Indices: 213811--213842 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
213801 GCATTTATTC
213811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
213843 TATGTGCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:218205 original size:20 final size:20
Alignment explanation
Indices: 218180--218228 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
218170 AGATCCAACA
218180 TTTCACCCACCCACATCCAC
1 TTTCACCCACCCACATCCAC
218200 TTTCACCCACCCACATCCAC
1 TTTCACCCACCCACATCCAC
218220 TTTCACCCA
1 TTTCACCCA
218229 TCCAAAACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.53, G:0.00, T:0.22
Consensus pattern (20 bp):
TTTCACCCACCCACATCCAC
Found at i:219533 original size:21 final size:20
Alignment explanation
Indices: 219499--219552 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
219489 AAGCTTGAAG
219499 AATTAGAAAAAAGAAAAATA
1 AATTAGAAAAAAGAAAAATA
*
219519 AATTAGAAGAAAAGAAAAATG
1 AATTAGAA-AAAAGAAAAATA
*
219540 AAGTAGAAAAAAG
1 AATTAGAAAAAAG
219553 TTTGGCAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (20 bp):
AATTAGAAAAAAGAAAAATA
Found at i:225459 original size:10 final size:10
Alignment explanation
Indices: 225443--225475 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
225433 CATCCACACC
225443 CTCTCACCCT
1 CTCTCACCCT
*
225453 TTCTCACCCT
1 CTCTCACCCT
225463 CTCTCACCCT
1 CTCTCACCCT
225473 CTC
1 CTC
225476 ACAGGTACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.58, G:0.00, T:0.33
Consensus pattern (10 bp):
CTCTCACCCT
Found at i:231004 original size:28 final size:29
Alignment explanation
Indices: 230972--231040 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
230962 ATTCTACGAT
*
230972 TGTAAAAATATAG-GTTGTTATTGTTATA
1 TGTAAAAATATAGAGTTGTTATTGTAATA
*
231000 TGTAAAAATAT-GAGTTGTTATTGTAATT
1 TGTAAAAATATAGAGTTGTTATTGTAATA
231028 TGTAAAAAGTATA
1 TGTAAAAA-TATA
231041 TGTCATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 32 0.89
29 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (29 bp):
TGTAAAAATATAGAGTTGTTATTGTAATA
Found at i:231116 original size:29 final size:28
Alignment explanation
Indices: 231017--231207 Score: 170
Period size: 29 Copynumber: 6.7 Consensus size: 28
231007 ATATGAGTTG
* * *
231017 TTATTGTAATTTGTAAAAAGTATATGTCA
1 TTATTGTAATTTATAAAAAG-ATTTGTCT
*
231046 TTATTGTGATTTATAAAAAGATTTGT-T
1 TTATTGTAATTTATAAAAAGATTTGTCT
* * *
231073 CTATTTTAAATTATAAAAAGATTTGTCCT
1 TTATTGTAATTTATAAAAAGATTTGT-CT
* *
231102 TTATTGTAATTTATAAGAAGATTTATCT
1 TTATTGTAATTTATAAAAAGATTTGTCT
* * *
231130 TCTATTATAATTTATAAAAAGATTTCTCCA
1 T-TATTGTAATTTATAAAAAGATTTGT-CT
* **
231160 TTATTGTAGTTTATAAAAATCTATT-TCT
1 TTATTGTAATTTATAAAAAGAT-TTGTCT
*
231188 TTAAATGTAATTTATAAAAA
1 TT-ATTGTAATTTATAAAAA
231208 AAATTAATTT
Statistics
Matches: 132, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.17
28 11 0.08
29 95 0.72
30 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (28 bp):
TTATTGTAATTTATAAAAAGATTTGTCT
Found at i:231164 original size:58 final size:56
Alignment explanation
Indices: 231018--231178 Score: 189
Period size: 58 Copynumber: 2.8 Consensus size: 56
231008 TATGAGTTGT
* * * * *
231018 TATTGTAATTTGTAAAAAGTATATGT-CATTATTGTGATTTATAAAAAGATTTGTTC
1 TATTATAATTTATAAAAAG-ATTTGTCCATTATTGTAATTTATAAAAAGATTTCTTC
* * * *
231074 TATTTTAAATTATAAAAAGATTTGTCCTTTATTGTAATTTATAAGAAGATTTATCTTC
1 TATTATAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAGA-TT-TCTTC
* *
231132 TATTATAATTTATAAAAAGATTTCTCCATTATTGTAGTTTATAAAAA
1 TATTATAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAA
231179 TCTATTTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
55 5 0.06
56 36 0.41
57 2 0.02
58 45 0.51
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (56 bp):
TATTATAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAGATTTCTTC
Found at i:235498 original size:184 final size:185
Alignment explanation
Indices: 235189--235559 Score: 735
Period size: 184 Copynumber: 2.0 Consensus size: 185
235179 TGTATTATTT
235189 ATCAGTCACCTATCTTCTCTCTTATTTTAGTTATTAAAGTTTAAAATTTTTCAATTTAACTACTC
1 ATCAGTCACCTATCTTCTCTCTTATTTTAGTTATTAAAGTTTAAAATTTTTCAATTTAACTACTC
235254 GACTTTCAAATTGTTTTGTGTTAACCATCCTAATTTATTTTAGTAATAATTTTTATGACATGACA
66 GACTTTCAAATTGTTTTGTGTTAACCATCCTAATTTATTTTAGTAATAATTTTTATGACATGACA
235319 TTTATTATTATTATTTTATTAATAAAAATTAAATTT-AAAATTATAGTGATTAAA
131 TTTATTATTATTATTTTATTAATAAAAATTAAATTTAAAAATTATAGTGATTAAA
235373 ATCAGTCACCTATCTTCTCTCTTATTTTAGTTATTAAAGTTTAAAATTTTTCAATTTAACTACTC
1 ATCAGTCACCTATCTTCTCTCTTATTTTAGTTATTAAAGTTTAAAATTTTTCAATTTAACTACTC
235438 GACTTTCAAATTGTTTTGTGTTAACCATCCTAATTTATTTTAGTAATAATTTTTATGACATGACA
66 GACTTTCAAATTGTTTTGTGTTAACCATCCTAATTTATTTTAGTAATAATTTTTATGACATGACA
235503 TTTATTATTATTATTTTATTAATAAAAATTAAATTTAAAAATTATAGTGATTAAA
131 TTTATTATTATTATTTTATTAATAAAAATTAAATTTAAAAATTATAGTGATTAAA
235558 AT
1 AT
235560 AAGAGTAATT
Statistics
Matches: 186, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
184 166 0.89
185 20 0.11
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (185 bp):
ATCAGTCACCTATCTTCTCTCTTATTTTAGTTATTAAAGTTTAAAATTTTTCAATTTAACTACTC
GACTTTCAAATTGTTTTGTGTTAACCATCCTAATTTATTTTAGTAATAATTTTTATGACATGACA
TTTATTATTATTATTTTATTAATAAAAATTAAATTTAAAAATTATAGTGATTAAA
Found at i:239912 original size:33 final size:33
Alignment explanation
Indices: 239870--239937 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
239860 GAACTTGAAT
239870 GTATGAAAGTATCTAAGTTGAGATCAGTCACAA
1 GTATGAAAGTATCTAAGTTGAGATCAGTCACAA
239903 GTATGAAAGTATCTAAGTTGAGATCAGTCACAA
1 GTATGAAAGTATCTAAGTTGAGATCAGTCACAA
239936 GT
1 GT
239938 CTTTTTCAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (33 bp):
GTATGAAAGTATCTAAGTTGAGATCAGTCACAA
Found at i:242989 original size:14 final size:14
Alignment explanation
Indices: 242970--242999 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
242960 CTTGGGGATC
242970 AAGTTTCATATGAG
1 AAGTTTCATATGAG
242984 AAGTTTCATATGAG
1 AAGTTTCATATGAG
242998 AA
1 AA
243000 AATGTTGAAA
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:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (14 bp):
AAGTTTCATATGAG
Found at i:251068 original size:22 final size:22
Alignment explanation
Indices: 251043--251099 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
251033 GAGGGTATAT
* *
251043 TGGTCATTCGGGAAGTATCCAG
1 TGGTCCTTCGGGAAGTATCCAA
*
251065 TGGTCCTTCGGGACGTATCCAA
1 TGGTCCTTCGGGAAGTATCCAA
251087 TGGTCCTTCGGGA
1 TGGTCCTTCGGGA
251100 GAAATATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.28
Consensus pattern (22 bp):
TGGTCCTTCGGGAAGTATCCAA
Found at i:251300 original size:61 final size:61
Alignment explanation
Indices: 251205--251335 Score: 235
Period size: 61 Copynumber: 2.1 Consensus size: 61
251195 TTCACAAATA
* *
251205 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACACGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGAGATACAAGAAAATAAGTTTCAT
251266 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGAGATACAAGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGAGATACAAGAAAATAAGTTTCAT
*
251327 ATATACATG
1 ATGTACATG
251336 ACATAATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (61 bp):
ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGAGATACAAGAAAATAAGTTTCAT
Found at i:256641 original size:22 final size:22
Alignment explanation
Indices: 256631--256712 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
256621 ATTCGAAACA
256631 TATCCAGTGGTCCTTCGGGACG
1 TATCCAGTGGTCCTTCGGGACG
*
256653 TATCCAATGGTCCTTCGGGACG
1 TATCCAGTGGTCCTTCGGGACG
*
256675 TATCCAGTGGTCCTTCGGTAC-
1 TATCCAGTGGTCCTTCGGGACG
256696 -AT--AGTGGTCCTTCGGGA
1 TATCCAGTGGTCCTTCGGGA
256713 TAAATACTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.25
20 2 0.04
22 40 0.71
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (22 bp):
TATCCAGTGGTCCTTCGGGACG
Found at i:256913 original size:61 final size:61
Alignment explanation
Indices: 256818--256948 Score: 244
Period size: 61 Copynumber: 2.1 Consensus size: 61
256808 TTCTCAAATA
256818 ATGTACATGGGCAATTAAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTAAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
* *
256879 ATGTACATGGGCAATTGAAAGATAAAGTTAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTAAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
256940 ATGTACATG
1 ATGTACATG
256949 ACATGATTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (61 bp):
ATGTACATGGGCAATTAAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
Found at i:262256 original size:22 final size:22
Alignment explanation
Indices: 262231--262328 Score: 151
Period size: 22 Copynumber: 4.5 Consensus size: 22
262221 GAGGGTATAT
* *
262231 TGGTCATTCGGAACGTATCCAG
1 TGGTCCTTCGGGACGTATCCAG
*
262253 TGGTCCTTCGGGACGTATCCAA
1 TGGTCCTTCGGGACGTATCCAG
262275 TGGTCCTTCGGGACGTATCCAG
1 TGGTCCTTCGGGACGTATCCAG
* *
262297 TGGTCCTTTGGGACGTCTCCAG
1 TGGTCCTTCGGGACGTATCCAG
262319 TGGTCCTTCG
1 TGGTCCTTCG
262329 AGACATAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 69 1.00
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.30
Consensus pattern (22 bp):
TGGTCCTTCGGGACGTATCCAG
Found at i:262550 original size:61 final size:61
Alignment explanation
Indices: 262455--262646 Score: 366
Period size: 61 Copynumber: 3.1 Consensus size: 61
262445 TTCTCAAATA
262455 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
262516 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
* *
262577 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGGTACATGAAAATAAGTTTCAT
1 ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
262638 ATGTACATG
1 ATGTACATG
262647 ACATGATTGT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 129 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (61 bp):
ATGTACATGGGCAATTGAAAGATAAAGTAAGGTGAAAGTGATACAAGAAAATAAGTTTCAT
Found at i:266538 original size:21 final size:21
Alignment explanation
Indices: 266509--266555 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
266499 ATTCTGACTA
266509 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
266530 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
266551 TCGCA
1 TCGCA
266556 ACGCGATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:266674 original size:41 final size:41
Alignment explanation
Indices: 266610--266703 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
266600 CGAATACGTA
* *
266610 AATT-GCAATGCGA-ATACGTATTCGCATTGCGATTTTCAT
1 AATTCGCAATGCGATTTACGTATTCGCATTACGATTTTCAT
* *
266649 AATTCGCATTGCGATTTACGTATTCGCGTTACGATTTTCAT
1 AATTCGCAATGCGATTTACGTATTCGCATTACGATTTTCAT
266690 AATTCGCAATGCGA
1 AATTCGCAATGCGA
266704 ATACGTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.08
40 8 0.17
41 36 0.75
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (41 bp):
AATTCGCAATGCGATTTACGTATTCGCATTACGATTTTCAT
Found at i:266684 original size:142 final size:143
Alignment explanation
Indices: 266509--266766 Score: 419
Period size: 142 Copynumber: 1.8 Consensus size: 143
266499 ATTCTGACTA
* * * *
266509 TCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAATTCGCAACGCGATTAAGTAAATCG
1 TCGCATTGCGATTTCACAAATTCGCGTTACGATTTTCATAATTCGCAACGCGAATAAGTAAATCG
* *
266574 CAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATTGCAATGCGAATACGTATTCGCATTG
66 CAACGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTATTCGCATTG
266639 CGATTTTCATAAT
131 CGATTTTCATAAT
** * *
266652 TCGCATTGCGATTT-ACGTATTCGCGTTACGATTTTCATAATTCGCAATGCGAATACGTAAATCG
1 TCGCATTGCGATTTCACAAATTCGCGTTACGATTTTCATAATTCGCAACGCGAATAAGTAAATCG
266716 CAACGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGAAT
66 CAACGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGAAT
266767 CTGACTATCG
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
142 91 0.87
143 14 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (143 bp):
TCGCATTGCGATTTCACAAATTCGCGTTACGATTTTCATAATTCGCAACGCGAATAAGTAAATCG
CAACGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTATTCGCATTG
CGATTTTCATAAT
Found at i:266765 original size:20 final size:20
Alignment explanation
Indices: 266551--266766 Score: 148
Period size: 20 Copynumber: 10.7 Consensus size: 20
266541 TTTTCCTAAT
* * *
266551 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
266571 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
266592 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
266612 TTGCAATGCGAATACGT-AT
1 TCGCAATGCGAATACGTAAA
* * * * *
266631 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
* * *
266652 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * * *
266672 TCGCGTTACGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
266693 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
266713 TCGCAACGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
266734 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
266754 TCGCAATGCGAAT
1 TCGCAATGCGAAT
266767 CTGACTATCG
Statistics
Matches: 159, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
19 10 0.06
20 86 0.54
21 63 0.40
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:267456 original size:20 final size:20
Alignment explanation
Indices: 267404--267478 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
267394 GATTCTCTCT
267404 TTGCGATTTTCATTT-CTCG
1 TTGCGATTTTCATTTCCTCG
** *
267423 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCCTCG
* *
267443 TTGCGATTTCCA-TTCTCTCA
1 TTGCGATTTTCATTTC-CTCG
267463 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
267479 AACCAAAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 16 0.36
20 25 0.57
21 3 0.07
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCTCG
Found at i:269358 original size:94 final size:94
Alignment explanation
Indices: 269173--269531 Score: 584
Period size: 94 Copynumber: 3.9 Consensus size: 94
269163 GATTGCTTAA
* * *
269173 TAAATTTATTCGGTTGCTGCCAATACTGTTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
269234 TTGTCTTTTGTTTTGTCTTTTGGTTG-AAG
66 TTGTC-TTTGTTTTGTCTTTTGGTTGAAAG
269263 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
269328 TTGTCTTTGTTTTGTCTTTTGGTTGAAAG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAG
* *
269357 TAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
269422 TTGTCTTTGTTTTGTCTTTTGGTTGAAAG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAG
* * * *
269451 TAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
269516 TTGTCTTTGTCTTTGT
66 TTGTCTTTGT-TTTGT
269532 TTTGTCTTTT
Statistics
Matches: 254, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
90 32 0.13
92 3 0.01
93 22 0.09
94 192 0.76
95 5 0.02
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.48
Consensus pattern (94 bp):
TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAG
Found at i:269722 original size:20 final size:19
Alignment explanation
Indices: 269641--269736 Score: 112
Period size: 19 Copynumber: 5.3 Consensus size: 19
269631 TCTTTTGGTT
*
269641 GAAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
269660 GAAACGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
*
269679 GAAATGAAAATCGCAA--C
1 GAAACGAAAATCGCAACGC
269696 G--AC-AAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
269712 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
269732 GAAAC
1 GAAAC
269737 TATAATCGCG
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
16 2 0.03
17 1 0.02
18 1 0.02
19 34 0.52
20 17 0.26
ACGTcount: A:0.50, C:0.24, G:0.19, T:0.07
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:269797 original size:33 final size:33
Alignment explanation
Indices: 269760--269839 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
269750 CAATTTTTGG
* *
269760 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
*
269793 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
269826 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
269840 AGTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
Found at i:269805 original size:19 final size:19
Alignment explanation
Indices: 269781--269863 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 19
269771 GATTTTGTCA
269781 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
269800 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
269814 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
** *
269833 TTGCGATAGTCATTTTTCACG
1 TTGCGATTTTCA--TTTCGCG
269854 TTGCGATTTT
1 TTGCGATTTT
269864 AAGTTCCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 20 0.40
21 14 0.28
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:270333 original size:21 final size:21
Alignment explanation
Indices: 270309--270375 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
270299 TCATTCCTCG
270309 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
270330 AGAGGCCACTGTCATCGTTTA
1 AGAGTCCCCTCCCACCATTCA
270351 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
270372 AGAG
1 AGAG
270376 CCTGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:270333 original size:42 final size:42
Alignment explanation
Indices: 270287--270375 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
270277 CCTATCGTTG
* *
270287 AAGAGGCCCCTATCATTC-CTCGAGA-GTCCCCTCCCACCATTC
1 AAGAGGCCACTATCA-TCGCTCAAGAGGT-CCCTCCCACCATTC
* * *
270329 AAGAGGCCACTGTCATCGTTTAAGAGGTCCCTCCCACCATTC
1 AAGAGGCCACTATCATCGCTCAAGAGGTCCCTCCCACCATTC
270371 AAGAG
1 AAGAG
270376 CCTGATTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 36 0.90
43 2 0.05
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (42 bp):
AAGAGGCCACTATCATCGCTCAAGAGGTCCCTCCCACCATTC
Found at i:271736 original size:14 final size:14
Alignment explanation
Indices: 271717--271752 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
271707 ATTGTTTAAT
271717 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
271731 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
271745 TGATTTGT
1 TGATTTGT
271753 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:271933 original size:19 final size:19
Alignment explanation
Indices: 271911--272061 Score: 98
Period size: 19 Copynumber: 8.7 Consensus size: 19
271901 CAAAACTAAA
271911 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
271930 TTCGCTTTGCGA--TTCA-
1 TTCGCGTTGCGATTTTCAT
*
271946 --CTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
271963 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
271978 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
271996 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
272011 -TCTCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
272029 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
272049 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
272062 GGACATTAAG
Statistics
Matches: 98, Mismatches: 18, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 25 0.26
16 10 0.10
17 10 0.10
19 40 0.41
20 13 0.13
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:271957 original size:33 final size:33
Alignment explanation
Indices: 271915--272041 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
271905 ACTAAATTCG
* *
271915 CGTTGCGATTTTCATTTCGCTTTGCGATTCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
271948 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
271981 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
272014 CGTTGCAATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
272042 AGTCATTTTC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:272068 original size:20 final size:20
Alignment explanation
Indices: 272028--272068 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
272018 GCAATTTTCA
*
272028 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
* *
272048 TTTCGCGTTGCGATGGACAT
1 TTTCGCATTGCGATAGACAT
272068 T
1 T
272069 AAGATGATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:274612 original size:24 final size:24
Alignment explanation
Indices: 274578--274645 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
274568 CTGAAAAATC
*
274578 ATCAAAATCCGAATATTGACCAAT
1 ATCAAAATCCGAATATTGACCAAG
* **
274602 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAATATTGACCAAG
* * *
274626 ATCAAATTTCGAATACTGAC
1 ATCAAAATCCGAATATTGAC
274646 TAGTACTCAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGAATATTGACCAAG
Found at i:275555 original size:41 final size:41
Alignment explanation
Indices: 275504--275702 Score: 260
Period size: 41 Copynumber: 4.8 Consensus size: 41
275494 GCGATTTACT
275504 AAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
*
275545 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGTA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * *
275586 AAATCGCAATGCGATTACGTAAATCGCAATGCG-GTTACGT
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
275626 AAATCGCAATGCGAATTA-GAAAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCG-ATTACG-TAAATCGCAATGCGAATTAGGA
* ** *
275668 AAATCGCAACGCGAATTTGGGAAATCGCAATGCGA
1 AAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
275703 TAGTCAGAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
40 17 0.12
41 87 0.62
42 36 0.26
43 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:275558 original size:61 final size:62
Alignment explanation
Indices: 275493--275702 Score: 263
Period size: 61 Copynumber: 3.4 Consensus size: 62
275483 AGAATCTCGT
275493 TGCGATTTAC-TAAATCGCAATGCG-ATTACGTAAATCG-AAGTGCGAATTAGGAAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGAATTA-GTAAATCGCAA-TGCGAATTAGGAAAATCGCAA
* *
275554 TGCGA-TTACGTAAATCGCAATGCGAATTAGTAAAATCGCAATGCG-ATTACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGAATTAGT-AAATCGCAATGCGAATTAGGAAAATCGCAA
* *
275615 TGCG-GTTACGTAAATCGCAATGCGAATTAGAAAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGAATTAG-TAAATCGCAATGCGAATTAGGAAAATCGCAA
* * *
275677 CGCGAATTT-GGGAAATCGCAATGCGA
1 TGCG-ATTTACGTAAATCGCAATGCGA
275703 TAGTCAGAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
60 4 0.03
61 77 0.59
62 31 0.24
63 17 0.13
64 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (62 bp):
TGCGATTTACGTAAATCGCAATGCGAATTAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
Found at i:275674 original size:21 final size:21
Alignment explanation
Indices: 275504--275702 Score: 228
Period size: 21 Copynumber: 9.7 Consensus size: 21
275494 GCGATTTACT
* *
275504 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
275524 AAATCG-AAGTGCGAATTAGGA
1 AAATCGCAA-TGCGAATTAGGA
* *
275545 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
*
275565 AAATCGCAATGCGAATTAGTA
1 AAATCGCAATGCGAATTAGGA
* *
275586 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
* * *
275606 AAATCGCAATGCG-GTTACGT
1 AAATCGCAATGCGAATTAGGA
*
275626 AAATCGCAATGCGAATTAGAA
1 AAATCGCAATGCGAATTAGGA
275647 AAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATTAGGA
* * *
275668 AAATCGCAACGCGAATTTGGG
1 AAATCGCAATGCGAATTAGGA
275689 AAATCGCAATGCGA
1 AAATCGCAATGCGA
275703 TAGTCAGAAT
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.01
20 64 0.42
21 86 0.56
22 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (21 bp):
AAATCGCAATGCGAATTAGGA
Found at i:276205 original size:30 final size:30
Alignment explanation
Indices: 276169--276243 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
276159 TCGGATTTTC
* *
276169 AAAAAATGACCGGAAACATTATTATGTGCT
1 AAAAAATGACCGGAAACATTACTAGGTGCT
*
276199 AAAAAATGACCGAAAACATTACTAGGTGCT
1 AAAAAATGACCGGAAACATTACTAGGTGCT
*
276229 -AAAAATAACCGGAAA
1 AAAAAATGACCGGAAA
276244 TGTTAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (30 bp):
AAAAAATGACCGGAAACATTACTAGGTGCT
Found at i:276271 original size:21 final size:21
Alignment explanation
Indices: 276247--276291 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
276237 CCGGAAATGT
* *
276247 TAAAAAAAATAATGTTTTAGG
1 TAAAAAAAATAATATTATAGG
*
276268 TAAAAATAATAATATTATAGG
1 TAAAAAAAATAATATTATAGG
276289 TAA
1 TAA
276292 TTTTTTACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (21 bp):
TAAAAAAAATAATATTATAGG
Found at i:280792 original size:29 final size:28
Alignment explanation
Indices: 280729--280793 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 28
280719 AAGACAATTT
280729 TTTTTATAAACTACAATAAAGAACAAAA
1 TTTTTATAAACTACAATAAAGAACAAAA
* *
280757 TTATTTATAAATTACAATAAAGAACCAAAC
1 TT-TTTATAAACTACAATAAAGAA-CAAAA
280787 TTTTTAT
1 TTTTTAT
280794 GATTTATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 2 0.06
29 25 0.76
30 6 0.18
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTTTATAAACTACAATAAAGAACAAAA
Found at i:287164 original size:17 final size:17
Alignment explanation
Indices: 287138--287175 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
287128 AATTAAATAC
*
287138 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
287154 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
287171 AATAC
1 AATAC
287176 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:287180 original size:24 final size:24
Alignment explanation
Indices: 287153--287198 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
287143 TAAATAATTT
*
287153 AAATACTTAAATA-AATTAAATACA
1 AAATA-TTAAATATAATAAAATACA
287177 AAATATTAAATATAATAAAATA
1 AAATATTAAATATAATAAAATA
287199 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATTAAATATAATAAAATACA
Found at i:303447 original size:10 final size:10
Alignment explanation
Indices: 303434--303464 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
303424 AAAACCCACT
303434 AAAAAATGAA
1 AAAAAATGAA
303444 AAAAAATTGAA
1 AAAAAA-TGAA
303455 AAAAAATGAA
1 AAAAAATGAA
303465 GTTGTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:304056 original size:19 final size:20
Alignment explanation
Indices: 304020--304061 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
304010 TTTAAGAGCT
*
304020 CATTTAGGACCATGTAG-TG
1 CATTTAGAACCATGTAGTTG
* *
304039 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATGTAGTTG
304059 CAT
1 CAT
304062 GTGGTGGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (20 bp):
CATTTAGAACCATGTAGTTG
Found at i:305968 original size:21 final size:22
Alignment explanation
Indices: 305919--305990 Score: 94
Period size: 21 Copynumber: 3.3 Consensus size: 22
305909 TCGAGGGTTT
305919 TATGTGGTCCTTCGGGACAAAAC
1 TATGTGGTCCTTCGGGAC-AAAC
305942 TATGTGGTCCTTCGGGACAAA-
1 TATGTGGTCCTTCGGGACAAAC
* *
305963 TATGTGGTACTTCGGTG-CAAAT
1 TATGTGGTCCTTCGG-GACAAAC
305985 TATGTG
1 TATGTG
305991 AGAAGTGGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
21 18 0.39
22 10 0.22
23 18 0.39
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (22 bp):
TATGTGGTCCTTCGGGACAAAC
Found at i:307733 original size:26 final size:26
Alignment explanation
Indices: 307697--307749 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
307687 GACAACATAG
307697 AACGCAAGAGATAATATTCGTTTAAC
1 AACGCAAGAGATAATATTCGTTTAAC
307723 AACGCAAGAGATAATATTCGTTTAAC
1 AACGCAAGAGATAATATTCGTTTAAC
307749 A
1 A
307750 TTCTCTCAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (26 bp):
AACGCAAGAGATAATATTCGTTTAAC
Found at i:308360 original size:14 final size:13
Alignment explanation
Indices: 308337--308397 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 13
308327 GTGTGCTTTA
*
308337 TTTTTGTATAATAT
1 TTTTTTTATAAT-T
308351 TTTTTTTATAATT
1 TTTTTTTATAATT
*
308364 TTACTATTTTA-ATAGT
1 TT--T-TTTTATA-ATT
308380 TTTTTTTATAATT
1 TTTTTTTATAATT
308393 TTTTT
1 TTTTT
308398 GTTGTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
13 15 0.38
14 13 0.33
15 2 0.05
16 9 0.23
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTTTTATAATT
Found at i:315997 original size:23 final size:23
Alignment explanation
Indices: 315968--316022 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
315958 TCTTGCTATC
315968 TTGTTGATGATATGTTCTTGGTG
1 TTGTTGATGATATGTTCTTGGTG
315991 TTGTTGATGATATGTTCTTGGTG
1 TTGTTGATGATATGTTCTTGGTG
316014 TTGTTGATG
1 TTGTTGATG
316023 TGTTGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.13, C:0.04, G:0.31, T:0.53
Consensus pattern (23 bp):
TTGTTGATGATATGTTCTTGGTG
Found at i:316558 original size:3 final size:3
Alignment explanation
Indices: 316545--316602 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
316535 GTACCCTGAA
* *
316545 AAT AA- AAT AAT AAT AAT AAAT AAT AGT AAT AAT AAT GAT AAT -AT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
316589 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
316603 ATTATGATCC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:317865 original size:2 final size:2
Alignment explanation
Indices: 317858--317899 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
317848 TGTAAACCCC
317858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
317900 CGCTAACGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:320182 original size:33 final size:34
Alignment explanation
Indices: 320145--320279 Score: 188
Period size: 33 Copynumber: 4.0 Consensus size: 34
320135 AAAATAGAAA
320145 AATATAAAAAAATATAAAATA-T-TATATATAATT
1 AATAT-AAAAAATATAAAATATTATATATATAATT
* *
320178 AATATAAAAAATATTATATATTATATATATAATT
1 AATATAAAAAATATAAAATATTATATATATAATT
320212 AATAT-AAAAATATAAAATATTATATATATAATT
1 AATATAAAAAATATAAAATATTATATATATAATT
*
320245 AATA-AAAAAATAAAAAAAATATTATATATATAATT
1 AATATAAAAAAT--ATAAAATATTATATATATAATT
320280 GTGGCAGGGC
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
32 13 0.14
33 42 0.46
34 16 0.17
35 21 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
AATATAAAAAATATAAAATATTATATATATAATT
Found at i:326280 original size:37 final size:37
Alignment explanation
Indices: 326226--326299 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
326216 ATTCCCACCA
*
326226 TGGGAAAGCATGGTGCTGAATATTATGCAATATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCAATATCCAT
* *
326263 TGGGAAAGCATATTGCTGAATATTATGCATTATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCAATATCCAT
326300 GGTGCTGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (37 bp):
TGGGAAAGCATAGTGCTGAATATTATGCAATATCCAT
Found at i:327582 original size:30 final size:31
Alignment explanation
Indices: 327548--327608 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
327538 ACCGGTCATA
*
327548 ACCCGACCCGTTTACCCGA-CCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCCGTTGACCCG
*
327578 ACCCGATCCGTTGACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCCGTTGACCCG
327609 TTGACCGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCCGTTGACCCG
Found at i:327590 original size:18 final size:17
Alignment explanation
Indices: 327561--327600 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
327551 CGACCCGTTT
327561 ACCCGACCGTTGACCCG
1 ACCCGACCGTTGACCCG
327578 ACCCGATCCGTTGACCCG
1 ACCCGA-CCGTTGACCCG
327596 ACCCG
1 ACCCG
327601 TTGACCCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.12
Consensus pattern (17 bp):
ACCCGACCGTTGACCCG
Found at i:327595 original size:13 final size:13
Alignment explanation
Indices: 327548--327608 Score: 61
Period size: 13 Copynumber: 4.4 Consensus size: 13
327538 ACCGGTCATA
*
327548 ACCCGACCCGTTT
1 ACCCGACCCGTTG
327561 ACCCGA-CCGTTG
1 ACCCGACCCGTTG
327573 ACCCGACCCGATCCGTTG
1 ACCCGA--C---CCGTTG
327591 ACCCGACCCGTTG
1 ACCCGACCCGTTG
327604 ACCCG
1 ACCCG
327609 TTGACCGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
12 11 0.27
13 17 0.41
16 1 0.02
18 12 0.29
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:330166 original size:24 final size:24
Alignment explanation
Indices: 330139--330257 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
330129 TTCGATTTGA
330139 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
330163 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
330187 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
330211 ATTCTGATCTGATACTTGACCTAG
1 ATTCTGATCTGATACTTGACATGG
*
330235 ATTTTGATAC-GATACTTGACATG
1 ATTCTGAT-CTGATACTTGACATG
330258 AATTATGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.01
24 83 0.97
25 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:330434 original size:43 final size:43
Alignment explanation
Indices: 330373--330467 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
330363 GGGCCTTACT
* *
330373 TGGTGTATTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
330416 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
330459 TGGTGTGTT
1 TGGTGTGTT
330468 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.17, C:0.11, G:0.36, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
Found at i:331824 original size:25 final size:25
Alignment explanation
Indices: 331794--331842 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
331784 AAATCACTCT
331794 TTTTTTAAACCAATGAACCAAAATGA
1 TTTTTTAAACCAAT-AACCAAAATGA
* *
331820 TTTTTTTAACCGATAACCAAAAT
1 TTTTTTAAACCAATAACCAAAAT
331843 CAATTAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTTTTAAACCAATAACCAAAATGA
Found at i:331830 original size:26 final size:26
Alignment explanation
Indices: 331793--331842 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
331783 AAAATCACTC
331793 TTTTTTTAAACCAATGAACCAAAATGA
1 TTTTTTTAAACCAAT-AACCAAAATGA
*
331820 TTTTTTT-AACCGATAACCAAAAT
1 TTTTTTTAAACCAATAACCAAAAT
331843 CAATTAGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (26 bp):
TTTTTTTAAACCAATAACCAAAATGA
Found at i:332241 original size:147 final size:147
Alignment explanation
Indices: 331974--332264 Score: 433
Period size: 147 Copynumber: 2.0 Consensus size: 147
331964 ACTATATCAA
*
331974 CTACGCACTCATGATATATTTTAAGTAAAACTACTTGAATGTCCACATAACTATGAGGTTAGTAT
1 CTACGCACTCATGATATATTTTAAGTAAAACTACTTGAATGGCCACATAACTATGAGGTTAGTAT
* * * * *
332039 CGATATGACTATCATTTTCAAAATTTTATCAACATGACCATTTAACTCTTTAATTGGTTTCAAAT
66 CGATATGACCATCACTTTCAAAAATTTATCAACATGACCACTTAACTCTTTAATTGGTTTCAAAC
332104 AAGTCATACCATATGAG
131 AAGTCATACCATATGAG
* * * *
332121 CTACGCAC-CTATGATATCTTTTAGGGT-AAACTACTTGAATGGCCACCTAACTATGATGTTAGT
1 CTACGCACTC-ATGATATATTTTA-AGTAAAACTACTTGAATGGCCACATAACTATGAGGTTAGT
* * *
332184 GTCGATATGACCATCACTTTCAAAAATTTATCAATATGACCACTTAACTGTTTAATTGGTTTCAA
64 ATCGATATGACCATCACTTTCAAAAATTTATCAACATGACCACTTAACTCTTTAATTGGTTTCAA
332249 ACAAGTCATACCATAT
129 ACAAGTCATACCATAT
332265 TTTTAGTCAT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
146 1 0.01
147 126 0.98
148 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (147 bp):
CTACGCACTCATGATATATTTTAAGTAAAACTACTTGAATGGCCACATAACTATGAGGTTAGTAT
CGATATGACCATCACTTTCAAAAATTTATCAACATGACCACTTAACTCTTTAATTGGTTTCAAAC
AAGTCATACCATATGAG
Found at i:332707 original size:2 final size:2
Alignment explanation
Indices: 332700--332741 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
332690 ATTATATGTC
332700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
332742 TAAATTTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:333053 original size:2 final size:2
Alignment explanation
Indices: 333046--333114 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
333036 TAACTATAAT
333046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
333088 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
333115 TTATTAGATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:336897 original size:157 final size:151
Alignment explanation
Indices: 336614--336923 Score: 557
Period size: 157 Copynumber: 2.0 Consensus size: 151
336604 ACTTGGAGGA
336614 GCCAAGGTGTACACAAGATGGACTTGCAAAAAGGCTACTACCAAGTTCGAATAGCAAAAGAGCCA
1 GCCAAGGTGTACACAAGATGGACTTGCAAAAAGGCTACTACCAAGTTCGAATAGCAAAAGAGCCA
336679 AAGACTGCATGCATCACCCGATACGGATCGTACGAGTGGTTGGTCATGCCCTTTGGTCTAACCAA
66 AAGACTGCATGCATCACCCGATACGGATCGTACGAGTGGTTGGTCATGCCCTTTGGTCTAACCAA
336744 TGCACCGGCGACGTTTTGCAC
131 TGCACCGGCGACGTTTTGCAC
*
336765 GCCAAGGTGTACACGAGATGGACTTGCAAAAAGGCTACTACCAAGTTCGAATAGCAAAGGCGACG
1 GCCAAGGTGTACACAAGATGGACTTGCAAAAAGGCTACTACCAAGTTCGAATAGCAAA----A-G
336830 AGCCAAAGACTTGCATGCATCACCCGATACGGATCGTACGAGTGGTTGGTCATGCCCTTTGGTCT
61 AGCCAAAGAC-TGCATGCATCACCCGATACGGATCGTACGAGTGGTTGGTCATGCCCTTTGGTCT
336895 AACCAATGCACCGGCGACGTTTTGCAC
125 AACCAATGCACCGGCGACGTTTTGCAC
336922 GC
1 GC
336924 TCATGAACAA
Statistics
Matches: 152, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
151 57 0.38
155 1 0.01
156 11 0.07
157 83 0.55
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (151 bp):
GCCAAGGTGTACACAAGATGGACTTGCAAAAAGGCTACTACCAAGTTCGAATAGCAAAAGAGCCA
AAGACTGCATGCATCACCCGATACGGATCGTACGAGTGGTTGGTCATGCCCTTTGGTCTAACCAA
TGCACCGGCGACGTTTTGCAC
Found at i:343740 original size:16 final size:15
Alignment explanation
Indices: 343719--343748 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
343709 ATATGAAACC
343719 TAAACTAAACTAATCT
1 TAAACTAAAC-AATCT
343735 TAAACTAAACAATC
1 TAAACTAAACAATC
343749 ACTGACCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACTAAACAATCT
Found at i:345194 original size:55 final size:54
Alignment explanation
Indices: 345135--345497 Score: 349
Period size: 55 Copynumber: 6.6 Consensus size: 54
345125 AGGATAAGCG
* * * *
345135 AGACTTGAAAAATCTTCAAATGACGGGTCTGCTCCCTTTTCTTTCAGGGAGTATA
1 AGACTCGAACAATCTTCAAA-AACGGGTCTGCTCCCTATTCTTTCAGGGAGTATA
** *
345190 AGACTCGAACAATCTTCGGCAAACGTGTCTGCTCCCTATT-TATTCAGGGAGTATA
1 AGACTCGAACAATCTTC-AAAAACGGGTCTGCTCCCTATTCT-TTCAGGGAGTATA
* * * *
345245 AAACTCGAATAATCTTCAATAAACGGGTCTGCTTCCTATTCGTTCAGGGAGTAT-
1 AGACTCGAACAATCTTCAA-AAACGGGTCTGCTCCCTATTCTTTCAGGGAGTATA
* * * * *
345299 AGAACTCAAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAACAATCTTCA-AAAACGGGTCTGCTCCCTATTCTTTCAGGGAGTATA
* * *
345354 AGAACTCGAACAATCTTCAACAAACGGGTCTGTTCCCTATTCTATCAGAGAGTATA
1 AG-ACTCGAACAATCTTCAA-AAACGGGTCTGCTCCCTATTCTTTCAGGGAGTATA
* * * * *
345410 GGACTCGAACAATCTTTATAAAACGAGTCTGCTCTCTATTCCTTT-AGAGAGTAT-
1 AGACTCGAACAATCTTCA-AAAACGGGTCTGCTCCCTATT-CTTTCAGGGAGTATA
* *
345464 AGAACTCGAACAATCTGCAACAAACGGGTTTGCT
1 AG-ACTCGAACAATCTTCAA-AAACGGGTCTGCT
345498 TCACTACTCT
Statistics
Matches: 257, Mismatches: 39, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
54 5 0.02
55 245 0.95
56 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (54 bp):
AGACTCGAACAATCTTCAAAAACGGGTCTGCTCCCTATTCTTTCAGGGAGTATA
Found at i:345315 original size:110 final size:109
Alignment explanation
Indices: 345157--345509 Score: 431
Period size: 110 Copynumber: 3.2 Consensus size: 109
345147 TCTTCAAATG
* * *** *
345157 ACGGGTCTGCTCCCTTTTCTTTCAGGGAGTATA-AGACTCGAACAATCTTCGGCAAACGTGTCTG
1 ACGGGTCTGCTTCCTATTC-TTCAGGGAGTATAGA-ACTCGAACAATCTTCATAAAACGAGTCTG
* ** * * * *
345221 CTCCCTATTTATTCAGGGAGTATAAAACTCGAATAATCTTCAATAA
64 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * *
345267 ACGGGTCTGCTTCCTATTCGTTCAGGGAGTATAGAACTCAAACAATCTTCATAAAACGGGTCCGC
1 ACGGGTCTGCTTCCTATTC-TTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTGC
345332 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
65 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * *
345377 ACGGGTCTG-TTCCCTATTCTATCAGAGAGTATAGGACTCGAACAATCTTTATAAAACGAGTCTG
1 ACGGGTCTGCTT-CCTATTCT-TCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTG
* *
345441 CTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTGCAACAA
64 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* *
345487 ACGGGTTTGCTTCACTACTCTTC
1 ACGGGTCTGCTTC-CTATTCTTC
345510 CGTGAAGGCT
Statistics
Matches: 212, Mismatches: 26, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
109 3 0.01
110 200 0.94
111 9 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (109 bp):
ACGGGTCTGCTTCCTATTCTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTGCT
CTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
Found at i:345418 original size:165 final size:165
Alignment explanation
Indices: 345157--345492 Score: 412
Period size: 165 Copynumber: 2.0 Consensus size: 165
345147 TCTTCAAATG
* * * * ** *
345157 ACGGGTCTGCTCCCTTTTCTTTCAGGGAGTATAAGACTCGAACAATCTTCGGCAAACGTGTCTGC
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGC
* * *
345222 TCCCTATTTATTCAGGGAGTATAAAACTCGAATAATCTTCAAT-AAACGGGTCTGCT-TCCTATT
66 TCCCTATTTATTCAGAGAGTATAAAACTCGAACAATCTT-AATAAAACGAGTCTGCTCT-CTATT
* * *
345285 CGTTCAGGGAGTATAGAACTCAAACAATCTTCATA-AA
129 CCTTCAGAGAGTATAGAACTCAAACAATCTGCA-ACAA
*
345322 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGGGTCTG
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGGGTCTG
* ** *
345386 TTCCCTATTCTA-TCAGAGAGTATAGGACTCGAACAATCTTTATAAAACGAGTCTGCTCTCTATT
65 CTCCCTATT-TATTCAGAGAGTATAAAACTCGAACAATCTTAATAAAACGAGTCTGCTCTCTATT
* *
345450 CCTTTAGAGAGTATAGAACTCGAACAATCTGCAACAA
129 CCTTCAGAGAGTATAGAACTCAAACAATCTGCAACAA
345487 ACGGGT
1 ACGGGT
345493 TTGCTTCACT
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
164 5 0.03
165 138 0.95
166 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (165 bp):
ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGC
TCCCTATTTATTCAGAGAGTATAAAACTCGAACAATCTTAATAAAACGAGTCTGCTCTCTATTCC
TTCAGAGAGTATAGAACTCAAACAATCTGCAACAA
Found at i:346963 original size:9 final size:9
Alignment explanation
Indices: 346949--346982 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
346939 CTCTTTTTCC
346949 TTTTCATTT
1 TTTTCATTT
346958 TTTTCATCATT
1 TTTTCAT--TT
346969 TTTTCATTT
1 TTTTCATTT
346978 TTTTC
1 TTTTC
346983 TTCAAGCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCATTT
Found at i:346978 original size:7 final size:7
Alignment explanation
Indices: 346856--346959 Score: 85
Period size: 7 Copynumber: 14.7 Consensus size: 7
346846 TTATTTTCTT
346856 TTTTTCA
1 TTTTTCA
346863 TTTTTCA
1 TTTTTCA
346870 TTTTTCA
1 TTTTTCA
346877 TTTTTCA
1 TTTTTCA
346884 TTTTTCA
1 TTTTTCA
346891 TTTTT--
1 TTTTTCA
*
346896 TCTTTTCT
1 T-TTTTCA
346904 TTTTTC-
1 TTTTTCA
346910 TCTCTTTCA
1 T-T-TTTCA
346919 TTTTTTCA
1 -TTTTTCA
346927 -TTTTCTA
1 TTTTTC-A
346934 TTTATCTC-
1 TTT-T-TCA
346942 TTTTTC-
1 TTTTTCA
*
346948 CTTTTCA
1 TTTTTCA
346955 TTTTT
1 TTTTT
346960 TTCATCATTT
Statistics
Matches: 83, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
5 1 0.01
6 17 0.20
7 45 0.54
8 15 0.18
9 2 0.02
10 3 0.04
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:346980 original size:28 final size:29
Alignment explanation
Indices: 346847--346980 Score: 106
Period size: 28 Copynumber: 4.8 Consensus size: 29
346837 ACCCCCCTTT
346847 TATTT-TCTTTTTTTCA-TTTTTCATTTT-
1 TATTTATC-TTTTTTCATTTTTTCATTTTC
* *
346874 TCATTTTTCATTTTTCATTTTTTC-TTTTC
1 T-ATTTATCTTTTTTCATTTTTTCATTTTC
* *
346903 T-TTTTTCTCTCTTTCATTTTTTCATTTTC
1 TATTTATCT-TTTTTCATTTTTTCATTTTC
*
346932 TATTTATCTCTTTTTC--CTTTTCATTTT-
1 TATTTATCT-TTTTTCATTTTTTCATTTTC
*
346959 T-TTCATCATTTTTTCATTTTTT
1 TATTTATC-TTTTTTCATTTTTT
346981 TCTTCAAGCG
Statistics
Matches: 89, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
26 11 0.12
27 9 0.10
28 42 0.47
29 15 0.17
30 12 0.13
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (29 bp):
TATTTATCTTTTTTCATTTTTTCATTTTC
Found at i:351970 original size:15 final size:15
Alignment explanation
Indices: 351950--351989 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
351940 ACTCTCAGTT
351950 ACAGGTTCATTGATA
1 ACAGGTTCATTGATA
351965 ACAGGTTCATTGATA
1 ACAGGTTCATTGATA
*
351980 ACAGGCTCAT
1 ACAGGTTCAT
351990 CTTTTATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (15 bp):
ACAGGTTCATTGATA
Found at i:355455 original size:17 final size:17
Alignment explanation
Indices: 355433--355470 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
355423 GTCGAGCTAC
*
355433 AAGAGGCAGTTAGGCGG
1 AAGAGGCAGTAAGGCGG
355450 AAGAGGCAGTAAGGCGG
1 AAGAGGCAGTAAGGCGG
355467 AAGA
1 AAGA
355471 AGATTCTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.45, T:0.08
Consensus pattern (17 bp):
AAGAGGCAGTAAGGCGG
Found at i:359169 original size:49 final size:45
Alignment explanation
Indices: 359131--359228 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 45
359121 TTTGTTATTC
*
359131 AAAAAGAAATCCTAACTGCATGATATCTAATTCGCATGCTTTTTCA
1 AAAAATAAA-CCTAACTGCATGATATCTAATTCGCATGCTTTTTCA
* * * *
359177 AAAAATAAACTTAACTGCATGATATCTAGTTCGCGTGCATTTATTCG
1 AAAAATAAACCTAACTGCATGATATCTAATTCGCATGC-TTT-TTCA
359224 AAAAA
1 AAAAA
359229 CGAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 26 0.58
46 11 0.24
47 8 0.18
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (45 bp):
AAAAATAAACCTAACTGCATGATATCTAATTCGCATGCTTTTTCA
Found at i:361393 original size:16 final size:15
Alignment explanation
Indices: 361372--361401 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
361362 ATATGAAACC
361372 TAAACTAAACTAATCT
1 TAAACTAAAC-AATCT
361388 TAAACTAAACAATC
1 TAAACTAAACAATC
361402 ACCGAGCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACTAAACAATCT
Found at i:362882 original size:55 final size:54
Alignment explanation
Indices: 362811--363111 Score: 161
Period size: 55 Copynumber: 5.5 Consensus size: 54
362801 AGGATAAGCG
* * *
362811 AGACTTGAAAAATCTTCAAATGATGGGTCTGCTCCCTTTTATTTCAGGGAGTATA
1 AGACTCGAACAATCTTCAAATAAT-GGTCTGCTCCCTTTTATTTCAGGGAGTATA
* * * * *
362866 AGACTCAAACAATCTTCGGCAAA-CAT-GTCTGCTCCATATTCATTT-AGGGAGTACA
1 AGACTCGAACAATCTT---CAAATAATGGTCTGCTCCCT-TTTATTTCAGGGAGTATA
* * * *
362921 AGACTCGAACAATCTTC-AATAAACGATTCTGCTCCCTATTAGTTCAGGGAGTAT-
1 AGACTCGAACAATCTTCAAAT-AATG-GTCTGCTCCCTTTTATTTCAGGGAGTATA
** * * * ** *
362975 AGAACTCGAACAATCTTCATAA-AACAAGTCCGCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAACAATCTTCA-AATAA-TGGTCTGCTCCCTTTTATTTCAGGGAGTATA
* * * * * **
363030 AGAACTCGAACAATCTTCAACA-AACGGGTCCGCTCCCTATTCTATCAGAAAGTATA
1 AG-ACTCGAACAATCTTCAA-ATAA-TGGTCTGCTCCCTTTTATTTCAGGGAGTATA
*
363086 TGACTCGAACAATCTTCATAA-AATGG
1 AGACTCGAACAATCTTCA-AATAATGG
363112 GTTCACTCTC
Statistics
Matches: 198, Mismatches: 32, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
51 2 0.01
52 1 0.01
53 1 0.01
54 9 0.05
55 169 0.85
56 8 0.04
57 4 0.02
58 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (54 bp):
AGACTCGAACAATCTTCAAATAATGGTCTGCTCCCTTTTATTTCAGGGAGTATA
Found at i:363016 original size:110 final size:110
Alignment explanation
Indices: 362837--363165 Score: 346
Period size: 110 Copynumber: 3.0 Consensus size: 110
362827 CAAATGATGG
* * * *** * *
362837 GTCTGCTCCCTTTTATTTCAGGGAGTATA-AGACTCAAACAATCTTCGGCAAACATGTCTGCTC-
1 GTCTGCTCCCTATTACTTCAGGGAGTATAGA-ACTCGAACAATCTTCATAAAACAAGTCCGCTCT
* * *
362900 CATATTCATTTAGGGAGTACA-AGACTCGAACAATCTTCAATAAACGA
65 C-TATTCATTTAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGA
* *
362947 TTCTGCTCCCTATTAGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACAAGTCCGCTCTC
1 GTCTGCTCCCTATTACTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACAAGTCCGCTCTC
* * *
363012 TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGG
66 TATTCATTTAGAGAGTATAGAACTCGAACAATCTTCAACAAACGA
* ** *** * *
363057 GTCCGCTCCCTATT-CTATCAGAAAGTATATG-ACTCGAACAATCTTCATAAAATGGGTTCACTC
1 GTCTGCTCCCTATTACT-TCAGGGAGTATA-GAACTCGAACAATCTTCATAAAACAAGTCCGCTC
363120 TCTATTCCA-TTAGAGAGTATAGAACTCGAACAATCTTCAACAAACG
64 TCTATT-CATTTAGAGAGTATAGAACTCGAACAATCTTCAACAAACG
363166 GGTTTGCTTC
Statistics
Matches: 186, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
109 1 0.01
110 180 0.97
111 5 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (110 bp):
GTCTGCTCCCTATTACTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACAAGTCCGCTCTC
TATTCATTTAGAGAGTATAGAACTCGAACAATCTTCAACAAACGA
Found at i:363125 original size:55 final size:55
Alignment explanation
Indices: 362923--363168 Score: 261
Period size: 55 Copynumber: 4.5 Consensus size: 55
362913 GGAGTACAAG
** * * * *
362923 ACTCGAACAATCTTCA-ATAAACGATTCTGCTCCCTATTAGT-TCAGGGAGTATAGA
1 ACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTATT-CTATCAGAGAGTATAGA
**
362978 ACTCGAACAATCTTCATAAAACAAGTCCGCTCTCTATTCCT-TCAGAGAGTATAGA
1 ACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATT-CTATCAGAGAGTATAGA
* *
363033 ACTCGAACAATCTTCA-ACAAACGGGTCCGCTCCCTATTCTATCAGAAAGTATATG-
1 ACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTATTCTATCAGAGAGTATA-GA
* * * * *
363088 ACTCGAACAATCTTCATAAAATGGGTTCACTCTCTATTCCATTAGAGAGTATAGA
1 ACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCTATCAGAGAGTATAGA
363143 ACTCGAACAATCTTCA-ACAAACGGGT
1 ACTCGAACAATCTTCATA-AAACGGGT
363169 TTGCTTCACT
Statistics
Matches: 165, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
54 5 0.03
55 157 0.95
56 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (55 bp):
ACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCTATCAGAGAGTATAGA
Found at i:364537 original size:8 final size:8
Alignment explanation
Indices: 364514--364807 Score: 126
Period size: 8 Copynumber: 38.4 Consensus size: 8
364504 TGAACCCCCC
364514 TTTCA-TT
1 TTTCATTT
364521 TTTCA-TT
1 TTTCATTT
364528 TTTCA-TT
1 TTTCATTT
364535 TTTCATTT
1 TTTCATTT
364543 TTTC-TTT
1 TTTCATTT
364550 TCTTCATTT
1 T-TTCATTT
*
364559 TCT-A-TT
1 TTTCATTT
364565 TTTC-TATT
1 TTTCAT-TT
364573 TTTC-TATT
1 TTTCAT-TT
364581 TTTC-TATT
1 TTTCAT-TT
364589 TTTC-TATT
1 TTTCAT-TT
364597 TTTC-TATT
1 TTTCAT-TT
364605 TTTC-TATT
1 TTTCAT-TT
364613 TTTC-TATT
1 TTTCAT-TT
*
364621 TTTCCTTT
1 TTTCATTT
*
364629 TTTCCTTT
1 TTTCATTT
*
364637 TTTTA-TT
1 TTTCATTT
364644 TTTC---T
1 TTTCATTT
*
364649 TTTCGTTTT
1 TTTC-ATTT
*
364658 TTTCATCAT
1 TTTCAT-TT
364667 TTT--TTT
1 TTTCATTT
**
364673 CATCATTT
1 TTTCATTT
364681 TTTCA-TT
1 TTTCATTT
364688 TTTCATTT
1 TTTCATTT
*
364696 TCT-ATTT
1 TTTCATTT
364703 TTCTCA-TT
1 TT-TCATTT
364711 TTTCTATTT
1 TTTC-ATTT
364720 TTTC--TT
1 TTTCATTT
364726 TTTCATTTT
1 TTTCA-TTT
364735 TTCATCATTT
1 TT--TCATTT
364745 TTTCATTT
1 TTTCATTT
364753 GTTTCATTT
1 -TTTCATTT
364762 TTCTC-TTT
1 TT-TCATTT
364770 TTTC---T
1 TTTCATTT
*
364775 TTCCATTT
1 TTTCATTT
364783 TTT--TTT
1 TTTCATTT
*
364789 TATCATTT
1 TTTCATTT
364797 TTTCATTT
1 TTTCATTT
364805 TTT
1 TTT
364808 TCTTCAAGCG
Statistics
Matches: 238, Mismatches: 18, Indels: 61
0.75 0.06 0.19
Matches are distributed among these distances:
5 9 0.04
6 17 0.07
7 46 0.19
8 123 0.52
9 35 0.15
10 5 0.02
11 3 0.01
ACGTcount: A:0.11, C:0.15, G:0.01, T:0.73
Consensus pattern (8 bp):
TTTCATTT
Found at i:364555 original size:16 final size:15
Alignment explanation
Indices: 364514--364807 Score: 144
Period size: 16 Copynumber: 18.7 Consensus size: 15
364504 TGAACCCCCC
*
364514 TTTCATTTTTCA-TT
1 TTTCTTTTTTCATTT
*
364528 TTTCATTTTTCATTT
1 TTTCTTTTTTCATTT
364543 TTTCTTTTCTTCA--T
1 TTTCTTTT-TTCATTT
364557 TTTCTATTTTTC-TATT
1 TTTCT-TTTTTCAT-TT
364573 TTTCTATTTTTC-TATT
1 TTTCT-TTTTTCAT-TT
364589 TTTCTATTTTTC-TATT
1 TTTCT-TTTTTCAT-TT
364605 TTTCTATTTTTCTATTT
1 TTTCT-TTTTTC-ATTT
* *
364622 TTCCTTTTTTCCTTT
1 TTTCTTTTTTCATTT
364637 TTT-TATTTTTC-TTT
1 TTTCT-TTTTTCATTT
* *
364651 TCGT-TTTTTTCATCAT
1 T-TTCTTTTTTCAT-TT
**
364667 TTT-TTTCATCATTT
1 TTTCTTTTTTCATTT
*
364681 TTTCATTTTTCATTT
1 TTTCTTTTTTCATTT
* *
364696 TCTATTTTTCTCATTT
1 TTTCTTTTT-TCATTT
*
364712 TTCTATTTTTTC--TT
1 TT-TCTTTTTTCATTT
364726 TTTCATTTTTTCATCATTT
1 TTTC--TTTTT--TCATTT
364745 TTTCATTTGTTTCATTT
1 TTTC-TTT-TTTCATTT
*
364762 TTCTCTTTTTTCTTTCCAT
1 TT-TCTTTTTTCATT---T
*
364781 TTTTTTTTTATCATTT
1 TTTCTTTTT-TCATTT
364797 TTTCATTTTTT
1 TTTC-TTTTTT
364808 TCTTCAAGCG
Statistics
Matches: 229, Mismatches: 23, Indels: 54
0.75 0.08 0.18
Matches are distributed among these distances:
13 1 0.00
14 40 0.17
15 53 0.23
16 77 0.34
17 31 0.14
18 12 0.05
19 15 0.07
ACGTcount: A:0.11, C:0.15, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTCTTTTTTCATTT
Found at i:364574 original size:24 final size:24
Alignment explanation
Indices: 364514--364735 Score: 183
Period size: 24 Copynumber: 9.5 Consensus size: 24
364504 TGAACCCCCC
364514 TTTC-ATTTTTC-ATTTTTC-ATT
1 TTTCTATTTTTCTATTTTTCTATT
364535 TTTC-ATTTTTTCT-TTTCTTC-A-T
1 TTTCTA-TTTTTCTATTT-TTCTATT
364557 TTTCTATTTTTCTATTTTTCTATT
1 TTTCTATTTTTCTATTTTTCTATT
364581 TTTCTATTTTTCTATTTTTCTATT
1 TTTCTATTTTTCTATTTTTCTATT
364605 TTTCTATTTTTCTATTTTTCCT-TT
1 TTTCTATTTTTCTATTTTT-CTATT
364629 TTTCCT-TTTTT-TATTTTTCT-TT
1 TTT-CTATTTTTCTATTTTTCTATT
*
364651 TCGTT-T-TTTTCATCATTTTTTTCATCATT
1 T--TTCTATTTT--TC-TATTTTTC-T-ATT
364680 TTT-TCATTTTTC-A-TTTTCTATT
1 TTTCT-ATTTTTCTATTTTTCTATT
*
364702 TTTCTCATTTTTCTATTTTT-TCTT
1 TTTCT-ATTTTTCTATTTTTCTATT
364726 TTTC-ATTTTT
1 TTTCTATTTTT
364736 TCATCATTTT
Statistics
Matches: 175, Mismatches: 3, Indels: 45
0.78 0.01 0.20
Matches are distributed among these distances:
21 5 0.03
22 46 0.26
23 26 0.15
24 70 0.40
25 8 0.05
26 7 0.04
27 6 0.03
29 7 0.04
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTCTATTTTTCTATTTTTCTATT
Found at i:364669 original size:12 final size:12
Alignment explanation
Indices: 364654--364683 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
364644 TTTCTTTTCG
364654 TTTTTTTCATCA
1 TTTTTTTCATCA
364666 TTTTTTTCATCA
1 TTTTTTTCATCA
364678 TTTTTT
1 TTTTTT
364684 CATTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTTCATCA
Found at i:364729 original size:6 final size:7
Alignment explanation
Indices: 364514--364735 Score: 138
Period size: 8 Copynumber: 30.4 Consensus size: 7
364504 TGAACCCCCC
364514 TTTCATT
1 TTTCATT
364521 TTTCATT
1 TTTCATT
364528 TTTCATT
1 TTTCATT
364535 TTTCATTT
1 TTTCA-TT
*
364543 TTTCTTT
1 TTTCATT
364550 TCTTCA-T
1 T-TTCATT
364557 TTTCTATT
1 TTTC-ATT
364565 TTTCTATT
1 TTTC-ATT
364573 TTTCTATT
1 TTTC-ATT
364581 TTTCTATT
1 TTTC-ATT
364589 TTTCTATT
1 TTTC-ATT
364597 TTTCTATT
1 TTTC-ATT
364605 TTTCTATT
1 TTTC-ATT
364613 TTTCTATT
1 TTTC-ATT
*
364621 TTTCCTTT
1 TTT-CATT
*
364629 TTTCCTTT
1 TTT-CATT
*
364637 TTTTATT
1 TTTCATT
364644 TTTC--T
1 TTTCATT
*
364649 TTTCGTT
1 TTTCATT
364656 TTT--TT
1 TTTCATT
**
364661 CATCATT
1 TTTCATT
364668 TTT--TT
1 TTTCATT
**
364673 CATCATTT
1 TTTCA-TT
364681 TTTCATT
1 TTTCATT
364688 TTTCA-T
1 TTTCATT
364694 TTTCTATTT
1 TTTC-A-TT
364703 TTCTCATT
1 TT-TCATT
364711 TTTCTATTT
1 TTTC-A-TT
364720 TTTC-TT
1 TTTCATT
364726 TTTCATT
1 TTTCATT
364733 TTT
1 TTT
364736 TCATCATTTT
Statistics
Matches: 182, Mismatches: 14, Indels: 38
0.78 0.06 0.16
Matches are distributed among these distances:
5 11 0.06
6 14 0.08
7 52 0.29
8 92 0.51
9 11 0.06
10 2 0.01
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCATT
Found at i:364806 original size:9 final size:9
Alignment explanation
Indices: 364663--364809 Score: 65
Period size: 9 Copynumber: 17.2 Consensus size: 9
364653 GTTTTTTTCA
364663 TCATTTTTT
1 TCATTTTTT
364672 TCATCATTTTT
1 TCAT--TTTTT
364683 TCA--TTTT
1 TCATTTTTT
*
364690 TCA-TTTTC
1 TCATTTTTT
*
364698 T-ATTTTTC
1 TCATTTTTT
*
364706 TCATTTTTC
1 TCATTTTTT
364715 T-A-TTTTT
1 TCATTTTTT
364722 TC---TTTT
1 TCATTTTTT
364728 TCA-TTTTT
1 TCATTTTTT
364736 TCATCATTTTT
1 TCAT--TTTTT
*
364747 TCATTTGTT
1 TCATTTTTT
*
364756 TCATTTTTC
1 TCATTTTTT
364765 TC--TTTTT
1 TCATTTTTT
364772 TC-TTTCCATTT
1 TCATTT---TTT
364783 T--TTTTTT
1 TCATTTTTT
364790 ATCA-TTTTT
1 -TCATTTTTT
364799 TCATTTTTT
1 TCATTTTTT
364808 TC
1 TC
364810 TTCAAGCGAA
Statistics
Matches: 113, Mismatches: 6, Indels: 38
0.72 0.04 0.24
Matches are distributed among these distances:
6 6 0.05
7 22 0.19
8 24 0.21
9 37 0.33
10 3 0.03
11 21 0.19
ACGTcount: A:0.12, C:0.16, G:0.01, T:0.72
Consensus pattern (9 bp):
TCATTTTTT
Found at i:364813 original size:12 final size:11
Alignment explanation
Indices: 364634--364813 Score: 61
Period size: 11 Copynumber: 15.8 Consensus size: 11
364624 CCTTTTTTCC
364634 TTTTTTT-ATT
1 TTTTTTTCATT
*
364644 TTTCTTTTC--G
1 TTT-TTTTCATT
*
364654 TTTTTTTCATCA
1 TTTTTTTCAT-T
*
364666 TTTTTTTCATC
1 TTTTTTTCATT
*
364677 ATTTTTTCATT
1 TTTTTTTCATT
*
364688 TTTCATTTTC-TA
1 TTT--TTTTCATT
*
364700 TTTTTCTCATT
1 TTTTTTTCATT
364711 TTTCTATTT--TT
1 TTT-T-TTTCATT
*
364722 TCTTTTTCATT
1 TTTTTTTCATT
**
364733 TTTTCATCATT
1 TTTTTTTCATT
*
364744 TTTTCATTT-GTT
1 TTTT--TTTCATT
364756 TCATTTTTCTC-TT
1 T--TTTTT-TCATT
364769 TTTTCTTTCCATT
1 TTTT-TTT-CATT
* *
364782 TTTTTTTTATC
1 TTTTTTTCATT
*
364793 ATTTTTTCATT
1 TTTTTTTCATT
364804 TTTTTCTTCA
1 TTTTT-TTCA
364814 AGCGAAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
9 8 0.06
10 11 0.09
11 55 0.44
12 30 0.24
13 18 0.14
14 3 0.02
ACGTcount: A:0.11, C:0.15, G:0.01, T:0.73
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:366884 original size:16 final size:15
Alignment explanation
Indices: 366863--366892 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
366853 ATATGAAACC
366863 TAAACTAAACTAATCT
1 TAAACTAAAC-AATCT
366879 TAAACTAAACAATC
1 TAAACTAAACAATC
366893 ACTGAGTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACTAAACAATCT
Found at i:369500 original size:27 final size:26
Alignment explanation
Indices: 369446--369498 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
369436 TATTACAGTT
369446 TAAATGGTTTTTTATAACAATATATA
1 TAAATGGTTTTTTATAACAATATATA
369472 TAAATGG-TTTTTATAACAATATATA
1 TAAATGGTTTTTTATAACAATATATA
369497 TA
1 TA
369499 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (26 bp):
TAAATGGTTTTTTATAACAATATATA
Found at i:373290 original size:24 final size:24
Alignment explanation
Indices: 373257--373308 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
373247 GTGATGGAAG
373257 TGAAAAAACACCTTCTATTAAGCT
1 TGAAAAAACACCTTCTATTAAGCT
* * *
373281 TGAAAGAACACTTTCTATTGAGCT
1 TGAAAAAACACCTTCTATTAAGCT
373305 TGAA
1 TGAA
373309 GGACACCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (24 bp):
TGAAAAAACACCTTCTATTAAGCT
Found at i:374076 original size:24 final size:24
Alignment explanation
Indices: 374049--374102 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
374039 CACTGTTGGT
374049 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
374073 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
*
374097 TTGTTT
1 TGGTTT
374103 TCCTAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.20, T:0.61
Consensus pattern (24 bp):
TGGTTTGATGAATTTATTTTGTTA
Found at i:377677 original size:3 final size:3
Alignment explanation
Indices: 377669--377696 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
377659 TTTATAATTA
377669 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
377697 ATGTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:383060 original size:20 final size:20
Alignment explanation
Indices: 383031--383069 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
383021 AGAGCTCATA
*
383031 TAGGATCATATAGATGCATT
1 TAGGAACATATAGATGCATT
*
383051 TAGGAACATATAGTTGCAT
1 TAGGAACATATAGATGCAT
383070 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
TAGGAACATATAGATGCATT
Found at i:384788 original size:26 final size:26
Alignment explanation
Indices: 384759--384809 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
384749 CATTTTTATT
384759 TTTACTTGTTTATTTT-TTTAGATATC
1 TTTACTT-TTTATTTTCTTTAGATATC
* *
384785 TTTACTTTTTGTTTTCTTTATATAT
1 TTTACTTTTTATTTTCTTTAGATAT
384810 TTCAGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTACTTTTTATTTTCTTTAGATATC
Found at i:396745 original size:40 final size:40
Alignment explanation
Indices: 396689--396850 Score: 252
Period size: 40 Copynumber: 4.0 Consensus size: 40
396679 TGCAGGTTTA
* *
396689 TAATATACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
396729 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * * *
396769 TAATACACTTCGGTATGTATGGTGGGAACGAACTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
396809 TAATATACTTCGGTGTATATGGTGGACACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
396849 TA
1 TA
396851 GCACTACGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:397522 original size:12 final size:12
Alignment explanation
Indices: 397505--397538 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
397495 TTTTCGGAAA
397505 TTACTGTAGCAG
1 TTACTGTAGCAG
*
397517 TTACTGTACCAG
1 TTACTGTAGCAG
397529 -TACTGTAGCA
1 TTACTGTAGCA
397539 TTGCATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (12 bp):
TTACTGTAGCAG
Found at i:399951 original size:6 final size:6
Alignment explanation
Indices: 399928--400087 Score: 144
Period size: 6 Copynumber: 27.7 Consensus size: 6
399918 ATTATATAAG
*
399928 AAAA-A AAAAGA AACAGA AAAAGA AAGAAGA AAAAG- AAAAG- AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA
* *
399973 AAAAG- AAAAG- AAAAGA AAAAAA AAACAGA AAAAG- AAAAGA AAAAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA
* * *
400019 AGAAAGA ACAAA-A AGAAAGA AAATGA AGAAG- AAAA-A AATAGA AAAAG-
1 A-AAAGA A-AAAGA A-AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
400066 AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAA
400088 AATGAGAGAT
Statistics
Matches: 131, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
5 45 0.34
6 65 0.50
7 21 0.16
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:399958 original size:13 final size:13
Alignment explanation
Indices: 399932--400085 Score: 115
Period size: 13 Copynumber: 11.7 Consensus size: 13
399922 TATAAGAAAA
*
399932 AAAAAGAAA-CAG
1 AAAAAGAAAGAAG
399944 AAAAAGAAAGAAG
1 AAAAAGAAAGAAG
*
399957 AAAAAGAAAAGAAA
1 AAAAAG-AAAGAAG
399971 AGAAAAGAAAAGAAAAG
1 A-AAAAG-AAAG--AAG
*
399988 AAAAA-AAAAACAG
1 AAAAAGAAAGA-AG
*
400001 AAAAAGAAAAGAAA
1 AAAAAG-AAAGAAG
*
400015 AAAAAGAAAGAAC
1 AAAAAGAAAGAAG
400028 AAAAAGAAAGAA-
1 AAAAAGAAAGAAG
* *
400040 AATGAAG-AAGAAA
1 AA-AAAGAAAGAAG
400053 AAAATAGAAA-AAG
1 AAAA-AGAAAGAAG
400066 -AAAAGAAA-AAG
1 AAAAAGAAAGAAG
400077 AAAAAGAAA
1 AAAAAGAAA
400086 AAAATGAGAG
Statistics
Matches: 119, Mismatches: 10, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.07
12 29 0.24
13 42 0.35
14 19 0.16
15 14 0.12
16 4 0.03
17 3 0.03
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.01
Consensus pattern (13 bp):
AAAAAGAAAGAAG
Found at i:400090 original size:33 final size:32
Alignment explanation
Indices: 399929--400089 Score: 162
Period size: 33 Copynumber: 5.2 Consensus size: 32
399919 TTATATAAGA
*
399929 AAAAAAAAGAAACAGAAAAAGAAAGAAGAAAAAG
1 AAAAAAAAGAAAAAG-AAAAGAAA-AAGAAAAAG
399963 AAAAGAAAAG-AAAAGAAAAG-AAAAG-AAAA-
1 AAAA-AAAAGAAAAAGAAAAGAAAAAGAAAAAG
*
399992 AAAAAACAGAAAAAGAAAAG--AAA-AAAAAG
1 AAAAAAAAGAAAAAGAAAAGAAAAAGAAAAAG
* * * *
400021 --AAAGAACAAAAAG-AAAGAAAATGAAGAAG
1 AAAAAAAAGAAAAAGAAAAGAAAAAGAAAAAG
400050 AAAAAAATAGAAAAAGAAAAGAAAAAGAAAAAG
1 AAAAAAA-AGAAAAAGAAAAGAAAAAGAAAAAG
400083 AAAAAAA
1 AAAAAAA
400090 TGAGAGATGA
Statistics
Matches: 105, Mismatches: 11, Indels: 23
0.76 0.08 0.17
Matches are distributed among these distances:
26 4 0.04
27 10 0.10
28 13 0.12
29 19 0.18
30 4 0.04
31 7 0.07
32 9 0.09
33 26 0.25
34 8 0.08
35 5 0.05
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.01
Consensus pattern (32 bp):
AAAAAAAAGAAAAAGAAAAGAAAAAGAAAAAG
Found at i:403896 original size:40 final size:40
Alignment explanation
Indices: 403840--404002 Score: 254
Period size: 40 Copynumber: 4.0 Consensus size: 40
403830 TGCAGGTTTA
*
403840 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* ** *
403880 TAATACACTTTGGTGTATATGGTGGGTGCAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
403920 TAATACACTTCGGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTC-GGTGTATATGGTGGGCACGACCTTATGTG
*
403961 TAATACACTTCGGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
404001 TA
1 TA
404003 GCACTACGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 74 0.67
41 36 0.33
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:403976 original size:81 final size:80
Alignment explanation
Indices: 403840--404002 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 80
403830 TGCAGGTTTA
*
403840 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTGGTGTATATGGTGG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
**
403905 GTGCAACCTTATGTG
66 GAACAACCTTATGTG
* *
403920 TAATACACTTCGGGTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCGGTGTATATGGTG
1 TAATACACTTC-AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTG
*
403985 GGAACGACCTTATGTG
65 GGAACAACCTTATGTG
404001 TA
1 TA
404003 GCACTACGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 11 0.14
81 65 0.86
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (80 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
GAACAACCTTATGTG
Found at i:404155 original size:44 final size:45
Alignment explanation
Indices: 404107--404295 Score: 249
Period size: 45 Copynumber: 4.2 Consensus size: 45
404097 GTAAGCATGT
*
404107 AAATAAGCTTACAAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
404151 AAATAAGCTTA-ATAGCTTATGGATTAAATGGTAAGCATATTGGTA
1 AAATAAGCTTACA-AGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
404196 AAATACGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * * *
404241 AATTAAGCTTACGAGCTTAAGGAAT-AATGATAAGTATGTTGGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
404285 AAATAAGCTTA
1 AAATAAGCTTA
404296 TGGGATAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.01
44 49 0.38
45 79 0.61
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:404251 original size:37 final size:37
Alignment explanation
Indices: 404209--404318 Score: 87
Period size: 44 Copynumber: 2.8 Consensus size: 37
404199 TACGCTTACG
*
404209 AGCTTATGGATTAAATGGTAAGTATATTGGTAAATTA
1 AGCTTATGGATTAAATGGTAAGTATATTGGTAAAATA
* * * *
404246 AGCTTACGAGCTTAAGGAATAATGATAAGTATGTTGGTAAAATA
1 AGCTTATG-GATT-----A-AATGGTAAGTATATTGGTAAAATA
*
404290 AGCTTATGGGA-TAAATGGTAAATATATTG
1 AGCTTAT-GGATTAAATGGTAAGTATATTG
404319 ATAAGAAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
37 20 0.36
38 4 0.07
43 2 0.04
44 28 0.51
45 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (37 bp):
AGCTTATGGATTAAATGGTAAGTATATTGGTAAAATA
Found at i:406713 original size:64 final size:64
Alignment explanation
Indices: 406645--406855 Score: 214
Period size: 64 Copynumber: 3.2 Consensus size: 64
406635 TGCACTAAGA
* *
406645 GTGCATCGATGCATCAAGTGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGATTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATACCCAGAGTGCATCGATGCATGATTG
* * ** *
406709 GTGCATCGATGCATCAAATGTATTCGAAGTTTTCATTAAA-ACCCTCAGTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTT-A--AAATACCCAGAGTGCATCGATGCATGAT
406773 AT-
63 -TG
* * ** *
406775 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATA-CCCA-GAGTGCATCGATGCAT-GAT
406838 TG
63 TG
*
406840 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
406856 CTATGAAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 48 0.40
65 19 0.16
66 46 0.39
67 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATACCCAGAGTGCATCGATGCATGATTG
Found at i:407184 original size:12 final size:13
Alignment explanation
Indices: 407153--407185 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
407143 TAAGATTTTC
407153 TTTGACAATCAAGT
1 TTTGA-AATCAAGT
407167 TTTGAAATCAAG-
1 TTTGAAATCAAGT
407179 TTTGAAA
1 TTTGAAA
407186 AATTACTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 7 0.37
14 5 0.26
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (13 bp):
TTTGAAATCAAGT
Found at i:407506 original size:2 final size:2
Alignment explanation
Indices: 407499--407591 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
407489 ACCAAACCAA
407499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
407541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
407583 AT AT AT AT A
1 AT AT AT AT A
407592 GTTCAAATAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:409775 original size:830 final size:829
Alignment explanation
Indices: 408177--410601 Score: 4499
Period size: 830 Copynumber: 2.9 Consensus size: 829
408167 TTGACCGAGT
408177 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
1 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
* *
408242 GTTTATGATGTCCACTAGTTGACTAAATATGATGTGTGGTAGATTTATTTTGATCTTATTCTTGA
66 GTTTATGATGTCCACTAGTTGACTAAATATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
*
408307 TACAGTACATCCACCATAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
131 TACAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
* *
408372 CACCAAGAGATCATCAAATAAAGAAAACGATCATGATGAGATCGTAGAGTACTAACACTAGAGTT
196 CACCAAGAGATCATCAAATGAAGAAAACGATCGTGATGAGATCGTAGAGTACTAACACTAGAGTT
**
408437 TGGAACATAGGGATATTCTGCATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
261 TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
408502 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATA
326 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATA
*
408567 TCCTACATTGAGTTTTATTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTGA
391 TCCTACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTGA
408632 TAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATTC
456 TAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATTC
408697 GAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGAA
521 GAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGAA
408762 AAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCCT
586 AAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCCT
* *
408827 AATAGGCTATTAGGTGGAGGAGGAACGGGATTTTGAGGTCGGGATGAACGACTACGAAGTCCTAG
651 AATAGGCTATTAGGTGGAGGAGGAAC-AGATTTAGAGGTCGGGATGAACGACTACGAAGTCCTAG
*
408892 GGTGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTAACCTACAATATGAAACAC
715 GGAGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTAACCTACAATATGAAACAC
*
408957 ATGTATGCACAATAATTAATCCCAAAACTCAATTGAGTCCTCAATAATTC
780 ATGTATGCACAATAATCAATCCCAAAACTCAATTGAGTCCTCAATAATTC
*
409007 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGCCATGTTTTGAAGGAACAAT
1 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
* *
409072 GTTTATGATGTCAACTAGTTGACTAATTATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
66 GTTTATGATGTCCACTAGTTGACTAAATATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
*
409137 TACAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGCCTAAAC
131 TACAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
*
409202 CACCAAGAGATCATCAAATGAAGAAAACGATTGTGATGAGATCGTAGAGTACTAACACTAGAGTT
196 CACCAAGAGATCATCAAATGAAGAAAACGATCGTGATGAGATCGTAGAGTACTAACACTAGAGTT
409267 TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
261 TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
409332 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATA
326 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATA
409397 TCCTACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTGA
391 TCCTACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTGA
409462 TAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATTC
456 TAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATTC
409527 GAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGAA
521 GAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGAA
*
409592 AAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACAACTCTCAGGCATATTAAAACAAGATCCT
586 AAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCCT
* *
409657 AATAGGCTATTAGGTGGAGGAGGAACATGATTTAGAGGTCAGGATGGACGACTACGAAGTCCTAG
651 AATAGGCTATTAGGTGGAGGAGGAACA-GATTTAGAGGTCGGGATGAACGACTACGAAGTCCTAG
*
409722 GGCGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTAACCTACAATATGAAACAC
715 GGAGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTAACCTACAATATGAAACAC
* *
409787 ATGTATGCACAATAATCAGTCCTAAAACTCAATTGAGTCCTCAATAATTC
780 ATGTATGCACAATAATCAATCCCAAAACTCAATTGAGTCCTCAATAATTC
409837 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
1 TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
409902 GTTTATGATGTCCACTAGTTGACTAAATATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
66 GTTTATGATGTCCACTAGTTGACTAAATATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
*
409967 TTCAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
131 TACAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
*
410032 CACCAAGAGATCATCAAATGAAGAAAACGATCGTGATAAGATCGTAGAGTACTAACACTAGAGTT
196 CACCAAGAGATCATCAAATGAAGAAAACGATCGTGATGAGATCGTAGAGTACTAACACTAGAGTT
410097 TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
261 TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
410162 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATG
326 GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTAT-
* * *
410227 GTCCCACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGCG
390 ATCCTACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTG
* *
410292 ATCAATGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATT
455 ATAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATT
410357 CGAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGA
520 CGAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGA
410422 AAAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCC
585 AAAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCC
* *
410487 TAATAGGCTATTAGGTGGAGGAGGAACGAGATTTGGAGGTCGGGATGAACGACTCGAAGAAGTCC
650 TAATAGGCTATTAGGTGGAGGAGGAAC-AGATTTAGAGGTCGGGATGAACGACT--ACGAAGTCC
*
410552 TAGGGAGTTTGGGATTTGACATGTTTTAAAGATTCGAAATAAGGAATGTA
712 TAGGGAGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTA
410602 TGTATGCACA
Statistics
Matches: 1549, Mismatches: 41, Indels: 7
0.97 0.03 0.00
Matches are distributed among these distances:
830 1189 0.77
831 303 0.20
832 1 0.00
833 56 0.04
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (829 bp):
TTGATAAACAGGTTACTAAGAAGACATCCATAAATCAATGTTTCGACATGTTTTGAAGGAACAAT
GTTTATGATGTCCACTAGTTGACTAAATATGATGTGGGGCAGATTTATTTTGATCTTATTCTTGA
TACAGTACATCCACCCTAAATCCCTAGCACGAAGAGTGGAGTACCTACCTCCGGATGGTCTAAAC
CACCAAGAGATCATCAAATGAAGAAAACGATCGTGATGAGATCGTAGAGTACTAACACTAGAGTT
TGGAACATAGGGATATTCCACATTTTCATTCTCATTATATAACCCATCATCATTTAACCCAAAAT
GGAAAGCTATAGTCTCGGGGTCAATATTAATATATTGGCCTAAAAGATAGGATCTAATGGCTATA
TCCTACATTGAGTTTTGTTTTGAATGCATACCGCATTGGAGTAAAAAATGCGAACTAACTGGTGA
TAAACGATAGGTTTGAGATGAAACAATTTATCAAACTTCCAAGTTTTAAGAATCGGAAGGTATTC
GAAGTCAATATCTATCATGGCTTGAAGAGAAGGAATATGCTCTTCCCGGATTCTATAGGATTGAA
AAGAATTTCTGTACCTAGAGTACAACTCGTCTCTACGACTCTCAGGCATATTAAAACAAGATCCT
AATAGGCTATTAGGTGGAGGAGGAACAGATTTAGAGGTCGGGATGAACGACTACGAAGTCCTAGG
GAGTTTGGGATTTGACATGTTTTAAAGATTCGGAATAAGGAATGTAACCTACAATATGAAACACA
TGTATGCACAATAATCAATCCCAAAACTCAATTGAGTCCTCAATAATTC
Found at i:411237 original size:23 final size:21
Alignment explanation
Indices: 411207--411264 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
411197 GCATGGCCTT
411207 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTC-AGG
* * *
411229 CGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCAGG
*
411251 GTGTATCGATGCAC
1 GTGCATCGATGCAC
411265 TGTTAGGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 2 0.07
23 16 0.53
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAGG
Done.