Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 47 of 402
Found at i:9138869 original size:12 final size:11
Alignment explanation
Indices: 9138852--9138896 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
9138842 GAAATGCCAC
9138852 AAAAGGAAAAGA
1 AAAAGGAAAA-A
*
9138864 AAAAGGAATAA
1 AAAAGGAAAAA
*
9138875 AAACGGAAAAA
1 AAAAGGAAAAA
*
9138886 AAAGGGAAAAA
1 AAAAGGAAAAA
9138897 TGAAAGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (11 bp):
AAAAGGAAAAA
Found at i:9140179 original size:20 final size:19
Alignment explanation
Indices: 9140131--9140181 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
9140121 AATGACAAAG
*
9140131 AAAAAGATAAAGAGAAAAA
1 AAAAAGAAAAAGAGAAAAA
*
9140150 AAAAAGGAAAAAGTGAAAAA
1 AAAAA-GAAAAAGAGAAAAA
*
9140170 AAGGAAGAAAAA
1 AA-AAAGAAAAA
9140182 AAAGAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 20 0.74
21 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAGAAAAA
Found at i:9141173 original size:22 final size:22
Alignment explanation
Indices: 9141145--9141262 Score: 94
Period size: 22 Copynumber: 5.4 Consensus size: 22
9141135 CCCTAAGTTT
9141145 TAAGCCCAAATTAGTTGGCATA
1 TAAGCCCAAATTAGTTGGCATA
* * *
9141167 TAAGCCCAACTTAGCTT-GTATG
1 TAAGCCCAAATTAG-TTGGCATA
* * * **
9141189 TAAACCCAAATTAGCTAGCACG
1 TAAGCCCAAATTAGTTGGCATA
* * * *
9141211 TAAGCCTAGATTATTTGGCACA
1 TAAGCCCAAATTAGTTGGCATA
* *
9141233 TAAGTCCAGATTAGTTGGCATA
1 TAAGCCCAAATTAGTTGGCATA
9141255 TAAGCCCA
1 TAAGCCCA
9141263 GTGTAGCTGG
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
21 1 0.01
22 71 0.96
23 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGCCCAAATTAGTTGGCATA
Found at i:9141263 original size:22 final size:22
Alignment explanation
Indices: 9141145--9141290 Score: 91
Period size: 22 Copynumber: 6.6 Consensus size: 22
9141135 CCCTAAGTTT
*
9141145 TAAGCCCAAATTAGTTGGCATA
1 TAAGCCCAGATTAGTTGGCATA
* *
9141167 TAAGCCCA-ACTTAGCTT-GTATG
1 TAAGCCCAGA-TTAG-TTGGCATA
* * * * **
9141189 TAAACCCAAATTAGCTAGCACG
1 TAAGCCCAGATTAGTTGGCATA
* * *
9141211 TAAGCCTAGATTATTTGGCACA
1 TAAGCCCAGATTAGTTGGCATA
*
9141233 TAAGTCCAGATTAGTTGGCATA
1 TAAGCCCAGATTAGTTGGCATA
* *
9141255 TAAGCCCAG-TGTAGCTGGCATG
1 TAAGCCCAGAT-TAGTTGGCATA
* *
9141277 CAAGTCCAGATTAG
1 TAAGCCCAGATTAG
9141291 CAAAAAAAGT
Statistics
Matches: 96, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.03
22 89 0.93
23 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (22 bp):
TAAGCCCAGATTAGTTGGCATA
Found at i:9142617 original size:126 final size:126
Alignment explanation
Indices: 9142483--9142721 Score: 293
Period size: 126 Copynumber: 1.9 Consensus size: 126
9142473 TTTTTGGCAA
* * *
9142483 AAAAATGCTCTTAATAATCAATAGAAAAAATATGGAATGGATTCTTGAAAGT-ATTTTTGGCCGA
1 AAAAATGCTCTTAATAATCAATACAAAAAAT-TGAAATAGATTCTTGAAAGTGATTTTTGGCCGA
**
9142547 AAGTGCATTCAATAATCCA-ATCAATAAATTTTTAGATAGGATTATTGAAGGCAGTTTTTGTC
65 AAACGCATTCAATAATCCACA-CAATAAATTTTTAGATAGGATTATTGAAGGCAGTTTTTGTC
* * * * * **
9142609 AAAAATGCTTTTAATAATCCATACAAAAAGTTGAAATAGATTCTTGAAGGTGTTTTTTGGCTTAA
1 AAAAATGCTCTTAATAATCAATACAAAAAATTGAAATAGATTCTTGAAAGTGATTTTTGGCCGAA
* * * **
9142674 AACGCCTTTAATATTTGACACAATAAATTTTTAGATAGGATTATTGAA
66 AACGCATTCAATAATCCACACAATAAATTTTTAGATAGGATTATTGAA
9142722 AAATGCCTTC
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
125 17 0.18
126 76 0.81
127 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (126 bp):
AAAAATGCTCTTAATAATCAATACAAAAAATTGAAATAGATTCTTGAAAGTGATTTTTGGCCGAA
AACGCATTCAATAATCCACACAATAAATTTTTAGATAGGATTATTGAAGGCAGTTTTTGTC
Found at i:9142947 original size:126 final size:126
Alignment explanation
Indices: 9142780--9143041 Score: 293
Period size: 126 Copynumber: 2.1 Consensus size: 126
9142770 GCTAAAAGTG
* * * *
9142780 GCCTT-AATAATCTATACAAAAAATATGAAACTAATTCTTGAAGGTATTTTTGG-CCAAAAGTAC
1 GCCTTCAATAATCCATACAAAAAATATGAAACAAATTCTTGAAGGCATTTTTGGCCCAAAA-CAC
* * * * * *
9142843 CTTCAATA-ATC-CAATCAATAAGTTTTTAGTTGGGATTATTGAAGGTGGTTTTTGTAAAAAAT
65 CTTCAATATATCACAA--AATAAATTTTAAGGTGGGATTATTAAAGATGGTTTTGGTAAAAAAT
*
9142905 GCCTTCAATAATCCATACAAAAAAGT-T-AGAACAAATTTTTGAAGGCATTTTTGGCCCAAAACA
1 GCCTTCAATAATCCATACAAAAAA-TATGA-AACAAATTCTTGAAGGCATTTTTGGCCCAAAACA
* * * *
9142968 CCTTTAATATTTCACAAATTAAATTTTAAGGTGGGATTATTAAATATGGTTTTGGTAAAAAAT
64 CCTTCAATATATCACAAAATAAATTTTAAGGTGGGATTATTAAAGATGGTTTTGGTAAAAAAT
*
9143031 GTCTTCAATAA
1 GCCTTCAATAA
9143042 CATTTTGTTA
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
125 6 0.05
126 97 0.84
127 9 0.08
128 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (126 bp):
GCCTTCAATAATCCATACAAAAAATATGAAACAAATTCTTGAAGGCATTTTTGGCCCAAAACACC
TTCAATATATCACAAAATAAATTTTAAGGTGGGATTATTAAAGATGGTTTTGGTAAAAAAT
Found at i:9146434 original size:28 final size:28
Alignment explanation
Indices: 9146391--9146457 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
9146381 TTTAGCAAAT
* * * *
9146391 CATTCAGCATACCAATATTATACAATAC
1 CATTCAGCAAAACAATATCACACAATAC
9146419 CATTCAGCAAAACAATATCACACAATAC
1 CATTCAGCAAAACAATATCACACAATAC
*
9146447 AATTCAGCAAA
1 CATTCAGCAAA
9146458 CCATAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.22
Consensus pattern (28 bp):
CATTCAGCAAAACAATATCACACAATAC
Found at i:9147377 original size:187 final size:189
Alignment explanation
Indices: 9147066--9147453 Score: 514
Period size: 187 Copynumber: 2.1 Consensus size: 189
9147056 GAATGGAGGG
* * * * *
9147066 AATTATTGAAGGCATATTATGCAGAAAATGCCTTCAATAAATTCCTTCAAAAAATTATAGCAAAT
1 AATTATTGAAGGCATATGATGCAAAAAATACCTTCAATAAATTCCTTCAAAAAATTAGAACAAAT
* * *
9147131 TAGTGAAGGTATTTTTCTGAAAAAAAATGCCTTCACTATCCACCTTAAAATGTTAGTAGTGAAAT
66 TAGTGAAGGTATTTTCCTGAAAAAAAATGCCTTCAATAACCACCTTAAAATGTTAGTAGTGAAAT
* *
9147196 ATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATTCAAAACAATTTTTAAAA-AGA
131 ATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCCAAAACAATTTTTAAAAGA-A
* * *
9147255 AATTATTGAAGGCGTATGATGCAAAAAATACCTTTAATAAATTCCTT-AAAAAATTAGAACGAAT
1 AATTATTGAAGGCATATGATGCAAAAAATACCTTCAATAAATTCCTTCAAAAAATTAGAACAAAT
* * * ** *
9147319 TAGTGAAGGTGTTTTCCT-AGAATAAATGCCTTCAATAACCATTTTAAAAT-TCTAGTAGTGGAA
66 TAGTGAAGGTATTTTCCTGAAAAAAAATGCCTTCAATAACCACCTTAAAATGT-TAGTAGTGAAA
* ** * *
9147382 TATTGAAAGCATTTTTCACTAGAATATGCCTTTAATAATCCCAAATAATTTTTAAAAGAA
130 TATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCCAAAACAATTTTTAAAAGAA
9147442 AATTATTGAAGG
1 AATTATTGAAGG
9147454 TGCTTGTTCT
Statistics
Matches: 173, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
186 1 0.01
187 99 0.57
188 31 0.18
189 42 0.24
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (189 bp):
AATTATTGAAGGCATATGATGCAAAAAATACCTTCAATAAATTCCTTCAAAAAATTAGAACAAAT
TAGTGAAGGTATTTTCCTGAAAAAAAATGCCTTCAATAACCACCTTAAAATGTTAGTAGTGAAAT
ATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCCAAAACAATTTTTAAAAGAA
Found at i:9147386 original size:124 final size:124
Alignment explanation
Indices: 9147258--9147757 Score: 322
Period size: 124 Copynumber: 4.1 Consensus size: 124
9147248 AAAAAGAAAT
* * *
9147258 TATTGAAGGCGTATGATGCAAAAAATACCTTTAATAAATTCCTTAAAAAATTAGAACGAATTAGT
1 TATTGAAGGCGTATAATGCAAAAAACACCTTCAATAAATTCCTTAAAAAATTAGAACGAATTAGT
* *
9147323 GAAGGTGTTTTCCTAGAATAAATGCCTTCAATAACCATTTTAAAATTCTAGTAGTGGAA
66 GAAGGTGTTTTTCTAGAATAAATGCCTTCAATAACCATTTTAAAATTTTAGTAGTGGAA
* ** * * ** * * * *
9147382 TATTGAAAGC--ATTTTTCACTAGAATATGCCTTTAAT-AA-TCC-CAAATAATTTTTA-AAAGA
1 TATTGAAGGCGTATAATGCA--A-AAAACACCTTCAATAAATTCCTTAAA-AA--ATTAGAACG-
* * * *
9147441 AAATTATTGAAGGTGCTTGTTCTCA-AA-AAATGCGTTCAAT-A--ATTCT---A---T-GTA--
59 -AATTAGTGAAGGTG-TTTTTCT-AGAATAAATGCCTTCAATAACCATTTTAAAATTTTAGTAGT
**
9147492 AAAA
121 GGAA
* ** *
9147496 TTATTAAAGGCGTATAATAAAAAAAAACACCTTCAATAAATT-CTTACAAAAATTAAAACGAATT
1 -TATTGAAGGCGTATAAT-GCAAAAAACACCTTCAATAAATTCCTTA-AAAAATTAGAACGAATT
* * * * *
9147560 ATTAAATGTGTTTTTCTAGAATAAATGTCTTCAATAACTATTTTAAAATTTTAGTAGTGGAA
63 AGTGAAGGTGTTTTTCTAGAATAAATGCCTTCAATAACCATTTTAAAATTTTAGTAGTGGAA
* * * ** * * *
9147622 TATTGCAGGCGTATAATGTAAAAGACGTCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGT
1 TATTGAAGGCGTATAATGCAAAAAACACCTTCAATAAATTCCTTAAAAAATTAGAACGAATTAGT
* * * * * *
9147687 GAAAGTGTTTTTTTGGAATAAATACCTTCAATAACCATCTTCAAATTTTAGTAGTGGAA
66 GAAGGTGTTTTTCTAGAATAAATGCCTTCAATAACCATTTTAAAATTTTAGTAGTGGAA
*
9147746 TATTTAAGGCGT
1 TATTGAAGGCGT
9147758 TTTCTACTAA
Statistics
Matches: 282, Mismatches: 60, Indels: 68
0.69 0.15 0.17
Matches are distributed among these distances:
112 1 0.00
113 8 0.03
114 25 0.09
115 22 0.08
116 10 0.04
117 12 0.04
118 3 0.01
120 2 0.01
122 8 0.03
123 10 0.04
124 113 0.40
125 33 0.12
126 27 0.10
127 7 0.02
128 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (124 bp):
TATTGAAGGCGTATAATGCAAAAAACACCTTCAATAAATTCCTTAAAAAATTAGAACGAATTAGT
GAAGGTGTTTTTCTAGAATAAATGCCTTCAATAACCATTTTAAAATTTTAGTAGTGGAA
Found at i:9148209 original size:239 final size:239
Alignment explanation
Indices: 9147630--9148538 Score: 993
Period size: 237 Copynumber: 3.8 Consensus size: 239
9147620 AATATTGCAG
* * * * * * **
9147630 GCGTATAATGTAAAAGACGTCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAAGTGT
1 GCGTATAATGCAAAAAACGCCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
* ** * * * * *
9147695 TTTTTTGGAATAAATACCTTCAATAACCATCTTCAAATTTTAGTAGTGGAATATT-TAAGGCGTT
66 TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAGTAATGGAATATTGAAAGGCATT
* * * ** ** * * * *
9147759 TTCTACTAAAAGATGCCTTCAATAAAAATTTAACAATTTTGAAAAAAAAATTGTTAAAGGCATTT
131 TTCTACTAGAAGACGCCTTTAAT-AATCTCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTT
* *
9147824 TTTCTCAAGAAA-TGCATTCAATAATTATCTACAAAAATTATTGAAA
195 TTTCTAAAAAAACT-C-TTCAATAATTATCTACAAAAATTATTGAAA
* * * * *
9147870 GTGTATAATGCAAAAAATGCATCCAATAAATTCTTTC--AAATTAGAACGAATTAGTGAAGGCAT
1 GCGTATAATGCAAAAAACGCCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
** * * * * *
9147933 TTTTGTACAATAAATGCCTTCATTAACTGTCTTAAAATTTTAGTAATAGAATATTGAAAGTG-TT
66 TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAGTAATGGAATATTGAAAG-GCAT
* *
9147997 TTTC-ACTAGAAGACGCCTTTAATAATC-CTAAATAATTTTTAAAAGGAAATTATTGAAGGCATT
130 TTTCTACTAGAAGACGCCTTTAATAATCTC-AAACAATTTTTAAAAAGAAATTATTGAAGGCATT
* * *** * *
9148060 TGTTCTAAAAAAACTCTTTTAATAATTCGGTAAAAAAATTATTGAAG
194 TTTTCTAAAAAAACTC-TTCAATAATTATCTACAAAAATTATTGAAA
** * * **
9148107 GCGTATAATTAAAAAAACACCTTCAATAAATTCCTTGAAAAATTAGAACGAATTAGTGAAGGTTT
1 GCGTATAATGCAAAAAACGCCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
*
9148172 TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAATAATGGAATATTG-AAGGCATT
66 TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAGTAATGGAATATTGAAAGGCATT
* * *
9148236 TTCTACTAGAAG-CTACCTTTAATAATCTCAAACAATTTTTAAAAGGAAATTATTGAAGGTATTT
131 TTCTACTAGAAGAC-GCCTTTAATAATCTCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTT
* *
9148300 TTTC-AAGAAACAC-CTTCAATAATTATCTACAAAACTTATTGAAA
195 TTTCTAA-AAAAACTCTTCAATAATTATCTACAAAAATTATTGAAA
* * *
9148344 GAGTATAATGCATAAAACGCCTTTAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
1 GCGTATAATGCAAAAAACGCCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
* * * **
9148409 TTTTCTCGAATAAACTCCTTCAATAAC-CCCTTAAAA-TTTAGTAATGGAATATT-AAAGGCATT
66 TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAGTAATGGAATATTGAAAGGCATT
* *
9148471 TTCTAC-AGAAGATGCCTTTAATAATCTCAAATAATTTTTAAAAAGAAATTATTGAAGGCATTTT
131 TTCTACTAGAAGACGCCTTTAATAATCTCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTTT
9148535 TTCT
196 TTCT
9148539 CAGGAAATGC
Statistics
Matches: 558, Mismatches: 97, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
234 55 0.10
235 30 0.05
236 7 0.01
237 196 0.35
238 96 0.17
239 142 0.25
240 32 0.06
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (239 bp):
GCGTATAATGCAAAAAACGCCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCAT
TTTTGTGGAATAAACGCCTTCAATAACTATCTTAAAATTTTAGTAATGGAATATTGAAAGGCATT
TTCTACTAGAAGACGCCTTTAATAATCTCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTTT
TTCTAAAAAAACTCTTCAATAATTATCTACAAAAATTATTGAAA
Found at i:9156108 original size:19 final size:19
Alignment explanation
Indices: 9156072--9156108 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9156062 AGCCAAAGAA
*
9156072 AAAAAAAAAGAAACAAAAC
1 AAAAAAAAAGAAAAAAAAC
*
9156091 AAAAAAAAGGAAAAAAAA
1 AAAAAAAAAGAAAAAAAA
9156109 TGGTGAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.05, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAC
Found at i:9157298 original size:19 final size:20
Alignment explanation
Indices: 9157256--9157299 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
9157246 AATAAAACTT
*
9157256 AAAACCCTAGTTGAAACCTG
1 AAAACCCTAGATGAAACCTG
9157276 -AAACCCTAGATGAAACC-G
1 AAAACCCTAGATGAAACCTG
9157294 AAAACC
1 AAAACC
9157300 TTAAATCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAACCCTAGATGAAACCTG
Found at i:9166145 original size:144 final size:143
Alignment explanation
Indices: 9165894--9166158 Score: 316
Period size: 144 Copynumber: 1.8 Consensus size: 143
9165884 GTAAAATTAT
** * * *
9165894 CAAAATGCCCTTTAAGGGTATTTTCATAATTTGGCCTTTTGATATTAGTTTTTCATGAAAAACTA
1 CAAAATGCCCTTTAAGGGTATTTTCATAATTTAACCTCTTGAGATTAATTTTTCATGAAAAACTA
* * * *
9165959 TAGGTCATGTTTTAATATTAATCCATGAATTTCAATTCATTGAAAGCCTTGATTGCACTTCCGAA
66 CAGATCATGTTTTAATATTAATCCATGAATTTCAATTCATTGAAAACATTGATTGCACTTCCGAA
9166024 AAGTTTGAATTGC
131 AAGTTTGAATTGC
* * ** * *
9166037 CAAAATGCCTTTTATGGGTATTTTCATAATTTAACCATCTTGAGATTAATTTTTTGTGACAAGCT
1 CAAAATGCCCTTTAAGGGTATTTTCATAATTTAACC-TCTTGAGATTAATTTTTCATGAAAAACT
* * * * **
9166102 CCAGATCATGTTTTAGTATTATTTCATGAATTTTGATGT-ATTGAAAACATTGATTGC
65 ACAGATCATGTTTTAATATTAATCCATGAATTTCAAT-TCATTGAAAACATTGATTGC
9166159 CCCTTAAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
143 32 0.32
144 66 0.67
145 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (143 bp):
CAAAATGCCCTTTAAGGGTATTTTCATAATTTAACCTCTTGAGATTAATTTTTCATGAAAAACTA
CAGATCATGTTTTAATATTAATCCATGAATTTCAATTCATTGAAAACATTGATTGCACTTCCGAA
AAGTTTGAATTGC
Found at i:9169508 original size:5 final size:5
Alignment explanation
Indices: 9169500--9169536 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
9169490 CCAAAAAAAA
*
9169500 AAATG AAATG AAATG AAATG AAATG AAAAG AAA-G AAA
1 AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAA
9169537 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (5 bp):
AAATG
Found at i:9169518 original size:15 final size:15
Alignment explanation
Indices: 9169495--9169536 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
9169485 AAAAACCAAA
*
9169495 AAAAAAAATGAAATG
1 AAAAGAAATGAAATG
*
9169510 AAATGAAATGAAATG
1 AAAAGAAATGAAATG
9169525 AAAAGAAA-GAAA
1 AAAAGAAATGAAA
9169537 AAGAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (15 bp):
AAAAGAAATGAAATG
Found at i:9170042 original size:23 final size:24
Alignment explanation
Indices: 9170016--9170076 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
9170006 GAATTCACTC
* *
9170016 AAAGAAAAGAAAAAGAATAAGT-G
1 AAAGAAAAGAAAAAAAAGAAGTAG
9170039 AAAGAATAA-AAAAAAAAGAAGTAGG
1 AAAGAA-AAGAAAAAAAAGAAGTA-G
9170064 AAAGAAAATGAAA
1 AAAGAAAA-GAAA
9170077 GAAATGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 17 0.55
24 4 0.13
25 7 0.23
26 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (24 bp):
AAAGAAAAGAAAAAAAAGAAGTAG
Found at i:9170119 original size:26 final size:26
Alignment explanation
Indices: 9170096--9170148 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
9170086 AATGAAAATG
*
9170096 AAAATAAGAAAAAAA-GGAAAAAAAA
1 AAAAGAAGAAAAAAAGGGAAAAAAAA
9170121 AAAAGAAGAAAAAAAGGGAAAAAAAA
1 AAAAGAAGAAAAAAAGGGAAAAAAAA
9170147 AA
1 AA
9170149 GAAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAAGAAGAAAAAAAGGGAAAAAAAA
Found at i:9170149 original size:13 final size:13
Alignment explanation
Indices: 9170104--9170149 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
9170094 TGAAAATAAG
9170104 AAAAAAA-GGAAA
1 AAAAAAAGGGAAA
** *
9170116 AAAAAAAAAGAAG
1 AAAAAAAGGGAAA
9170129 AAAAAAAGGGAAA
1 AAAAAAAGGGAAA
9170142 AAAAAAAG
1 AAAAAAAG
9170150 AAATAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAAGGGAAA
Found at i:9170157 original size:13 final size:12
Alignment explanation
Indices: 9170104--9170157 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
9170094 TGAAAATAAG
*
9170104 AAAAAAAGGAAAA
1 AAAAAAAAG-AAA
*
9170117 AAAAAAAAGAAG
1 AAAAAAAAGAAA
* *
9170129 AAAAAAAGGGAA
1 AAAAAAAAGAAA
9170141 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
9170153 TAAAA
1 AAAAA
9170158 TGATTGAGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
12 25 0.76
13 8 0.24
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:9172156 original size:34 final size:34
Alignment explanation
Indices: 9172089--9172163 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
9172079 TGAATTTTTA
* *
9172089 AAATTTATGAATCTTTGACTCTGAGGAATCTTTG
1 AAATTTATGAATCTTTGACTCTGACGAACCTTTG
* *
9172123 AAATTTATTAATCTTTGATTCTTG-CGAACCTTTG
1 AAATTTATGAATCTTTGACTC-TGACGAACCTTTG
*
9172157 AGATTTA
1 AAATTTA
9172164 CAAATTCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (34 bp):
AAATTTATGAATCTTTGACTCTGACGAACCTTTG
Found at i:9174518 original size:22 final size:22
Alignment explanation
Indices: 9174488--9174540 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
9174478 GAATCTGATG
* *
9174488 TGAAGCCAAAAAACTTTAATTA
1 TGAATCCAAAAAACTGTAATTA
* *
9174510 TGAATCC-AAAAACTGTAGTTG
1 TGAATCCAAAAAACTGTAATTA
9174531 TGAATCCAAA
1 TGAATCCAAA
9174541 GTCATGCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (22 bp):
TGAATCCAAAAAACTGTAATTA
Found at i:9174690 original size:104 final size:104
Alignment explanation
Indices: 9174510--9174728 Score: 276
Period size: 104 Copynumber: 2.1 Consensus size: 104
9174500 ACTTTAATTA
* ** * * *
9174510 TGAATCCAAAAACTGTAGTTGTGAATCCAAAGTCATGCTATTGTGAATCTTTTACTCTAATTATG
1 TGAATCCAAAAACTATAGTTGCAAATCCAAAGTCATGCAACTGTGAATCATTTACTCTAATTATG
* * *
9174575 AATCCAAAGTCCTTTAGTTATGAATTTTTTAATTTGATG
66 AATCCAAAGTCCTTTAATTATGAATTATTAAATTTGATG
* * * * * *
9174614 TGAATCCAGAAACTATAGTTGCAAATCCAGAGTCCTGCAACTGTGAATCATTTACTTTAGTTGTG
1 TGAATCCAAAAACTATAGTTGCAAATCCAAAGTCATGCAACTGTGAATCATTTACTCTAATTATG
* * *
9174679 AATCTAGAGTCCTTTAATTGTGAATTATTAAATTTGATG
66 AATCCAAAGTCCTTTAATTATGAATTATTAAATTTGATG
9174718 TGAATCCAAAA
1 TGAATCCAAAA
9174729 TTCTACAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (104 bp):
TGAATCCAAAAACTATAGTTGCAAATCCAAAGTCATGCAACTGTGAATCATTTACTCTAATTATG
AATCCAAAGTCCTTTAATTATGAATTATTAAATTTGATG
Found at i:9175073 original size:44 final size:45
Alignment explanation
Indices: 9175012--9175131 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 45
9175002 CGAGATGAGC
*
9175012 TTTTCATTTTCTTTTCAAAAGTTGTGGAGCCT-TGAATGAGAGCAG
1 TTTTAATTTTCTTTTCAAAAGTTGTGGAGCCTCT-AATGAGAGCAG
* * *
9175057 -TTTAGA-TTTCTTTTCAAAAGTTGTAGAGTCTCTAATGAGAGGAG
1 TTTTA-ATTTTCTTTTCAAAAGTTGTGGAGCCTCTAATGAGAGCAG
*
9175101 TTTTTAATTTTAATTTTCAAAAGTTGTGGAG
1 -TTTTAATTTT-CTTTTCAAAAGTTGTGGAG
9175132 TCTTTAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
44 36 0.57
45 3 0.05
46 7 0.11
47 17 0.27
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (45 bp):
TTTTAATTTTCTTTTCAAAAGTTGTGGAGCCTCTAATGAGAGCAG
Found at i:9175126 original size:47 final size:47
Alignment explanation
Indices: 9175067--9175171 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
9175057 TTTAGATTTC
* * * *
9175067 TTTTCAAAAGTTGTAGAGTCTCTAATGAGAGGAGTTTTTAATTTTAA
1 TTTTCAAAAGTTGTAGAGTCTCTAAAGAAAGGAGCTTTTAAGTTTAA
* * * *
9175114 TTTTCAAAAGTTGTGGAGTCTTTAAAGAAAGGAGCTTTTAGGTTTAT
1 TTTTCAAAAGTTGTAGAGTCTCTAAAGAAAGGAGCTTTTAAGTTTAA
*
9175161 TTTTAAAAAGT
1 TTTTCAAAAGT
9175172 CTTGCTGCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (47 bp):
TTTTCAAAAGTTGTAGAGTCTCTAAAGAAAGGAGCTTTTAAGTTTAA
Found at i:9175239 original size:17 final size:17
Alignment explanation
Indices: 9175205--9175251 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
9175195 TTTTTTTTTT
9175205 CAAAAATAAAAGTAAAACA
1 CAAAAA-AAAA-TAAAACA
9175224 CCAAAAAAAAAT-AAACA
1 -CAAAAAAAAATAAAACA
*
9175241 AAAAAAAAAAT
1 CAAAAAAAAAT
9175252 CCTTGAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 10 0.38
17 5 0.19
18 1 0.04
19 4 0.15
20 6 0.23
ACGTcount: A:0.79, C:0.11, G:0.02, T:0.09
Consensus pattern (17 bp):
CAAAAAAAAATAAAACA
Found at i:9177190 original size:22 final size:23
Alignment explanation
Indices: 9177165--9177209 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
9177155 TTTTAAAGAA
9177165 AATATTTTT-AGAAATAAA-AATT
1 AATATTTTTAAGAAA-AAATAATT
9177187 AATATTTTTAAGAAAAAATAATT
1 AATATTTTTAAGAAAAAATAATT
9177210 TTTAAAACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
AATATTTTTAAGAAAAAATAATT
Found at i:9181068 original size:445 final size:444
Alignment explanation
Indices: 9180349--9181237 Score: 1717
Period size: 445 Copynumber: 2.0 Consensus size: 444
9180339 ATGGATAATT
9180349 AAAAAAGACCAAAACTAAAACAAGTAACCTAAGAAAAAAAAACCCAAATTAAAAAGGGTGCCTGA
1 AAAAAAGACCAAAACTAAAACAAGTAACCTAAGAAAAAAAAACCCAAATTAAAAAGGGTGCCTGA
9180414 TTGACACATCCATTTAAAGATGATAATTTGTTAAGATAGATTTATCCTCACCTCAACTTTAACCC
66 TTGACACATCCATTTAAAGATGATAATTTGTTAAGATAGATTTATCCTCACCTCAACTTTAACCC
9180479 ATTCTTTTTAATAATTCAACCTAACTTCAAATTCAACCTAACATTAAGTTATTATTTATTGATAC
131 ATTCTTTTTAATAATTCAACCTAACTTCAAATTCAACCTAACATTAAGTTATTATTTATTGATAC
9180544 CTAATCTTGGTCCACCATATATATGTATAACTCGTATCTTACCTTAATTGATTAAAAATTATTTT
196 CTAATCTTGGTCCACCATATATATGTATAACTCGTATCTTACCTTAATTGATTAAAAATTATTTT
9180609 GATAATTTTAATTTAATATAATATTTATAAAAATATTCTTTGTAATTAAATTACGTCTTAATTAT
261 GATAATTTTAATTTAATATAATATTTATAAAAATATTCTTTGTAATTAAATTACGTCTTAATTAT
*
9180674 GGACAAATATAAATTTTTTATTGAAATAAAGTATTAAATAATAACTTTATTAATATAATACATAA
326 GGAC-AATATAAATTTTTTATTGAAATAAAATATTAAATAATAACTTTATTAATATAATACATAA
*
9180739 ATAAATATATAATTTAAAAAAAAATCAATATTTGGGACAAGATAGAACACCCTAAG
390 AAAAATATATAATTT-AAAAAAAATCAATATTTGGGACAAGATAGAACACCCTAAG
9180795 AAAAAAGACCAAAACTAAAACAAGTAACCTAAGAAAAAAAAACCCAAATTAAAAAGGGTGCCTGA
1 AAAAAAGACCAAAACTAAAACAAGTAACCTAAGAAAAAAAAACCCAAATTAAAAAGGGTGCCTGA
9180860 TTGACACATCCATTTAAAGATGATAATTTGTTAAGATAGATTTATCCTCACCTCAACTTTAACCC
66 TTGACACATCCATTTAAAGATGATAATTTGTTAAGATAGATTTATCCTCACCTCAACTTTAACCC
9180925 ATT-TTTTTAATAATTCAACCTAACTTCAAATTCAACCTAACATTAAGTTATTATTTATTGATAC
131 ATTCTTTTTAATAATTCAACCTAACTTCAAATTCAACCTAACATTAAGTTATTATTTATTGATAC
9180989 CTAATCTTGGTCCACCATATATATGTATAACTCGTATCTTACCTTAATTGATTAAAAATTATTTT
196 CTAATCTTGGTCCACCATATATATGTATAACTCGTATCTTACCTTAATTGATTAAAAATTATTTT
9181054 GATAATTTTAATTTAATATAATATTTATAAAAATATTCTTTGTAATTAAATTACGTCTTAATTAT
261 GATAATTTTAATTTAATATAATATTTATAAAAATATTCTTTGTAATTAAATTACGTCTTAATTAT
9181119 GGACAATATAAATTTTTTATTGAAATAAAATATTAAATAATAACTTTATTAATATAATACATAAA
326 GGACAATATAAATTTTTTATTGAAATAAAATATTAAATAATAACTTTATTAATATAATACATAAA
* *
9181184 AAAATATATAATTTTAAAAAAATCAATATTTGGGACAGGATAGAACACCCTAAG
391 AAAATATATAATTTAAAAAAAATCAATATTTGGGACAAGATAGAACACCCTAAG
9181238 CCCACCTCCT
Statistics
Matches: 439, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
443 38 0.09
444 73 0.17
445 195 0.44
446 133 0.30
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (444 bp):
AAAAAAGACCAAAACTAAAACAAGTAACCTAAGAAAAAAAAACCCAAATTAAAAAGGGTGCCTGA
TTGACACATCCATTTAAAGATGATAATTTGTTAAGATAGATTTATCCTCACCTCAACTTTAACCC
ATTCTTTTTAATAATTCAACCTAACTTCAAATTCAACCTAACATTAAGTTATTATTTATTGATAC
CTAATCTTGGTCCACCATATATATGTATAACTCGTATCTTACCTTAATTGATTAAAAATTATTTT
GATAATTTTAATTTAATATAATATTTATAAAAATATTCTTTGTAATTAAATTACGTCTTAATTAT
GGACAATATAAATTTTTTATTGAAATAAAATATTAAATAATAACTTTATTAATATAATACATAAA
AAAATATATAATTTAAAAAAAATCAATATTTGGGACAAGATAGAACACCCTAAG
Found at i:9181403 original size:11 final size:11
Alignment explanation
Indices: 9181387--9181429 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
9181377 AAATTTATCT
9181387 AATAAAAAATA
1 AATAAAAAATA
9181398 AATAAAACAAATA
1 AAT-AAA-AAATA
* *
9181411 AGTAAAAAACA
1 AATAAAAAATA
9181422 AATAAAAA
1 AATAAAAA
9181430 GTCAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:9185238 original size:65 final size:65
Alignment explanation
Indices: 9185085--9185224 Score: 239
Period size: 65 Copynumber: 2.2 Consensus size: 65
9185075 GTTTACCTGG
**
9185085 TATA-TATA-TAATAACTCAACTAAAGAGTTAATTAATTAGCCACTTTTCTATATGGTCTTTGTA
1 TATAGTATAGTAATAACTCAACTAAAGAGTTAATTAATTAGCCACTTTTCTATATGGTCTTACTA
*
9185148 TATAGTATAGTAATAACTCAACTAAAGAGTTAATTAATTAGCCATTTTTCTATATGGTCTTACTA
1 TATAGTATAGTAATAACTCAACTAAAGAGTTAATTAATTAGCCACTTTTCTATATGGTCTTACTA
9185213 TATAGTATAGTA
1 TATAGTATAGTA
9185225 CTACATATAC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
63 4 0.06
64 4 0.06
65 64 0.89
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (65 bp):
TATAGTATAGTAATAACTCAACTAAAGAGTTAATTAATTAGCCACTTTTCTATATGGTCTTACTA
Found at i:9187587 original size:3 final size:3
Alignment explanation
Indices: 9187573--9187628 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
9187563 TTACATACTT
* * *
9187573 TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
9187621 TTT TTA TT
1 TTA TTA TT
9187629 TTTCTATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9198686 original size:9 final size:8
Alignment explanation
Indices: 9198665--9198705 Score: 57
Period size: 9 Copynumber: 5.0 Consensus size: 8
9198655 AGTTTAAACC
9198665 TAAAAAAA
1 TAAAAAAA
9198673 T-AAAAAA
1 TAAAAAAA
9198680 TAAAAAAA
1 TAAAAAAA
9198688 TAAGAAAAA
1 TAA-AAAAA
9198697 TAAGAAAAA
1 TAA-AAAAA
9198706 AAGGAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.23
8 10 0.32
9 14 0.45
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:9198713 original size:17 final size:17
Alignment explanation
Indices: 9198665--9198705 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
9198655 AGTTTAAACC
9198665 TAAAAAAAT-A-AAAAA
1 TAAAAAAATAAGAAAAA
9198680 TAAAAAAATAAGAAAAA
1 TAAAAAAATAAGAAAAA
9198697 TAAGAAAAA
1 TAA-AAAAA
9198706 AAGGAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
16 1 0.04
17 8 0.35
18 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (17 bp):
TAAAAAAATAAGAAAAA
Found at i:9200357 original size:3 final size:3
Alignment explanation
Indices: 9200349--9200442 Score: 120
Period size: 3 Copynumber: 31.7 Consensus size: 3
9200339 TTAGATACTT
*
9200349 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
9200397 TTA TTA TT- TTCA TTA TTA -TG TTA ATA TTA CTA TTA TTA TTG TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9200441 TT
1 TT
9200443 TTTTTGTTTC
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
2 3 0.04
3 73 0.94
4 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9207893 original size:24 final size:24
Alignment explanation
Indices: 9207866--9207959 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
9207856 GAAAAGCTCA
* **
9207866 AACCTAGCTTGGCCAAAGTGTTTG
1 AACCTAGCTTGGCCAAAGAGTTAC
* *
9207890 AACCCAGCTCGGCCAAAGAGTTAC
1 AACCTAGCTTGGCCAAAGAGTTAC
** *
9207914 AACCTAGCTTTACCAAAGAGCT-C
1 AACCTAGCTTGGCCAAAGAGTTAC
*
9207937 AGACTTAGCTTGGCCAAAGAGTT
1 A-ACCTAGCTTGGCCAAAGAGTT
9207960 CGGACTAAGC
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
23 2 0.04
24 53 0.96
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (24 bp):
AACCTAGCTTGGCCAAAGAGTTAC
Found at i:9207970 original size:24 final size:24
Alignment explanation
Indices: 9207926--9207987 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
9207916 CCTAGCTTTA
*
9207926 CCAAAGAGCTCAGACTTAGCTTGG
1 CCAAAGAGCTCAGACTAAGCTTGG
* * *
9207950 CCAAAGAGTTCGGACTAAGCTTGA
1 CCAAAGAGCTCAGACTAAGCTTGG
* *
9207974 TCAACGAGCTCAGA
1 CCAAAGAGCTCAGA
9207988 TCTACATATC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
CCAAAGAGCTCAGACTAAGCTTGG
Found at i:9208305 original size:85 final size:85
Alignment explanation
Indices: 9208216--9208454 Score: 230
Period size: 85 Copynumber: 2.8 Consensus size: 85
9208206 ATTCAATTCA
* * * * * * *
9208216 ACCAAAAGAGTTCAGATCTATAAAATGCATTCATAAAGGCTTAATTCGATAAAACAATTTGGCTT
1 ACCAAAAGAGCTCAGATCTACAAAATGCATTCATAAAGGCTTAATTCGACAAAACAACTCGACCT
*
9208281 AAAAGTTTAGACTTAGCTCG
66 AAAAGCTTAGACTTAGCTCG
* ** * * ** * * *
9208301 ACCAAAAGAGCTCGGATCTACAAAACACCTTTATAAAGGCCCAATTAGACAAAATAGCTCGACCT
1 ACCAAAAGAGCTCAGATCTACAAAATGCATTCATAAAGGCTTAATTCGACAAAACAACTCGACCT
*
9208366 AAAAGCTTGGACTTAGCTCG
66 AAAAGCTTAGACTTAGCTCG
*** * * *
9208386 GTGAAAAGAGCTCAGATCTACAAAATGCTTTCATAAAGG-TTCAATTCAACAAAACAACTCAACC
1 ACCAAAAGAGCTCAGATCTACAAAATGCATTCATAAAGGCTT-AATTCGACAAAACAACTCGACC
9208450 -AAAAG
65 TAAAAG
9208455 AGTTCAGATC
Statistics
Matches: 119, Mismatches: 34, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
84 5 0.04
85 114 0.96
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.23
Consensus pattern (85 bp):
ACCAAAAGAGCTCAGATCTACAAAATGCATTCATAAAGGCTTAATTCGACAAAACAACTCGACCT
AAAAGCTTAGACTTAGCTCG
Found at i:9209439 original size:17 final size:17
Alignment explanation
Indices: 9209407--9209466 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
9209397 AAGATAAGAT
*
9209407 AAATAATATGAAAAATGA
1 AAATAAAAT-AAAAATGA
* *
9209425 TAATAAAATAAAAATAA
1 AAATAAAATAAAAATGA
*
9209442 AAAT-ACATAAAATATGA
1 AAATAAAATAAAA-ATGA
9209459 AAATAAAA
1 AAATAAAA
9209467 AAATAGAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 7 0.21
17 17 0.52
18 9 0.27
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (17 bp):
AAATAAAATAAAAATGA
Found at i:9209444 original size:24 final size:23
Alignment explanation
Indices: 9209417--9209468 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
9209407 AAATAATATG
9209417 AAAAATGATAATAAAATAAAAAT-
1 AAAAAT-ATAATAAAATAAAAATA
*
9209440 AAAAATA-CATAAAATATGAAAATA
1 AAAAATATAATAAAATA--AAAATA
9209464 AAAAA
1 AAAAA
9209469 ATAGAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 11 0.44
24 5 0.20
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAATATAATAAAATAAAAATA
Found at i:9210268 original size:6 final size:6
Alignment explanation
Indices: 9210245--9210318 Score: 75
Period size: 6 Copynumber: 12.7 Consensus size: 6
9210235 AGAAAAGTAG
* * *
9210245 AATAAT AA-AAT GAATAAA AATAAA AATGAA- AACAA- AAT-AT AATAAT
1 AATAAT AATAAT -AATAAT AATAAT AAT-AAT AATAAT AATAAT AATAAT
9210291 AATAAT AATAAT AATAAT AATAAT AATA
1 AATAAT AATAAT AATAAT AATAAT AATA
9210319 GAATATACTA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
4 1 0.02
5 10 0.17
6 45 0.75
7 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (6 bp):
AATAAT
Found at i:9210291 original size:3 final size:3
Alignment explanation
Indices: 9210283--9210318 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9210273 AAAACAAAAT
9210283 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9210319 GAATATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9210411 original size:17 final size:17
Alignment explanation
Indices: 9210377--9210422 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9210367 AATACCATAC
9210377 TATAATA-A-TATACAA
1 TATAATATACTATACAA
* *
9210392 TATAATGTACTATACTA
1 TATAATATACTATACAA
*
9210409 TATACTATACTATA
1 TATAATATACTATA
9210423 ATAGTACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 6 0.24
16 1 0.04
17 18 0.72
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (17 bp):
TATAATATACTATACAA
Found at i:9211048 original size:85 final size:85
Alignment explanation
Indices: 9210598--9211223 Score: 267
Period size: 85 Copynumber: 7.4 Consensus size: 85
9210588 TTGGCTAAAG
* * * * * * * *
9210598 GAGCTTGAATCTACAAAAAGCCTTCATAAA-GACTAAATTTGACAAAATAGCTCGGCCTAAGAGC
1 GAGCTTGGATCTACAAAATGCTTTCATAAAGGCCT-AATTCGACAAAACAGCTTGGCCAAAGAG-
* * * **
9210662 TTGA-ACTCAGCTCAATGAAAA
64 TTAAGACTCAACTCGACCAAAA
* * * * * * * **** *
9210683 GAACTTGGATCTACAAAATACTTTTATAAAGGTCTAATTTGATAAAATAGCTCAAACTAAGAGCT
1 GAGCTTGGATCTACAAAATGCTTTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAG-T
* * *
9210748 T-GGACTCAGCTCGATCAAAA
65 TAAGACTCAACTCGACCAAAA
* * * * ** * * * * *
9210768 GAGCTTGGATTTATAAAATGGC-TTCACAAAGACCTAATTTAACAAAATAGCTCGACTAAAAAGT
1 GAGCTTGGATCTACAAAAT-GCTTTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAGT
* **
9210832 TCAGACTTC-ACTC-TTCAAAA
65 TAAGAC-TCAACTCGACCAAAA
* * * * *** **
9210852 GAG-TTCAGATCTACAAAATGCCTACATAAAGGCCTAACTT-GACAAAATAGCTCAACTTAAGAA
1 GAGCTT-GGATCTACAAAATGCTTTCATAAAGGCCTAA-TTCGACAAAACAGCTTGGCCAAAG-A
* * *
9210915 CTCAA-AC-CTAGCTC-AGCCAAAA
63 GTTAAGACTC-AACTCGA-CCAAAA
* *
9210937 GAGCTAGCATCTACAAAATGAC-TTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAGT
1 GAGCTTGGATCTACAAAATG-CTTTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAGT
9211001 TAAGACTCAACTCGACCAAAA
65 TAAGACTCAACTCGACCAAAA
* * * * * * * **
9211022 GAGCTTGGATCTACAAATTGCTTTCATAAAAGTCC-AACTCAACAAAATAGCTTGACCTAAGAAC
1 GAGCTTGGATCTACAAAATGCTTTCAT-AAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAGT
** * **
9211086 TCGGACTCAACTTGATAAAAA
65 TAAGACTCAACTCGACCAAAA
* ** * * * * **
9211107 AAGCTCAGATTTACAAAATG-TCTTCATAAAGGTCTAATTCGAAAAAACATCTTGGTTAAAGAGC
1 GAGCTTGGATCTACAAAATGCT-TTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAG-
9211171 TTAA-ACTCAACTC-AGCCAAAA
64 TTAAGACTCAACTCGA-CCAAAA
* **
9211192 GAGTTTGGATCTACAAAATGCCATCATAAAGG
1 GAGCTTGGATCTACAAAATGCTTTCATAAAGG
9211224 TTTAACTTGG
Statistics
Matches: 409, Mismatches: 107, Indels: 50
0.72 0.19 0.09
Matches are distributed among these distances:
82 1 0.00
83 4 0.01
84 69 0.17
85 318 0.78
86 17 0.04
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (85 bp):
GAGCTTGGATCTACAAAATGCTTTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAGTT
AAGACTCAACTCGACCAAAA
Found at i:9211073 original size:170 final size:170
Alignment explanation
Indices: 9210893--9211208 Score: 390
Period size: 170 Copynumber: 1.9 Consensus size: 170
9210883 GCCTAACTTG
* * * *
9210893 ACAAAATAGCTCAACTTAAGAACTCAAAC-CTAGCTCAG-CCAAAAGAGCT-AGCATCTACAAAA
1 ACAAAATAGCTCAACCTAAGAACTCAAACTC-AACT-AGACAAAAAAAGCTCAG-ATCTACAAAA
*
9210955 TGACTTCATAAAGGCCTAATTCGACAAAACAGCTTGGCCAAAGAG-TTAAGACTCAACTC-GACC
63 TGACTTCATAAAGGCCTAATTCGAAAAAACAGCTTGGCCAAAGAGCTTAA-ACTCAACTCAG-CC
9211018 AAAAGAGCTTGGATCTACAAATTGCTTTCATAAAAGTCCAACTCA
126 AAAAGAGCTTGGATCTACAAATTGCTTTCATAAAAGTCCAACTCA
** ** * * * *
9211063 ACAAAATAGCTTGACCTAAGAACTCGGACTCAACTTGATAAAAAAAGCTCAGATTTACAAAATGT
1 ACAAAATAGCTCAACCTAAGAACTCAAACTCAACTAGACAAAAAAAGCTCAGATCTACAAAATGA
* * **
9211128 CTTCATAAAGGTCTAATTCGAAAAAACATCTTGGTTAAAGAGCTTAAACTCAACTCAGCCAAAAG
66 CTTCATAAAGGCCTAATTCGAAAAAACAGCTTGGCCAAAGAGCTTAAACTCAACTCAGCCAAAAG
*
9211193 AGTTTGGATCTACAAA
131 AGCTTGGATCTACAAA
9211209 ATGCCATCAT
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
169 1 0.01
170 114 0.93
171 8 0.07
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (170 bp):
ACAAAATAGCTCAACCTAAGAACTCAAACTCAACTAGACAAAAAAAGCTCAGATCTACAAAATGA
CTTCATAAAGGCCTAATTCGAAAAAACAGCTTGGCCAAAGAGCTTAAACTCAACTCAGCCAAAAG
AGCTTGGATCTACAAATTGCTTTCATAAAAGTCCAACTCA
Found at i:9212090 original size:19 final size:19
Alignment explanation
Indices: 9212057--9212093 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9212047 TACTTAGTTA
* *
9212057 AGCTAAAAGAGATTAGCTC
1 AGCTAAAAAAAATTAGCTC
9212076 AGCTAAAAAAAATTAGCT
1 AGCTAAAAAAAATTAGCT
9212094 TAGCCAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
AGCTAAAAAAAATTAGCTC
Found at i:9214004 original size:17 final size:17
Alignment explanation
Indices: 9213964--9214025 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
9213954 TGTTTTTTTT
*
9213964 AAATAAAAAAATAG-TGA
1 AAATAAAAAAA-AGATAA
*
9213981 AATTAAAAAAAAGATAA
1 AAATAAAAAAAAGATAA
* *
9213998 AAATAAAACAAAAAATTA
1 AAATAAAA-AAAAGATAA
*
9214016 AGATAAAAAA
1 AAATAAAAAA
9214026 TGAATATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
18 14 0.38
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (17 bp):
AAATAAAAAAAAGATAA
Found at i:9214055 original size:13 final size:12
Alignment explanation
Indices: 9213984--9214060 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 12
9213974 ATAGTGAAAT
*
9213984 TAAAAAA-AAGA
1 TAAAAAATAAAA
9213995 T-AAAAATAAAA
1 TAAAAAATAAAA
* *
9214006 CAAAAAATTAAGA
1 TAAAAAA-TAAAA
*
9214019 TAAAAAAT-GAA
1 TAAAAAATAAAA
* *
9214030 TATAAAATCAAA
1 TAAAAAATAAAA
9214042 TCAAAAAATAAAA
1 T-AAAAAATAAAA
9214055 TGAAAA
1 T-AAAA
9214061 TGGAAAAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 5 0.10
11 12 0.24
12 9 0.18
13 24 0.48
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:9214843 original size:5 final size:5
Alignment explanation
Indices: 9214835--9214956 Score: 58
Period size: 5 Copynumber: 24.2 Consensus size: 5
9214825 AAAGAAAAAA
* *
9214835 AATAT AATAA AATAT AATAT AATAAT AATAAT AATA- ACTAT AATAAT
1 AATAT AATAT AATAT AATAT AAT-AT AAT-AT AATAT AATAT AAT-AT
* * * ** *
9214882 AATAT AGTAT AGTAAT AATTATT ATTAT AATA- GCTAT AATCAT --TGT
1 AATAT AATAT AAT-AT AA-TA-T AATAT AATAT AATAT AAT-AT AATAT
*
9214928 AATAT -A-AT AATAT AATAT AGTAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
9214957 GTACCATAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
3 3 0.03
4 8 0.09
5 51 0.57
6 24 0.27
7 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:9214844 original size:3 final size:3
Alignment explanation
Indices: 9214838--9214981 Score: 62
Period size: 3 Copynumber: 51.0 Consensus size: 3
9214828 GAAAAAAAAT
9214838 ATA ATA A-A AT- ATA AT- ATA ATA ATA ATA ATA ATA ACT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * * * *
9214880 ATA AT- ATA GT- ATA GTA ATA ATT ATT ATT ATA ATA GCT- ATA ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
9214923 ATT GTA AT- ATA ATA AT- ATA AT- ATA GT- ATA AT- ATA GTA CCATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
9214965 ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
9214982 GTGATATGCT
Statistics
Matches: 107, Mismatches: 17, Indels: 34
0.68 0.11 0.22
Matches are distributed among these distances:
2 22 0.21
3 81 0.76
4 2 0.02
5 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:9214855 original size:15 final size:17
Alignment explanation
Indices: 9214835--9214981 Score: 94
Period size: 15 Copynumber: 8.7 Consensus size: 17
9214825 AAAGAAAAAA
9214835 AATATAATAA-AAT-AT
1 AATATAATAATAATAAT
9214850 AATATAATAATAATAAT
1 AATATAATAATAATAAT
*
9214867 AATA-ACT-ATAATAAT
1 AATATAATAATAATAAT
* *
9214882 AATATAGT-ATAGTAAT
1 AATATAATAATAATAAT
* *
9214898 AATTATTATTATAATAGCTAT
1 AA-TATAATAATAATA---AT
**
9214919 AATCATTGTAAT-ATAAT
1 AAT-ATAATAATAATAAT
*
9214936 AATATAAT-ATAGT-AT
1 AATATAATAATAATAAT
*
9214951 AATATAGTACCATAATAAT
1 AATATAATA--ATAATAAT
9214970 AATATAATAATA
1 AATATAATAATA
9214982 GTGATATGCT
Statistics
Matches: 104, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
15 33 0.32
16 20 0.19
17 18 0.17
18 9 0.09
19 10 0.10
20 4 0.04
21 10 0.10
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (17 bp):
AATATAATAATAATAAT
Found at i:9214864 original size:21 final size:21
Alignment explanation
Indices: 9214838--9214885 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
9214828 GAAAAAAAAT
9214838 ATAATAA-AATATAATATAATA
1 ATAATAATAATA-AATATAATA
*
9214859 ATAATAATAATAACTATAATA
1 ATAATAATAATAAATATAATA
9214880 ATAATA
1 ATAATA
9214886 TAGTATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATAATAAATATAATA
Found at i:9214942 original size:31 final size:31
Alignment explanation
Indices: 9214838--9214978 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
9214828 GAAAAAAAAT
9214838 ATAATAA-AATATAATA-TAATAATA-A-TA-
1 ATAATAATAATATAATAGT-ATAATATAGTAC
* *
9214865 ATAATAACT-ATAATAATAATATAGTATAGTA-
1 ATAATAA-TAAT-ATAATAGTATAATATAGTAC
* * *
9214896 ATAATTATTATTATAATAGCTATAATCATTGTA-
1 ATAA-TAATAATATAATAG-TATAAT-ATAGTAC
9214929 AT-ATAATAATATAATATAGTATAATATAGTACC
1 ATAATAATAATAT-A-ATAGTATAATATAGTA-C
9214962 ATAATAATAATATAATA
1 ATAATAATAATATAATA
9214979 ATAGTGATAT
Statistics
Matches: 90, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
27 7 0.08
28 2 0.02
29 11 0.12
30 2 0.02
31 25 0.28
32 19 0.21
33 14 0.16
34 10 0.11
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (31 bp):
ATAATAATAATATAATAGTATAATATAGTAC
Found at i:9215303 original size:70 final size:70
Alignment explanation
Indices: 9215220--9215359 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
9215210 AGTCAACAAG
9215220 ATGAAGTGATCAAGATTGAGTTGTGGTTGAAGATGGCTGATCAGGATGAAATTGCGAGTCAAAAA
1 ATGAAGTGATCAAGATTGAGTTGTGGTTGAAGATGGCTGATCAGGATGAAATTGCGAGTCAAAAA
9215285 ATGAT
66 ATGAT
9215290 ATGAAGTGATCAAGATTGAGTTGTGGTTGAAGATGGCTGATCAGGATGAAATTGCGAGTCAAAAA
1 ATGAAGTGATCAAGATTGAGTTGTGGTTGAAGATGGCTGATCAGGATGAAATTGCGAGTCAAAAA
9215355 ATGAT
66 ATGAT
9215360 CTAGACAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (70 bp):
ATGAAGTGATCAAGATTGAGTTGTGGTTGAAGATGGCTGATCAGGATGAAATTGCGAGTCAAAAA
ATGAT
Found at i:9216323 original size:360 final size:359
Alignment explanation
Indices: 9215594--9216325 Score: 749
Period size: 360 Copynumber: 2.0 Consensus size: 359
9215584 TGAGTTAGCT
* *
9215594 AGGAAATGATCTGGATGAAACCGAGATTGAATGACCAAAATAAAATCACAAGTCAAAAAGATAAA
1 AGGAAATGATCTAGACGAAACCGAGATTGAATGACCAAAATAAAATCACAAGTCAAAAAGATAAA
* * * * *
9215659 GCAACCACGATCACATTGAGGTCAAAGATGATTGATCGAGATGAAACCGTGAGTCAAGAAATGAT
66 GCAACCAAGATCACATTGAGGTCAAAGATGATTGATCAAGACGAAACCATGAGTCAAAAAATGAT
* ** ** **
9215724 TTCGATGGAACGAGATCGAATGACCAAGACAAAACTGTGAGTCAAAAAGATAAAGTGACCAAGAC
131 CTAAATGGAACGAGATCGAATGACCAAGACAAAACTACGAGTCAAAAAGATAAAGCAACCAAGAC
** * * * *
9215789 CAAGTCAAGGTCGATGATGACTGATTAGGATGAAACCATGAGTTAAAAAATGATCTAGATAGAAC
196 CAAGTCAAGGTAAAAGATGACTGATCAAGATGAAACCATGAGTTAAAAAATGATCTAGACAGAAC
* * * * * * * *
9215854 TAAGATCAAATGATCGAGACAAAATCGTGAGTCAAAAAGATAAAGTGACTAGGACTATGTCGATG
261 TAAGATCAAATAATCGAGACAAAACCATGAGTCAAAAAGATAAAGCGACCAAGACGATGTCGAAG
* * *
9215919 TTGAAGATGACTGACTGAGATAAAATTAAAAGTA
326 TTGAAGATGACTGACTAAAATAAAATCAAAAGTA
* * * *
9215953 AAGAAATGATCTAGACGAAATCGAGATTGAATGACCAAGATAAAATCACAAGTCGAAAAGATAAA
1 AGGAAATGATCTAGACGAAACCGAGATTGAATGACCAAAATAAAATCACAAGTCAAAAAGATAAA
* ** * ** *
9216018 GCGATTAAGATCGA-GTTGAGGTTGAAGATGATTGA-CTAAGACGAAATCATGAGTCAAAAAATG
66 GCAACCAAGATC-ACATTGAGGTCAAAGATGATTGATC-AAGACGAAACCATGAGTCAAAAAATG
* *
9216081 ATCTAAATGGAACTGAGATCGAATGATCGAGACAAAA-TCACGAGTCAAAAAGATAAAGCAACCA
129 ATCTAAATGGAAC-GAGATCGAATGACCAAGACAAAACT-ACGAGTCAAAAAGATAAAGCAACCA
* * * * * * * * *
9216145 AGATCGAGTCGAGGTAAAAGATGATTGATCAATAT-AGAATCATGAGTTAGAAAATTATCTGGAC
192 AGACCAAGTCAAGGTAAAAGATGACTGATCAAGATGA-AACCATGAGTTAAAAAATGATCTAGAC
* ** ** **
9216209 AGAACTGAGATTGAATAATC-AGGATGAAACCATGAGTTGAAAAGATAAAGCGACCAAGATCGA-
256 AGAACTAAGATCAAATAATCGA-GACAAAACCATGAGTCAAAAAGATAAAGCGACCAAGA-CGAT
* ** ** *
9216272 GTTGAAGTTGAAGATGACTGA-TCAAAATGGAATCATGAGTC
319 GTCGAAGTTGAAGATGACTGACT-AAAATAAAATCAAAAGTA
9216313 AGGAAATGATCTA
1 AGGAAATGATCTA
9216326 AATAGAACTG
Statistics
Matches: 298, Mismatches: 67, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
358 1 0.00
359 120 0.40
360 175 0.59
361 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (359 bp):
AGGAAATGATCTAGACGAAACCGAGATTGAATGACCAAAATAAAATCACAAGTCAAAAAGATAAA
GCAACCAAGATCACATTGAGGTCAAAGATGATTGATCAAGACGAAACCATGAGTCAAAAAATGAT
CTAAATGGAACGAGATCGAATGACCAAGACAAAACTACGAGTCAAAAAGATAAAGCAACCAAGAC
CAAGTCAAGGTAAAAGATGACTGATCAAGATGAAACCATGAGTTAAAAAATGATCTAGACAGAAC
TAAGATCAAATAATCGAGACAAAACCATGAGTCAAAAAGATAAAGCGACCAAGACGATGTCGAAG
TTGAAGATGACTGACTAAAATAAAATCAAAAGTA
Found at i:9216433 original size:240 final size:240
Alignment explanation
Indices: 9215820--9216533 Score: 644
Period size: 240 Copynumber: 3.0 Consensus size: 240
9215810 TGATTAGGAT
* * * * *
9215820 GAAACCATGAGTTAAAAAATGATCTAGATAGAACTAAGATCAAATGATCGAGACAAAATCGTGAG
1 GAAATCATGAGTCAAAAAATGATCTAAATAGAACTGAGATCGAATGATCGAGACAAAATCGTGAG
* * * **
9215885 TCAAAAAGATAAAGTGACTAGGACTATGTCGATGTTGAAGATGACTGA-CTGAGATAAAATTAAA
66 TCAAAAAGATAAAGTGACTAGGACTAAGTCGAGGTTGAAGATGACTGATC-GAGA-AAAATCATG
* * * *
9215949 AGTAAAGAAATGATCTAGAC-GAAATCGAGATTGAATGACCAAGATAAAATCACAAGTCGAAAAG
129 AGTTAAGAAATGATCTGGACAGAAATCGAGATTGAATAACCAAGATAAAACCACAAGTCGAAAAG
** * * *
9216013 ATAAAGCGATTAAGATCGAGTTGAGGTTGAAGATGATTGACTAAGAC
194 ATAAAGCGACCAAGATCGAGTTGAAGTTGAAGATGACTGACTAAAAC
* **
9216060 GAAATCATGAGTCAAAAAATGATCTAAATGGAACTGAGATCGAATGATCGAGACAAAATCACGAG
1 GAAATCATGAGTCAAAAAATGATCTAAATAGAACTGAGATCGAATGATCGAGACAAAATCGTGAG
** * * * ** * * * *
9216125 TCAAAAAGATAAAGCAACCAAGA-TCGAGTCGAGGTAAAAGATGATTGATCAATATAGAATCATG
66 TCAAAAAGATAAAGTGACTAGGACT-AAGTCGAGGTTGAAGATGACTGATCGAGA-AAAATCATG
* * * * * ** *
9216189 AGTT-AGAAAATTATCTGGACAGAACT-GAGATTGAATAATCAGGATGAAACCATGAGTTGAAAA
129 AGTTAAG-AAATGATCTGGACAGAAATCGAGATTGAATAACCAAGATAAAACCACAAGTCGAAAA
*
9216252 GATAAAGCGACCAAGATCGAGTTGAAGTTGAAGATGACTGA-TCAAAAT
193 GATAAAGCGACCAAGATCGAGTTGAAGTTGAAGATGACTGACT-AAAAC
* **
9216300 GGAATCATGAGTCAGGAAATGATCTAAATAGAACTGAGATCGAATGATC-AGA-ATGAAA-CTGT
1 GAAATCATGAGTCAAAAAATGATCTAAATAGAACTGAGATCGAATGATCGAGACA--AAATC-GT
** * * * *
9216362 GAGTTGAAAAGATAAAGTGACTAGGACTAAGTCGAGGTTGAAGATAACTAATCGAGACGAAATCG
63 GAGTCAAAAAGATAAAGTGACTAGGACTAAGTCGAGGTTGAAGATGACTGATCGAGA-AAAATCA
* * * * * ** *
9216427 TGAGTTAATAAATGATCTGGACA-AAA-CGAAGATAGAATGATCAAGAAAAAATTACGAA-TCAA
127 TGAGTTAAGAAATGATCTGGACAGAAATCG-AGATTGAATAACCAAGATAAAACCAC-AAGTCGA
* * * * *
9216489 AAAGATAAAGTGACTAGGACCGAG-TCAAGATTGAAGATGACTGAC
190 AAAGATAAAGCGACCAAGATCGAGTTGAAG-TTGAAGATGACTGAC
9216534 CGAGATAAAA
Statistics
Matches: 374, Mismatches: 85, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
238 1 0.00
239 15 0.04
240 350 0.94
241 8 0.02
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (240 bp):
GAAATCATGAGTCAAAAAATGATCTAAATAGAACTGAGATCGAATGATCGAGACAAAATCGTGAG
TCAAAAAGATAAAGTGACTAGGACTAAGTCGAGGTTGAAGATGACTGATCGAGAAAAATCATGAG
TTAAGAAATGATCTGGACAGAAATCGAGATTGAATAACCAAGATAAAACCACAAGTCGAAAAGAT
AAAGCGACCAAGATCGAGTTGAAGTTGAAGATGACTGACTAAAAC
Found at i:9216580 original size:120 final size:120
Alignment explanation
Indices: 9215683--9216580 Score: 557
Period size: 120 Copynumber: 7.5 Consensus size: 120
9215673 ATTGAGGTCA
* * * * * ** *
9215683 AAGATGATTGATCGAGATGAAACCGTGAGTCAAGAAATGATTTCGATGGAAC-GAGATCGAATGA
1 AAGATGACTGATCGAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGATAGAATGA
* * * * *
9215747 CCAAGACAAAA-CTGTGAGTCAAAAAGATAAAGTGACCAAGACCAAGTCAAGGTCG
66 TCAAGACAAAATC-ATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
* * * * * * *
9215802 ATGATGACTGAT-TAGGATGAAACCATGAGTTAAAAAATGATCTAGATAGAACTAAGATCA-AAT
1 AAGATGACTGATCGA-GATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGAT-AGAAT
* * * * * *
9215865 GATCGAGACAAAATCGTGAGTCAAAAAGATAAAGTGACTAGGA-CTATGTCGATGTTG
64 GATCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGA-GTCAAGGTTG
* * ** * * *
9215922 AAGATGACTGA-CTGAGATAAAATTAAAAGTAAAGAAATGATCTAGAC-GAAATCGAGATTGAAT
1 AAGATGACTGATC-GAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACT-GAGATAGAAT
* * ** * * * * **
9215985 GACCAAGATAAAATCACAAGTCGAAAAGATAAAGCGATTAAGATCGAGTTGAGGTTG
64 GATCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
* * * * * ** *
9216042 AAGATGATTGA-CTAAGACGAAATCATGAGTCAAAAAATGATCTAAATGGAACTGAGATCGAATG
1 AAGATGACTGATC-GAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGATAGAATG
* * ** * * * **
9216106 ATCGAGACAAAATCACGAGTCAAAAAGATAAAGCAACCAAGATCGAGTCGAGGTAA
65 ATCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
* * * * * * *
9216162 AAGATGATTGATCAATAT-AGAATCATGAGT-TAGAAAATTATCTGGACAGAACTGAGATTGAAT
1 AAGATGACTGATCGAGATGA-AATCATGAGTCAAG-AAATGATCTAGACAGAACTGAGATAGAAT
* * ** * ** * * * *
9216225 AATCAGGATGAAACCATGAGTTGAAAAGATAAAGCGACCAAGATCGAGTTGAA-GTTG
64 GATCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGAG-TCAAGGTTG
* * * * * * *
9216282 AAGATGACTGATCAAAATGGAATCATGAGTCAGGAAATGATCTAAATAGAACTGAGATCGAATGA
1 AAGATGACTGATCGAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGATAGAATGA
* ** * ** *
9216347 TC-AGA-ATGAAA-CTGTGAGTTGAAAAGATAAAGTGACTAGGACTAAGTCGAGGTTG
66 TCAAGACA--AAATC-ATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
* * * * * * * *
9216402 AAGATAACTAATCGAGACGAAATCGTGAGTTAATAAATGATCTGGACAAAAC-GAAGATAGAATG
1 AAGATGACTGATCGAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTG-AGATAGAATG
* * * * * *
9216466 ATCAAGAAAAAATTACGAATCAAAAAGATAAAGTGACTAGGACCGAGTCAAGATTG
65 ATCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
* * * * * *
9216522 AAGATGACTGACCGAGATAAAACCGTTAGTCAAGAAATGATCTCGACAGAACTGAGATA
1 AAGATGACTGATCGAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGATA
9216581 AAAAATGAGT
Statistics
Matches: 602, Mismatches: 151, Indels: 51
0.75 0.19 0.06
Matches are distributed among these distances:
118 1 0.00
119 55 0.09
120 529 0.88
121 16 0.03
122 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (120 bp):
AAGATGACTGATCGAGATGAAATCATGAGTCAAGAAATGATCTAGACAGAACTGAGATAGAATGA
TCAAGACAAAATCATGAGTCAAAAAGATAAAGTGACTAAGACCGAGTCAAGGTTG
Found at i:9217332 original size:16 final size:15
Alignment explanation
Indices: 9217308--9217337 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9217298 TAAGTCTTCC
9217308 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
9217323 TTTTTACTTTTTTTT
1 TTTTT-CTTTTTTTT
9217338 GTAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:9219281 original size:14 final size:13
Alignment explanation
Indices: 9219262--9219308 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
9219252 ATCAAAAAGC
9219262 ATAAAAAAGTAAAA
1 ATAAAAAA-TAAAA
9219276 ATAAAAAAATAAAA
1 AT-AAAAAATAAAA
* *
9219290 A-CAAAAACAAAA
1 ATAAAAAATAAAA
9219302 ATAAAAA
1 ATAAAAA
9219309 TCCATAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 10 0.36
13 4 0.14
14 8 0.29
15 6 0.21
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:9219986 original size:125 final size:125
Alignment explanation
Indices: 9219755--9219996 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 125
9219745 TCCACGTATA
* * * * *
9219755 GACCCGAGATCTGCGTAACCTAACCAGTTACCGCTTCTGCCTTAACATAGGATCGACTCAGTTGA
1 GACCCGAGATCTACGTAACCCAACCAGTTACCGCTTCTACCTCAACATAGGACCGACTCAGTTGA
* * * **
9219820 ACTAGTTTCGAATCGCTAGTGAACTGGTTCAGACCGGTCAGAACAGTCAGACTCGGATCT
66 ACTAGTTTCGAACCACTAGTGAACCGGTTCAGACCAATCAGAACAGTCAGACTCGGATCT
*
9219880 GACCCGAGATCTACGTAACCCAACCAGTTACCGCTTCTACCTCAACTTAGGACCGACTCAGTTGA
1 GACCCGAGATCTACGTAACCCAACCAGTTACCGCTTCTACCTCAACATAGGACCGACTCAGTTGA
* * * *
9219945 ACTGGTATT-GAACCATTAGTGAACCGGTTCGGACCAATCAGAACAGTTAGAC
66 ACTAGT-TTCGAACCACTAGTGAACCGGTTCAGACCAATCAGAACAGTCAGAC
9219997 CGTCGAGCGA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
125 99 0.98
126 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (125 bp):
GACCCGAGATCTACGTAACCCAACCAGTTACCGCTTCTACCTCAACATAGGACCGACTCAGTTGA
ACTAGTTTCGAACCACTAGTGAACCGGTTCAGACCAATCAGAACAGTCAGACTCGGATCT
Found at i:9220595 original size:15 final size:14
Alignment explanation
Indices: 9220575--9220676 Score: 57
Period size: 15 Copynumber: 6.7 Consensus size: 14
9220565 CCTAAAATAC
*
9220575 AAAATCTCAAACCTT
1 AAAATC-CAAACCTA
9220590 AAAATCCAAAACCTA
1 AAAATCC-AAACCTA
*
9220605 AAAATCCAAATTTCTA
1 AAAATCCAAA--CCTA
*
9220621 AAAACTCTTAAAATCC--
1 AAAA-TC--CAAA-CCTA
9220637 AAAATCCCAAACCCT-
1 AAAAT-CCAAA-CCTA
9220652 AAAATCCAATACCTA
1 AAAATCCAA-ACCTA
9220667 AAAATCCAAA
1 AAAATCCAAA
9220677 AGTCTAACGA
Statistics
Matches: 71, Mismatches: 6, Indels: 21
0.72 0.06 0.21
Matches are distributed among these distances:
14 17 0.24
15 35 0.49
16 12 0.17
17 2 0.03
18 2 0.03
19 3 0.04
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATCCAAACCTA
Found at i:9220683 original size:62 final size:62
Alignment explanation
Indices: 9220567--9220683 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 62
9220557 AACCTAACCC
* * **
9220567 TAAAATACAAAATCTCAAACCTTAAAATCCAAAACCTAAAAATCCAAATTTCTAAAAACTCT
1 TAAAATACAAAATCCCAAACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACTCT
* *
9220629 TAAAATCCAAAATCCCAAACCCTAAAATCCAATACCTAAAAATCCAAAAGTCTAA
1 TAAAATACAAAATCCCAAACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAA
9220684 CGACCCAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.53, C:0.25, G:0.01, T:0.21
Consensus pattern (62 bp):
TAAAATACAAAATCCCAAACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACTCT
Found at i:9220837 original size:107 final size:107
Alignment explanation
Indices: 9220646--9220861 Score: 335
Period size: 107 Copynumber: 2.0 Consensus size: 107
9220636 CAAAATCCCA
* * * *
9220646 AACCCTAAAATCCAATACCTAAAAATCCAAAAGTCTAACGACCCAAATTTGATACGCATTTTTGA
1 AACCCTAAAATCCAAAACCTAAAAAACCAAAAGTCTAAAGACCCAAATGTGATACGCATTTTTGA
*
9220711 ATCTTCAAAATCTTGGAGCCCTAGCCTTTAAAACCTCT-GCTT
66 ATCTTCAAAATCTTAGAGCCCTAGCCTTTAAAACCT-TGGCTT
* * *
9220753 AACCTTAAAATTCAAAACCTAAAAAACCAAAAGTCTAAAGACCCAAATGTGATATGCATTTTTGA
1 AACCCTAAAATCCAAAACCTAAAAAACCAAAAGTCTAAAGACCCAAATGTGATACGCATTTTTGA
*
9220818 ATCTTCAAAATCTTAGAGCCGTAGCCTTTAAAACCTTGGCTT
66 ATCTTCAAAATCTTAGAGCCCTAGCCTTTAAAACCTTGGCTT
9220860 AA
1 AA
9220862 GCTCTAAGCA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 1 0.01
107 98 0.99
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (107 bp):
AACCCTAAAATCCAAAACCTAAAAAACCAAAAGTCTAAAGACCCAAATGTGATACGCATTTTTGA
ATCTTCAAAATCTTAGAGCCCTAGCCTTTAAAACCTTGGCTT
Found at i:9223212 original size:41 final size:41
Alignment explanation
Indices: 9223167--9223248 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9223157 CTATCCTTAT
9223167 AACATAACATTACATTCCTTGCATACACATTCATGGTTGAC
1 AACATAACATTACATTCCTTGCATACACATTCATGGTTGAC
* *
9223208 AACATAATATTACATTCCTTGTATACACATTCATGGTTGAC
1 AACATAACATTACATTCCTTGCATACACATTCATGGTTGAC
9223249 GAAATATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (41 bp):
AACATAACATTACATTCCTTGCATACACATTCATGGTTGAC
Found at i:9227505 original size:1 final size:1
Alignment explanation
Indices: 9227494--9227559 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
9227484 AGGGCATCAC
* * * * * ** *
9227494 AAAACAAAAAAATAAAAAAAAAAAAAACAAAAAAATAAAAATAAAAAAGTAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9227559 A
1 A
9227560 GGCATTTTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.06
Consensus pattern (1 bp):
A
Found at i:9227521 original size:23 final size:23
Alignment explanation
Indices: 9227494--9227559 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
9227484 AGGGCATCAC
9227494 AAAACAAAAAAATAAAAAAAAAA
1 AAAACAAAAAAATAAAAAAAAAA
9227517 AAAACAAAAAAATAAAAATAAAAA
1 AAAACAAAAAAATAAAAA-AAAAA
* *
9227541 AGTAA-AAAAAAACAAAAAA
1 A-AAACAAAAAAATAAAAAA
9227560 GGCATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.49
24 18 0.46
25 2 0.05
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.06
Consensus pattern (23 bp):
AAAACAAAAAAATAAAAAAAAAA
Found at i:9229283 original size:41 final size:40
Alignment explanation
Indices: 9229212--9229297 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
9229202 AAAATAGAAG
* ***
9229212 CAAGATTCAAAGCCTCTGTTTAAGGGGAACCATT-TTCAAA
1 CAAGATTCAAAACCTCTGTTTAAAACGAACC-TTCTTCAAA
*
9229252 CAAGATTTCAAAACCTCTGTTTAAAACGAACCTTCTTCAAG
1 CAAGA-TTCAAAACCTCTGTTTAAAACGAACCTTCTTCAAA
9229293 CAAGA
1 CAAGA
9229298 CTTTTAGAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 7 0.18
41 32 0.82
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (40 bp):
CAAGATTCAAAACCTCTGTTTAAAACGAACCTTCTTCAAA
Found at i:9229613 original size:87 final size:85
Alignment explanation
Indices: 9229434--9229627 Score: 230
Period size: 85 Copynumber: 2.3 Consensus size: 85
9229424 GGCATAATCT
* * * *
9229434 TTAAGACCTCTAGGCATAATTTTGATTCACGGTGTTGTCCCGATTGATTCTTATTTTTGACTTGC
1 TTAAGACCTCTGGGCATAATTTTGATTCACAGTGTTATCCCGATCGATTCTTATTTTTGACTTGC
*
9229499 GATATTTTCTCAGTCGATTC
66 GATATTTCCTCAGTCGATTC
* * * * *
9229519 TGAAGACCTTTGGGCATAATTTTGATTCGCAGTGTTATCCTGATCGATTTTTTATTTTTTGACTT
1 TTAAGACCTCTGGGCATAATTTTGATTCACAGTGTTATCCCGATCGA-TTCTTA-TTTTTGACTT
*
9229584 GCGATGTTATCCT-AGTC-ATTC
64 GCGATATT-TCCTCAGTCGATTC
*
9229605 TATAAGACCTCCGGGCATAATTT
1 T-TAAGACCTCTGGGCATAATTT
9229628 CTAAGTCCTC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
85 39 0.43
86 10 0.11
87 39 0.43
88 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (85 bp):
TTAAGACCTCTGGGCATAATTTTGATTCACAGTGTTATCCCGATCGATTCTTATTTTTGACTTGC
GATATTTCCTCAGTCGATTC
Found at i:9229663 original size:22 final size:22
Alignment explanation
Indices: 9229607--9229671 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
9229597 AGTCATTCTA
* *
9229607 TAAGACCTCCGGGCATAATTTC
1 TAAGTCCTCTGGGCATAATTTC
9229629 TAAGTCCTCTGGGCATAATCTT-
1 TAAGTCCTCTGGGCATAAT-TTC
*
9229651 TAA-TACCTTTGGGCATAATTT
1 TAAGT-CCTCTGGGCATAATTT
9229672 TGATTCGCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 33 0.87
23 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAGTCCTCTGGGCATAATTTC
Found at i:9229800 original size:132 final size:131
Alignment explanation
Indices: 9229532--9230640 Score: 644
Period size: 132 Copynumber: 8.5 Consensus size: 131
9229522 AGACCTTTGG
* * ** ** * * *
9229532 GCATAATTTTGATTCGCAGTGTTATCCTGATCGATTTTTTATTTTTTGACTTGCGATGTTATCCT
1 GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCCC
* * * * * *
9229597 AGTC-ATTCTATAAGACCTCCGGGCATAATTTCTAAGTCCTCTGGGCATAATCTTTAATACCTTT
66 AGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGA-CTTC
*
9229661 GG
130 GA
* * * * *
9229663 GCATAATTTTGATTCGCGGTGTTGTCCCAATCGATTCTTTATTTTTTGACCTGTGGTGTTGTCCC
1 GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCCC
* ** **
9229728 AGTCAATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCAAGTGTAATCTTTAAGACTTCC
66 AGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTT-C
9229793 GA
130 GA
** * * * * *
9229795 GCATAATTTCAATTCA-TGATGTTGTCCTAATTGATTCCTTATTTTTTAACTTGCAGTGTTGTCC
1 GCATAATTTTGATTCACAG-TGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCC
* * *
9229859 CAGTCGATTCTGTAAGACCTCC-GAACATGATTTCTAAGCCCTCCGGGCATAATCTTTAAGACAT
65 CAGTCGATTCTGTAAGACCTCCAG-GCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTT
*
9229923 CTA
129 CGA
* * *
9229926 GGAATAATTTTGATTCACAGTATTGTCCCAATCGATTCCTTATTTTTTGACTTGTGGTGTTGTCC
1 -GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCC
* * *
9229991 CAATCGATTCTGTAAGACCTTCAGGCATGATTTCTAAGTCCTTC-GGCATAATC-TT--GA-TTC
65 CAGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTTC
*
9230051 GC
130 GA
** * * ** * * **
9230053 G-ATGTTGTCTTGA-TCGATTCTTTATTTTTTGACTTGCGAT-GTTGTCCCAATTGATTTTGTA-
1 GCATAAT-T-TTGATTC-A--C---A-GTGTTG--TCCCAATCGAT-TCCTTATT--TTTTG-AC
*** * * * * * * * * * * **
9230114 AAAC-CT-TTG-ACCA-T-GATT-TTTAAGTCCTTC-GAACATAATCTT-TATGACATCTAGGCA
51 TTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCAG-GCATGAT-TTCTAAGTCCTCCGGGCA
*
9230171 TAA--TTT-CGA-TT---
114 TAATCTTTAAGACTTCGA
* * * ** *
9230182 -CATAATTTTGATTTACAGTGTTGTCTCAATCGACTT-CTTATTTTTTGACCTATGATGTTGTCC
1 GCATAATTTTGATTCACAGTGTTGTCCCAATCGA-TTCCTTATTTTTTGACTTGCGGTGTTGTCC
* * * * * * * *
9230245 CATTTGATTTTGTAAGACCTTCGGGTATGATTCCTAAGTCCTCCGGGCATAATCTTTAAGACATC
65 CAGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTTC
*
9230310 CA
130 GA
* **** * * *
9230312 GGCATAATTTTGATTCCCAGTGTTGTCTTGGTCGATTCCCTATTTTTTGACCTGCGGTGCTGTCC
1 -GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCC
* * * * * *
9230377 TAGTCGATTCTGTAAAACCTTC-GAGAATGATTTCTAAGTCCTCCAGGCATAACCTTTAAGACTT
65 CAGTCGATTCTGTAAGACCTCCAG-GCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTT
*
9230441 CAA
129 CGA
* * * * * *
9230444 GGCATAATTTTGATTCGCGGTGTTGTCCTAATTGATTCCTTATTTTTTGACTTGCGATGTTATCC
1 -GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCC
* * * * * * *
9230509 TAGTCAATTATGTAAAACCTCCAAGCATGATTTCTAAGACCTCCGGGCATAACCTTTAAGACCTA
65 CAGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGA-CT-
*
9230574 TGGA
128 TCGA
** * ** * *
9230578 -CATAATTTTGATTTGC-GATGTTATTTCGATCGATTCCTTATTTTTTGACTTGCGGTATTGTCC
1 GCATAATTTTGATTCACAG-TGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCC
9230641 TGGTTGATTC
Statistics
Matches: 759, Mismatches: 164, Indels: 109
0.74 0.16 0.11
Matches are distributed among these distances:
116 1 0.00
117 6 0.01
118 1 0.00
119 11 0.01
120 5 0.01
121 6 0.01
122 6 0.01
123 27 0.04
124 1 0.00
125 7 0.01
126 6 0.01
127 13 0.02
128 4 0.01
129 4 0.01
130 3 0.00
131 101 0.13
132 521 0.69
133 9 0.01
134 7 0.01
135 13 0.02
136 1 0.00
137 5 0.01
138 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (131 bp):
GCATAATTTTGATTCACAGTGTTGTCCCAATCGATTCCTTATTTTTTGACTTGCGGTGTTGTCCC
AGTCGATTCTGTAAGACCTCCAGGCATGATTTCTAAGTCCTCCGGGCATAATCTTTAAGACTTCG
A
Found at i:9230120 original size:109 final size:110
Alignment explanation
Indices: 9229956--9230155 Score: 287
Period size: 109 Copynumber: 1.8 Consensus size: 110
9229946 TATTGTCCCA
* * * *
9229956 ATCGATTCCTTATTTTTTGACTTGTGGTGTTGTCCCAATCGATTCTGTAAGACCTTCAG-GCATG
1 ATCGATTCCTTATTTTTTGACTTGCGATGTTGTCCCAATCGATTCTGTAAAACCTT-AGACCATG
*
9230020 ATTTCTAAGTCCTTCG-GCATAATCTTGATTCGCGATGTTGTCTTG
65 ATTTCTAAGTCCTTCGAACATAATCTTGATTCGCGATGTTGTCTTG
* * * *
9230065 ATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAATTGATTTTGTAAAACCTTTGACCATGA
1 ATCGATTCCTTATTTTTTGACTTGCGATGTTGTCCCAATCGATTCTGTAAAACCTTAGACCATGA
*
9230130 TTTTTAAGTCCTTCGAACATAATCTT
66 TTTCTAAGTCCTTCGAACATAATCTT
9230156 TATGACATCT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 1 0.01
109 69 0.87
110 9 0.11
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (110 bp):
ATCGATTCCTTATTTTTTGACTTGCGATGTTGTCCCAATCGATTCTGTAAAACCTTAGACCATGA
TTTCTAAGTCCTTCGAACATAATCTTGATTCGCGATGTTGTCTTG
Found at i:9230223 original size:145 final size:145
Alignment explanation
Indices: 9230055--9230327 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 145
9230045 TGATTCGCGA
** * *
9230055 TGTTGTCTTGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAATTGATTTTGTAAAACCT
1 TGTTGTCTCAATCGATTCTTTATTTTTTGACCTACGATGTTGTCCCAATTGATTTTGTAAAACCT
* ** * * *
9230120 TTGACCATGATTTTTAAGTCCTTCGAACATAATCTTTATGACATCTAGGCATAATTTCGATTCAT
66 TCGACCATGATTCCTAAGTCCTCCGAACATAATCTTTAAGACATCCAGGCATAATTTCGATTCAT
9230185 AATTTTGATTTACAG
131 AATTTTGATTTACAG
* * *
9230200 TGTTGTCTCAATCGACTTC-TTATTTTTTGACCTATGATGTTGTCCCATTTGATTTTGTAAGACC
1 TGTTGTCTCAATCGA-TTCTTTATTTTTTGACCTACGATGTTGTCCCAATTGATTTTGTAAAACC
*** ** *
9230264 TTCGGGTATGATTCCTAAGTCCTCCGGGCATAATCTTTAAGACATCCAGGCATAATTTTGATTC
65 TTCGACCATGATTCCTAAGTCCTCCGAACATAATCTTTAAGACATCCAGGCATAATTTCGATTC
9230328 CCAGTGTTGT
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
145 105 0.97
146 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (145 bp):
TGTTGTCTCAATCGATTCTTTATTTTTTGACCTACGATGTTGTCCCAATTGATTTTGTAAAACCT
TCGACCATGATTCCTAAGTCCTCCGAACATAATCTTTAAGACATCCAGGCATAATTTCGATTCAT
AATTTTGATTTACAG
Found at i:9230952 original size:17 final size:17
Alignment explanation
Indices: 9230921--9230977 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
9230911 TCTGTTTATC
* *
9230921 AATATTAAACTATTAAT
1 AATAATAAAATATTAAT
*
9230938 AATAATAGAAA-ATTATT
1 AATAATA-AAATATTAAT
*
9230955 GATAATAAAATATTAAT
1 AATAATAAAATATTAAT
*
9230972 ATTAAT
1 AATAAT
9230978 TTAATATTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 3 0.10
17 26 0.84
18 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
AATAATAAAATATTAAT
Found at i:9232640 original size:20 final size:20
Alignment explanation
Indices: 9232615--9232679 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
9232605 TTAAAAAATC
9232615 TAAACCCAAAATCCAAACCT
1 TAAACCCAAAATCCAAACCT
* *
9232635 TAAACCCCAAA-CCTAACCCT
1 TAAACCCAAAATCC-AAACCT
* *
9232655 AAAATCCAAAATCTCAAACCT
1 TAAACCCAAAATC-CAAACCT
9232676 TAAA
1 TAAA
9232680 ATCCAAAACC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.06
20 23 0.66
21 9 0.26
22 1 0.03
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAACCCAAAATCCAAACCT
Found at i:9232750 original size:14 final size:15
Alignment explanation
Indices: 9232721--9232753 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9232711 CCTAAAATAA
*
9232721 AAAATCCCAAACCCT
1 AAAATCCCAAAACCT
9232736 AAAAT-CCAAAACCT
1 AAAATCCCAAAACCT
9232750 AAAA
1 AAAA
9232754 ATTCAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATCCCAAAACCT
Found at i:9232754 original size:15 final size:15
Alignment explanation
Indices: 9232720--9232761 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9232710 CCCTAAAATA
*
9232720 AAAAATCCCAAACCCT
1 AAAAAT-CCAAAACCT
9232736 -AAAATCCAAAACCT
1 AAAAATCCAAAACCT
*
9232750 AAAAATTCAAAA
1 AAAAATCCAAAA
9232762 GTCTAAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.60, C:0.26, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAATCCAAAACCT
Found at i:9232846 original size:107 final size:107
Alignment explanation
Indices: 9232730--9232939 Score: 357
Period size: 107 Copynumber: 2.0 Consensus size: 107
9232720 AAAAATCCCA
* * *
9232730 AACCCTAAAATCCAAAACCTAAAAATTCAAAAGTCTAAAGACCCAAATTTGATACGCATTTTTGA
1 AACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACCCAAATGTGATACGCATTTTTGA
* *
9232795 ATCTTGAAAATCTTGTAGCCCTAGCCTTTAAAACCTCGAATT
66 ATCTTCAAAATCTTGGAGCCCTAGCCTTTAAAACCTCGAATT
* *
9232837 AACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACCCAAATGTGATATGCATTTTTTA
1 AACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACCCAAATGTGATACGCATTTTTGA
9232902 ATCTTCAAAATCTTGGAGCCCTAGCCTTTAAAACCTCG
66 ATCTTCAAAATCTTGGAGCCCTAGCCTTTAAAACCTCG
9232940 GCTTAAGCTT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.27
Consensus pattern (107 bp):
AACCCTAAAATCCAAAACCTAAAAATCCAAAAGTCTAAAAACCCAAATGTGATACGCATTTTTGA
ATCTTCAAAATCTTGGAGCCCTAGCCTTTAAAACCTCGAATT
Found at i:9232861 original size:15 final size:16
Alignment explanation
Indices: 9232843--9232883 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9232833 AATTAACCCT
9232843 AAAATCCAAAA-CCTA
1 AAAATCCAAAAGCCTA
*
9232858 AAAATCCAAAAGTCTA
1 AAAATCCAAAAGCCTA
*
9232874 AAAACCCAAA
1 AAAATCCAAA
9232884 TGTGATATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.61, C:0.24, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAATCCAAAAGCCTA
Found at i:9233810 original size:21 final size:21
Alignment explanation
Indices: 9233771--9233809 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9233761 AACCGACTTC
*
9233771 TAAACTCAAGATTTATTTTCT
1 TAAACTCAAAATTTATTTTCT
9233792 TAAAC-CAAAATTTATTTT
1 TAAACTCAAAATTTATTTT
9233810 TTTGATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (21 bp):
TAAACTCAAAATTTATTTTCT
Found at i:9237821 original size:3 final size:3
Alignment explanation
Indices: 9237800--9237955 Score: 70
Period size: 3 Copynumber: 55.0 Consensus size: 3
9237790 AAGAAAAAAT
* * * * *
9237800 ATA ATA A-A ATA A-A AT- ATA ATA ATA AGA ATT ATT ATT ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
9237845 ACT- ATA GTA ATA AT- ATA GTA A-A ATA ATA ATA ATT ATA ATA GCT-
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
9237888 ATA ATA ACT- ATA AT- ATA ATA ATA AT- ATA AT- ATA GT- ATA AT-
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9237928 ATA GTA CCATA ATA ATA AT- ATA ATA ATA
1 ATA ATA --ATA ATA ATA ATA ATA ATA ATA
9237956 GTGATATACT
Statistics
Matches: 118, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
2 24 0.20
3 89 0.75
4 3 0.03
5 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9237871 original size:13 final size:11
Alignment explanation
Indices: 9237840--9237988 Score: 63
Period size: 11 Copynumber: 13.7 Consensus size: 11
9237830 ATTATTATTA
9237840 TAATAACTATAG
1 TAATAA-TATAG
9237852 TAATAATATAG
1 TAATAATATAG
9237863 TAA-AATA-A-
1 TAATAATATAG
9237871 TAATAAT-TA-
1 TAATAATATAG
* *
9237880 TAATAGCTATAA
1 TAATA-ATATAG
9237892 TAACT-ATAATA-
1 TAA-TAAT-ATAG
9237903 TAATAATA-A-
1 TAATAATATAG
9237912 T-ATAATATAG
1 TAATAATATAG
9237922 T-ATAATATAG
1 TAATAATATAG
*
9237932 TACCATAATAATAA
1 TA--ATAAT-ATAG
9237946 T-ATAATAATAG
1 TAATAAT-ATAG
* *
9237957 TGATATACTATAC
1 T-A-ATAATATAG
9237970 T-ATAATACTAG
1 TAATAATA-TAG
9237981 TAATAATA
1 TAATAATA
9237989 ATAGAAAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 38
0.71 0.05 0.24
Matches are distributed among these distances:
8 9 0.08
9 13 0.12
10 23 0.21
11 29 0.26
12 18 0.16
13 10 0.09
14 8 0.07
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (11 bp):
TAATAATATAG
Found at i:9237884 original size:40 final size:40
Alignment explanation
Indices: 9237836--9237991 Score: 116
Period size: 40 Copynumber: 3.9 Consensus size: 40
9237826 AATTATTATT
9237836 ATTATAATAACTATAGTAATAATATAGTAA-AATAATAATA
1 ATTATAATAACTATAGTAATAATATA-TAATAATAATAATA
* *
9237876 ATTATAATAGCTATAATAACT-ATAATATAATAATAAT-ATA
1 ATTATAATAACTATAGTAA-TAAT-ATATAATAATAATAATA
9237916 A-TATAGTATAA-TATAGTACCATAATA-ATAAT-ATAATAATA
1 ATTATA--ATAACTATAGTA--ATAATATATAATAATAATAATA
* * *
9237956 GTGAT-AT-ACTATACT-ATAATACTAGTAATAATAATA
1 ATTATAATAACTATAGTAATAATA-TA-TAATAATAATA
9237992 GAAAAAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 31
0.71 0.05 0.23
Matches are distributed among these distances:
35 6 0.06
37 2 0.02
38 11 0.12
39 15 0.16
40 40 0.43
41 17 0.18
42 3 0.03
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (40 bp):
ATTATAATAACTATAGTAATAATATATAATAATAATAATA
Found at i:9237917 original size:46 final size:47
Alignment explanation
Indices: 9237799--9237918 Score: 120
Period size: 49 Copynumber: 2.5 Consensus size: 47
9237789 AAAGAAAAAA
* * *
9237799 TATAATAAAATAA-AATATAATAATAAGAATTATTATTATTATAATAAC
1 TATAATATAATAATAATATAATAAT-A-AATTATTAATACTATAATAAC
* *
9237847 TATAGTAATAATATAGTAAAATAATAAT-AATTA-TAATAGCTATAATAAC
1 TATAAT-ATAATA-A-TAATATAATAATAAATTATTAATA-CTATAATAAC
9237896 TATAATATAATAATAATATAATA
1 TATAATATAATAATAATATAATA
9237919 TAGTATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
46 9 0.15
47 1 0.02
48 15 0.25
49 24 0.40
50 1 0.02
52 10 0.17
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (47 bp):
TATAATATAATAATAATATAATAATAAATTATTAATACTATAATAAC
Found at i:9237931 original size:69 final size:77
Alignment explanation
Indices: 9237842--9237988 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 77
9237832 TATTATTATA
9237842 ATAACTATAGTAATAATATAGTAAAATAATAATAAT-T-ATAATAGCT-ATA-A-TA-ACTATAA
1 ATAACTATAGTAATAATATAGTAAAATAATAATAATATAATAATAG-TGATATACTATACTATAA
9237901 TA-TAATAATAAT
65 TACTAATAATAAT
**
9237913 ATAA-TATAGT-ATAATATAGTACCATAATAATAATATAATAATAGTGATATACTATACTATAAT
1 ATAACTATAGTAATAATATAGTAAAATAATAATAATATAATAATAGTGATATACTATACTATAAT
*
9237976 ACTAGTAATAAT
66 ACTAATAATAAT
9237988 A
1 A
9237989 ATAGAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
69 22 0.33
70 8 0.12
71 14 0.21
72 1 0.02
73 2 0.03
74 9 0.14
75 10 0.15
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (77 bp):
ATAACTATAGTAATAATATAGTAAAATAATAATAATATAATAATAGTGATATACTATACTATAAT
ACTAATAATAAT
Found at i:9237948 original size:34 final size:35
Alignment explanation
Indices: 9237848--9237957 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 35
9237838 TATAATAACT
9237848 ATAGTAATAATATAGTAAAATAATAATAAT-T-ATA
1 ATAGT-ATAATATAGTAAAATAATAATAATATAATA
*
9237882 ATAGCTATAATAACTA-TAATATAATAATAATATAAT-
1 ATAG-TATAAT-A-TAGTAAAATAATAATAATATAATA
**
9237918 ATAGTATAATATAGTACCATAATAATAATATAATA
1 ATAGTATAATATAGTAAAATAATAATAATATAATA
9237953 ATAGT
1 ATAGT
9237958 GATATACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
33 2 0.03
34 28 0.42
35 27 0.41
36 7 0.11
37 2 0.03
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.35
Consensus pattern (35 bp):
ATAGTATAATATAGTAAAATAATAATAATATAATA
Found at i:9237954 original size:48 final size:50
Alignment explanation
Indices: 9237888--9237991 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 50
9237878 TATAATAGCT
*
9237888 ATAATAACTATAATATAATAATAATATAATATAGTATAATA-TAGTACCATA
1 ATAATAACTATAATATAATAATAATATAATATACTATAATACTAGTA--ATA
* * *
9237939 ATAATAA-TAT-A-ATAATAGTGATATACTATACTATAATACTAGTAATA
1 ATAATAACTATAATATAATAATAATATAATATACTATAATACTAGTAATA
9237986 ATAATA
1 ATAATA
9237992 GAAAAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 9 0.19
48 23 0.48
49 6 0.12
50 3 0.06
51 7 0.15
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (50 bp):
ATAATAACTATAATATAATAATAATATAATATACTATAATACTAGTAATA
Found at i:9240493 original size:3 final size:3
Alignment explanation
Indices: 9240485--9240528 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
9240475 AAATAAGTAG
*
9240485 AAT AAT AATT AAA AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9240529 AAGAAAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9240558 original size:23 final size:24
Alignment explanation
Indices: 9240519--9240576 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
9240509 AATAATAATA
9240519 ATAATAATAAAAGAAAATCTAAA-G
1 ATAA-AATAAAAGAAAATCTAAATG
*
9240543 ATAAAATAAATA-AAAATGTAAATG
1 ATAAAATAAA-AGAAAATCTAAATG
9240567 A-AAAATAAAA
1 ATAAAATAAAA
9240577 TTAAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 1 0.03
23 23 0.74
24 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.21
Consensus pattern (24 bp):
ATAAAATAAAAGAAAATCTAAATG
Found at i:9240581 original size:17 final size:19
Alignment explanation
Indices: 9240550--9240587 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
9240540 AAGATAAAAT
*
9240550 AAATAAAAATGTAAATGAA
1 AAATAAAAATGTAAAAGAA
9240569 AAAT-AAAAT-TAAAAGAA
1 AAATAAAAATGTAAAAGAA
9240586 AA
1 AA
9240588 GAAAACCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (19 bp):
AAATAAAAATGTAAAAGAA
Found at i:9241443 original size:3 final size:3
Alignment explanation
Indices: 9241426--9241471 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
9241416 AAATAAACAA
* *
9241426 AAT AAT AGT AGT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
9241472 TATTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9241476 original size:3 final size:3
Alignment explanation
Indices: 9241470--9241510 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9241460 AATAATAATA
9241470 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9241511 ACAATAACAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9242164 original size:66 final size:65
Alignment explanation
Indices: 9242093--9242227 Score: 173
Period size: 66 Copynumber: 2.1 Consensus size: 65
9242083 ACCAAGATAA
** * *
9242093 AAAATGAATAACCAAGATTGAATCATGAGTCAAAAAGATAAAATGATCT-GGATCGAGCTGAGAT
1 AAAATGAATAACCAAGAAAGAACCATGAGTCAAAAAAATAAAATGAT-TAGGATCGAGCTGAGAT
9242157 T
65 T
* * * *
9242158 GAAAATGAGTGATCGAGAAAGAACCATGAGTCAAAAAAATAAAATGATTAGGATCGAGCTGAGAT
1 -AAAATGAATAACCAAGAAAGAACCATGAGTCAAAAAAATAAAATGATTAGGATCGAGCTGAGAT
9242223 T
65 T
9242224 AAAA
1 AAAA
9242228 CTTTGTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 5 0.08
66 55 0.92
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (65 bp):
AAAATGAATAACCAAGAAAGAACCATGAGTCAAAAAAATAAAATGATTAGGATCGAGCTGAGATT
Found at i:9253467 original size:17 final size:18
Alignment explanation
Indices: 9253422--9253468 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
9253412 TGATAGGATC
*
9253422 AAAATAAAATATTTTATTA
1 AAAAT-AAATTTTTTATTA
*
9253441 ATAATAAATTTTTTA-TA
1 AAAATAAATTTTTTATTA
*
9253458 AAAATCAATTT
1 AAAATAAATTT
9253469 ATAAAATTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 11 0.46
18 9 0.38
19 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATAAATTTTTTATTA
Found at i:9253513 original size:14 final size:16
Alignment explanation
Indices: 9253489--9253521 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9253479 CCAATAGTTT
9253489 AATAGAATTCAT-AAA
1 AATAGAATTCATGAAA
9253504 AATA-AATTCATGAAA
1 AATAGAATTCATGAAA
9253519 AAT
1 AAT
9253522 CTTCTAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
AATAGAATTCATGAAA
Found at i:9253739 original size:12 final size:10
Alignment explanation
Indices: 9253721--9253779 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 10
9253711 AATAAGTAGT
9253721 AAAATAAAAGA
1 AAAATAAAA-A
9253732 AAATATAAAAA
1 AAA-ATAAAAA
9253743 TAAAATAAATAA
1 -AAAATAAA-AA
9253755 AAATATAAACAA
1 AAA-ATAAA-AA
9253767 AAAATAAAAA
1 AAAATAAAAA
9253777 AAA
1 AAA
9253780 CCTACGATCG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
10 5 0.12
11 17 0.40
12 21 0.49
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:9253746 original size:23 final size:23
Alignment explanation
Indices: 9253720--9253779 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 23
9253710 TAATAAGTAG
9253720 TAAAATAAAAGAAAATATAAA-AA
1 TAAAATAAAA-AAAATATAAACAA
9253743 TAAAATAAATAAAAATATAAACAA
1 TAAAATAAA-AAAAATATAAACAA
9253767 -AAAATAAAAAAAA
1 TAAAATAAAAAAAA
9253780 CCTACGATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.14
23 27 0.77
24 3 0.09
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (23 bp):
TAAAATAAAAAAAATATAAACAA
Found at i:9254588 original size:3 final size:3
Alignment explanation
Indices: 9254580--9254604 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9254570 TTAAAGGTAG
9254580 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9254605 TATACAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9262004 original size:2 final size:2
Alignment explanation
Indices: 9261997--9262067 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
9261987 TCCCAATCCC
9261997 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9262039 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9262068 CATTTCGCAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9268985 original size:14 final size:15
Alignment explanation
Indices: 9268963--9269002 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
9268953 TTCGTTTAGG
9268963 ATTTGTTTATTTA-A
1 ATTTGTTTATTTATA
* *
9268977 ATTTATTTAGTTATA
1 ATTTGTTTATTTATA
9268992 ATTTGTTTATT
1 ATTTGTTTATT
9269003 GTTCATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (15 bp):
ATTTGTTTATTTATA
Found at i:9272260 original size:22 final size:21
Alignment explanation
Indices: 9272232--9272305 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 21
9272222 AATTTATAAT
*
9272232 TTGAAATTCAAGGATTCTCAAC
1 TTGAAATTCAAGG-TTCACAAC
*
9272254 TTGAAATTCAAAGGTTCACAAT
1 TTGAAATTC-AAGGTTCACAAC
*
9272276 TTGAAATTCAAGCTTCACAA-
1 TTGAAATTCAAGGTTCACAAC
9272296 TT-AAATTCAA
1 TTGAAATTCAA
9272306 AAGTTCGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.17
20 2 0.04
21 10 0.21
22 24 0.50
23 4 0.08
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (21 bp):
TTGAAATTCAAGGTTCACAAC
Found at i:9272320 original size:41 final size:44
Alignment explanation
Indices: 9272229--9272327 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 44
9272219 AAAAATTTAT
* *
9272229 AATTTGAAATTCAAGGATTCTCAACTTGAAATTCAAAGGTTCAC
1 AATTTGAAATTCAAGGATTCACAACTTGAAATTCAAAAGTTCAC
* *
9272273 AATTTGAAATTCAA-GCTTCACAA-TT-AAATTCAAAAGTTCGC
1 AATTTGAAATTCAAGGATTCACAACTTGAAATTCAAAAGTTCAC
*
9272314 ATTTTGAAATTCAA
1 AATTTGAAATTCAA
9272328 TAGTTCGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 27 0.54
42 2 0.04
43 7 0.14
44 14 0.28
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (44 bp):
AATTTGAAATTCAAGGATTCACAACTTGAAATTCAAAAGTTCAC
Found at i:9272326 original size:22 final size:21
Alignment explanation
Indices: 9272254--9272333 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
9272244 GATTCTCAAC
*
9272254 TTGAAATTCAAAGGTTCACAAT
1 TTGAAATTCAAAAGTTCAC-AT
*
9272276 TTGAAATTC--AAGCTTCACAA
1 TTGAAATTCAAAAG-TTCACAT
*
9272296 TT-AAATTCAAAAGTTCGCATT
1 TTGAAATTCAAAAGTTCACA-T
*
9272317 TTGAAATTCAATAGTTC
1 TTGAAATTCAAAAGTTC
9272334 GCAAGATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.12
20 10 0.21
21 10 0.21
22 22 0.46
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (21 bp):
TTGAAATTCAAAAGTTCACAT
Found at i:9272352 original size:18 final size:18
Alignment explanation
Indices: 9272331--9272368 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9272321 AATTCAATAG
*
9272331 TTCGCAAGATTTCAAAGA
1 TTCGCAAGATATCAAAGA
*
9272349 TTCGCAAGGTATCAAAGA
1 TTCGCAAGATATCAAAGA
9272367 TT
1 TT
9272369 TCAAAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (18 bp):
TTCGCAAGATATCAAAGA
Found at i:9272382 original size:27 final size:27
Alignment explanation
Indices: 9272336--9272393 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9272326 AATAGTTCGC
*
9272336 AAGATTTCAAAGATTCGCAAGGTATCA
1 AAGATTTCAAAGATTCGCAAGATATCA
* *
9272363 AAGATTTCAAA-AGTTTGCAAGATTTCA
1 AAGATTTCAAAGA-TTCGCAAGATATCA
9272390 AAGA
1 AAGA
9272394 CGCATAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (27 bp):
AAGATTTCAAAGATTCGCAAGATATCA
Found at i:9272411 original size:45 final size:44
Alignment explanation
Indices: 9272323--9272413 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
9272313 CATTTTGAAA
* **
9272323 TTCAATAGTTCGCAAGATTTCAAAGATTCGCAAGGTATCAAAGAT
1 TTCAAAAGTTCGCAAGATTTCAAAGA-TCGCAAGAAATCAAAGAT
* *
9272368 TTCAAAAGTTTGCAAGATTTCAAAGA-CGCATAAGAAATTAAAGAT
1 TTCAAAAGTTCGCAAGATTTCAAAGATCGC--AAGAAATCAAAGAT
9272413 T
1 T
9272414 CGTAATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 3 0.08
45 36 0.92
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (44 bp):
TTCAAAAGTTCGCAAGATTTCAAAGATCGCAAGAAATCAAAGAT
Found at i:9272438 original size:18 final size:18
Alignment explanation
Indices: 9272402--9272439 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9272392 GACGCATAAG
*
9272402 AAATTAAAGATTCGTAAT
1 AAATTAAAGATTCGCAAT
*
9272420 AAATTAAAGATTTGCAAT
1 AAATTAAAGATTCGCAAT
9272438 AA
1 AA
9272440 TTCAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (18 bp):
AAATTAAAGATTCGCAAT
Found at i:9272850 original size:21 final size:21
Alignment explanation
Indices: 9272824--9272881 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9272814 AAAACTTTGG
*
9272824 AGATTCACATCCT-AAACTTAA
1 AGATTCACAT-CTGAAACTCAA
*
9272845 AGATTCACATTTGAAACTCAA
1 AGATTCACATCTGAAACTCAA
* *
9272866 AGATTCTCATTTGAAA
1 AGATTCACATCTGAAA
9272882 ATTCTTAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (21 bp):
AGATTCACATCTGAAACTCAA
Found at i:9273142 original size:22 final size:23
Alignment explanation
Indices: 9273100--9273142 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9273090 AGGTACTCTA
*
9273100 AGGTTTTAAAAGATCATTCTTGG
1 AGGTTTTAAAAGATCAATCTTGG
*
9273123 AGGTTTTATAA-ATCAATCTT
1 AGGTTTTAAAAGATCAATCTT
9273143 TGAAAAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (23 bp):
AGGTTTTAAAAGATCAATCTTGG
Found at i:9273304 original size:193 final size:192
Alignment explanation
Indices: 9273060--9273412 Score: 460
Period size: 193 Copynumber: 1.8 Consensus size: 192
9273050 CCTTGAGCTT
** * *
9273060 TTACAAATCATGAAAAATTCCTTTAAATGAAGGTACTCTAAGGTTTTAAAAGATCAT-TCTTGGA
1 TTACAAATCATGAAAAATTCCTTTAAAAAAAGGTACTCAAAGGTTTTAAAAGATCATAT-TTAGA
* * * * * * *
9273124 GGTTTTATAAATCAATCTTTGAAAAAAGCT-TCTTTAAAACAAAA-GTTCTACAACTTCAAATTT
65 GCTCTTACAAATCAAACTTTGAAAAAACCTCT-TTTAAAACAAAAGGATCTACAACTTCAAAATT
*** *
9273187 TGAAAAAAGGTACTTGGAGGTTTTAAAAATCATACCCAAAGGACTTTGAGAATATACCCGAAGTC
129 TG-AAAAAGGTACTCAAAAGTTTTAAAAATCATACCCAAAGGACTTTGAGAATATACCCGAAGTC
** *
9273252 TTACAAATCATGAAAGTTTTCTTTAAACAAAAGGTACTCAAAGGTTTTAAAAGATCATATTTAGA
1 TTACAAATCATGAAAAATTCCTTTAAA-AAAAGGTACTCAAAGGTTTTAAAAGATCATATTTAGA
* *
9273317 GCTCTTGCAAATCAAACTTTGAAAAAACCTCTTTTAAAACAAAAGGATCTACAACTTTAAAATTT
65 GCTCTTACAAATCAAACTTTGAAAAAACCTCTTTTAAAACAAAAGGATCTACAACTTCAAAATTT
*
9273382 GAAAATGGTACTCAAAAGTTTTAAAAATCAT
130 GAAAAAGGTACTCAAAAGTTTTAAAAATCAT
9273413 GCTCGAAGGT
Statistics
Matches: 136, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
192 24 0.18
193 92 0.68
194 20 0.15
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (192 bp):
TTACAAATCATGAAAAATTCCTTTAAAAAAAGGTACTCAAAGGTTTTAAAAGATCATATTTAGAG
CTCTTACAAATCAAACTTTGAAAAAACCTCTTTTAAAACAAAAGGATCTACAACTTCAAAATTTG
AAAAAGGTACTCAAAAGTTTTAAAAATCATACCCAAAGGACTTTGAGAATATACCCGAAGTC
Found at i:9273443 original size:22 final size:22
Alignment explanation
Indices: 9273394--9273443 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
9273384 AAATGGTACT
* * *
9273394 CAAAAGTTTTAAAAATCATGCT
1 CAAAGGTTTTAAAAATCAAGCC
* *
9273416 CGAAGGTTTTAAAGATCAAGCC
1 CAAAGGTTTTAAAAATCAAGCC
9273438 CAAAGG
1 CAAAGG
9273444 ACTTTGAGAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (22 bp):
CAAAGGTTTTAAAAATCAAGCC
Found at i:9273816 original size:71 final size:71
Alignment explanation
Indices: 9273735--9273908 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 71
9273725 CCAAATTATG
*
9273735 ATGCAAATGCAATTATCAAAACAAAGATTC-AAATATTCACCAAATAATGCAAATACAT-GGTCT
1 ATGC-AATGCAATTATCAAAACAATGATTCTAAATATTCACCAAATAATGCAAATACATAGGTC-
* *
9273798 AAATATCA
64 AAACAACA
* * *
9273806 ATGCATATGCAACATT-TC-AAACAATGA-TCTATATATTTACCAAATAATGCAAATGCATAGGT
1 ATGCA-ATGC-A-ATTATCAAAACAATGATTCTAAATATTCACCAAATAATGCAAATACATAGGT
9273868 CAAACAACA
63 CAAACAACA
*
9273877 ATGCCAATGCAA-TATTCAAAATAATGATTCTA
1 ATG-CAATGCAATTA-TCAAAACAATGATTCTA
9273909 TATGCCCTAG
Statistics
Matches: 86, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
68 1 0.01
69 1 0.01
70 6 0.07
71 62 0.72
72 13 0.15
73 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (71 bp):
ATGCAATGCAATTATCAAAACAATGATTCTAAATATTCACCAAATAATGCAAATACATAGGTCAA
ACAACA
Found at i:9280577 original size:21 final size:20
Alignment explanation
Indices: 9280539--9280578 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9280529 AATAACGGAA
* *
9280539 TGCTTTAAAAACTAAATAAG
1 TGCTTGAAAAACAAAATAAG
9280559 TGCTTGAAAAACAATAATAA
1 TGCTTGAAAAACAA-AATAA
9280579 AACGTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TGCTTGAAAAACAAAATAAG
Found at i:9285820 original size:9 final size:9
Alignment explanation
Indices: 9285806--9285837 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9285796 ATTTTGGGTA
9285806 ATTTTTTTT
1 ATTTTTTTT
9285815 A--TTTTTT
1 ATTTTTTTT
9285822 ATTTTTTTT
1 ATTTTTTTT
9285831 ATTTTTT
1 ATTTTTT
9285838 AATTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:9285827 original size:16 final size:17
Alignment explanation
Indices: 9285804--9285852 Score: 73
Period size: 16 Copynumber: 2.8 Consensus size: 17
9285794 CCATTTTGGG
9285804 TAATTTTTTTTATTTTT
1 TAATTTTTTTTATTTTT
9285821 T-ATTTTTTTTATTTTT
1 TAATTTTTTTTATTTTT
9285837 TAATTATTTATTTATT
1 TAATT-TTT-TTTATT
9285853 GATTTATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 16 0.55
17 4 0.14
18 3 0.10
19 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TAATTTTTTTTATTTTT
Found at i:9297332 original size:62 final size:62
Alignment explanation
Indices: 9297200--9297332 Score: 169
Period size: 61 Copynumber: 2.1 Consensus size: 62
9297190 GTAGAAACGT
* * * * *
9297200 CTTCAATAACCTTTATTAAATTTTTTGTAAAGGATTATTCAAGGCATTTTGGCCATAAATGC
1 CTTCAATAACCTCTATTAAAATTTTTGTAAAGGATTATTCAAGGCATTTTAGCAAAAAATGC
** * *
9297262 CTAGAATAA-CTCTATTAAAATTTTTGTAAGGGATTATTCAAGGCATTTCTAGTAAAAAATGC
1 CTTCAATAACCTCTATTAAAATTTTTGTAAAGGATTATTCAAGGCATTT-TAGCAAAAAATGC
9297324 CTTCAATAA
1 CTTCAATAA
9297333 TCTCAAAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 36 0.61
62 23 0.39
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (62 bp):
CTTCAATAACCTCTATTAAAATTTTTGTAAAGGATTATTCAAGGCATTTTAGCAAAAAATGC
Found at i:9297520 original size:62 final size:64
Alignment explanation
Indices: 9297369--9297524 Score: 153
Period size: 62 Copynumber: 2.5 Consensus size: 64
9297359 CATTGAAGGT
* * *
9297369 GTTTTTGGCCATAAATCCCTTGAATAAT-CCCTTACAAAAAATCTAATAGAGGTTATTCAAGGC
1 GTTTTTGGCCAAAAATGCCTTGAATAATCCCCTTACAAAAAATCTAATAGAGGTTATTCAAGAC
* * * * * ** *
9297432 ATTTTT-TCCAAAAAATGGCTTCAATAATCCCCTTA-TAAAAAT-TTTTAG-GGATTATTCAATA
1 GTTTTTGGCC-AAAAATGCCTTGAATAATCCCCTTACAAAAAATCTAATAGAGG-TTATTCAAGA
9297493 C
64 C
9297494 GTTTTTGGCCAAAAATGCCTTGAATAA-CCCC
1 GTTTTTGGCCAAAAATGCCTTGAATAATCCCC
9297525 ATTTAATTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
61 6 0.08
62 35 0.47
63 27 0.36
64 6 0.08
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (64 bp):
GTTTTTGGCCAAAAATGCCTTGAATAATCCCCTTACAAAAAATCTAATAGAGGTTATTCAAGAC
Found at i:9304089 original size:4 final size:5
Alignment explanation
Indices: 9304059--9304099 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
9304049 AAGTAGTGAA
9304059 AAAAC AAAAC AAAAC AAAAC AAAAC -AAAC -AAAC -AAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
9304100 AGAGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 12 0.34
5 23 0.66
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:9305243 original size:51 final size:51
Alignment explanation
Indices: 9305113--9305248 Score: 141
Period size: 52 Copynumber: 2.7 Consensus size: 51
9305103 ATTCAGATAA
* * * *
9305113 GAGA-TTTTTAAAGTGGCATAGCCTTTGTTTAAATGAGTTTTTTTACAAAT
1 GAGATTTTTTAAAGTTGCCTAGCCTTTGTTTAAAAGAGCTTTTTTACAAAT
* * * ** *
9305163 AAGATTTTTTTAAAGTTGTCAAGTTTTTGTTTAAAAGAGCTTTTTT-CTAGAT
1 GAGA-TTTTTTAAAGTTGCCTAGCCTTTGTTTAAAAGAGCTTTTTTAC-AAAT
*
9305215 GAGATTTTTTAAAGTTACCTAGCCTTTGTTTAAA
1 GAGATTTTTTAAAGTTGCCTAGCCTTTGTTTAAA
9305249 GAAGTTTTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
50 3 0.04
51 26 0.39
52 38 0.57
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.46
Consensus pattern (51 bp):
GAGATTTTTTAAAGTTGCCTAGCCTTTGTTTAAAAGAGCTTTTTTACAAAT
Found at i:9305586 original size:10 final size:9
Alignment explanation
Indices: 9305573--9305607 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
9305563 AAAAAAGAAA
9305573 AAAAATATAT
1 AAAAA-ATAT
9305583 AAAAAATAGT
1 AAAAAATA-T
9305593 AAAAAATAT
1 AAAAAATAT
9305602 AAAAAA
1 AAAAAA
9305608 ACCATCGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAAAATAT
Found at i:9306041 original size:24 final size:22
Alignment explanation
Indices: 9305989--9306042 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 22
9305979 AATTGTAGAC
9305989 AAAAATAAAAATATAAAAATAA
1 AAAAATAAAAATATAAAAATAA
*
9306011 ATGAAAATAAACAATAAAAAATTATAA
1 A--AAAATAAA-AATATAAAA--ATAA
9306038 AAAAA
1 AAAAA
9306043 GTAGTAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 1 0.04
24 8 0.31
25 12 0.46
27 5 0.19
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAATAAAAATATAAAAATAA
Found at i:9307451 original size:18 final size:18
Alignment explanation
Indices: 9307440--9307478 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
9307430 AAAAATTAGC
9307440 AAAT-TAAAAAAAATGAA
1 AAATATAAAAAAAATGAA
9307457 AAATATAAAAAAAATGAA
1 AAATATAAAAAAAATGAA
9307475 AAAT
1 AAAT
9307479 GAAAACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATATAAAAAAAATGAA
Found at i:9307671 original size:14 final size:14
Alignment explanation
Indices: 9307628--9307672 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9307618 TTTATTTCTC
9307628 AAAAAAATAATAAAT
1 AAAAAAATAA-AAAT
* * *
9307643 AAAATACTAATAAT
1 AAAAAAATAAAAAT
9307657 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
9307671 AA
1 AA
9307673 TGAAAGGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Done.