Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 35 of 163
Found at i:9301949 original size:28 final size:28
Alignment explanation
Indices: 9301904--9301976 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
9301894 CAATGTCCGT
9301904 TTACAAAAAAGACCCAAATTAAAGGCCCGA
1 TTAC-AAAAAG-CCCAAATTAAAGGCCCGA
* *
9301934 TTGCAAAAAGTCCAAATTAAAGGCCCGA
1 TTACAAAAAGCCCAAATTAAAGGCCCGA
9301962 TTACAAAAAGCCCAA
1 TTACAAAAAGCCCAA
9301977 TTGGGCTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 30 0.77
29 6 0.15
30 3 0.08
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.15
Consensus pattern (28 bp):
TTACAAAAAGCCCAAATTAAAGGCCCGA
Found at i:9303811 original size:162 final size:163
Alignment explanation
Indices: 9303514--9303825 Score: 425
Period size: 162 Copynumber: 1.9 Consensus size: 163
9303504 AGTTTTCAAT
* * * *
9303514 TTAATCCTTTGACTGTTTGACTAGACCAGAGGCTGCCACGTGACCCTTTTTTTGCTTATTTCTAC
1 TTAACCCTTTGACTGTTTGACTAGACCAGAGGCTGCCACGTGACCCTTTTTTGGCCTATTTATAC
* *
9303579 ATTTAGTCCCTGACATTTTTAATTTGTTTCAATTTAATCCCTAAATCAACTTTTATTTAATTATA
66 ATTTAGTCCCTGACATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACA
9303644 AAATTGG-CCCAATAATTTTTTGAGGTTTATAAA
131 AAATTGGTCCCAA-AATTTTTTGAGGTTTATAAA
* * *
9303677 TTAACCCTTTGACTGTTTGACT-GCACCAGAGGCTGCCACGTG-TCGTTTTTTGGCCTATTTATG
1 TTAACCCTTTGACTGTTTGACTAG-ACCAGAGGCTGCCACGTGACCCTTTTTTGGCCTATTTATA
** * * * *
9303740 CATTTAGT-CCTTTCTATTTTTAATTTATTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTA
65 CATTTAGTCCCTGAC-ATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTA
*
9303804 CAAAATTGGTCCGAAAATTTTT
129 CAAAATTGGTCCCAAAATTTTT
9303826 CAAGATTTTT
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
161 4 0.03
162 83 0.64
163 43 0.33
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (163 bp):
TTAACCCTTTGACTGTTTGACTAGACCAGAGGCTGCCACGTGACCCTTTTTTGGCCTATTTATAC
ATTTAGTCCCTGACATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACA
AAATTGGTCCCAAAATTTTTTGAGGTTTATAAA
Found at i:9303982 original size:31 final size:29
Alignment explanation
Indices: 9303926--9304071 Score: 114
Period size: 30 Copynumber: 4.9 Consensus size: 29
9303916 AAATTATCCA
* ** *
9303926 AAAATTACATTTCAACCCTAAAACTTTCT
1 AAAATTATATTTTGACCCCAAAACTTTCT
*
9303955 GAAAATTATATTTTGACCCCAAAAACTTTTCC
1 -AAAATTATATTTTGACCCC-AAAAC-TTTCT
* *
9303987 AAAATTACATTTTGACTCCAAAACTTTTCT
1 AAAATTATATTTTGACCCCAAAAC-TTTCT
* * * * *
9304017 AAAATTATACTTTAACCTCGAAACTTTCA
1 AAAATTATATTTTGACCCCAAAACTTTCT
* *
9304046 AAAATTACCATTTT-ACCCCCAAACTT
1 AAAATTA-TATTTTGACCCCAAAACTT
9304072 CCCTAAATCC
Statistics
Matches: 94, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
29 21 0.22
30 47 0.50
31 22 0.23
32 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCAAAACTTTCT
Found at i:9304021 original size:61 final size:59
Alignment explanation
Indices: 9303924--9304060 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 59
9303914 CTAAATTATC
* * *
9303924 CAAAAATTACATTTCAACCCTAAAACTTTCTGAAAATTATATTTTGACCCCAAAAACTTTT
1 CAAAAATTACATTTTAACCCTAAAACTTTCTGAAAATTATACTTTAACCCC-AAAAC-TTT
* * * *
9303985 CCAAAATTACATTTTGACTCC-AAAACTTTTCT-AAAATTATACTTTAACCTCGAAACTTT
1 CAAAAATTACATTTTAAC-CCTAAAAC-TTTCTGAAAATTATACTTTAACCCCAAAACTTT
9304044 CAAAAATTACCATTTTA
1 CAAAAATTA-CATTTTA
9304061 CCCCCAAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 11 0.17
60 10 0.16
61 36 0.56
62 7 0.11
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (59 bp):
CAAAAATTACATTTTAACCCTAAAACTTTCTGAAAATTATACTTTAACCCCAAAACTTT
Found at i:9304107 original size:59 final size:58
Alignment explanation
Indices: 9304044--9304240 Score: 198
Period size: 59 Copynumber: 3.4 Consensus size: 58
9304034 TCGAAACTTT
* *
9304044 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* ** * * * * * ** * **
9304103 CAAAACTTACCACCTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * *
9304162 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
9304220 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
9304241 TAAAAACCCA
Statistics
Matches: 104, Mismatches: 33, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
57 3 0.03
58 16 0.15
59 74 0.71
60 11 0.11
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.35
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:9316233 original size:76 final size:76
Alignment explanation
Indices: 9316033--9316983 Score: 1379
Period size: 76 Copynumber: 12.7 Consensus size: 76
9316023 AAAGCAATGT
* *
9316033 TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
*
9316098 ACG-TC--GT-C
66 A-GATCATTTCC
* * * *
9316106 ---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316166 AGATCATTTCC
66 AGATCATTTCC
* * *
9316177 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAATGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316242 AGATCATTTCC
66 AGATCATTTCC
* *
9316253 TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316318 AGATCATTTCC
66 AGATCATTTCC
* * *
9316329 TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGAAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
*
9316394 ACG-TC--GT-C
66 A-GATCATTTCC
* * * *
9316402 ---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316462 AGATCATTTCC
66 AGATCATTTCC
* * *
9316473 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAATGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316538 AGATCATTTCC
66 AGATCATTTCC
* *
9316549 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATATCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316614 AGATCATTTCC
66 AGATCATTTCC
* * * *
9316625 TATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
*
9316690 GGATCATTTCC
66 AGATCATTTCC
* *
9316701 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTTTTTATCTCCGAAAATGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316766 AGATCATTTCC
66 AGATCATTTCC
* *
9316777 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAGGTCTTTATCTCCGAAAATGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316842 AGATCATTTCC
66 AGATCATTTCC
*
9316853 TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
9316918 ACG-TCATTTCC
66 A-GATCATTTCC
9316929 TATCCGT-TTGAAATTGAAGTAGAA-TTCGG-TATCAAGTCTTTATCTCCGAAATTGA
1 TATCC-TCTTGAAATTGAAGTA-AAGTT-GGATATCAAGTCTTTATCTCCGAAATTGA
9316984 GCAAGACAAA
Statistics
Matches: 806, Mismatches: 49, Indels: 43
0.90 0.05 0.05
Matches are distributed among these distances:
67 2 0.00
68 81 0.10
69 36 0.04
70 6 0.01
71 2 0.00
73 1 0.00
74 5 0.01
75 34 0.04
76 633 0.79
77 6 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (76 bp):
TATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
AGATCATTTCC
Found at i:9316336 original size:152 final size:152
Alignment explanation
Indices: 9315884--9316983 Score: 1459
Period size: 152 Copynumber: 7.4 Consensus size: 152
9315874 TCAGACCAAA
* * * * * ** *
9315884 CAAGATCATTTCCAATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTGCATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
* **
9315948 TGAAGTAAGAGCAATG-TCA--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACATTTCTT
66 TGAAGTAAGAGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTT
* *
9316004 TATCTCTGAAATTGAAGCAAAAG
130 TATCTCTGAAATTGAAGTAAGAG
* * *
9316027 C---A--ATGT--TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
* * *
9316085 TGAAGTAAGAGCAACG-TC--GT-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTT
66 TGAAGTAAGAGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTT
9316141 TATCTCTGAAATTGAAGTAAGAG
130 TATCTCTGAAATTGAAGTAAGAG
* * *
9316164 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
9316229 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
9316294 ATCTCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* *
9316316 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
* * * *
9316381 TGAAGAAAGAGCAACG-TC--GT-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTT
66 TGAAGTAAGAGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTT
9316437 TATCTCTGAAATTGAAGTAAGAG
130 TATCTCTGAAATTGAAGTAAGAG
* * *
9316460 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
*
9316525 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
*
9316590 ATATCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* * * *
9316612 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
* * *
9316677 TGAAGTAAGAGCAGGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTTTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
* *
9316742 ATCTCCGAAAATGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* *
9316764 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAGGTCTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
9316829 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
*
9316894 ATCTCCGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
9316916 CAACG-TCATTTCCTATCCGT-TTGAAATTGAAGTAGAA-TTCGG-TATCAAGTCTTTATCTCCG
1 CAA-GATCATTTCCTATCC-TCTTGAAATTGAAGTA-AAGTT-GGATATCAAGTCTTTATCTCCG
9316977 AAATTGA
62 AAATTGA
9316984 GCAAGACAAA
Statistics
Matches: 863, Mismatches: 62, Indels: 55
0.88 0.06 0.06
Matches are distributed among these distances:
136 22 0.03
137 97 0.11
138 3 0.00
140 2 0.00
142 3 0.00
143 3 0.00
144 174 0.20
145 18 0.02
146 4 0.00
147 2 0.00
149 1 0.00
150 5 0.01
151 35 0.04
152 487 0.56
153 7 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (152 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCCGAAAT
TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
ATCTCTGAAATTGAAGTAAGAG
Found at i:9316567 original size:296 final size:296
Alignment explanation
Indices: 9315884--9316983 Score: 1610
Period size: 296 Copynumber: 3.7 Consensus size: 296
9315874 TCAGACCAAA
* * * * * ** * *
9315884 CAAGATCATTTCCAATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTGCATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAA
* **
9315948 TGAAGTAAGAGCAATG-TCA--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACATTTCTT
66 TGAAGTAAGAGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTT
* * *
9316004 TATCTCTGAAATTGAAGCAAAAGC---A--ATGT--TATCCTCTTGAAATTGAAGTAGAGTTGGA
130 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGA
9316062 TATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGT
195 TATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGT
9316127 GGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
260 GGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
*
9316164 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAA
9316229 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
9316294 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
131 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
*
9316359 ATCAAGTCTTTATCTCTGAAATTGAAGAAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGTG
196 ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGTG
9316424 GATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
261 GATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
*
9316460 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAA
*
9316525 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
* * *
9316590 ATATCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
131 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
* * * * *
9316655 AACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAGGATCATTTCCTATCCTCTTGAAATTGAAG
196 ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA--A-C--GT-C-GTCCCCTTGAAATTGAAG
* * * * * *
9316720 TAAAGTTGGATATCAAGTTTTTATCTCCGAAAATGAAGTAAGAG
254 TAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
* *
9316764 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAGGTCTTTATCTCCGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAA
9316829 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
* *
9316894 ATCTCCGAAATTGAAGTAAGAGCAACG-TCATTTCCTATCCGT-TTGAAATTGAAGTAGAATTCG
131 ATCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCTATCC-TCTTGAAATTGAAGTAGAGTT-G
*
9316957 G-TATCAAGTCTTTATCTCCGAAATTGA
193 GATATCAAGTCTTTATCTCTGAAATTGA
9316984 GCAAGACAAA
Statistics
Matches: 747, Mismatches: 45, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
280 35 0.05
281 37 0.05
283 1 0.00
284 1 0.00
287 2 0.00
288 18 0.02
289 34 0.05
292 1 0.00
294 3 0.00
296 353 0.47
298 1 0.00
299 1 0.00
301 1 0.00
302 1 0.00
303 20 0.03
304 234 0.31
305 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (296 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAA
TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTT
ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCGTCCCCTTGAAATTGAAGTAGAGTG
GATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
Found at i:9317278 original size:31 final size:29
Alignment explanation
Indices: 9317223--9317293 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
9317213 AAAGTTTGAA
*
9317223 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
9317252 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
9317283 TTAAATTTAAA
1 TTAAATTTAAA
9317294 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:9317290 original size:11 final size:11
Alignment explanation
Indices: 9317221--9317291 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
9317211 TTAAAGTTTG
*
9317221 AATTAATTTTA
1 AATTTATTTTA
*
9317232 AATTCATTTTTA
1 AATTTA-TTTTA
*
9317244 AATTTATCTTA
1 AATTTATTTTA
*
9317255 AATTTAAATTT-
1 AATTT-ATTTTA
*
9317266 -ACTTA-TTTA
1 AATTTATTTTA
9317275 AATTTATTTTA
1 AATTTATTTTA
9317286 AATTTA
1 AATTTA
9317292 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:9317302 original size:17 final size:17
Alignment explanation
Indices: 9317270--9317304 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9317260 AAATTTACTT
* *
9317270 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
9317287 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
9317304 A
1 A
9317305 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:9317386 original size:28 final size:28
Alignment explanation
Indices: 9317343--9317415 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 28
9317333 TAATGTCCAT
*
9317343 TTACAAAAAAGGCCCAAATTAAAGGCCCGA
1 TTAC-AAAAA-GCCCAAATTAAAGGCCCAA
9317373 TTACAAAAAGCCCAAATTAAAGGCCCAA
1 TTACAAAAAGCCCAAATTAAAGGCCCAA
9317401 TTACAAAAAGCCCAA
1 TTACAAAAAGCCCAA
9317416 TTGGGCTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 33 0.79
29 5 0.12
30 4 0.10
ACGTcount: A:0.49, C:0.25, G:0.12, T:0.14
Consensus pattern (28 bp):
TTACAAAAAGCCCAAATTAAAGGCCCAA
Found at i:9317403 original size:12 final size:13
Alignment explanation
Indices: 9317350--9317400 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
9317340 CATTTACAAA
9317350 AAAGGCCCAAATT
1 AAAGGCCCAAATT
*
9317363 AAAGGCCC-GATT
1 AAAGGCCCAAATT
*
9317375 ACAAAAAGCCCAAATT
1 ---AAAGGCCCAAATT
9317391 AAAGGCCCAA
1 AAAGGCCCAA
9317401 TTACAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
15 7 0.23
16 3 0.10
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAGGCCCAAATT
Found at i:9317415 original size:15 final size:15
Alignment explanation
Indices: 9317367--9317417 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
9317357 CAAATTAAAG
*
9317367 GCCCGATTACAAAAA
1 GCCCAATTACAAAAA
*
9317382 GCCCAAATT---AAAG
1 GCCC-AATTACAAAAA
9317395 GCCCAATTACAAAAA
1 GCCCAATTACAAAAA
9317410 GCCCAATT
1 GCCCAATT
9317418 GGGCTGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
12 4 0.14
13 7 0.24
15 15 0.52
16 3 0.10
ACGTcount: A:0.45, C:0.27, G:0.12, T:0.16
Consensus pattern (15 bp):
GCCCAATTACAAAAA
Found at i:9317574 original size:20 final size:20
Alignment explanation
Indices: 9317539--9317577 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9317529 GCCTATGCTG
9317539 CTGCCGACCACCAGCTCCAT
1 CTGCCGACCACCAGCTCCAT
9317559 CTGCC-ACCACCAAGCTCCA
1 CTGCCGACCACC-AGCTCCA
9317578 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.23, C:0.51, G:0.13, T:0.13
Consensus pattern (20 bp):
CTGCCGACCACCAGCTCCAT
Found at i:9319235 original size:161 final size:161
Alignment explanation
Indices: 9318957--9319261 Score: 427
Period size: 161 Copynumber: 1.9 Consensus size: 161
9318947 TCAATTTAAT
* * * *
9318957 CCTTTAACTGTTTGACTAGACCAGAGGCTGCCACGTGTCCCTTTTTTTTGCTTATTTCTACATTT
1 CCTTTAACTGTTTGACTAGACCAGAGGCTGCCACGTGT-CCATTTTTTGGCCTATTTATACATTT
*
9319022 AGTCCCTGACATTTTTAATTTGTTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAAT
65 AGTCCCTGACATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAAT
9319087 TGGCCCAATATTTTTCGAGGTTTATAAATTAGC
130 TGGCCCAA-ATTTTTCGAGGTTTATAAATTAGC
* *
9319120 CCTTTGACTGTTTGACT-GCACCAGAGGCTGCCACGTGT-CATTTTTTGGCCTATTTATGCATTT
1 CCTTTAACTGTTTGACTAG-ACCAGAGGCTGCCACGTGTCCATTTTTTGGCCTATTTATACATTT
** * * * *
9319183 AGT-CCTTTCTATTTTTAATTTATTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACAAAA
65 AGTCCCTGAC-ATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAA
*
9319247 TTGGTCCAAATTTTT
129 TTGGCCCAAATTTTT
9319262 TTAAGATTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
160 10 0.08
161 80 0.63
162 1 0.01
163 35 0.28
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (161 bp):
CCTTTAACTGTTTGACTAGACCAGAGGCTGCCACGTGTCCATTTTTTGGCCTATTTATACATTTA
GTCCCTGACATTTTTAATTTATTTCAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAATT
GGCCCAAATTTTTCGAGGTTTATAAATTAGC
Found at i:9319396 original size:29 final size:30
Alignment explanation
Indices: 9319359--9319546 Score: 240
Period size: 30 Copynumber: 6.3 Consensus size: 30
9319349 TCCTAAATTA
*
9319359 TCCAGAAATTATATTTTGACCCTAAAAC-TT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
9319389 TCCAAAATTATATTTTGA-CCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
9319418 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
9319447 TCTGAAAATTATATTTTGACCCCAAAACTTT
1 TC-CAAAATTATATTTTGACCCCAAAACTTT
* *
9319478 TCCAAAATTACATTTTGACTCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * * *
9319508 TCTAAAATTATACTTTAACCCCGAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
9319537 TCAAAAATTA
1 TCCAAAATTA
9319547 CCATTTTACC
Statistics
Matches: 140, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
28 7 0.05
29 48 0.34
30 81 0.58
31 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:9319485 original size:60 final size:59
Alignment explanation
Indices: 9319359--9319562 Score: 270
Period size: 60 Copynumber: 3.4 Consensus size: 59
9319349 TCCTAAATTA
* * *
9319359 TCCAGAAATTATATTTTGACCCTAAAACTTTCCAAAATTATATTTTGA-CCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTTCTAAAATTATATTTTGACCCCAAAACTTT
9319418 TCCAAAATTACATTTTGACCCCAAAACTTTCTGAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTTCT-AAAATTATATTTTGACCCCAAAACTTT
* * * *
9319478 TCCAAAATTACATTTTGACTCCAAAACTTTTCTAAAATTATACTTTAACCCCGAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAAC-TTTCTAAAATTATATTTTGACCCCAAAACTTT
*
9319537 TCAAAAATTACCATTTT-ACCCGCAAA
1 TCCAAAATTA-CATTTTGACCC-CAAA
9319563 CTTCCCTAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
58 25 0.19
59 33 0.25
60 68 0.52
61 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (59 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTCTAAAATTATATTTTGACCCCAAAACTTT
Found at i:9337694 original size:21 final size:21
Alignment explanation
Indices: 9337665--9337721 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
9337655 AACGGAAGTG
9337665 TTTGAACATGTGGCTAACACGT
1 TTTG-ACATGTGGCTAACACGT
* ****
9337687 TTTGACATGTGACTAGTGGGT
1 TTTGACATGTGGCTAACACGT
9337708 TTTGACATGTGGCT
1 TTTGACATGTGGCT
9337722 TGGGGGAACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (21 bp):
TTTGACATGTGGCTAACACGT
Found at i:9341780 original size:29 final size:30
Alignment explanation
Indices: 9341728--9341795 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
9341718 TCTTTTTAAA
*
9341728 TTTAAAATTTAATCCCTATAC-TTTTAT-T
1 TTTAAAATTTAATCCATATACTTTTTATGT
* *
9341756 TTTAAGAATTTAATCCATTTGCTTTTTATGT
1 TTTAA-AATTTAATCCATATACTTTTTATGT
9341787 TTTAAAATT
1 TTTAAAATT
9341796 CAGGTTCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.15
29 13 0.38
30 10 0.29
31 6 0.18
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTAAAATTTAATCCATATACTTTTTATGT
Found at i:9347074 original size:15 final size:15
Alignment explanation
Indices: 9347054--9347093 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
9347044 CTCTCGATTC
* *
9347054 ATTAACCTAATTTTT
1 ATTAACCCAAGTTTT
*
9347069 ATTAACCCGAGTTTT
1 ATTAACCCAAGTTTT
9347084 ATTAACCCAA
1 ATTAACCCAA
9347094 ACAGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (15 bp):
ATTAACCCAAGTTTT
Found at i:9350943 original size:3 final size:3
Alignment explanation
Indices: 9350935--9350960 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9350925 CTCTCTCTAT
9350935 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
9350961 TCCCTCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9360849 original size:30 final size:30
Alignment explanation
Indices: 9360785--9360856 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
9360775 AAGCCAGTAG
* *
9360785 GACTGTTTTGTCACTTTTCGATAACTTTAGT
1 GACTGTTTTGTCACTTTTC-AAAACTTGAGT
*
9360816 GACTGTTTTGTCACATTTT-AAAAGTTGAGT
1 GACTGTTTTGTCAC-TTTTCAAAACTTGAGT
9360846 GACTGTTTTGT
1 GACTGTTTTGT
9360857 TAAATGTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.51
31 14 0.38
32 4 0.11
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (30 bp):
GACTGTTTTGTCACTTTTCAAAACTTGAGT
Found at i:9361341 original size:13 final size:13
Alignment explanation
Indices: 9361325--9361366 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
9361315 TTTAGTATTT
9361325 ATTTTTTATTTTA
1 ATTTTTTATTTTA
**
9361338 ATTTAGTA-TTTA
1 ATTTTTTATTTTA
*
9361350 TTTTTTTATTTTA
1 ATTTTTTATTTTA
9361363 ATTT
1 ATTT
9361367 GAAGTAAATG
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:9361341 original size:24 final size:25
Alignment explanation
Indices: 9361314--9361366 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
9361304 AAGTATTAGC
9361314 ATTTAGTATTTA-TTTTTTATTTTA
1 ATTTAGTATTTATTTTTTTATTTTA
9361338 ATTTAGTATTTATTTTTTTATTTTA
1 ATTTAGTATTTATTTTTTTATTTTA
9361363 ATTT
1 ATTT
9361367 GAAGTAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (25 bp):
ATTTAGTATTTATTTTTTTATTTTA
Found at i:9370473 original size:17 final size:19
Alignment explanation
Indices: 9370439--9370473 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
9370429 CTAAACTTTT
9370439 AAAAAGTTTTACTAAAATG
1 AAAAAGTTTTACTAAAATG
9370458 AAAAA-TTTTA-TAAAAT
1 AAAAAGTTTTACTAAAAT
9370474 TGAGGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (19 bp):
AAAAAGTTTTACTAAAATG
Found at i:9379865 original size:17 final size:16
Alignment explanation
Indices: 9379843--9379882 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9379833 CATCAATAAA
*
9379843 AAAAATTTTAAAATCAT
1 AAAAATTTTAAAA-AAT
*
9379860 AAAAATATTAAAAAAT
1 AAAAATTTTAAAAAAT
9379876 AAAAATT
1 AAAAATT
9379883 CAAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTTTAAAAAAT
Found at i:9384356 original size:13 final size:13
Alignment explanation
Indices: 9384338--9384367 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9384328 CCTTCTGCAC
9384338 ATACTATAAAAAG
1 ATACTATAAAAAG
9384351 ATACTATAAAAAG
1 ATACTATAAAAAG
9384364 ATAC
1 ATAC
9384368 GGGCTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (13 bp):
ATACTATAAAAAG
Found at i:9389655 original size:17 final size:17
Alignment explanation
Indices: 9389607--9389654 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
9389597 GAGATTATTT
* *
9389607 TATTTAATTCATTTGATA
1 TATTTAAAT-ATTTTATA
9389625 TATTTAAATATTTTATA
1 TATTTAAATATTTTATA
9389642 TA-TTAAATATTTT
1 TATTTAAATATTTT
9389655 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.39
17 9 0.32
18 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTAAATATTTTATA
Found at i:9389674 original size:12 final size:13
Alignment explanation
Indices: 9389646--9389673 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9389636 TTTATATATT
9389646 AAATATTTTTTAA
1 AAATATTTTTTAA
9389659 AAATATTTTTTAA
1 AAATATTTTTTAA
9389672 AA
1 AA
9389674 TGAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:9393623 original size:58 final size:56
Alignment explanation
Indices: 9393517--9393640 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 56
9393507 TATAAAAGTG
**
9393517 TATTATT-TTTTATATTTAAATTTTTTCTTATATTATTATTGTAAAAATATGGAGAT
1 TATTATTATTTTATAAATAAATTTTTTCTTATATTATTATTGTAAAAATATGGAG-T
*
9393573 TATTATTATTTTGATAAATAAATATTTTT-TTATATTATTTATT-TAAAAATATTGAGT
1 TATTATTATTTT-ATAAATAAAT-TTTTTCTTATATTA-TTATTGTAAAAATATGGAGT
*
9393630 TATTCTTATTT
1 TATTATTATTT
9393641 AATATTTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
56 7 0.12
57 15 0.25
58 28 0.47
59 10 0.17
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (56 bp):
TATTATTATTTTATAAATAAATTTTTTCTTATATTATTATTGTAAAAATATGGAGT
Found at i:9393662 original size:58 final size:57
Alignment explanation
Indices: 9393471--9393658 Score: 147
Period size: 58 Copynumber: 3.3 Consensus size: 57
9393461 ATTTTAATTT
* * *
9393471 TATTTAATTTAATTTTCTT-T-TT-TTAATTTAAAAATATATAAAAGTGTATTATT-TTTTA
1 TATTTAATTT-ATTTTCTTATATTATTTATTTAAAAATAT-T--GAGT-TATTATTATTTAA
* * *
9393529 TATTTAAATT-TTTTCTTATATTA-TTATTGTAAAAATATGGAGATTATTATTATTTTGA
1 TATTTAATTTATTTTCTTATATTATTTATT-TAAAAATATTGAG-TTATTATTA-TTTAA
** * * *
9393587 TAAATAA-ATATTTTTTTATATTATTTATTTAAAAATATTGAGTTATTCTTATTTAA
1 TATTTAATTTATTTTCTTATATTATTTATTTAAAAATATTGAGTTATTATTATTTAA
9393643 TATTTAATTTAATTTT
1 TATTTAATTT-ATTTT
9393659 TTTAATTTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
56 25 0.24
57 12 0.12
58 53 0.51
59 14 0.13
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (57 bp):
TATTTAATTTATTTTCTTATATTATTTATTTAAAAATATTGAGTTATTATTATTTAA
Found at i:9393795 original size:15 final size:14
Alignment explanation
Indices: 9393770--9393823 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
9393760 TTATTTAAGT
9393770 TATTAATTTTTTTTG
1 TATT-ATTTTTTTTG
**
9393785 TATTATATTTTGGTG
1 TATTAT-TTTTTTTG
*
9393800 TATAATTTTTTTTG
1 TATTATTTTTTTTG
9393814 TATTAGTTTT
1 TATTA-TTTT
9393824 GTAATAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (14 bp):
TATTATTTTTTTTG
Found at i:9394306 original size:6 final size:6
Alignment explanation
Indices: 9394295--9394319 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9394285 GAATGATGAA
9394295 GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT G
9394320 CTGGCTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:9397558 original size:21 final size:21
Alignment explanation
Indices: 9397532--9397571 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9397522 TACTGGACTG
9397532 GGTCTTACAAGGTCAAGAAAA
1 GGTCTTACAAGGTCAAGAAAA
9397553 GGTCTTACAAGGTCAAGAA
1 GGTCTTACAAGGTCAAGAA
9397572 GATGAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (21 bp):
GGTCTTACAAGGTCAAGAAAA
Found at i:9402153 original size:31 final size:30
Alignment explanation
Indices: 9402110--9402176 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
9402100 TCTAAATTTT
*
9402110 TTTTGTCCAATTTGGTA-CTCAAACTTGACAC
1 TTTT-TCCAATTTGGTACCT-AAACTTAACAC
*
9402141 TTTTTCCTAATTTGGTACCTAAACTTAACAT
1 TTTTTCC-AATTTGGTACCTAAACTTAACAC
9402172 TTTTT
1 TTTTT
9402177 TAAAAGTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 3 0.09
31 27 0.84
32 2 0.06
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.46
Consensus pattern (30 bp):
TTTTTCCAATTTGGTACCTAAACTTAACAC
Found at i:9402589 original size:31 final size:30
Alignment explanation
Indices: 9402430--9402589 Score: 87
Period size: 31 Copynumber: 5.3 Consensus size: 30
9402420 AAAAGCTTCG
* *
9402430 GTACCAAATTAGGAAAAA-ATGCTTAGTTCAG
1 GTACCAAATTAGGAAAAATAT-C-AAGTTCAA
* * ** *
9402461 GTACTAAATTGGGTCAAA-A--AAGTTTAA
1 GTACCAAATTAGGAAAAATATCAAGTTCAA
*
9402488 GTATCAAATTAGGAAAAAAGTATCAAGTTCAA
1 GTACCAAATTAGG-AAAAA-TATCAAGTTCAA
* * ** * *
9402520 GTACCAAAAT-GGATAAAAAAAAAAGTTTAG
1 GTACCAAATTAGGA-AAAATATCAAGTTCAA
* *
9402550 GTATCAAATTAGGAAAAATTGTCAAGTTCAA
1 GTACCAAATTAGGAAAAA-TATCAAGTTCAA
9402581 GTACCAAAT
1 GTACCAAAT
9402590 GTTATATTAA
Statistics
Matches: 92, Mismatches: 29, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
27 15 0.16
28 3 0.03
30 21 0.23
31 38 0.41
32 15 0.16
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (30 bp):
GTACCAAATTAGGAAAAATATCAAGTTCAA
Found at i:9412060 original size:22 final size:22
Alignment explanation
Indices: 9412009--9412052 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9411999 CTCTGTACTA
9412009 AAAGAATTTACTGTACAAATTG
1 AAAGAATTTACTGTACAAATTG
9412031 AAAGAATTTACTGTACAAATTG
1 AAAGAATTTACTGTACAAATTG
9412053 GCTAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (22 bp):
AAAGAATTTACTGTACAAATTG
Found at i:9412692 original size:20 final size:20
Alignment explanation
Indices: 9412667--9412719 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9412657 TATGATACAA
9412667 ATGAGTAAAAGTAAAAGCTT
1 ATGAGTAAAAGTAAAAGCTT
9412687 ATGAGTAAAAGTAAAAGCTT
1 ATGAGTAAAAGTAAAAGCTT
* *
9412707 ATAAGTACAAGTA
1 ATGAGTAAAAGTA
9412720 TTTACATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.25
Consensus pattern (20 bp):
ATGAGTAAAAGTAAAAGCTT
Found at i:9424148 original size:26 final size:28
Alignment explanation
Indices: 9424119--9424177 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
9424109 AACATGGCTG
9424119 TATAAAAAATT-TT-AATAAATAAAA-AA
1 TATAAAAAATTATTAAAT-AATAAAATAA
* *
9424145 TATATAAAATTATTAAATATTAAAATAA
1 TATAAAAAATTATTAAATAATAAAATAA
9424173 TATAA
1 TATAA
9424178 TATAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.37
27 8 0.30
28 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TATAAAAAATTATTAAATAATAAAATAA
Found at i:9425657 original size:28 final size:28
Alignment explanation
Indices: 9425624--9425714 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
9425614 ATCGGGGTTA
*
9425624 AAAATGAAATTTTGGAAAGTTCGAGGGC
1 AAAATGAAATTTTGGAAAGTTCGAGGGT
* *
9425652 AAAATGGTAATTTTGGTGAAA--TCGAGGTT
1 AAAAT-GAAATTTT-G-GAAAGTTCGAGGGT
*
9425681 AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGAAATTTTGGAAAGTTCGAGGGT
9425709 AAAATG
1 AAAATG
9425715 GTAATTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 25 0.47
29 18 0.34
30 1 0.02
31 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAATGAAATTTTGGAAAGTTCGAGGGT
Found at i:9425682 original size:58 final size:59
Alignment explanation
Indices: 9425592--9425902 Score: 396
Period size: 59 Copynumber: 5.3 Consensus size: 59
9425582 AATTTGAGAT
* * * *
9425592 TAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCGAGGG
1 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGG
* * *
9425651 CAAAATGGTAA-TTTTGGTGAAATCGAGGTT-AAAATGGAATTTTGGAAAGTTCGAGGG
1 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGG
* *
9425708 TAAAATGGTAATTTTTGGTGAAATCGGGGTTTAAAATGGAATTTTA-AAGAGTT-TAGGGG
1 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAA-AGTTCGA-GGG
* * * * * *
9425767 TAAAATGGTAATTTTTGGTGAAATTGGGGTTTAAAATTGAATTTTAGAGAGTTTGGGGG
1 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGG
** * * *
9425826 TAAAATGGTAATTTTTGGTGAAATCGATGTTAAAAATGGAATTTTAGAAGGTTTGGGGG
1 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGG
9425885 TAAAATGGTAATTTTTGG
1 TAAAATGGTAATTTTTGG
9425903 AAGTTTTGGG
Statistics
Matches: 225, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
57 36 0.16
58 37 0.16
59 151 0.67
60 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.35
Consensus pattern (59 bp):
TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGG
Found at i:9425715 original size:28 final size:29
Alignment explanation
Indices: 9425631--9425904 Score: 130
Period size: 29 Copynumber: 9.3 Consensus size: 29
9425621 TTAAAAATGA
*
9425631 AATTTTGGAAAGTTCGAGGGCAAAATGGT
1 AATTTTGGAAAGTTCGAGGGTAAAATGGT
*
9425660 AATTTTGGTGAAA--TCGAGGTTAAAATGG-
1 AATTTT-G-GAAAGTTCGAGGGTAAAATGGT
9425688 AATTTTGGAAAGTTCGAGGGTAAAATGGT
1 AATTTTGGAAAGTTCGAGGGTAAAATGGT
9425717 AATTTTTGGTGAAA--TCG-GGGTTTAAAATGG-
1 AA-TTTT-G-GAAAGTTCGAGGG--TAAAATGGT
* *
9425747 AATTTT-AAAGAGTT-TAGGGGTAAAATGGT
1 AATTTTGGAA-AGTTCGA-GGGTAAAATGGT
*
9425776 AATTTTTGGTGAAA-TT-G-GGGTTTAAAATTG-
1 AA-TTTT-G-GAAAGTTCGAGGG--TAAAATGGT
* * * *
9425806 AATTTTAGAGAGTTTGGGGGTAAAATGGT
1 AATTTTGGAAAGTTCGAGGGTAAAATGGT
* *
9425835 AATTTTTGGTGAAA--TCGATGTTAAAAATGG-
1 AA-TTTT-G-GAAAGTTCGAGGGT-AAAATGGT
* * * *
9425865 AATTTTAGAAGGTTTGGGGGTAAAATGGT
1 AATTTTGGAAAGTTCGAGGGTAAAATGGT
9425894 AATTTTTGGAA
1 AA-TTTTGGAA
9425905 GTTTTGGGGT
Statistics
Matches: 187, Mismatches: 24, Indels: 67
0.67 0.09 0.24
Matches are distributed among these distances:
26 6 0.03
27 8 0.04
28 44 0.24
29 51 0.27
30 39 0.21
31 29 0.16
32 8 0.04
33 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (29 bp):
AATTTTGGAAAGTTCGAGGGTAAAATGGT
Found at i:9425908 original size:29 final size:29
Alignment explanation
Indices: 9425680--9425971 Score: 108
Period size: 29 Copynumber: 10.0 Consensus size: 29
9425670 AAATCGAGGT
* *
9425680 TAAAATGG-AA-TTTTGGAAAGTTCGAGGG
1 TAAAATGGTAATTTTTGG-AAGTTTGGGGG
* * *
9425708 TAAAATGGTAATTTTTGGTGAA-ATCGGGGTT
1 TAAAATGGTAATTTTT-G-GAAGTTTGGGG-G
** *
9425739 TAAAATGG-AA-TTTTAAAGAGTTTAGGGG
1 TAAAATGGTAATTTTTGGA-AGTTTGGGGG
* *
9425767 TAAAATGGTAATTTTTGGTGAA-ATTGGGGTT
1 TAAAATGGTAATTTTT-G-GAAGTTTGGGG-G
* *
9425798 TAAAATTG-AA-TTTTAGAGAGTTTGGGGG
1 TAAAATGGTAATTTTTGGA-AGTTTGGGGG
* * ** *
9425826 TAAAATGGTAATTTTTGGTGAA-ATCGATGT
1 TAAAATGGTAATTTTT-G-GAAGTTTGGGGG
*
9425856 TAAAAATGG-AA-TTTTAGAAGGTTTGGGGG
1 T-AAAATGGTAATTTTTGGAA-GTTTGGGGG
*
9425885 TAAAATGGTAATTTTTGGAAGTTTTGGGG
1 TAAAATGGTAATTTTTGGAAGTTTGGGGG
* * **
9425914 TCAGAAT-GTAATTTCTT-GAAATTTTAGGG
1 T-AAAATGGTAATTT-TTGGAAGTTTGGGGG
* *
9425943 TCAAAAT-GCAATTTTTGGATTGTTTGGGG
1 T-AAAATGGTAATTTTTGGA-AGTTTGGGG
9425972 ACCTATAAAC
Statistics
Matches: 195, Mismatches: 42, Indels: 52
0.67 0.15 0.18
Matches are distributed among these distances:
27 6 0.03
28 34 0.17
29 74 0.38
30 50 0.26
31 27 0.14
32 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGGAAGTTTGGGGG
Found at i:9425913 original size:30 final size:28
Alignment explanation
Indices: 9425858--9425913 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
9425848 ATCGATGTTA
9425858 AAAATGGAATTTTAGAAGGTTTGGGGGT
1 AAAATGGAATTTTAGAAGGTTTGGGGGT
* *
9425886 AAAATGGTAATTTTTGGAAGTTTTGGGG
1 AAAATGG-AA-TTTTAGAAGGTTTGGGG
9425914 TCAGAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 2 0.08
30 15 0.62
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAGGTTTGGGGGT
Found at i:9425949 original size:118 final size:115
Alignment explanation
Indices: 9425581--9425960 Score: 390
Period size: 118 Copynumber: 3.3 Consensus size: 115
9425571 AATTTCGAGA
** * * * * * *
9425581 AAATTTGAGATTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTC
1 AAATTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTT
* * * * * * *
9425646 GAGGGCAAAATGGTAATTTTGGTGAAATCGAGGTTAAAATGGAATTTTGG
66 GGGGGTAAAATGGTAATTTTTGTGAAATTGGGGTTAAAATGTAATTTTAG
* *
9425696 AAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTTAAAATGGAATTTTA-AAGAGT
1 AAA-TTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG-GT
*
9425760 TTAGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTTAAAAT-TGAATTTTAG
64 TTGGGGGTAAAATGGTAATTTTT-GTGAAATTGGGG-TTAAAATGT-AATTTTAG
* * **
9425814 AGAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGATGTTAAAAATGGAATTTTAGAAGGTT
1 A-AATTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
* * * *
9425879 TGGGGGTAAAATGGTAATTTTTG-GAAGTTTTGGGGTCAGAATGTAATTTCTTG
65 TGGGGGTAAAATGGTAATTTTTGTGAA--ATTGGGGTTAAAATGTAATTT-TAG
* *
9425932 AAATTTTAGGGTCAAAAT-GCAATTTTTGG
1 AAATTTGAGGGT-AAAATGGTAATTTTTGG
9425961 ATTGTTTGGG
Statistics
Matches: 220, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
115 5 0.02
116 69 0.31
117 39 0.18
118 103 0.47
119 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (115 bp):
AAATTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTT
GGGGGTAAAATGGTAATTTTTGTGAAATTGGGGTTAAAATGTAATTTTAG
Found at i:9426938 original size:6 final size:6
Alignment explanation
Indices: 9426929--9427032 Score: 87
Period size: 6 Copynumber: 18.0 Consensus size: 6
9426919 TTAATATCAT
* *
9426929 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* *
9426976 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA -TAAAA TTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9427021 TTTAAA CTTAAA
1 TTTAAA TTTAAA
9427033 AAATCAAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 3 0.04
5 19 0.24
6 51 0.65
7 1 0.01
8 5 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:9426938 original size:17 final size:17
Alignment explanation
Indices: 9426913--9427032 Score: 124
Period size: 17 Copynumber: 7.3 Consensus size: 17
9426903 TTTTAATTTA
* * *
9426913 TTAATTTTAATATCATT
1 TTAAATTTAATATAAAT
9426930 TTAAATTTAAT-TAAAT
1 TTAAATTTAATATAAAT
*
9426946 TTAAATTTAAAATAAAT
1 TTAAATTTAATATAAAT
9426963 TTAAA--TAA-ATAAAT
1 TTAAATTTAATATAAAT
*
9426977 TTAAATTTAAGATAAAT
1 TTAAATTTAATATAAAT
9426994 TTAAATTTAA-ATAAAAT
1 TTAAATTTAATAT-AAAT
* * *
9427011 TTAAAATTAATTTAAAC
1 TTAAATTTAATATAAAT
9427028 TTAAA
1 TTAAA
9427033 AAATCAAAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.12
15 3 0.03
16 18 0.20
17 57 0.63
18 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTAAATTTAATATAAAT
Found at i:9426952 original size:11 final size:11
Alignment explanation
Indices: 9426929--9427032 Score: 77
Period size: 11 Copynumber: 9.0 Consensus size: 11
9426919 TTAATATCAT
*
9426929 TTTAAATTTAA
1 TTTAAATTAAA
9426940 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
9426951 TTTAAAATAAA
1 TTTAAATTAAA
9426962 TTTAAATAAATAAA
1 TTTAAAT---TAAA
*
9426976 TTTAAATTTAA
1 TTTAAATTAAA
**
9426987 GATAAATTTAAA
1 TTTAAA-TTAAA
*
9426999 TTTAAATAAAA
1 TTTAAATTAAA
9427010 TTTAAAATT-AA
1 TTT-AAATTAAA
9427021 TTTAAACTTAAA
1 TTTAAA-TTAAA
9427033 AAATCAAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
10 8 0.11
11 35 0.48
12 19 0.26
14 11 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:9427441 original size:76 final size:76
Alignment explanation
Indices: 9427344--9427933 Score: 859
Period size: 76 Copynumber: 8.0 Consensus size: 76
9427334 TCTCCAGCTT
* * *
9427344 TTACTTCAATTTCA-AGCTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAAGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
*
9427408 TGATCTTGCTC
66 AGATCTTGCTC
*
9427419 TTACTTCAATTTCAGGGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
9427484 AGATCTTGCTC
66 AGATCTTGCTC
*
9427495 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT------
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
*
9427554 -GATGTTGCTC
66 AGATCTTGCTC
*
9427564 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
*
9427629 AGATCTTTCTC
66 AGATCTTGCTC
* ** * * * *
9427640 TTACTTCAATTTCGGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAGAGGATATGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
*
9427705 TGATCTTGCTC
66 AGATCTTGCTC
* *
9427716 TTACTTTAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
9427781 AGATCTTGCTC
66 AGATCTTGCTC
*
9427792 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--G--A
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
*
9427853 CG---TTGCTC
66 AGATCTTGCTC
* * *
9427861 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGAATAGGGAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
9427926 AGATCTTG
66 AGATCTTG
9427934 GTGCGGTCTA
Statistics
Matches: 460, Mismatches: 40, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
69 128 0.28
71 1 0.00
72 2 0.00
73 2 0.00
74 1 0.00
75 14 0.03
76 312 0.68
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (76 bp):
TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
AGATCTTGCTC
Found at i:9427751 original size:221 final size:221
Alignment explanation
Indices: 9427344--9427933 Score: 829
Period size: 221 Copynumber: 2.7 Consensus size: 221
9427334 TCTCCAGCTT
* *
9427344 TTACTTCAATTTCA-AGCTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAAGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGAT-AGAAA
*
9427408 TGATCTTGCTCTTACTTCAATTTCAGG-GATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA
65 AGATCTTGCTCTTACTTCAATTTC-GGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA
* *
9427472 GCGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTAC
129 GAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTAC
*
9427537 TTCAATTTCAAGCGGAT-GATGTTGCTC
194 TTCAATTTCAAGCGGATAGATCTTGCTC
*
9427564 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATA-GAAA
* ** * *
9427629 AGATCTTTCTCTTACTTCAATTTCGGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAG
65 AGATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
* * * *
9427694 AGGATATGAAATGATCTTGCTCTTACTTTAATTTCAGAGATAAAGACGTGTTATCCAACTCTACT
130 AGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACT
9427759 TCAATTTCAAGCGGATAGGAAAAGATCTTGCTC
195 TCAATTTCAAGCGGAT------AGATCTTGCTC
* *
9427792 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT-G--AC
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGAAAA
* * *
9427854 G---TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGC
66 GATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
* *
9427916 GAATAGGGAAAGATCTTG
131 GGATAGGAAAAGATCTTG
9427934 GTGCGGTCTA
Statistics
Matches: 329, Mismatches: 31, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
220 17 0.05
221 243 0.74
224 2 0.01
226 1 0.00
228 66 0.20
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (221 bp):
TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGAAAA
GATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTT
CAATTTCAAGCGGATAGATCTTGCTC
Found at i:9427840 original size:297 final size:296
Alignment explanation
Indices: 9427344--9427932 Score: 1052
Period size: 297 Copynumber: 2.0 Consensus size: 296
9427334 TCTCCAGCTT
* **
9427344 TTACTTCAATTTCAAGCTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAAGAAAT
1 TTACTTCAATTTCAAGATAAAGACTTAATATCCAACTCTACTTCAATTTCAAGAGGATAAGAAAT
* *
9427409 GATCTTGCTCTTACTTCAATTTCAGGGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGC
66 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGC
9427474 GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
131 GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
*
9427539 CAATTTCAAGCGGATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCT
196 CAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCT
*
9427604 ACTTCAATTTCAAGCGGATAGGAAAAGATCTTTCTC
261 ACTTCAATTTCAAGCGAATAGGAAAAGATCTTTCTC
* * * *
9427640 TTACTTCAATTTCGGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAGAGGATATGAAA
1 TTACTTCAATTTC-AAGATAAAGACTTAATATCCAACTCTACTTCAATTTCAAGAGGATAAGAAA
*
9427705 TGATCTTGCTCTTACTTTAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAG
65 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAG
9427770 CGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACT
130 CGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACT
9427835 TCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
195 TCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
*
9427900 TACTTCAATTTCAAGCGAATAGGGAAAGATCTT
260 TACTTCAATTTCAAGCGAATAGGAAAAGATCTT
9427933 GGTGCGGTCT
Statistics
Matches: 279, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
296 13 0.05
297 266 0.95
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (296 bp):
TTACTTCAATTTCAAGATAAAGACTTAATATCCAACTCTACTTCAATTTCAAGAGGATAAGAAAT
GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGC
GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
CAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCT
ACTTCAATTTCAAGCGAATAGGAAAAGATCTTTCTC
Found at i:9439947 original size:30 final size:29
Alignment explanation
Indices: 9439913--9440165 Score: 128
Period size: 30 Copynumber: 8.6 Consensus size: 29
9439903 AAATTTGGGA
9439913 TTAAAATGGTAATTTTCGGTGAAATCGAGG
1 TTAAAATGGTAATTTT-GGTGAAATCGAGG
*
9439943 TTAAAAAT-GAAATTTT-G-GAAAGTTC-AGGG
1 TT-AAAATGGTAATTTTGGTGAAA--TCGA-GG
* * *
9439972 GTAAAATGGTAATTTTTGGTGAAATTGGGG
1 TTAAAATGGTAA-TTTTGGTGAAATCGAGG
* * * **
9440002 TTTAAAATGG-AATTTTAGAG-AGTTTAGGG
1 -TTAAAATGGTAATTTTGGTGAAATCGA-GG
*
9440031 GTAAAATGGTAATTTTTGGTGAAATC-AGGG
1 TTAAAATGGTAA-TTTTGGTGAAATCGA-GG
* ** * *
9440061 TTTAAAATGG-AATTTTGGAGAGTTTGGGG
1 -TTAAAATGGTAATTTTGGTGAAATCGAGG
*
9440090 GTAAAATGGTAATTTTCGGTGAAATCGAGG
1 TTAAAATGGTAATTTT-GGTGAAATCGAGG
* ** *
9440120 TTTAAAATGG-AATTTTGGAGAGTTTGAGGG
1 -TTAAAATGGTAATTTTGGTGAAATCGA-GG
*
9440150 GTAAAATGGTAATTTT
1 TTAAAATGGTAATTTT
9440166 TGGAAGTTTT
Statistics
Matches: 168, Mismatches: 34, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
27 4 0.02
28 26 0.15
29 50 0.30
30 52 0.31
31 32 0.19
32 4 0.02
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.35
Consensus pattern (29 bp):
TTAAAATGGTAATTTTGGTGAAATCGAGG
Found at i:9439977 original size:59 final size:59
Alignment explanation
Indices: 9439914--9440165 Score: 389
Period size: 59 Copynumber: 4.3 Consensus size: 59
9439904 AATTTGGGAT
* * * *
9439914 TAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCAGGGG
1 TAAAATGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTTAGGGG
* * * *
9439973 TAAAATGGTAATTTTTGGTGAAATTGGGGTTTAAAATGGAATTTTAGAGAGTTTAGGGG
1 TAAAATGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTTAGGGG
* *
9440032 TAAAATGGTAATTTTTGGTGAAATC-AGGGTTTAAAATGGAATTTTGGAGAGTTTGGGGG
1 TAAAATGGTAATTTTCGGTGAAATCGA-GGTTTAAAATGGAATTTTGGAGAGTTTAGGGG
9440091 TAAAATGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTTGAGGGG
1 TAAAATGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTT-AGGGG
9440151 TAAAATGGTAATTTT
1 TAAAATGGTAATTTT
9440166 TGGAAGTTTT
Statistics
Matches: 176, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
59 156 0.89
60 20 0.11
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.35
Consensus pattern (59 bp):
TAAAATGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTTAGGGG
Found at i:9440179 original size:29 final size:29
Alignment explanation
Indices: 9439955--9440193 Score: 138
Period size: 29 Copynumber: 8.1 Consensus size: 29
9439945 AAAAATGAAA
*
9439955 TTTTGGAAAGTTCAGGGGTAAAATGGTAAT
1 TTTTGG-AAGTTTAGGGGTAAAATGGTAAT
*
9439985 TTTTGGTGAA-ATT-GGGGTTTAAAATGG-AA-
1 TTTT-G-GAAGTTTAGGGG--TAAAATGGTAAT
*
9440014 TTTTAGAGAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGA-AGTTTAGGGGTAAAATGGTAAT
* * *
9440044 TTTTGGTGAA-ATCAGGGTTTAAAATGG-AA-
1 TTTT-G-GAAGTTTAGGG-GTAAAATGGTAAT
*
9440073 TTTTGGAGAGTTTGGGGGTAAAATGGTAAT
1 TTTTGGA-AGTTTAGGGGTAAAATGGTAAT
* * ** **
9440103 TTTCGGTGAAATCGAGGTTTAAAATGG-AA-
1 TTT-TG-GAAGTTTAGGGGTAAAATGGTAAT
9440132 TTTTGGAGAGTTTGAGGGGTAAAATGGTAAT
1 TTTTGGA-AGTTT-AGGGGTAAAATGGTAAT
* *
9440163 TTTTGGAAGTTTTGGGGTCAGAAT-GTAAT
1 TTTTGGAAGTTTAGGGGT-AAAATGGTAAT
9440192 TT
1 TT
9440194 CCTAAAATTT
Statistics
Matches: 159, Mismatches: 27, Indels: 47
0.68 0.12 0.20
Matches are distributed among these distances:
27 6 0.04
28 22 0.14
29 48 0.30
30 38 0.24
31 40 0.25
32 5 0.03
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (29 bp):
TTTTGGAAGTTTAGGGGTAAAATGGTAAT
Found at i:9440223 original size:118 final size:118
Alignment explanation
Indices: 9439914--9440216 Score: 315
Period size: 118 Copynumber: 2.6 Consensus size: 118
9439904 AATTTGGGAT
* * * * ** * **
9439914 TAAAATGGTAATTTTCGGTGAAATC-GAGGTTAAAAATGAAATTTTGGAAAGTTCAGGGGTAAAA
1 TAAAATGGTAATTTTTGGTGAAATCAG-GGGTCAAAATGGAATTTCCGAAAATTTGGGGGTAAAA
* * *
9439978 TGGTAATTTTTGGTGAAATTGGGGTTTAAAATGGAATTTTAGAGAGTTTAGGGG
65 TGGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTAGAGAGTTTAGGGG
* * ** * *
9440032 TAAAATGGTAATTTTTGGTGAAATCAGGGTTTAAAATGGAATTTTGGAGAGTTTGGGGGTAAAAT
1 TAAAATGGTAATTTTTGGTGAAATCAGGGGTCAAAATGGAATTTCCGAAAATTTGGGGGTAAAAT
*
9440097 GGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTGGAGAGTTTGAGGGG
66 GGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTAGAGAGTTT-AGGGG
* ** * * * *
9440151 TAAAATGGTAATTTTT-G-GAAGTTTTGGGGTCAGAATGTAATTTCCTAAAATTTTGGGGTCAAA
1 TAAAATGGTAATTTTTGGTGAA-ATCAGGGGTCAAAATGGAATTTCCGAAAATTTGGGGGT-AAA
9440214 ATG
64 ATG
9440217 CAATTTTTGG
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
117 3 0.02
118 127 0.80
119 28 0.18
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (118 bp):
TAAAATGGTAATTTTTGGTGAAATCAGGGGTCAAAATGGAATTTCCGAAAATTTGGGGGTAAAAT
GGTAATTTTCGGTGAAATCGAGGTTTAAAATGGAATTTTAGAGAGTTTAGGGG
Found at i:9441440 original size:21 final size:21
Alignment explanation
Indices: 9441414--9441460 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9441404 ATAACATTAT
*
9441414 TATTATTAAAACATTTAATAC
1 TATTATCAAAACATTTAATAC
* *
9441435 TATTATCAGAACATTTATTAC
1 TATTATCAAAACATTTAATAC
9441456 TATTA
1 TATTA
9441461 ATGTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.45
Consensus pattern (21 bp):
TATTATCAAAACATTTAATAC
Found at i:9442219 original size:6 final size:6
Alignment explanation
Indices: 9442210--9442279 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
9442200 TTAATATCAT
*
9442210 TTTAAA TTT-AA -TTAAA TTTAAA TAAATAAA TTTAAA TTTAAGA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA
* *
9442257 TTTAAA ATT-AA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
9442280 AAATCAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
4 3 0.06
5 11 0.22
6 31 0.61
7 1 0.02
8 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:9442258 original size:11 final size:10
Alignment explanation
Indices: 9442212--9442273 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
9442202 AATATCATTT
*
9442212 TAAATTTAAT
1 TAAATTTAAA
9442222 TAAATTTAAA
1 TAAATTTAAA
9442232 TAAA--TAAA
1 TAAATTTAAA
9442240 TTTAAATTTAAGA
1 --TAAATTTAA-A
9442253 TAAATTTAAAA
1 TAAATTT-AAA
*
9442264 TTAATTTAAA
1 TAAATTTAAA
9442274 CTTAAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 4 0.09
10 20 0.45
11 14 0.32
12 5 0.11
13 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:9442273 original size:17 final size:16
Alignment explanation
Indices: 9442210--9442267 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 16
9442200 TTAATATCAT
* *
9442210 TTTAAATTTAATTAAA
1 TTTAAAATTAAATAAA
9442226 TTT-AAA-TAAATAAA
1 TTTAAAATTAAATAAA
*
9442240 TTTAAATTTAAGATAAA
1 TTTAAAATTAA-ATAAA
9442257 TTTAAAATTAA
1 TTTAAAATTAA
9442268 TTTAAACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 10 0.29
15 4 0.11
16 6 0.17
17 15 0.43
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAAATTAAATAAA
Found at i:9445980 original size:48 final size:48
Alignment explanation
Indices: 9445928--9446081 Score: 118
Period size: 48 Copynumber: 3.1 Consensus size: 48
9445918 TAAAACATAT
9445928 GTCAAACCAAAACAGATTACTAAGAAATCCCTCAATTTCTTAGACATG
1 GTCAAACCAAAACAGATTACTAAGAAATCCCTCAATTTCTTAGACATG
* * * *** ** * * *
9445976 GTCAAACTAATACA-ACTTTAC-AGAGCTCAAGAAC-CAA-AACATAAAACATAT
1 GTCAAACCAAAACAGA--TTACTA-AG--AAATCCCTCAATTTC-TTAGACAT-G
9446027 GTCAAACCAAAACAGATTACTAAGAAATCCCTCAATTTCTTAGACATG
1 GTCAAACCAAAACAGATTACTAAGAAATCCCTCAATTTCTTAGACATG
9446075 GTCAAAC
1 GTCAAAC
9446082 TAATACAACT
Statistics
Matches: 73, Mismatches: 22, Indels: 22
0.62 0.19 0.19
Matches are distributed among these distances:
47 1 0.01
48 23 0.32
49 16 0.22
50 16 0.22
51 16 0.22
52 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (48 bp):
GTCAAACCAAAACAGATTACTAAGAAATCCCTCAATTTCTTAGACATG
Found at i:9446019 original size:99 final size:99
Alignment explanation
Indices: 9445894--9446091 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
9445884 TTTAAGCAAA
9445894 TTACAGAGCTCAAGAACCAAAACATAAAACATATGTCAAACCAAAACAGATTACTAAGAAATCCC
1 TTACAGAGCTCAAGAACCAAAACATAAAACATATGTCAAACCAAAACAGATTACTAAGAAATCCC
9445959 TCAATTTCTTAGACATGGTCAAACTAATACAACT
66 TCAATTTCTTAGACATGGTCAAACTAATACAACT
9445993 TTACAGAGCTCAAGAACCAAAACATAAAACATATGTCAAACCAAAACAGATTACTAAGAAATCCC
1 TTACAGAGCTCAAGAACCAAAACATAAAACATATGTCAAACCAAAACAGATTACTAAGAAATCCC
9446058 TCAATTTCTTAGACATGGTCAAACTAATACAACT
66 TCAATTTCTTAGACATGGTCAAACTAATACAACT
9446092 ACTATATAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.22
Consensus pattern (99 bp):
TTACAGAGCTCAAGAACCAAAACATAAAACATATGTCAAACCAAAACAGATTACTAAGAAATCCC
TCAATTTCTTAGACATGGTCAAACTAATACAACT
Found at i:9448590 original size:22 final size:22
Alignment explanation
Indices: 9448564--9448610 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
9448554 TGTTTGTTGT
9448564 CAAAAGGTTAAGAAAATATAAA
1 CAAAAGGTTAAGAAAATATAAA
9448586 CAAAAGGTTAAGAAAATATAAA
1 CAAAAGGTTAAGAAAATATAAA
9448608 CAA
1 CAA
9448611 TTACTACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.64, C:0.06, G:0.13, T:0.17
Consensus pattern (22 bp):
CAAAAGGTTAAGAAAATATAAA
Found at i:9456805 original size:21 final size:21
Alignment explanation
Indices: 9456757--9456804 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
9456747 ATAATCAATC
*
9456757 TCAAAACACCATTCCAACTAA
1 TCAAAACACCATTCAAACTAA
9456778 TCAAAACA-CATTCAAACATAA
1 TCAAAACACCATTCAAAC-TAA
9456799 TGCAAA
1 T-CAAA
9456805 CTAACATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 12 0.50
22 4 0.17
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (21 bp):
TCAAAACACCATTCAAACTAA
Found at i:9458217 original size:48 final size:48
Alignment explanation
Indices: 9458164--9458261 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
9458154 AATCCGAAGT
*
9458164 AAGAATTAAATTAATTATTCATCATGAATTTGTTGAATAAGGCAATTA
1 AAGAATTAAACTAATTATTCATCATGAATTTGTTGAATAAGGCAATTA
*
9458212 AAGAATTAAACTAATTATTCATCATGAATTTGTTGAATAAGGTAATTA
1 AAGAATTAAACTAATTATTCATCATGAATTTGTTGAATAAGGCAATTA
9458260 AA
1 AA
9458262 TATAGTCACT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (48 bp):
AAGAATTAAACTAATTATTCATCATGAATTTGTTGAATAAGGCAATTA
Found at i:9465969 original size:10 final size:10
Alignment explanation
Indices: 9465956--9466053 Score: 59
Period size: 10 Copynumber: 10.3 Consensus size: 10
9465946 TTTTAATTTT
9465956 TTTTTAATAA
1 TTTTTAATAA
*
9465966 TTTTCT-A-CA
1 TTTT-TAATAA
9465975 TTTTT-ATAA
1 TTTTTAATAA
*
9465984 TGTTTTAATAC
1 T-TTTTAATAA
*
9465995 TTTCTAATAA
1 TTTTTAATAA
9466005 TTTTT--TAA
1 TTTTTAATAA
*
9466013 --ATTAATAA
1 TTTTTAATAA
*
9466021 CTATTT-ATAA
1 -TTTTTAATAA
9466031 TTTTTAATAA
1 TTTTTAATAA
*
9466041 TTTTTAATGA
1 TTTTTAATAA
9466051 TTT
1 TTT
9466054 CTTACAACTT
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
6 2 0.03
8 8 0.12
9 11 0.16
10 40 0.59
11 7 0.10
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:9466339 original size:15 final size:15
Alignment explanation
Indices: 9466315--9466344 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9466305 ATTATTTTTT
9466315 TATTTAAAAAATATA
1 TATTTAAAAAATATA
*
9466330 TATTTTAAAAATATA
1 TATTTAAAAAATATA
9466345 ACACAATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTTAAAAAATATA
Found at i:9466922 original size:31 final size:29
Alignment explanation
Indices: 9466853--9466926 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
9466843 ACAAAATACT
*
9466853 AACATAAGTGACTAAAAAGTAACATTTCA
1 AACATAAGTGACTAAAAAGTAACATGTCA
* *
9466882 AACATAAGTGACTAAAACGTAACCTGAGTCA
1 AACATAAGTGACTAAAAAGTAACAT--GTCA
*
9466913 AACAAAAGTGACTA
1 AACATAAGTGACTA
9466927 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAAAGTAACATGTCA
Found at i:9467678 original size:29 final size:28
Alignment explanation
Indices: 9467621--9467677 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
9467611 CCCGAATTTT
*
9467621 AGGGTTTTTGACCTAAATAATACAAAAA
1 AGGGTTTTTAACCTAAATAATACAAAAA
*
9467649 AGGGTTTTTAATCTAAATAATACAAAAA
1 AGGGTTTTTAACCTAAATAATACAAAAA
9467677 A
1 A
9467678 ATTATACACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (28 bp):
AGGGTTTTTAACCTAAATAATACAAAAA
Found at i:9467995 original size:15 final size:15
Alignment explanation
Indices: 9467975--9468005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9467965 ATATTTTTAT
9467975 ATTAAAAAAAATTAA
1 ATTAAAAAAAATTAA
*
9467990 ATTAAATAAAATTAA
1 ATTAAAAAAAATTAA
9468005 A
1 A
9468006 ATTTGACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATTAAAAAAAATTAA
Found at i:9473957 original size:17 final size:17
Alignment explanation
Indices: 9473935--9473968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9473925 CTTACAATAA
*
9473935 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
9473952 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
9473969 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:9474709 original size:16 final size:15
Alignment explanation
Indices: 9474675--9474703 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9474665 CTTCCTCCTT
9474675 AATATTTATAATTAA
1 AATATTTATAATTAA
9474690 AATATTT-TAATTAA
1 AATATTTATAATTAA
9474704 TAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTATAATTAA
Found at i:9475083 original size:18 final size:18
Alignment explanation
Indices: 9475060--9475102 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9475050 GAATTGGTTT
9475060 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
9475078 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
9475096 TTAATTA
1 TTAATTA
9475103 CACATTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:9493067 original size:15 final size:15
Alignment explanation
Indices: 9493020--9493069 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9493010 GTTTTATCAA
*
9493020 TTTTAGTCCTTGTATC
1 TTTTAATCCTTGTA-C
9493036 TTTTAAAT--TTGTCAC
1 TTTT-AATCCTTGT-AC
9493051 TTTTAATCCTTGTAC
1 TTTTAATCCTTGTAC
9493066 TTTT
1 TTTT
9493070 CAAATATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 9 0.31
17 2 0.07
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (15 bp):
TTTTAATCCTTGTAC
Found at i:9493801 original size:10 final size:11
Alignment explanation
Indices: 9493775--9493805 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
9493765 TAATAACTAA
9493775 AAAAGAAAAAGT
1 AAAA-AAAAAGT
9493787 AAAAAAAAAGT
1 AAAAAAAAAGT
9493798 AAAAAAAA
1 AAAAAAAA
9493806 CTTTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAGT
Found at i:9494845 original size:22 final size:23
Alignment explanation
Indices: 9494801--9494845 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
9494791 ATTAACTTGG
*
9494801 AAAGTTAAATAAATTAATTTTAA
1 AAAGTTAAATAAATTAATATTAA
* *
9494824 AAAGTTAGA-AAATTAGTATTAA
1 AAAGTTAAATAAATTAATATTAA
9494846 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAGTTAAATAAATTAATATTAA
Found at i:9495747 original size:26 final size:25
Alignment explanation
Indices: 9495710--9495777 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
9495700 TTTAATCATT
*
9495710 TAAAAATCTTAAAAATTAAAAATTTA
1 TAAAAATTTTAAAAATT-AAAATTTA
* * **
9495736 TGAAAATTTTAAAAAATCCAATTTA
1 TAAAAATTTTAAAAATTAAAATTTA
9495761 TAAAAATTATTAAAAAT
1 TAAAAATT-TTAAAAAT
9495778 ATATTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (25 bp):
TAAAAATTTTAAAAATTAAAATTTA
Found at i:9498355 original size:7 final size:7
Alignment explanation
Indices: 9498318--9498343 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9498308 TTCAAAACTC
9498318 AAATTTT
1 AAATTTT
9498325 AAATTTT
1 AAATTTT
9498332 AAATTTT
1 AAATTTT
9498339 AAATT
1 AAATT
9498344 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:9498367 original size:24 final size:25
Alignment explanation
Indices: 9498320--9498367 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
9498310 CAAAACTCAA
* *
9498320 ATTTTAAATTTTAAATTTTAAATTC
1 ATTTTAAATTTTAAATGTCAAATTC
*
9498345 ATTTTAAA-TTTAAATGTCCAATT
1 ATTTTAAATTTTAAATGTCAAATT
9498368 TACATCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTAAATTTTAAATGTCAAATTC
Found at i:9499950 original size:11 final size:11
Alignment explanation
Indices: 9499931--9500003 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
9499921 AAGAAAAAGA
9499931 AAAATAATAAAT
1 AAAA-AATAAAT
*
9499943 AATAAAT-AAT
1 AAAAAATAAAT
* *
9499953 AAAAAAGAAAG
1 AAAAAATAAAT
*
9499964 AAAAAATAAAA
1 AAAAAATAAAT
9499975 ATAAAAATAAA-
1 A-AAAAATAAAT
* *
9499986 AAAGAAAAAAAG
1 AAA-AAATAAAT
9499998 AAAAAA
1 AAAAAA
9500004 AGGGAAAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
10 10 0.20
11 25 0.50
12 15 0.30
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:9499951 original size:14 final size:13
Alignment explanation
Indices: 9499898--9499987 Score: 69
Period size: 12 Copynumber: 6.9 Consensus size: 13
9499888 GATGAAGAAA
9499898 AATAAATAAATAA-
1 AATAAATAAA-AAT
* * *
9499911 AAGAAAGAAAAAG
1 AATAAATAAAAAT
*
9499924 AA-AAAGAAAAAT
1 AATAAATAAAAAT
9499936 AATAAATAATAAAT
1 AATAAATAA-AAAT
* *
9499950 AATAAAAAAGAAAG
1 AATAAATAA-AAAT
*
9499964 AAAAAATAAAAAT
1 AATAAATAAAAAT
9499977 AA-AAATAAAAA
1 AATAAATAAAAA
9499988 AGAAAAAAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
12 22 0.34
13 20 0.31
14 22 0.34
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (13 bp):
AATAAATAAAAAT
Found at i:9499958 original size:30 final size:28
Alignment explanation
Indices: 9499924--9499996 Score: 101
Period size: 30 Copynumber: 2.5 Consensus size: 28
9499914 AAAGAAAAAG
*
9499924 AAAAAGAAAAATAATAAATAATAAATAATA
1 AAAAAGAAAAAAAATAAA-AATAAA-AATA
9499954 AAAAAGAAAGAAAAAATAAAAATAAAAATA
1 AAAAAG-AA-AAAAAATAAAAATAAAAATA
9499984 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
9499997 GAAAAAAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 5 0.12
29 2 0.05
30 16 0.40
31 8 0.20
32 9 0.22
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (28 bp):
AAAAAGAAAAAAAATAAAAATAAAAATA
Found at i:9499980 original size:5 final size:6
Alignment explanation
Indices: 9499918--9499987 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
9499908 TAAAAGAAAG
* * * *
9499918 AAAAAG AAAAAG AAAAAT AATAAAT AATAAAT AATAAAA AAGAAAGA AAAAAT
1 AAAAAT AAAAAT AAAAAT AA-AAAT AA-AAAT AA-AAAT AA-AAA-T AAAAAT
9499971 AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAA
9499988 AGAAAAAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
6 30 0.52
7 25 0.43
8 3 0.05
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:9499998 original size:34 final size:35
Alignment explanation
Indices: 9499895--9500003 Score: 120
Period size: 34 Copynumber: 3.1 Consensus size: 35
9499885 TTCGATGAAG
*
9499895 AAAAATAAATAAATAA-AAGA-AAGAAAAAGAAAAAG-
1 AAAAAT-AATAAATAATAA-ATAA-AAAAAAAAAAAGA
* *
9499930 AAAAATAATAAATAATAAATAATAAAAAAGAAAGA
1 AAAAATAATAAATAATAAATAAAAAAAAAAAAAGA
9499965 AAAAATAA-AAATAA-AAATAAAAAAGAAAAAAAGA
1 AAAAATAATAAATAATAAATAAAAAA-AAAAAAAGA
9499999 AAAAA
1 AAAAA
9500004 AGGGAAAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
33 9 0.14
34 38 0.58
35 18 0.28
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (35 bp):
AAAAATAATAAATAATAAATAAAAAAAAAAAAAGA
Found at i:9500003 original size:46 final size:46
Alignment explanation
Indices: 9499898--9500005 Score: 123
Period size: 47 Copynumber: 2.4 Consensus size: 46
9499888 GATGAAGAAA
* * *
9499898 AATAAAT-AAATAAAAGAAAGAAAAAGAAAAAGAAAAATAATAAAT
1 AATAAATAAAAAAAAAGAAAGAAAAAGAAAAAGAAAAATAAAAAAG
* * *
9499943 AATAAATAATAAAAAAGAAAGAAAAAATAAAAATAAAAATAAAAAAG
1 AATAAATAAAAAAAAAGAAAG-AAAAAGAAAAAGAAAAATAAAAAAG
9499990 AA-AAA-AAGAAAAAAAG
1 AATAAATAA-AAAAAAAG
9500006 GGAAAAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 9 0.17
46 21 0.40
47 23 0.43
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (46 bp):
AATAAATAAAAAAAAAGAAAGAAAAAGAAAAAGAAAAATAAAAAAG
Found at i:9500011 original size:10 final size:8
Alignment explanation
Indices: 9499955--9500005 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
9499945 TAAATAATAA
9499955 AAAAGAAAG
1 AAAA-AAAG
9499964 AAAAAATA-
1 AAAAAA-AG
*
9499972 AAAATAAAA
1 AAAA-AAAG
9499981 ATAAAAAAG
1 A-AAAAAAG
9499990 AAAAAAAG
1 AAAAAAAG
9499998 AAAAAAAG
1 AAAAAAAG
9500006 GGAAAAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
8 22 0.59
9 12 0.32
10 3 0.08
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9501422 original size:39 final size:39
Alignment explanation
Indices: 9501372--9501455 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
9501362 CCTTACCCCA
* ** * *
9501372 ATCATGGGGCAAATTGTAGCCACTCGATCTTTTACCTTG
1 ATCATGAGGCAAATTACAGCCACCCGATCTTTTACCTCG
*
9501411 ATCATGAGGCAAATTACGGCCACCCGATCTTTTACCTCG
1 ATCATGAGGCAAATTACAGCCACCCGATCTTTTACCTCG
9501450 ATCATG
1 ATCATG
9501456 GGGTAATTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
ATCATGAGGCAAATTACAGCCACCCGATCTTTTACCTCG
Found at i:9501852 original size:85 final size:85
Alignment explanation
Indices: 9501691--9501889 Score: 227
Period size: 85 Copynumber: 2.3 Consensus size: 85
9501681 TTCAAACCTT
* * *
9501691 CATCTTCCTGATAAGATACAAAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGATAAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGACAAGAT
9501756 AAAGAAAAGTGAACCAAATC
66 AAAGAAAAGTGAACCAAATC
* * ** * * ** *
9501776 CATCTTCTTGATGAGATATAGAGAAGTGGGTCGAAGCAATAAAGTGATCATCTTCTTGACGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGACAAGAT
** ** *
9501841 GTAGAGGAGTGAACCAAATT
66 AAAGAAAAGTGAACCAAATC
* *
9501861 CGTCTTCCTGATGAGGTACAGAGAAGTGG
1 CATCTTCCTGATGAGATACAGAGAAGTGG
9501890 ATTAAAATAA
Statistics
Matches: 93, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (85 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGACAAGAT
AAAGAAAAGTGAACCAAATC
Found at i:9501912 original size:85 final size:85
Alignment explanation
Indices: 9501691--9501925 Score: 211
Period size: 85 Copynumber: 2.8 Consensus size: 85
9501681 TTCAAACCTT
* * * * * ** **
9501691 CATCTTCCTGATAAGATACAAAGAAGTGGGT-AAAAGCAATAAAGCGATCACCTTCCCGATAAGA
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAA-CAATAAAGTGATCATCTTCTTGACGAGA
** **
9501755 TAAAGAAAAGTGAACCAAATC
65 TGTAGAGGAGTGAACCAAATC
* * * * *
9501776 CATCTTCTTGATGAGATATAGAGAAGTGGGTCGAAGCAATAAAGTGATCATCTTCTTGACGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGATCATCTTCTTGACGAGAT
*
9501841 GTAGAGGAGTGAACCAAATT
66 GTAGAGGAGTGAACCAAATC
* * * * * * * *
9501861 CGTCTTCCTGATGAGGTACAGAGAAGTGGATTAAAATAATGAGGTGGTCATCTTCTTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGATCATCTTCTTGACGAGAT
9501926 ACTGAGAAGT
Statistics
Matches: 119, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
85 117 0.98
86 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (85 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGATCATCTTCTTGACGAGAT
GTAGAGGAGTGAACCAAATC
Found at i:9502062 original size:294 final size:294
Alignment explanation
Indices: 9501513--9502154 Score: 912
Period size: 294 Copynumber: 2.2 Consensus size: 294
9501503 TACAGTCATC
*
9501513 CGAAGCAATAAAGTGGTCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
1 CGAAGCAATAAAGTGATCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
9501578 TGAGATACAGAGAAGTGGATTAAAATAATAAGGCGGTCATCTTCCTGATAAGATACTAAGAAGTA
66 TGAGATACAGAGAAGTGGATTAAAATAATAAGGCGGTCATCTTCCTGATAAGATACTAAGAAGTA
* * **
9501643 GACCAAATTAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCTTCATCTTCCTGATAAGAT
131 GACCAAATCAATGAAGCGAAGCTCAATATGAGTGAAACTTCAAACCCCCATCTTCCTGATAAGAT
9501708 ACAAAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGATAAGATAAAGAAAAGTGAACCAA
196 ACAAAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGATAAGATAAAGAAAAGTGAACCAA
* * *
9501773 ATCCATCTTCTTGATGAGATATAGAGAAGTGGGT
261 ATCCATCTTCCTAATGAGATACAGAGAAGTGGGT
* ** * *
9501807 CGAAGCAATAAAGTGATCATCTTCTTGACGAGATGTAGAGGAGTGAACCAAATTCGTCTTCCTGA
1 CGAAGCAATAAAGTGATCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
* * * * * *
9501872 TGAGGTACAGAGAAGTGGATTAAAATAATGAGGTGGTCATCTTCTTGATGAGATACTGAGAAGTA
66 TGAGATACAGAGAAGTGGATTAAAATAATAAGGCGGTCATCTTCCTGATAAGATACTAAGAAGTA
*
9501937 GACCAAATCAATGAAGCGAAGCTCAATATGAGTGAATCTTCAAACCCCCATCTTCCTGATAAGAT
131 GACCAAATCAATGAAGCGAAGCTCAATATGAGTGAAACTTCAAACCCCCATCTTCCTGATAAGAT
* * * * * * * *
9502002 ACAGAGAAGTGGGTCAAAGTAATAAAGCGGTCACCTTCCTGATGAGATACAGAGAAGTGAACCAA
196 ACAAAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGATAAGATAAAGAAAAGTGAACCAA
* *
9502067 ATCCGTCTTCCTAATGAGATACAGAGAAGTGGAT
261 ATCCATCTTCCTAATGAGATACAGAGAAGTGGGT
** * * * *
9502101 TAAAACAAT-GAG-GCAGTCATCTTCCTGATGAGATACTGAGAAGT-AGACCAAATC
1 CGAAGCAATAAAGTG-A-TCATCTTCCTGACGAGATACAGAGAAGTGA-ACCAAATC
9502155 AATGAAGAGA
Statistics
Matches: 304, Mismatches: 41, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
292 1 0.00
293 4 0.01
294 299 0.98
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (294 bp):
CGAAGCAATAAAGTGATCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
TGAGATACAGAGAAGTGGATTAAAATAATAAGGCGGTCATCTTCCTGATAAGATACTAAGAAGTA
GACCAAATCAATGAAGCGAAGCTCAATATGAGTGAAACTTCAAACCCCCATCTTCCTGATAAGAT
ACAAAGAAGTGGGTAAAAGCAATAAAGCGATCACCTTCCCGATAAGATAAAGAAAAGTGAACCAA
ATCCATCTTCCTAATGAGATACAGAGAAGTGGGT
Found at i:9502130 original size:85 final size:85
Alignment explanation
Indices: 9501987--9502154 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
9501977 CAAACCCCCA
* * ** *
9501987 TCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGTAATAAAGCGGTCACCTTCCTGATGAGATAC
1 TCTTCCTAATAAGATACAGAGAAGTGGATCAAAACAATAAAGCAGTCACCTTCCTGATGAGATAC
9502052 AGAGAAGT-GAACCAAATCCG
66 AGAGAAGTAG-ACCAAATCCG
* * * * *
9502072 TCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATAC
1 TCTTCCTAATAAGATACAGAGAAGTGGATCAAAACAATAAAGCAGTCACCTTCCTGATGAGATAC
*
9502137 TGAGAAGTAGACCAAATC
66 AGAGAAGTAGACCAAATC
9502155 AATGAAGAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 70 0.99
86 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (85 bp):
TCTTCCTAATAAGATACAGAGAAGTGGATCAAAACAATAAAGCAGTCACCTTCCTGATGAGATAC
AGAGAAGTAGACCAAATCCG
Found at i:9502135 original size:209 final size:209
Alignment explanation
Indices: 9501775--9502361 Score: 843
Period size: 209 Copynumber: 2.8 Consensus size: 209
9501765 TGAACCAAAT
* * * * * * *
9501775 CCATCTTCTTGATGAGATATAGAGAAGTGGGTCGAAGCAATAAAGTGATCATCTTCTTGACGAGA
1 CCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCTGATGAGA
* * * * * *
9501840 TGTAGAGGAGTGAACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGTGGATTAAAATAATGAGG
66 TATAGAGAAGTGAACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGG
* * *
9501905 TGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATATGAGT
131 CGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGAGAAGCTCAATATGAGT
*
9501970 GAATCTTCAAACCC
196 GAAACTTCAAACCC
* * *
9501984 CCATCTTCCTGATAAGATACAGAGAAGTGGGTCAAAGTAATAAAGCGGTCACCTTCCTGATGAGA
1 CCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCTGATGAGA
*
9502049 TACAGAGAAGTGAACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGG
66 TATAGAGAAGTGAACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGG
* * * *
9502114 CAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGAGAAGCTTAATGTTAGT
131 CGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGAGAAGCTCAATATGAGT
9502179 GAAACTTCAAACCC
196 GAAACTTCAAACCC
* * * * * *
9502193 TCATATTCCTAATGAGATATAGAGAAGTGGTTCAAAGCAATAAAGCGGTCACCTTTCTGATAAGA
1 CCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCTGATGAGA
*
9502258 TATAGAGAAGTGAACCAAA-CCTGTCTTCCTAATTAGATTACAGAGAAGTGGATTAAAACAATGA
66 TATAGAGAAGTGAACCAAATCC-GTCTTCCTAATGAGA-TACAGAGAAGTGGATTAAAACAATGA
* *
9502322 GGCGGTCATCTTCCTGATGAGATACAGAGAAATAGACCAA
129 GGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
9502362 TTAAACGAAG
Statistics
Matches: 337, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
208 2 0.01
209 272 0.81
210 63 0.19
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
CCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCTGATGAGA
TATAGAGAAGTGAACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGG
CGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGAGAAGCTCAATATGAGT
GAAACTTCAAACCC
Found at i:9502361 original size:86 final size:85
Alignment explanation
Indices: 9502198--9502354 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 85
9502188 AACCCTCATA
* * * *
9502198 TTCCTAATGAGATATAGAGAAGTGGTTCAAAGCAATAAAGCGGTCACCTTTCTGATAAGATATAG
1 TTCCTAATGAGATACAGAGAAGTGGTTCAAAACAATAAAGCGGTCACCTTCCTGATAAGATACAG
*
9502263 AGAAGTGAACCAAACCTGTC
66 AGAAATGAACCAAACCTGTC
* * * * *
9502283 TTCCTAATTAGATTACAGAGAAGTGGATT-AAAACAATGAGGCGGTCATCTTCCTGATGAGATAC
1 TTCCTAATGAGA-TACAGAGAAGTGG-TTCAAAACAATAAAGCGGTCACCTTCCTGATAAGATAC
9502347 AGAGAAAT
64 AGAGAAAT
9502355 AGACCAATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 11 0.18
86 47 0.78
87 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (85 bp):
TTCCTAATGAGATACAGAGAAGTGGTTCAAAACAATAAAGCGGTCACCTTCCTGATAAGATACAG
AGAAATGAACCAAACCTGTC
Found at i:9503771 original size:6 final size:6
Alignment explanation
Indices: 9503744--9503782 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
9503734 ACAATTCATA
*
9503744 TCACTT TCA-TT TCCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT T-CACTT TCACTT TCACTT TCACTT TCA
9503783 ATTTTGATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:9507422 original size:10 final size:10
Alignment explanation
Indices: 9507407--9507435 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
9507397 AAAGACTTGG
9507407 TTTTATTTTT
1 TTTTATTTTT
9507417 TTTTA-TTTT
1 TTTTATTTTT
9507426 TTTTATTTTT
1 TTTTATTTTT
9507436 AAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:9507478 original size:19 final size:19
Alignment explanation
Indices: 9507456--9507500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9507446 TTATATTAGG
9507456 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
9507475 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
9507494 ATTTAAT
1 ATTTAAT
9507501 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:9512489 original size:111 final size:113
Alignment explanation
Indices: 9512286--9512496 Score: 320
Period size: 111 Copynumber: 1.9 Consensus size: 113
9512276 TTAAAAAATT
* * *
9512286 TCCTCTCACCGTTTTTATCTTTTTTATTTTTAAATCAATCATTTATATTTATTTACTTATAATAT
1 TCCTATCACCGTTTTGATCTCTTTTATTTTT--ATCAATCATTTATATTTATTTACTTATAATAT
*
9512351 TAACTATTAACTTGTTTAATTTATGTATTAAATATATATATTTATATATA
64 TAACTATTAACTTATTTAATTTATGTATTAAATATATATATTTATATATA
*
9512401 TCCTATCACCGTTTTGAT-TCTTTTATTTTT-TCAATCCTTTTATATTTATTTACTTAT-ATATT
1 TCCTATCACCGTTTTGATCTCTTTTATTTTTATCAAT-CATTTATATTTATTTACTTATAATATT
*
9512463 AACTATTAACTTATTTAGTTTATGTATTAAATAT
65 AACTATTAACTTATTTAATTTATGTATTAAATAT
9512497 GCATATATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
111 42 0.47
112 20 0.22
114 11 0.12
115 16 0.18
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.55
Consensus pattern (113 bp):
TCCTATCACCGTTTTGATCTCTTTTATTTTTATCAATCATTTATATTTATTTACTTATAATATTA
ACTATTAACTTATTTAATTTATGTATTAAATATATATATTTATATATA
Found at i:9516780 original size:24 final size:24
Alignment explanation
Indices: 9516753--9516835 Score: 94
Period size: 24 Copynumber: 3.2 Consensus size: 24
9516743 GAAATACTTA
9516753 AATATTAAAATACTTGAATAGTTT
1 AATATTAAAATACTTGAATAGTTT
*
9516777 AATATTAAAAGACTTGAATAGTTTTGCT
1 AATATTAAAATACTTGAATAG--TT--T
* *
9516805 AAATATTAAAATACTTAAATAATTT
1 -AATATTAAAATACTTGAATAGTTT
9516830 AATATT
1 AATATT
9516836 CATGTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 26 0.52
25 1 0.02
26 2 0.04
27 2 0.04
28 1 0.02
29 18 0.36
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (24 bp):
AATATTAAAATACTTGAATAGTTT
Found at i:9522122 original size:30 final size:30
Alignment explanation
Indices: 9522046--9522337 Score: 240
Period size: 30 Copynumber: 9.8 Consensus size: 30
9522036 CAGAGAATTT
9522046 GGGGTCAAAA--ATAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGA-AATTTTGGAAAAGTTTA
*
9522075 GCGGTCAAACA--AAATTTTGGAAAAGTTTA
1 GGGGTCAAA-ATGAAATTTTGGAAAAGTTTA
* *
9522104 GGGGTCAAAATGAAATTTTAGAAAATTTTA
1 GGGGTCAAAATGAAATTTTGGAAAAGTTTA
* * ** *
9522134 AGGGTTAAAATGTGATTTTGAAAAAGTTTA
1 GGGGTCAAAATGAAATTTTGGAAAAGTTTA
* *
9522164 AGGGTCAAAATGTAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGAAATTTTGGAAAAGTTTA
* * *
9522194 AGGGTTAAAATGTAATTTT-GAAGAAGTTTA
1 GGGGTCAAAATGAAATTTTGGAA-AAGTTTA
* * *
9522224 AGGGTCAAAATGTAATTTTAGAAAA-TTTA
1 GGGGTCAAAATGAAATTTTGGAAAAGTTTA
* *
9522253 GGGGGCAAATATGAAATTTTAGAAAAGTTTA
1 GGGGTCAAA-ATGAAATTTTGGAAAAGTTTA
* * **
9522284 GAGGTTAAAAT-ATAATTTTTAAAAAAGTTTA
1 GGGGTCAAAATGA-AA-TTTTGGAAAAGTTTA
* * **
9522315 -AGGTCGAAATGTGATTTTGGAAA
1 GGGGTCAAAATGAAATTTTGGAAA
9522338 TGTTAGAGGA
Statistics
Matches: 224, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.00
29 55 0.25
30 141 0.63
31 27 0.12
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGAAATTTTGGAAAAGTTTA
Found at i:9522169 original size:60 final size:60
Alignment explanation
Indices: 9522087--9522317 Score: 270
Period size: 60 Copynumber: 3.8 Consensus size: 60
9522077 GGTCAAACAA
* * *
9522087 AATTTTGGAAAAGTTTAGGGGTCAAAATGAAATTTTAGAAAATTTTAAGGGTTAAAATGT
1 AATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAATTTTAAGGGTTAAAATGT
* * *
9522147 GATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGT
1 AATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAATTTTAAGGGTTAAAATGT
* * ** *
9522207 AATTTTGAAGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAA-TTTAGGGGGCAAATATGA
1 AATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAATTTTAAGGGTTAAA-ATGT
* * * *
9522267 AATTTT-AGAAAAGTTT-AGAGGTTAAAATATAATTTTTAAAAAAGTTTAAGG
1 AATTTTGA-AAAAGTTTAAG-GGTCAAAATGTAA-TTTTAGAAAATTTTAAGG
9522318 TCGAAATGTG
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
59 13 0.09
60 120 0.81
61 9 0.06
62 6 0.04
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (60 bp):
AATTTTGAAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAATTTTAAGGGTTAAAATGT
Found at i:9522211 original size:90 final size:91
Alignment explanation
Indices: 9522086--9522337 Score: 302
Period size: 90 Copynumber: 2.8 Consensus size: 91
9522076 CGGTCAAACA
* * * * *
9522086 AAATTTTGGAAAAGTTTAGGGGTCAAAATGAAATTTTAGAAAATTTTAAGGGTTAAAATGTGATT
1 AAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTGATT
*
9522151 TTGA-AAAAGTTTAAGGGTCAAA-ATG
66 TTGAGAAAA-TTTAAGGGGCAAATATG
* *
9522176 TAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTT-GAAGAAGTTTAAGGGTCAAAATGTAAT
1 AAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTAGAA-AAGTTTAAGGGTCAAAATGTGAT
*
9522240 TTT-AGAAAATTTAGGGGGCAAATATG
65 TTTGAGAAAATTTAAGGGGCAAATATG
* * * *
9522266 AAATTTTAGAAAAGTTT-AGAGGTTAAAATATAATTTTTAAAAAAGTTTAA-GGTCGAAATGTGA
1 AAATTTTGGAAAAGTTTAAG-GGTTAAAATGTAA-TTTTAGAAAAGTTTAAGGGTCAAAATGTGA
9522329 TTTTG-GAAA
64 TTTTGAGAAA
9522338 TGTTAGAGGA
Statistics
Matches: 140, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
89 17 0.12
90 109 0.78
91 12 0.09
92 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (91 bp):
AAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTGATT
TTGAGAAAATTTAAGGGGCAAATATG
Found at i:9524634 original size:78 final size:77
Alignment explanation
Indices: 9524505--9525180 Score: 732
Period size: 78 Copynumber: 8.7 Consensus size: 77
9524495 GCCCCATGAG
* * * * *
9524505 CGGGGTAAGAGATCGAATGGTTACAATCTGCCCCTTA--CTCAAGGTAAGAGATTGGCTGATGGT
1 CGGGGTAAAAGATCGGATGGCTGCAATCTG-CCC-TAGGCTCGAGGTAAGAGATTGGCTGATGGT
*
9524568 GATCTACCCTAAGCT
64 GATCTGCCC-AAGCT
* * *
9524583 CGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTAA
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGA
9524648 TCTGCCTCAAGCT
66 TCTGCC-CAAGCT
* * ** * * *
9524661 TGGGGTAAAAGATCGGATGGCTGTAAT-TTACCTCAAGCTCGGGGTAAGAGATTGACTGATGGTG
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCT-AGGCTCGAGGTAAGAGATTGGCTGATGGTG
*
9524725 ATCTATCCCAAGCT
65 ATCT-GCCCAAGCT
* * *
9524739 CGGGATAAAAGATCGGATGACTGCAATCTG-CCTCAGGCTCGAGGCAAGAGATTGGCTGATGGTG
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCT-AGGCTCGAGGTAAGAGATTGGCTGATGGTG
9524803 ATCTGCCCCAAGCT
65 ATCTG-CCCAAGCT
* * * *
9524817 CGGGGTAAAAGATGGGATGGTTGCAATCTACCGC-AGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCC-CTAGGCTCGAGGTAAGAGATTGGCTGATGGTG
*
9524881 ATCTGCCCTAGACT
65 ATCTGCCCAAG-CT
* * * * * * * * **
9524895 CGAGGTAAAAAATCGAATGGTTGTAATCTGCCCCAGACTCAAGGTAAGAGATTAACTGATGGTGA
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGA
9524960 TCTGTCCCAAGCT
66 TCTG-CCCAAGCT
* * * *
9524973 CGGGGTAAAAGATTGGATGGCTGTAATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGA
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGA
*
9525038 TTTGTCCCAAGCT
66 TCTG-CCCAAGCT
* * * * * *
9525051 CGAGATAAAAGATCGGATGACTGCAATCTGCCCTAGGCTCGGGGTAAAATATTGGCTGATGGTGA
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGA
9525116 TCTGCCCCAAGCT
66 TCTG-CCCAAGCT
* * ** * *
9525129 CGGGGTAAAAGATCGAATGGTTGTGATCTGCCCTATGATCGAGGTAAGAGAT
1 CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGAT
9525181 CGAAATATTC
Statistics
Matches: 505, Mismatches: 81, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
76 2 0.00
77 13 0.03
78 479 0.95
79 10 0.02
80 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (77 bp):
CGGGGTAAAAGATCGGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGA
TCTGCCCAAGCT
Found at i:9524943 original size:234 final size:234
Alignment explanation
Indices: 9524528--9525180 Score: 859
Period size: 234 Copynumber: 2.8 Consensus size: 234
9524518 CGAATGGTTA
* * * * *
9524528 CAATCTGCCCCTTA-CTCAAGGTAAGAGATTGGCTGATGGTGATCTACCCTAAGCTCGGGGTAAA
1 CAATCTGCCCC-AAGCTCGAGGCAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAA
* *
9524592 AGATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCTCA
65 AGATCGGATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-CA
* * * * * * * *
9524657 AG-CTTGGGGTAAAAGATCGGATGGCTGTAATTTACCTCA-AGCTCGGGGTAAGAGATTGACTGA
129 AGACTCGGGGTAAAAGATCGAATGGTTGTAATCTGCCCCAGA-CTCGAGGTAAGAGATTAACTGA
9524720 TGGTGATCTATCCCAAGCTCGGGATAAAAGATCGGATGACTG
193 TGGTGATCTATCCCAAGCTCGGGATAAAAGATCGGATGACTG
* *
9524762 CAATCTGCCTCAGGCTCGAGGCAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
1 CAATCTGCCCCAAGCTCGAGGCAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
* * * *
9524827 GATGGGATGGTTGCAATCTACCGC-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTA
66 GATCGGATGGCTGCAATCTGCC-CTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAA
* * *
9524891 GACTCGAGGTAAAAAATCGAATGGTTGTAATCTGCCCCAGACTCAAGGTAAGAGATTAACTGATG
130 GACTCGGGGTAAAAGATCGAATGGTTGTAATCTGCCCCAGACTCGAGGTAAGAGATTAACTGATG
* * * *
9524956 GTGATCTGTCCCAAGCTCGGGGTAAAAGATTGGATGGCTG
195 GTGATCTATCCCAAGCTCGGGATAAAAGATCGGATGACTG
* * * * * *
9524996 TAATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATTTGTCCCAAGCTCGAGATAAAA
1 CAATCTGCCCCAAGCTCGAGGCAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
* * *
9525061 GATCGGATGACTGCAATCTGCCCTAGGCTCGGGGTAAAATATTGGCTGATGGTGATCTGCCCCAA
66 GATCGGATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAA
* *
9525126 G-CTCGGGGTAAAAGATCGAATGGTTGTGATCTGCCCTATGA-TCGAGGTAAGAGAT
130 GACTCGGGGTAAAAGATCGAATGGTTGTAATCTGCCCCA-GACTCGAGGTAAGAGAT
9525181 CGAAATATTC
Statistics
Matches: 364, Mismatches: 48, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
233 4 0.01
234 351 0.96
235 9 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (234 bp):
CAATCTGCCCCAAGCTCGAGGCAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
GATCGGATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
ACTCGGGGTAAAAGATCGAATGGTTGTAATCTGCCCCAGACTCGAGGTAAGAGATTAACTGATGG
TGATCTATCCCAAGCTCGGGATAAAAGATCGGATGACTG
Found at i:9525155 original size:39 final size:39
Alignment explanation
Indices: 9524569--9525161 Score: 348
Period size: 39 Copynumber: 15.2 Consensus size: 39
9524559 GCTGATGGTG
* * * ** *
9524569 ATCTACCCTAAGCTCGGGGTAAAAGATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * *
9524608 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * **
9524647 ATCTGCCTCAAGCTTGGGGTAAAAGATCGGATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
9524686 ATTTACCTCAAGCTCGGGGTAAGAGAT-TGACTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGA-TGATTGTA
** * * *
9524725 ATCTATCCCAAGCTCGGGATAAAAGATCGGATGACTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * * * *
9524764 ATCTGCCTCAGGCTCGAGGCAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * *
9524803 ATCTGCCCCAAGCTCGGGGTAAAAGATGGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * * *
9524842 ATCTACCGCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * *
9524881 ATCTG-CCCTAGACTCGAGGTAAAAAATCGAATGGTTGTA
1 ATCTGCCCCAAG-CTCGGGGTAAAAGATCGGATGATTGTA
** * ** * *
9524920 ATCTGCCCC-AGACTCAAGGTAAGAGAT-TAACTGATGGTG
1 ATCTGCCCCAAG-CTCGGGGTAAAAGATCGGA-TGATTGTA
* * **
9524959 ATCTGTCCCAAGCTCGGGGTAAAAGATTGGATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * *
9524998 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * *
9525037 ATTTGTCCCAAGCTCGAGATAAAAGATCGGATGACTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
9525076 ATCTGCCCTAGGCTCGGGGTAAAATATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * *
9525115 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
9525154 ATCTGCCC
1 ATCTGCCC
9525162 TATGATCGAG
Statistics
Matches: 404, Mismatches: 143, Indels: 14
0.72 0.25 0.02
Matches are distributed among these distances:
38 7 0.02
39 389 0.96
40 8 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
Found at i:9533713 original size:15 final size:16
Alignment explanation
Indices: 9533695--9533732 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
9533685 TTTTGAGTCA
*
9533695 GATTTTTTTAAA-TTT
1 GATTTTTTTAAAGTTC
9533710 GA-TTTTTTAAAGTTC
1 GATTTTTTTAAAGTTC
9533725 GATTTTTT
1 GATTTTTT
9533733 GATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 6 0.30
16 5 0.25
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
GATTTTTTTAAAGTTC
Found at i:9533715 original size:14 final size:15
Alignment explanation
Indices: 9533698--9533732 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9533688 TGAGTCAGAT
*
9533698 TTTTTTAAA-TTTGA
1 TTTTTTAAAGTTCGA
9533712 TTTTTTAAAGTTCGA
1 TTTTTTAAAGTTCGA
9533727 TTTTTT
1 TTTTTT
9533733 GATCTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (15 bp):
TTTTTTAAAGTTCGA
Found at i:9534000 original size:13 final size:14
Alignment explanation
Indices: 9533982--9534037 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
9533972 AAATTTTTAA
9533982 ATTTTT-AAATTTT
1 ATTTTTAAAATTTT
** *
9533995 ATTTTTGTATTTTT
1 ATTTTTAAAATTTT
9534009 ATTTTTAGAAATTGTT
1 ATTTTTA-AAATT-TT
9534025 -TTTTTAAAATTTT
1 ATTTTTAAAATTTT
9534038 TAAATTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 8 0.23
14 16 0.46
15 9 0.26
16 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
ATTTTTAAAATTTT
Found at i:9535705 original size:29 final size:29
Alignment explanation
Indices: 9535655--9535744 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
9535645 AATATTTTAA
*
9535655 AAATTGTAAAAAAAATTAAAAATTATTAG
1 AAATTGTAAAAAAAATTAAAAAATATTAG
* ** * **
9535684 AAATTGTAAAAGATTTTTAAAAATATTTT
1 AAATTGTAAAAAAAATTAAAAAATATTAG
* * * *
9535713 AAAAT-TAAAAAAGAGTAAAAAATATTTG
1 AAATTGTAAAAAAAATTAAAAAATATTAG
9535741 AAAT
1 AAAT
9535745 AAATAAAATA
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
28 20 0.43
29 26 0.57
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (29 bp):
AAATTGTAAAAAAAATTAAAAAATATTAG
Found at i:9535776 original size:40 final size:40
Alignment explanation
Indices: 9535731--9535947 Score: 113
Period size: 40 Copynumber: 5.4 Consensus size: 40
9535721 AAAAGAGTAA
9535731 AAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTG
1 AAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTG
** * * *** *
9535771 AAAATATTTGAAATATTTAAAAAATTCAATTCATTGAA-TTAT
1 AAAATATTTGAAATAAATAAAATA-T-AATTTACAAAAGTT-G
* * * * *
9535813 AAAACAATTGTAAAAAAAATTAAAA-ATTA-TTA-GAAA-TTG
1 AAAA-TATT-TGAAATAAA-TAAAATATAATTTACAAAAGTTG
* * *** * * * **
9535852 TAAAAGATTTTAAA-AAATATTTTAAAATTAAAAAAGAGTAA
1 -AAAATATTTGAAATAAATAAAATATAATTTACAAA-AGTTG
9535893 AAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTG
1 AAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTG
9535933 AAAATATTTGAAATA
1 AAAATATTTGAAATA
9535948 TTTAAAAAAT
Statistics
Matches: 125, Mismatches: 39, Indels: 26
0.66 0.21 0.14
Matches are distributed among these distances:
36 2 0.02
37 5 0.04
38 6 0.05
39 5 0.04
40 59 0.47
41 21 0.17
42 12 0.10
43 4 0.03
44 6 0.05
45 5 0.04
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (40 bp):
AAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTG
Found at i:9535834 original size:162 final size:162
Alignment explanation
Indices: 9535656--9535983 Score: 647
Period size: 162 Copynumber: 2.0 Consensus size: 162
9535646 ATATTTTAAA
*
9535656 AATTGTAAAAAAAATTAAAAATTATTAGAAATTGTAAAAGATTTTTAAAAATATTTTAAAATTAA
1 AATTGTAAAAAAAATTAAAAATTATTAGAAATTGTAAAAGATTTTAAAAAATATTTTAAAATTAA
9535721 AAAAGAGTAAAAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTGAAAATATTTGAAATA
66 AAAAGAGTAAAAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTGAAAATATTTGAAATA
9535786 TTTAAAAAATTCAATTCATTGAATTATAAAAC
131 TTTAAAAAATTCAATTCATTGAATTATAAAAC
9535818 AATTGTAAAAAAAATTAAAAATTATTAGAAATTGTAAAAGATTTTAAAAAATATTTTAAAATTAA
1 AATTGTAAAAAAAATTAAAAATTATTAGAAATTGTAAAAGATTTTAAAAAATATTTTAAAATTAA
9535883 AAAAGAGTAAAAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTGAAAATATTTGAAATA
66 AAAAGAGTAAAAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTGAAAATATTTGAAATA
9535948 TTTAAAAAATTCAATTCATTGAATTATAAAAC
131 TTTAAAAAATTCAATTCATTGAATTATAAAAC
9535980 AATT
1 AATT
9535984 ATCGAATGTG
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 165 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (162 bp):
AATTGTAAAAAAAATTAAAAATTATTAGAAATTGTAAAAGATTTTAAAAAATATTTTAAAATTAA
AAAAGAGTAAAAAATATTTGAAATAAATAAAATATAATTTACAAAAGTTGAAAATATTTGAAATA
TTTAAAAAATTCAATTCATTGAATTATAAAAC
Found at i:9537208 original size:6 final size:6
Alignment explanation
Indices: 9537197--9537230 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9537187 TACTGCTTAT
9537197 ACATTC ACATTC ACATTC ACATTC ACATTC ACAT
1 ACATTC ACATTC ACATTC ACATTC ACATTC ACAT
9537231 GGTGCAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATTC
Found at i:9537452 original size:20 final size:20
Alignment explanation
Indices: 9537427--9537466 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9537417 TTTAGCAATG
9537427 TTTTTATCTCAAAAGTGTTT
1 TTTTTATCTCAAAAGTGTTT
*
9537447 TTTTTATTTCAAAAGTGTTT
1 TTTTTATCTCAAAAGTGTTT
9537467 CTCAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTTTATCTCAAAAGTGTTT
Found at i:9538779 original size:30 final size:29
Alignment explanation
Indices: 9538737--9539077 Score: 154
Period size: 30 Copynumber: 11.7 Consensus size: 29
9538727 GCGCGGGGGC
9538737 AAAATGGTAATTTTCGGTGAAATCGGGGTTA
1 AAAATGGTAATTTT--GTGAAATCGGGGTTA
*
9538768 AAAATGG-AATTTT-AGAAAGTTCGAGGG-T-
1 AAAATGGTAATTTTGTGAAA--TCG-GGGTTA
9538796 AAAATGGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGGTAA-TTTTG-TGAAATCGGGGTTA
*
9538827 ATAATGG-AATTTTG-GAAAGTTCAGGGG-T-
1 AAAATGGTAATTTTGTGAAA--TC-GGGGTTA
* * * *
9538855 AAAATGGTAATTTTTTATAAACCAGGGTTA
1 AAAATGGTAATTTTGT-GAAATCGGGGTTA
*
9538885 AAAATGG-AATTTTG-GAAAGTTTAGGGG-T-
1 AAAATGGTAATTTTGTGAAA---TCGGGGTTA
*
9538913 AAAATGGTAATTTTTTATGAAA-CTGGGGTTA
1 AAAATGGTAA--TTTTGTGAAATC-GGGGTTA
* * *
9538944 AAAATAG-AATTTTG-GAAAGTTTGGGGGT-
1 AAAATGGTAATTTTGTGAAA--TCGGGGTTA
9538972 AAAATGGTAATTTTTGATGAAATCGGGGTT-
1 AAAATGGTAA-TTTTG-TGAAATCGGGGTTA
**
9539002 AAAATGG-AATTTTG-GAAAGTTTAAGGG-T-
1 AAAATGGTAATTTTGTGAAA---TCGGGGTTA
*
9539030 AAAATGGTAATTTTTGATGAAATAGGGGTT-
1 AAAATGGTAA-TTTTG-TGAAATCGGGGTTA
9539060 AAAATGG-AATTTTG-GAAA
1 AAAATGGTAATTTTGTGAAA
9539078 GTTTAGGGGT
Statistics
Matches: 243, Mismatches: 25, Indels: 89
0.68 0.07 0.25
Matches are distributed among these distances:
26 8 0.03
27 15 0.06
28 51 0.21
29 60 0.25
30 67 0.28
31 26 0.11
32 16 0.07
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTGTGAAATCGGGGTTA
Found at i:9538779 original size:58 final size:59
Alignment explanation
Indices: 9538732--9539101 Score: 534
Period size: 58 Copynumber: 6.3 Consensus size: 59
9538722 TAGACGCGCG
* * * *
9538732 GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC-
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
9538790 GAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAATAATGGAATTTTGGAAAGTTCA
1 G-GGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * * *
9538850 GGGGTAAAATGGTAATTTTTTAT-AAACCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * **
9538908 GGGGTAAAATGGTAATTTTTTATGAAA-CTGGGGTTAAAAATAGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGATGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
9538967 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * *
9539025 AGGGTAAAATGGTAATTTTTGATGAAATAGGGGTT-AAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
9539083 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
9539102 CGGACAGTCT
Statistics
Matches: 288, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
58 151 0.52
59 135 0.47
60 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:9538888 original size:117 final size:116
Alignment explanation
Indices: 9538732--9539101 Score: 521
Period size: 117 Copynumber: 3.2 Consensus size: 116
9538722 TAGACGCGCG
* * * * * * *
9538732 GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
1 GGGGTAAAATGGTAATTTTTGATGAAACCAGGGTTAAAAATGGAATTTTGGAAAGTT-AAGGGTA
*
9538797 AAATGGTAATTTTTGATGAAATCGGGGTTAATAATGGAATTTTGGAAAGTTCA
65 AAATGGTAATTTTTGATGAAATCGGGGTTAA-AATGGAATTTTGGAAAGTTTA
* *
9538850 GGGGTAAAATGGTAATTTTTTAT-AAACCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 GGGGTAAAATGGTAATTTTTGATGAAACCAGGGTTAAAAATGGAATTTTGGAAAG-TTAAGGGTA
* * *
9538914 AAATGGTAATTTTTTATGAAA-CTGGGGTTAAAAATAGAATTTTGGAAAGTTTG
65 AAATGGTAATTTTTGATGAAATC-GGGGTT-AAAATGGAATTTTGGAAAGTTTA
* *
9538967 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAAGGGTA
1 GGGGTAAAATGGTAATTTTTGATGAAACCAGGGTTAAAAATGGAATTTTGGAAAG-TTAAGGGTA
*
9539031 AAATGGTAATTTTTGATGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTTA
65 AAATGGTAATTTTTGATGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTA
9539083 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
9539102 CGGACAGTCT
Statistics
Matches: 226, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
116 41 0.18
117 153 0.68
118 32 0.14
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (116 bp):
GGGGTAAAATGGTAATTTTTGATGAAACCAGGGTTAAAAATGGAATTTTGGAAAGTTAAGGGTAA
AATGGTAATTTTTGATGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTA
Found at i:9541004 original size:6 final size:6
Alignment explanation
Indices: 9540989--9541047 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
9540979 TTAAATTTGA
* * *
9540989 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT GAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
9541037 ATAAAT TTAAA
1 TTAAAT TTAAA
9541048 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:9541024 original size:14 final size:14
Alignment explanation
Indices: 9541005--9541031 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9540995 TTAAATTTAA
9541005 AGTAAATTTAAATG
1 AGTAAATTTAAATG
9541019 AGTAAATTTAAAT
1 AGTAAATTTAAAT
9541032 TTAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:9541483 original size:92 final size:92
Alignment explanation
Indices: 9541370--9542237 Score: 1495
Period size: 92 Copynumber: 9.4 Consensus size: 92
9541360 AATGATTTGA
* *
9541370 TATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTC-TTCTTACTCTTA
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATT-TTACTCTTA
* * * *
9541434 TTTCGATTTCAGAGGGACGCAGGCTTGT
65 CTTCAATTTCTGAGGGACGAAGGCTTGT
*
9541462 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTAGTGCTTCATTTTACTCTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
9541527 TTCAATTTCTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
* *
9541554 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTCTACTCCTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
9541619 TTCAATTTCTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
9541646 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
*
9541711 TTCAATTTTTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
*
9541738 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTGCTTCATTTTACTCTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
9541803 TTCAATTTCTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
* * *
9541830 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATTTTACTTTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
*
9541895 TTCAATTTCTGAGGAACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
* *
9541922 TATCCAACTTTACTTTAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
*
9541987 TTCAATTTTTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
* *
9542014 TATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTGCTTCATTTTACTCTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
9542079 TTCAATTTCTGAGGGACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
* * *
9542106 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATTTTACTTTTAC
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
*
9542171 TTCAATTTCTGAGGAACGAAGGCTTGT
66 TTCAATTTCTGAGGGACGAAGGCTTGT
*
9542198 TATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAATGA
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGA
9542238 GGTTTGATCT
Statistics
Matches: 742, Mismatches: 33, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
92 740 1.00
93 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (92 bp):
TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTCTTAC
TTCAATTTCTGAGGGACGAAGGCTTGT
Found at i:9541888 original size:46 final size:47
Alignment explanation
Indices: 9541838--9542241 Score: 117
Period size: 40 Copynumber: 8.8 Consensus size: 47
9541828 GTTATCCAGC
9541838 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATTTTACT
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCA---T--T
* * * * * **
9541890 TTTACTTCAATTTC-TGAGGA-ACG--AA-G-GCTTGTTA-TCCAAC
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATT
* * *
9541930 TTTACTTTAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTT
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCA--TT
** * * * * * **
9541979 ACTCTTACTTCAATTT-TTGAGG-GACG--AA-G-GCTTGTTA-TCCAAC
1 --T-TTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATT
*
9542022 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTGCTTCATTTT
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCA--TT
* * * * * * **
9542071 ACTCTTACTTCAATTTC-TGAGG-GACG--AA-G-GCTTGTTA-TCCAGC
1 --T-TTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATT
9542114 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATTTTACT
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCA---T--T
* * * * * **
9542166 TTTACTTCAATTTC-TGAGGA-ACG--AA-G-GCTTGTTA-TCCAAC
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATT
9542206 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTT
1 TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTT
9542242 TGATCTGATC
Statistics
Matches: 244, Mismatches: 66, Indels: 90
0.61 0.17 0.22
Matches are distributed among these distances:
40 52 0.21
41 20 0.08
42 8 0.03
44 8 0.03
45 16 0.07
46 39 0.16
47 13 0.05
48 8 0.03
50 8 0.03
51 20 0.08
52 52 0.21
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (47 bp):
TTTACTTCAATTTCAAGAGGATAGGAAAATGAGGTTGGTACTTCATT
Found at i:9554345 original size:29 final size:29
Alignment explanation
Indices: 9554313--9554740 Score: 165
Period size: 29 Copynumber: 14.7 Consensus size: 29
9554303 GGACGCGTGG
*
9554313 GGGGCAAAATGGTAATTTTTGGTGAAACT
1 GGGGTAAAATGGTAATTTTTGGTGAAACT
* **
9554342 GGGGTTAAAAATGG-AA-TCTTGG-GAAGTTT
1 GGGG-T-AAAATGGTAATTTTTGGTGAA-ACT
* *
9554371 GAGGGTAAAATGGTAATTTTTGATGAAACC
1 G-GGGTAAAATGGTAATTTTTGGTGAAACT
*
9554401 GGGGTTAATAATGG-AA-TTTT-G-GAAAGTTCA
1 GGGG-TAA-AATGGTAATTTTTGGTGAAA---CT
* *
9554431 GGGGTAAAATGGTAATTTTTGATGAAACC
1 GGGGTAAAATGGTAATTTTTGGTGAAACT
* *
9554460 GAGGTTAAAAATGG-AA-TTTT-G-GAAAGTTT
1 G-GGGT-AAAATGGTAATTTTTGGTGAAA--CT
9554489 AGGGGTAAAATGGTAATTTTTGGTGAAACT
1 -GGGGTAAAATGGTAATTTTTGGTGAAACT
* *
9554519 GGGGTAAAAAAT-ATAA--TTT--TGAAAGTTCA
1 GGGGT--AAAATGGTAATTTTTGGTGAAA---CT
* *
9554548 GGGGTAAAATGGTAATTTTTGATGAAACC
1 GGGGTAAAATGGTAATTTTTGGTGAAACT
*
9554577 GGGGTTAAAAATGG-AA--TTTGG-GAAAGTTCG
1 GGGG-T-AAAATGGTAATTTTTGGTGAAA---CT
*
9554607 GGGGTAAAATGGTAATTTTTGATGAAACT
1 GGGGTAAAATGGTAATTTTTGGTGAAACT
* * *
9554636 GAGGTTAAAAT--TAAATTTT-G-GAAAGTTT
1 G-GGGTAAAATGGTAATTTTTGGTGAAA--CT
* *
9554664 AGGGGTAAAATGGTAATTTTTGATGAAACC
1 -GGGGTAAAATGGTAATTTTTGGTGAAACT
* *
9554694 GGGTTAAAATGG-AA-TTTT-G-GAAAGTGT
1 GGGGTAAAATGGTAATTTTTGGTGAAA--CT
9554721 AGGGGTAAAATGGTAATTTT
1 -GGGGTAAAATGGTAATTTT
9554741 CAGATAGTCC
Statistics
Matches: 301, Mismatches: 41, Indels: 113
0.66 0.09 0.25
Matches are distributed among these distances:
25 4 0.01
26 9 0.03
27 21 0.07
28 68 0.23
29 72 0.24
30 67 0.22
31 39 0.13
32 21 0.07
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGGTGAAACT
Done.