Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 37 of 255
Found at i:9697806 original size:47 final size:47
Alignment explanation
Indices: 9697728--9698515 Score: 1209
Period size: 47 Copynumber: 16.6 Consensus size: 47
9697718 CCCTTCGGGA
* * * * * *
9697728 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9697774 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9697822 CTCATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
9697869 CTTATCACATATATACACTTTCACATTCATCACATCGGTTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9697916 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9697963 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9698010 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9698059 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9698106 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
9698155 CTTATCACATATATATACACTTTCACACTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9698204 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9698251 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9698300 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9698347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9698394 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9698443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9698490 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
9698516 CACAATTATC
Statistics
Matches: 686, Mismatches: 46, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
46 2 0.00
47 459 0.67
48 2 0.00
49 223 0.33
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9698061 original size:96 final size:96
Alignment explanation
Indices: 9697728--9698515 Score: 1206
Period size: 96 Copynumber: 8.3 Consensus size: 96
9697718 CCCTTCGGGA
* * * * * *
9697728 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
9697790 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9697822 CTCATCAC--ATATATACACTTTCACATTCATCATATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
**
9697885 ACTTTCACATTCATCACATCGGTTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
9697916 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9697979 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9698010 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9698075 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9698106 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * * *
9698171 ACACTTTCACACTCATCACATTGGTCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
9698204 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
9698267 ACACTTTCACACTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
9698300 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9698363 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9698394 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9698459 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9698490 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
9698516 CACAATTATC
Statistics
Matches: 649, Mismatches: 36, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 225 0.35
95 2 0.00
96 378 0.58
98 43 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9698088 original size:143 final size:142
Alignment explanation
Indices: 9697728--9698515 Score: 1222
Period size: 143 Copynumber: 5.5 Consensus size: 142
9697718 CCCTTCGGGA
* * * * * * *
9697728 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
* *
9697792 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC-ATATATACACTTTCACATTCATCATA
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACA
*
9697856 TCGGCTATTAGGC
130 TCGGCCATTAGGC
**
9697869 CTTATCACATATATACACTTTCACATTCATCACATCGGTTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
9697934 TTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
9697998 CGGCCATTAGGC
131 CGGCCATTAGGC
* * *
9698010 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9698075 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
9698140 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
* * * *
9698155 CTTATCACATATATATACACTTTCACACTCATCACATTGGTCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
9698220 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACACTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
* *
9698285 CATTGGCCATTCGGC
128 CATCGGCCATTAGGC
9698300 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
9698365 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
* *
9698430 TTGGCCATTCGGC
130 TCGGCCATTAGGC
*
9698443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
9698508 ATTCACAT
66 TTTCACAT
9698516 CACAATTATC
Statistics
Matches: 611, Mismatches: 31, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
141 133 0.22
142 2 0.00
143 289 0.47
145 187 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:9701429 original size:127 final size:127
Alignment explanation
Indices: 9701274--9701569 Score: 477
Period size: 127 Copynumber: 2.3 Consensus size: 127
9701264 AATGTTTGAT
* * * *
9701274 GTTTGGAAATTCGGGGAATCGTGCCCTATAGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
*
9701339 TCGCATATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTCTAAAACAAGGCAATGTTCAAC
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTCTAAAACAAGGCAATGTTCAAC
9701401 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
* * * * *
9701466 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTCTAAAATAAGGCAATTTTCAAT
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
*
9701528 GTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTC
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
9701570 AGTTTTTCGT
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
127 156 0.99
128 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (127 bp):
GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
Found at i:9713351 original size:45 final size:44
Alignment explanation
Indices: 9713246--9713670 Score: 274
Period size: 45 Copynumber: 9.5 Consensus size: 44
9713236 CATAGCAAAC
* * * *
9713246 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAA-T
* *
9713290 CTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-AT
* * * ***
9713335 CTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
* ** * * *
9713378 CCATATCTCTTTGAAGTTGCAGTAGAGCAGGA-T-AAAATTACCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATT--GCAA-T
* *
9713425 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-AT
* * * ***
9713470 CTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
* * * *
9713513 CCTTATCTCTCTGAAGTTGCAGTAGAGCAAGA-T-AAAATTATCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGA-T-TGCAA-T
* * * * *
9713560 CTTATCTCTCTGAAGTTGCAGTAGAGTAGACTAAAG-TTAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT-GCA-AT
* * * * *
9713605 CTTATCTCCCGGAAATTACAGTGGAGCAGATCGAAG-TTACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
*
9713648 CCTTATCTCTCTGAAGTTGCAGT
1 -CTTATCTCCCTGAAGTTGCAGT
9713671 AGAGTAGGAT
Statistics
Matches: 296, Mismatches: 63, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
43 10 0.03
44 101 0.34
45 115 0.39
46 61 0.21
47 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
Found at i:9713495 original size:135 final size:135
Alignment explanation
Indices: 9713245--9713720 Score: 654
Period size: 135 Copynumber: 3.5 Consensus size: 135
9713235 TCATAGCAAA
** * *
9713245 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGG-TTGAAGTA-GCAAGTCTTATCTCCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
* * * * *
9713308 TAGTGGAGCAAATTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCC
66 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
9713373 ACAAT
131 ACAAT
* *
9713378 CCATATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
*
9713443 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCC
66 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
9713508 ACAAT
131 ACAAT
* * *
9713513 CCTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAATTATCCAAGTCTTATCTCTCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
* * * * * * *
9713578 CAGTAGAGTAGACTAAAG-TTAGCAGATCTTATCTCCCGGAAATTACAGTGGAGCAGATCGAAGT
66 CAGTGGAGCAGACTAAAGATT-GCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGC
*
9713642 TACAAT
130 CACAAT
* * * * *
9713648 CCTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACACGAA-CCGTATCTCCCTGAAGTT
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTAC-CCAAGTCTTATCTCCCTGAAGTT
9713712 GCAGTGGAG
65 GCAGTGGAG
9713721 TAGTTGCAGT
Statistics
Matches: 304, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
133 29 0.10
134 7 0.02
135 265 0.87
136 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (135 bp):
CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
ACAAT
Found at i:9716554 original size:127 final size:127
Alignment explanation
Indices: 9716316--9716641 Score: 467
Period size: 127 Copynumber: 2.6 Consensus size: 127
9716306 GAAAATTCCT
* ** *
9716316 TAAAACGAAGGTAATGTTTGATGTTTGAAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
** *
9716381 ATTTCCCGTTTGTTTAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTC
65 ATTTTTCGTTTGTTCAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTC
* *
9716444 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * * *
9716509 TTTTTGGTTTGTTCAAAA-AGATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTTTCGTTTGTTCAAAATA-ATCGAAAATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
* * *
9716571 TAAAATAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCATGCCCTACCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
9716636 TTTTTC
66 TTTTTC
9716642 ATTGGACTAA
Statistics
Matches: 177, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
126 1 0.01
127 169 0.95
128 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTTTCGTTTGTTCAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
Found at i:9719814 original size:11 final size:10
Alignment explanation
Indices: 9719796--9719837 Score: 57
Period size: 11 Copynumber: 3.9 Consensus size: 10
9719786 CCAAAAATGT
9719796 AAAAAAATTA
1 AAAAAAATTA
9719806 AAAAGAAATTA
1 AAAA-AAATTA
9719817 AAAAAAAGTTA
1 AAAAAAA-TTA
9719828 AAAAACAATT
1 AAAAA-AATT
9719838 TTTTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.24
11 20 0.69
12 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:9720377 original size:8 final size:8
Alignment explanation
Indices: 9720332--9720397 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
9720322 AAAATATATC
9720332 ATTATAAAA
1 ATTA-AAAA
*
9720341 TTTAAAAA
1 ATTAAAAA
*
9720349 ATCAAAATA
1 ATTAAAA-A
9720358 ATATATAAAA
1 AT-TA-AAAA
9720368 ATTGAAAAA
1 ATT-AAAAA
*
9720377 TATTATAAA
1 -ATTAAAAA
9720386 ATTAAAAA
1 ATTAAAAA
9720394 ATTA
1 ATTA
9720398 TTTAAATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 20 0.43
9 15 0.33
10 8 0.17
11 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
ATTAAAAA
Found at i:9720399 original size:19 final size:17
Alignment explanation
Indices: 9720346--9720403 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
9720336 TAAAATTTAA
* *
9720346 AAAATCAAAATAATATATA
1 AAAATTAAAA-AATAT-TT
*
9720365 AAAATTGAAAAATATTAT
1 AAAATTAAAAAATATT-T
9720383 AAAATTAAAAAATTATTT
1 AAAATTAAAAAA-TATTT
9720401 AAA
1 AAA
9720404 TTTCAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.61
19 12 0.36
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAAATATTT
Found at i:9720403 original size:18 final size:18
Alignment explanation
Indices: 9720332--9720395 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
9720322 AAAATATATC
* *
9720332 ATTATAAAAT-TTAAAAA
1 ATTAAAAAATATTATAAA
*
9720349 ATCAAAATAATA-TATAAAA
1 ATTAAAA-AATATTAT-AAA
*
9720368 ATTGAAAAATATTATAAA
1 ATTAAAAAATATTATAAA
9720386 ATTAAAAAAT
1 ATTAAAAAAT
9720396 TATTTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.14
18 21 0.57
19 11 0.30
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATTAAAAAATATTATAAA
Found at i:9720501 original size:24 final size:25
Alignment explanation
Indices: 9720460--9720506 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9720450 TTTTAGAATT
*
9720460 ATATGTTTTAAAATTTTATAAAAAAA
1 ATATGTTTTAAAACTTTA-AAAAAAA
9720486 ATAT-TTTT-AAACTTTAAAAAA
1 ATATGTTTTAAAACTTTAAAAAA
9720507 TTACAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 4 0.20
26 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATGTTTTAAAACTTTAAAAAAAA
Found at i:9723500 original size:17 final size:17
Alignment explanation
Indices: 9723478--9723514 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
9723468 ACGATACTTA
9723478 AATTTGTCCAGAACTCC
1 AATTTGTCCAGAACTCC
9723495 AATTTGTCCAGAACTCC
1 AATTTGTCCAGAACTCC
9723512 AAT
1 AAT
9723515 CACATGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (17 bp):
AATTTGTCCAGAACTCC
Found at i:9726450 original size:33 final size:33
Alignment explanation
Indices: 9726397--9726459 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
9726387 TTCTAAAAAT
*
9726397 CTTTGTTGGCTTAGGGGTTTAATTTTGTAGTAC
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
* *
9726430 CTTTGTTGGTTTTGGAGTTTAATTTTGTAG
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAG
9726460 AACCATTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.06, G:0.27, T:0.52
Consensus pattern (33 bp):
CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
Found at i:9728420 original size:13 final size:13
Alignment explanation
Indices: 9728404--9728440 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9728394 TACATAACAA
9728404 GTTCGCATATAGG
1 GTTCGCATATAGG
*
9728417 GTTCGCCTATAGG
1 GTTCGCATATAGG
*
9728430 GTTTGCATATA
1 GTTCGCATATA
9728441 TAAGGTTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (13 bp):
GTTCGCATATAGG
Found at i:9728447 original size:28 final size:28
Alignment explanation
Indices: 9728410--9728482 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
9728400 ACAAGTTCGC
* *
9728410 ATATAGGGTTCGC-CTATAGGGTTTGCAT
1 ATATAAGGTTCGCAC-ATAAGGTTTGCAT
9728438 ATATAAGGTTCGCACATAAGGTTTGCAT
1 ATATAAGGTTCGCACATAAGGTTTGCAT
9728466 AGTATATAGGGTTCGCA
1 A-TATA-A-GGTTCGCA
9728483 TGATATATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 25 0.64
29 5 0.13
30 1 0.03
31 8 0.21
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
ATATAAGGTTCGCACATAAGGTTTGCAT
Found at i:9732209 original size:13 final size:13
Alignment explanation
Indices: 9732188--9732240 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
9732178 ACGCCTATAA
*
9732188 GGTTTGCACATAG
1 GGTTCGCACATAG
9732201 GGTTCGCACATATAG
1 GGTTCGCAC--ATAG
*
9732216 GGTTCACACATGTAG
1 GGTTCGCACA--TAG
9732231 GGTTCGCACA
1 GGTTCGCACA
9732241 GATAAGGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.27
15 24 0.73
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (13 bp):
GGTTCGCACATAG
Found at i:9732217 original size:15 final size:15
Alignment explanation
Indices: 9732197--9732250 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
9732187 AGGTTTGCAC
9732197 ATAGGGTTCGCACAT
1 ATAGGGTTCGCACAT
*
9732212 ATAGGGTTCACACAT
1 ATAGGGTTCGCACAT
* *
9732227 GTAGGGTTCGCACAG
1 ATAGGGTTCGCACAT
*
9732242 ATAAGGTTC
1 ATAGGGTTC
9732251 ACATATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (15 bp):
ATAGGGTTCGCACAT
Found at i:9732273 original size:18 final size:17
Alignment explanation
Indices: 9732261--9732309 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9732251 ACATATTATA
9732261 TAGGGTTTGCATAATATG
1 TAGGGTTTGCAT-ATATG
* *
9732279 TAGGATTCGCATGATATG
1 TAGGGTTTGCAT-ATATG
*
9732297 TAAGGTTTGCATA
1 TAGGGTTTGCATA
9732310 AATATATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (17 bp):
TAGGGTTTGCATATATG
Found at i:9732375 original size:15 final size:15
Alignment explanation
Indices: 9732350--9732424 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
9732340 TAAGGTTATG
9732350 TATAT-GGGTTCGCA
1 TATATGGGGTTCGCA
*
9732364 TATATGGGGTTCACA
1 TATATGGGGTTCGCA
* *
9732379 TACATGGGCTT-GCA
1 TATATGGGGTTCGCA
* *
9732393 TACA-GGGGATTCGCC
1 TATATGGGG-TTCGCA
* *
9732408 TATAGGGGGTTCACA
1 TATATGGGGTTCGCA
9732423 TA
1 TA
9732425 CATGCATTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.06
14 13 0.27
15 28 0.58
16 4 0.08
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (15 bp):
TATATGGGGTTCGCA
Found at i:9733871 original size:15 final size:16
Alignment explanation
Indices: 9733846--9733879 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
9733836 ATTATTTATC
9733846 TTATTATTTAAATTTT
1 TTATTATTTAAATTTT
9733862 TTATTA-TTAAATTTT
1 TTATTATTTAAATTTT
9733877 TTA
1 TTA
9733880 AAATTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTTAAATTTT
Found at i:9739026 original size:20 final size:18
Alignment explanation
Indices: 9738978--9739030 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
9738968 TTAATTAACT
*
9738978 TATTTTTTCATTTTT-TA
1 TATTTTTTAATTTTTATA
*
9738995 TCTTTTTTAATTTTTATA
1 TATTTTTTAATTTTTATA
9739013 TATTATTTTGAATTTTTA
1 TATT-TTTT-AATTTTTA
9739031 AAATTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 13 0.43
18 5 0.17
19 4 0.13
20 8 0.27
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTTAATTTTTATA
Found at i:9739036 original size:19 final size:20
Alignment explanation
Indices: 9738998--9739036 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9738988 TTTTTTATCT
* *
9738998 TTTTTAATTTTTATATATTA
1 TTTTGAATTTTTATAAATTA
9739018 TTTTGAATTTTTA-AAATTA
1 TTTTGAATTTTTATAAATTA
9739037 ATAATGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:9746801 original size:23 final size:23
Alignment explanation
Indices: 9746754--9746803 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9746744 ACTATTTTTT
*
9746754 AATTAAAATGTATTTTAATTTAA
1 AATTAAAATGTATTTTAATTAAA
9746777 AATTAAAAT-TAATTGTT-ATTAAA
1 AATTAAAATGT-ATT-TTAATTAAA
9746800 AATT
1 AATT
9746804 TGAAAACTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.04
23 21 0.88
24 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
AATTAAAATGTATTTTAATTAAA
Found at i:9746967 original size:51 final size:52
Alignment explanation
Indices: 9746912--9747029 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
9746902 AAAAATATGA
*
9746912 TGGAGGACTTATTATGGAATATTGAATA-ATTATAGAATTCTTT-AAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATATTATAGAATT-TTTGAAACATGT
*
9746963 TGGAGGACTTACTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
9747015 TGGAGGACTTATTAT
1 TGGAGGACTTATTAT
9747030 TGAACAAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 29 0.47
52 33 0.53
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (52 bp):
TGGAGGACTTATTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
Found at i:9749896 original size:137 final size:138
Alignment explanation
Indices: 9749659--9749974 Score: 393
Period size: 137 Copynumber: 2.3 Consensus size: 138
9749649 TTATTTTCGA
* * * **
9749659 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
*** * * **
9749724 TCAACCATGATCTTGTTCATTTCATGTTACATTGCCATGATATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
* *
9749789 -TTCCCGT
131 TTTCACAT
* * *
9749796 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTC-TTTTCATGTCACATTGCCATGGTATCT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTC-TGTCACATTGCCATGGTATCT
* * ** *
9749860 TTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
65 TTCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACAC
*
9749925 ATTTCATAT
130 ATTTCACAT
*
9749934 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTT
9749975 CATTTCAGAA
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
136 5 0.03
137 104 0.70
138 37 0.25
139 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (138 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:9749975 original size:46 final size:46
Alignment explanation
Indices: 9749659--9749977 Score: 372
Period size: 46 Copynumber: 7.0 Consensus size: 46
9749649 TTATTTTCGA
* * * *
9749659 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * **
9749705 CAGGTTGCCATGGTATCTTTCAACCATGATCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* ** * * **
9749751 TACATTGCCATGATATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
9749796 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * *
9749842 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
9749888 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
9749934 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
9749978 TTCAGAAAGC
Statistics
Matches: 235, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
45 41 0.17
46 194 0.83
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:9752794 original size:21 final size:21
Alignment explanation
Indices: 9752768--9752810 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9752758 AGAAAAGAGA
9752768 TAGACTTGAAGTGTGATTCAC
1 TAGACTTGAAGTGTGATTCAC
9752789 TAGACTTGAAGTGTGATTCAC
1 TAGACTTGAAGTGTGATTCAC
9752810 T
1 T
9752811 GTCCTCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (21 bp):
TAGACTTGAAGTGTGATTCAC
Found at i:9753125 original size:128 final size:129
Alignment explanation
Indices: 9752961--9753201 Score: 351
Period size: 128 Copynumber: 1.9 Consensus size: 129
9752951 GTTCCACAAG
* * * *
9752961 TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGTTATGTTTATTCCTTACGAATTATTTTT
1 TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
** * *
9753026 GAATGTTATATTTATTCAAATAAATTTGTTTATATGTAAATAAAAAATAATAACTAAAAAATAT
66 GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAATAATAACTAAAAAATAT
* * *
9753090 TTACGC-TTTCCATGACATTACAACTTTTTTA-AAAAGCTATGTTTATTCATTACGAGTCCTTTC
1 TTACGCTTTTCCATGACATTACAAC-TTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTC
*
9753153 TGAATGTTATATTTATTCGAATAAATTTACTTAGATGCAAATAAAAAAT
65 TGAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAAT
9753202 GATTATTTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 88 0.89
129 11 0.11
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (129 bp):
TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAATAATAACTAAAAAATAT
Found at i:9753964 original size:26 final size:26
Alignment explanation
Indices: 9753931--9753982 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9753921 ATACACCTAA
9753931 ATGAACAGGTCAATTGTATGATTCCT
1 ATGAACAGGTCAATTGTATGATTCCT
9753957 ATGAACAGGTCAATTGTATGATTCCT
1 ATGAACAGGTCAATTGTATGATTCCT
9753983 TATTATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (26 bp):
ATGAACAGGTCAATTGTATGATTCCT
Found at i:9754562 original size:16 final size:16
Alignment explanation
Indices: 9754531--9754574 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
9754521 ATAAGAGTGT
* *
9754531 TTTTATAATTTTATAA
1 TTTTATAAATTCATAA
9754547 TTTTATAAATTCATAA
1 TTTTATAAATTCATAA
9754563 TAGTTTATAAAT
1 T--TTTATAAAT
9754575 AAAAAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.62
18 9 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTATAAATTCATAA
Found at i:9767968 original size:83 final size:83
Alignment explanation
Indices: 9767838--9768192 Score: 530
Period size: 83 Copynumber: 4.3 Consensus size: 83
9767828 TTAGGTTGTG
* * ** *
9767838 TGGTTCACACGGGCGTATAGGCCACACGAGCGTGTGTTAGGCTGTATGGACCACACCACATAGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9767903 TAGGCCAATTAGGCTATT
66 TAGGCCAATTAGGCTATA
* * * *
9767921 TGGTTCACACGAGCGTATGGGTCACACGACCGTGTGTTAGGACGTATGGACCACACCACATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9767986 TAGGCCAATTAGGCTGTA
66 TAGGCCAATTAGGCTATA
* * *
9768004 TGGTTCACACAAGCGTATGGGCCGCACGAGCGTGTGTTAGGCCATATGGACCACACAACATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
* *
9768069 TAGGCTAATTAGGCTATG
66 TAGGCCAATTAGGCTATA
*
9768087 TGGTTCACATGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9768152 TAGGCCAATTAGGCTGTA
66 TAGGCCAATTAGGCTATA
* *
9768170 TGGTTCACACGGGTGTATGGGCC
1 TGGTTCACACGAGCGTATGGGCC
9768193 CAATTCTTAA
Statistics
Matches: 243, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 243 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (83 bp):
TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
TAGGCCAATTAGGCTATA
Found at i:9768061 original size:46 final size:45
Alignment explanation
Indices: 9768009--9768142 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 45
9767999 CTGTATGGTT
9768009 CACACAAGCGTATGGGCCGCACGAGCGTGTGTTAGGCCATATGGAC
1 CACACAAGCGTATGGGCC-CACGAGCGTGTGTTAGGCCATATGGAC
* ** * * **
9768055 CACACAA-C--ATGGG-CTA-G-GC-T-AATTAGGCTATGTGGTT
1 CACACAAGCGTATGGGCCCACGAGCGTGTGTTAGGCCATATGGAC
**
9768092 CACATGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGAC
1 CACACAAGCGTATGGGCC-CACGAGCGTGTGTTAGGCCATATGGAC
9768138 CACAC
1 CACAC
9768143 CACATGGGCT
Statistics
Matches: 62, Mismatches: 17, Indels: 18
0.64 0.18 0.19
Matches are distributed among these distances:
37 16 0.26
38 2 0.03
39 2 0.03
40 6 0.10
41 2 0.03
42 2 0.03
43 6 0.10
44 2 0.03
45 2 0.03
46 22 0.35
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (45 bp):
CACACAAGCGTATGGGCCCACGAGCGTGTGTTAGGCCATATGGAC
Found at i:9768995 original size:17 final size:17
Alignment explanation
Indices: 9768970--9769008 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9768960 ACGGTCTAGT
*
9768970 CACATAGTCGTGTGACA
1 CACACAGTCGTGTGACA
9768987 CACACAGTCGTGTGACA
1 CACACAGTCGTGTGACA
*
9769004 TACAC
1 CACAC
9769009 GGATTAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (17 bp):
CACACAGTCGTGTGACA
Found at i:9775109 original size:26 final size:26
Alignment explanation
Indices: 9775080--9775187 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
9775070 TGGTACAAAT
9775080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
9775106 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9775132 TAATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9775158 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9775184 TGAT
1 TGAT
9775188 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9782210 original size:26 final size:26
Alignment explanation
Indices: 9782172--9782291 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 26
9782162 CCAATCTACA
*
9782172 AAATTACCGAAATACCTCTAATTTAT
1 AAATTACTGAAATACCTCTAATTTAT
* *
9782198 AAATTACTAAAATACC-CTTATAGTGTA-
1 AAATTACTGAAATACCTC-TA-A-TTTAT
*
9782225 AAATTA-TCGAAATACCTCT-ATTTGT
1 AAATTACT-GAAATACCTCTAATTTAT
* * *
9782250 AAAATTACTGAAATACCCCCAATTTGT
1 -AAATTACTGAAATACCTCTAATTTAT
9782277 AGAATTACTGAAATA
1 A-AATTACTGAAATA
9782292 TCTTTGTAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 33 0.43
27 35 0.46
28 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (26 bp):
AAATTACTGAAATACCTCTAATTTAT
Found at i:9782237 original size:27 final size:26
Alignment explanation
Indices: 9782198--9782362 Score: 102
Period size: 27 Copynumber: 6.2 Consensus size: 26
9782188 TCTAATTTAT
*
9782198 AAATTACTAAAATACCCTTATAGTGTA
1 AAATTAC-GAAATACCCTTATAGTGTA
*
9782225 AAATTATCGAAATA-CCTCTAT-TTGTA
1 AAATTA-CGAAATACCCT-TATAGTGTA
** *
9782251 AAATTACTGAAATACCCCCA-ATTTGTA
1 AAATTAC-GAAATACCCTTATA-GTGTA
* * * *
9782278 GAATTACTGAAATATCTTTGTAGTGTA
1 AAATTAC-GAAATACCCTTATAGTGTA
*
9782305 AAATTACCGAAATACCCTTGTAGTGTA
1 AAATTA-CGAAATACCCTTATAGTGTA
* * * * *
9782332 AAATGACCGACATACCCCTGTAGGGTA
1 AAATTA-CGAAATACCCTTATAGTGTA
9782359 AAAT
1 AAAT
9782363 GACTGTTTTG
Statistics
Matches: 112, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.01
26 20 0.18
27 88 0.79
28 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACGAAATACCCTTATAGTGTA
Found at i:9782283 original size:53 final size:53
Alignment explanation
Indices: 9782171--9782321 Score: 137
Period size: 53 Copynumber: 2.8 Consensus size: 53
9782161 CCCAATCTAC
* * **
9782171 AAAATTACCGAAATACCTCTAATT-TATAAATTACTAAAATA-CCCTTATAGTGT
1 AAAATTA-CGAAATACCTCTATTTGTA-AAATTACTGAAATACCCCCAATAGTGT
*
9782224 AAAATTATCGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAAT-TTGT
1 AAAATTA-CGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAATAGTGT
* * * * * *
9782277 AGAATTACTGAAATATCTTTGTAGTGTAAAATTACCGAAATACCC
1 AAAATTAC-GAAATACCTCTAT-TTGTAAAATTACTGAAATACCC
9782322 TTGTAGTGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 54 0.66
54 27 0.33
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
AAAATTACGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAATAGTGT
Found at i:9782306 original size:80 final size:79
Alignment explanation
Indices: 9782171--9782320 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 79
9782161 CCCAATCTAC
* * *
9782171 AAAATTACCGAAATACCTCTAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTATCGAA
1 AAAATTACCGAAATACCCCCAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTACCGAA
9782236 ATACCTCTATTTGT
66 ATACCTCTATTTGT
* * * * * *
9782250 AAAATTACTGAAATACCCCCAATTTGTAGAATTACTGAAATATCTTTGTAGTGTAAAATTACCGA
1 AAAATTACCGAAATACCCCCAATTTATA-AATTACTAAAATACCCTTATAGTGTAAAATTACCGA
9782315 AATACC
65 AATACC
9782321 CTTGTAGTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 24 0.39
80 37 0.61
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (79 bp):
AAAATTACCGAAATACCCCCAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTACCGAA
ATACCTCTATTTGT
Found at i:9782363 original size:27 final size:27
Alignment explanation
Indices: 9782296--9782365 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
9782286 GAAATATCTT
* *
9782296 TGTAGTGTAAAATTACCGAAATACCCT
1 TGTAGTGTAAAATGACCGAAATACCCC
*
9782323 TGTAGTGTAAAATGACCGACATACCCC
1 TGTAGTGTAAAATGACCGAAATACCCC
*
9782350 TGTAGGGTAAAATGAC
1 TGTAGTGTAAAATGAC
9782366 TGTTTTGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TGTAGTGTAAAATGACCGAAATACCCC
Found at i:9809422 original size:38 final size:38
Alignment explanation
Indices: 9809371--9809446 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
9809361 AAATCGAGAA
9809371 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
*
9809409 TATCTACATGCGAAGGTGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
9809447 AACCTAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (38 bp):
TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
Found at i:9809752 original size:85 final size:85
Alignment explanation
Indices: 9809652--9809809 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 85
9809642 TATATACTTC
* *
9809652 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTCATCAGAGAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
9809717 ACTAAAATACTACAAAAAAG
66 ACTAAAATACTACAAAAAAG
* *
9809737 AAATGCAAATGGAGAAGTATGAGTTCATACAGCATGTTAATCGGAAAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
*
9809802 ACTGAAAT
66 ACTAAAAT
9809810 CCTAAAATAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (85 bp):
AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
ACTAAAATACTACAAAAAAG
Found at i:9810105 original size:10 final size:10
Alignment explanation
Indices: 9810090--9810129 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
9810080 TCGAACTTTA
9810090 AAAAAAAATG
1 AAAAAAAATG
*
9810100 AAAAAAATTG
1 AAAAAAAATG
9810110 AAACAAAAATGG
1 AAA-AAAAAT-G
9810122 AAAAAAAA
1 AAAAAAAA
9810130 AAGTGCAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 12 0.46
11 10 0.38
12 4 0.15
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:9810298 original size:20 final size:22
Alignment explanation
Indices: 9810275--9810318 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
9810265 ACCAAACAGG
9810275 AAAAACAG-AAGGAAAA-GAAA
1 AAAAACAGCAAGGAAAATGAAA
* *
9810295 AAAAAGAGCAAGTAAAATGAAA
1 AAAAACAGCAAGGAAAATGAAA
9810317 AA
1 AA
9810319 CCATCACCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.05
Consensus pattern (22 bp):
AAAAACAGCAAGGAAAATGAAA
Found at i:9811264 original size:29 final size:29
Alignment explanation
Indices: 9811232--9811321 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 29
9811222 AATTTTCCCT
*
9811232 TTTATTAAAATAATATGAA-AATTAAATTA
1 TTTATCAAAATAATAT-AATAATTAAATTA
* * *
9811261 TTTATCCACATAATATAATATTTAAATTA
1 TTTATCAAAATAATATAATAATTAAATTA
* * *
9811290 --T-TCCACATAATATAATATTTAAATTA
1 TTTATCAAAATAATATAATAATTAAATTA
9811316 TTTATC
1 TTTATC
9811322 TTAATTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 25 0.47
27 1 0.02
28 3 0.06
29 24 0.45
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTATCAAAATAATATAATAATTAAATTA
Found at i:9811301 original size:26 final size:26
Alignment explanation
Indices: 9811265--9811317 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9811255 AAATTATTTA
9811265 TCCACATAATATAATATTTAAATTAT
1 TCCACATAATATAATATTTAAATTAT
9811291 TCCACATAATATAATATTTAAATTAT
1 TCCACATAATATAATATTTAAATTAT
9811317 T
1 T
9811318 TATCTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (26 bp):
TCCACATAATATAATATTTAAATTAT
Found at i:9811326 original size:26 final size:26
Alignment explanation
Indices: 9811253--9811326 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 26
9811243 AATATGAAAA
9811253 TTAAATTATTTATCCACATAATATAATAT
1 TTAAATTATTTAT---CATAATATAATAT
*
9811282 TTAAATTATTCCA-CATAATATAATAT
1 TTAAATTATT-TATCATAATATAATAT
*
9811308 TTAAATTATTTATCTTAAT
1 TTAAATTATTTATCATAAT
9811327 TTGAAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 28 0.70
29 10 0.25
30 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAATTATTTATCATAATATAATAT
Found at i:9812367 original size:34 final size:34
Alignment explanation
Indices: 9812329--9812393 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
9812319 AGATGCAGTT
* * *
9812329 TGGGCCTGAGCTCGTTACAATATCAGTATCAATG
1 TGGGCCTGAGCCCATTACAATAACAGTATCAATG
* *
9812363 TGGGCCTTAGCCCATTACAGTAACAGTATCA
1 TGGGCCTGAGCCCATTACAATAACAGTATCA
9812394 GTGCAGTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (34 bp):
TGGGCCTGAGCCCATTACAATAACAGTATCAATG
Found at i:9812926 original size:54 final size:54
Alignment explanation
Indices: 9812794--9812958 Score: 222
Period size: 54 Copynumber: 3.1 Consensus size: 54
9812784 GGGCAAATCA
* *** * *
9812794 GTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
9812848 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
* ** ** *
9812902 GTCATTTTACCCTATAGGTTTATTTTGGTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
9812956 GTC
1 GTC
9812959 TCCATTTCGG
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
Found at i:9812953 original size:27 final size:27
Alignment explanation
Indices: 9812794--9812958 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
9812784 GGGCAAATCA
* * *
9812794 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * *
9812821 GTCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
9812848 GTCATTTTACCTTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
9812875 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
** *
9812902 GTCATTTTACCCTATAGGTTTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
9812929 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
9812956 GTC
1 GTC
9812959 TCCATTTCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:9813307 original size:56 final size:56
Alignment explanation
Indices: 9813221--9813334 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
9813211 CTTTAATCAA
9813221 TAGGGTTAATCACCCTCTTTTAACACTTAATCCTAAAATAATATTGATACTTGCCT
1 TAGGGTTAATCACCCTCTTTTAACACTTAATCCTAAAATAATATTGATACTTGCCT
9813277 TAGGGTTAATCACCCTCTTTTAACACTTAATCCTAAAATAATATTGATACTTGCCT
1 TAGGGTTAATCACCCTCTTTTAACACTTAATCCTAAAATAATATTGATACTTGCCT
9813333 TA
1 TA
9813335 CTTGAACGAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (56 bp):
TAGGGTTAATCACCCTCTTTTAACACTTAATCCTAAAATAATATTGATACTTGCCT
Found at i:9819366 original size:14 final size:14
Alignment explanation
Indices: 9819347--9819389 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 14
9819337 TCAAATTTAG
9819347 AAAATAAGAATTAA
1 AAAATAAGAATTAA
9819361 AAAATAAGAAATTTTAA
1 AAAATAAG-AA--TTAA
9819378 AAAATAAAGAAT
1 AAAAT-AAGAAT
9819390 AAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.32
15 3 0.12
17 11 0.44
18 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAATAAGAATTAA
Found at i:9819390 original size:24 final size:23
Alignment explanation
Indices: 9819358--9819416 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
9819348 AAATAAGAAT
9819358 TAAAAAATAAGAAATTTTAAAAAA
1 TAAAAAATAA-AAATTTTAAAAAA
* * *
9819382 TAAAGAATAAATATTTTAAATAA
1 TAAAAAATAAAAATTTTAAAAAA
*
9819405 TAACTAAATAAA
1 TAA-AAAATAAA
9819417 GAAAAGATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (23 bp):
TAAAAAATAAAAATTTTAAAAAA
Found at i:9819712 original size:30 final size:30
Alignment explanation
Indices: 9819676--9819736 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9819666 GAGTTTTCAG
* *
9819676 GATCCACACGGGTAGGCCACACGCCCATGT
1 GATCCACACAGGCAGGCCACACGCCCATGT
9819706 GATCCACACAGGCAGGCCACACGCCCATGT
1 GATCCACACAGGCAGGCCACACGCCCATGT
9819736 G
1 G
9819737 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.26, T:0.11
Consensus pattern (30 bp):
GATCCACACAGGCAGGCCACACGCCCATGT
Found at i:9822085 original size:24 final size:24
Alignment explanation
Indices: 9822058--9822118 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
9822048 CACAATGTTT
* * *
9822058 ACTATCACTATCATCATAGTTTGC
1 ACTATTACTATCATCATAGCTCGC
9822082 ACTATTACTATCATCATAGCTCGC
1 ACTATTACTATCATCATAGCTCGC
9822106 ACTATTACTATCA
1 ACTATTACTATCA
9822119 AATTCTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (24 bp):
ACTATTACTATCATCATAGCTCGC
Found at i:9824416 original size:26 final size:28
Alignment explanation
Indices: 9824386--9824445 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
9824376 AATCCAGTCC
9824386 AAAAA-TTCTGCTTGCGCAGTCTTCACT
1 AAAAAGTTCTGCTTGCGCAGTCTTCACT
*
9824413 AAAATAGTTCTGCTTGCGTAGTCTTCACT
1 AAAA-AGTTCTGCTTGCGCAGTCTTCACT
9824442 AAAA
1 AAAA
9824446 CAGTCATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 1 0.03
29 25 0.83
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
AAAAAGTTCTGCTTGCGCAGTCTTCACT
Found at i:9827519 original size:24 final size:25
Alignment explanation
Indices: 9827473--9827519 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
9827463 ATATCCCTTT
*
9827473 TTTACATTTATTTTAGTTAAATTAA
1 TTTACATTTATTCTAGTTAAATTAA
* *
9827498 TTTA-ATTTATTCTCGTTTAATT
1 TTTACATTTATTCTAGTTAAATT
9827520 CTTTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTACATTTATTCTAGTTAAATTAA
Found at i:9827757 original size:11 final size:11
Alignment explanation
Indices: 9827734--9827767 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9827724 ATGTCAAATC
*
9827734 ATCAAGAATAA
1 ATCAAGAACAA
*
9827745 ATTAAGAACAA
1 ATCAAGAACAA
9827756 ATCAAGAACAA
1 ATCAAGAACAA
9827767 A
1 A
9827768 ACTAGAGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:9828993 original size:19 final size:20
Alignment explanation
Indices: 9828969--9829012 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
9828959 CTTTTATTCT
9828969 CAATG-TTTAGTTCTTCATA
1 CAATGCTTTAGTTCTTCATA
9828988 CAATGTCCTTTAGTTCTTCATA
1 CAATG--CTTTAGTTCTTCATA
9829010 CAA
1 CAA
9829013 ATGTCCCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
22 17 0.77
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.43
Consensus pattern (20 bp):
CAATGCTTTAGTTCTTCATA
Found at i:9829001 original size:22 final size:23
Alignment explanation
Indices: 9828974--9829018 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
9828964 ATTCTCAATG
9828974 TTTAGTTCTTCATAC-AATGTCC
1 TTTAGTTCTTCATACAAATGTCC
9828996 TTTAGTTCTTCATACAAATGTCC
1 TTTAGTTCTTCATACAAATGTCC
9829019 CTGCTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAGTTCTTCATACAAATGTCC
Found at i:9837035 original size:21 final size:22
Alignment explanation
Indices: 9837011--9837052 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
9837001 TTCCATAAAT
9837011 ATTTTA-TGATTATTTTTTATA
1 ATTTTATTGATTATTTTTTATA
9837032 ATTTTATTTGATTATTTTTTA
1 ATTTTA-TTGATTATTTTTTA
9837053 AAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
ATTTTATTGATTATTTTTTATA
Found at i:9852458 original size:20 final size:20
Alignment explanation
Indices: 9852430--9852468 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9852420 GGACAATGCA
9852430 AGGGAAAAGAAAGAGAGAAG
1 AGGGAAAAGAAAGAGAGAAG
* *
9852450 AGGGGAAAGAAATAGAGAA
1 AGGGAAAAGAAAGAGAGAA
9852469 TTTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (20 bp):
AGGGAAAAGAAAGAGAGAAG
Found at i:9853248 original size:26 final size:27
Alignment explanation
Indices: 9853219--9853278 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
9853209 ATAATATATA
*
9853219 ATAATTTCAACATCAA-ATATTT-TTAT
1 ATAATTTCAA-ATAAATATATTTATTAT
**
9853245 ATAATTTTTAATAAATATATTTATTAT
1 ATAATTTCAAATAAATATATTTATTAT
9853272 ATAATTT
1 ATAATTT
9853279 TTTTTTCATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 14 0.48
27 11 0.38
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATTTCAAATAAATATATTTATTAT
Found at i:9859311 original size:31 final size:31
Alignment explanation
Indices: 9859271--9859336 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
9859261 TATTTTTTGA
* * *
9859271 ATATGTATAATTTG-ATCAAAATCAAAATTTC
1 ATATATATAA-TTGAATCAAAATAAAAATTCC
9859302 ATATATATAATTGAATCAAAATAAAAATTCC
1 ATATATATAATTGAATCAAAATAAAAATTCC
9859333 ATAT
1 ATAT
9859337 GTATCAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (31 bp):
ATATATATAATTGAATCAAAATAAAAATTCC
Found at i:9865281 original size:26 final size:25
Alignment explanation
Indices: 9865252--9865301 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9865242 AAAAGTTAGT
9865252 TAAATGAATTTTGGACCCTTAAAAGC
1 TAAAT-AATTTTGGACCCTTAAAAGC
** *
9865278 TAAATTTTTTTGGGCCCTTAAAAG
1 TAAATAATTTTGGACCCTTAAAAG
9865302 TTGGTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (25 bp):
TAAATAATTTTGGACCCTTAAAAGC
Found at i:9866534 original size:20 final size:20
Alignment explanation
Indices: 9866511--9866548 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9866501 GTTGGATTTT
*
9866511 GTCTGTGTTTGTTTTTTGTG
1 GTCTGTGTTTGGTTTTTGTG
9866531 GTCTGTGTTTGGTTTTTG
1 GTCTGTGTTTGGTTTTTG
9866549 GTTTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.32, T:0.63
Consensus pattern (20 bp):
GTCTGTGTTTGGTTTTTGTG
Found at i:9866870 original size:18 final size:17
Alignment explanation
Indices: 9866842--9866887 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
9866832 AACATTTCAC
9866842 TTTATATATTTTTGTAAAT
1 TTTA-ATATTTTT-TAAAT
*
9866861 TTTAATATTTTTTATAT
1 TTTAATATTTTTTAAAT
9866878 TTATAATATT
1 TT-TAATATT
9866888 ATAGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTAATATTTTTTAAAT
Found at i:9866936 original size:31 final size:29
Alignment explanation
Indices: 9866879--9866940 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
9866869 TTTTTATATT
9866879 TATAATATTATAGTTTTATATAATTTTCTA
1 TATAATATTATAGTTTTATATAATTTT-TA
* *
9866909 TATATATATTAT-GTTTTTGTATGATTTTTA
1 TATA-ATATTATAG-TTTTATATAATTTTTA
9866939 TA
1 TA
9866941 ATTCTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (29 bp):
TATAATATTATAGTTTTATATAATTTTTA
Found at i:9870344 original size:12 final size:12
Alignment explanation
Indices: 9870327--9870360 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9870317 TAGCCCGCCC
9870327 ATATTAATTTTT
1 ATATTAATTTTT
*
9870339 ATATTATTTTTT
1 ATATTAATTTTT
9870351 ATA-TAATTTT
1 ATATTAATTTT
9870361 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9871200 original size:43 final size:45
Alignment explanation
Indices: 9871153--9871240 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 45
9871143 TTGAAGTAAA
9871153 ATAGAAGTTGTGATAATTA-TAT-ATTTAAAATA-ATTATAATTTG
1 ATAGAAGTTGTGATAATTATTATAATTTAAAA-ACATTATAATTTG
*
9871196 ATAGAATTTGTGATAATTATTATACATTTAAAAACATTATAATTT
1 ATAGAAGTTGTGATAATTATTATA-ATTTAAAAACATTATAATTT
9871241 AATTTACAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 18 0.45
44 3 0.08
45 1 0.03
46 18 0.45
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (45 bp):
ATAGAAGTTGTGATAATTATTATAATTTAAAAACATTATAATTTG
Found at i:9871520 original size:39 final size:39
Alignment explanation
Indices: 9871477--9871554 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
9871467 ACATTAGAAG
9871477 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
*
9871516 TTAGTATATTGAAATGGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
9871555 AAAATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (39 bp):
TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
Found at i:9872755 original size:19 final size:18
Alignment explanation
Indices: 9872723--9872774 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 18
9872713 ATGGAAATAT
9872723 AATCTTA-AATGATATGC
1 AATCTTAGAATGATATGC
9872740 AATCTTAGATATGATATGC
1 AATCTTAGA-ATGATATGC
9872759 AATCTTAGAA-GATATG
1 AATCTTAGAATGATATG
9872775 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.39
18 2 0.06
19 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCTTAGAATGATATGC
Found at i:9872793 original size:22 final size:22
Alignment explanation
Indices: 9872731--9872790 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 22
9872721 ATAATCTTAA
*
9872731 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATATTAGAAGAT
*
9872750 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATATTAGAAGAT
* *
9872772 ATGATTTTGTAATATTAGA
1 ATGA-TATGCAATATTAGA
9872791 GATTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.44
22 8 0.24
23 11 0.32
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATATTAGAAGAT
Found at i:9882358 original size:220 final size:219
Alignment explanation
Indices: 9881976--9882473 Score: 852
Period size: 220 Copynumber: 2.3 Consensus size: 219
9881966 CAGAGAATAG
* *
9881976 ATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGGCATAGCAGATCTAACCTTCGGATGCC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGA-TAAAGACATAGCAGATCTAACCTTCGGATGCC
9882041 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
65 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
* *
9882106 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACT
130 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTAGCATCTCTATACT
*
9882171 GTCAGAGAACAAATCAAAGAAACAT
195 GTCAGAGAACAAATCAAAGAAACAA
* *
9882196 ATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGAT-AAAGACATAGCAGATCTAACCTTCGGATGCC
*
9882261 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACA
65 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
9882326 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTAGCATCTCTATACT
130 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTAGCATCTCTATACT
**
9882391 GTCAGAGAACAAATTGAAGAAACAA
195 GTCAGAGAACAAATCAAAGAAACAA
* * *
9882416 ATTTCGCATCTCCATATTCGACGGAGAGCAGATAGAAGACATAACAGATCTGACCTTC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGATA-AAGACATAGCAGATCTAACCTTC
9882474 ATTGAAGCAG
Statistics
Matches: 262, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
219 2 0.01
220 260 0.99
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (219 bp):
ATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAGACATAGCAGATCTAACCTTCGGATGCCT
TCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACAT
AGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTAGCATCTCTATACTG
TCAGAGAACAAATCAAAGAAACAA
Found at i:9882541 original size:77 final size:78
Alignment explanation
Indices: 9882416--9882787 Score: 401
Period size: 78 Copynumber: 4.6 Consensus size: 78
9882406 GAAGAAACAA
* ** * * *
9882416 ATTTCGCATCTCCATATTCGACGGAGAGCAGATAGAAGACATAACAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAG
9882481 CAGATCCAAGATG
66 CAGATCCAAGATG
* * * *
9882494 ATTTGGCATCTCTGTATT-GAAGGGGAGCAGATCGAAGACATAGCAGATCTGACATTCATTGTAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAG
9882558 CAGATCCAAGATG
66 CAGATCCAAGATG
* **
9882571 ATTTGGCATCTCTGTATTAGACGAGGAGCAGATTAAAGACATAACAGAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGAA
9882635 GCAGATCCAAGATG
65 GCAGATCCAAGATG
** * **
9882649 ATTTGGCATCTCTACATTAGACGGGGAGTAGATCGAAGACATAGTAGATCTGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGA-C--C------T
9882714 TACATTGAAGCAGATCCAAGATGACAG
57 T-CATTGAAGCAGATCCAAGAT----G
* *
9882741 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG--GAGATAACAGAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT
9882788 TTGGCATCTC
Statistics
Matches: 246, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
77 72 0.29
78 108 0.44
79 2 0.01
81 1 0.00
87 2 0.01
88 20 0.08
90 9 0.04
92 32 0.13
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:9882844 original size:44 final size:45
Alignment explanation
Indices: 9882722--9882921 Score: 294
Period size: 45 Copynumber: 4.5 Consensus size: 45
9882712 TTTACATTGA
* *
9882722 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
9882767 AGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGAGGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
9882812 AGCAGATTGAAGA-AACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
9882856 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
9882901 AGCAAATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
9882922 ATCACCTTCC
Statistics
Matches: 140, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 41 0.29
45 99 0.71
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:9882845 original size:89 final size:89
Alignment explanation
Indices: 9882737--9882904 Score: 291
Period size: 89 Copynumber: 1.9 Consensus size: 89
9882727 ATCCAAGATG
*
9882737 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
*
9882802 TTAGAGGGGGAGCAGATTGAAGAA
66 TTAGACGGGGAGCAGATTGAAGAA
* * *
9882826 ACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
9882891 TTAGACGGGGAGCA
66 TTAGACGGGGAGCA
9882905 AATCAAAGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (89 bp):
ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
TTAGACGGGGAGCAGATTGAAGAA
Found at i:9883295 original size:19 final size:19
Alignment explanation
Indices: 9883271--9883361 Score: 136
Period size: 19 Copynumber: 4.9 Consensus size: 19
9883261 ATAATCTTCA
9883271 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9883290 ATGATAT--AATCTTATAT
1 ATGATATGCAATCTTAGAT
9883307 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9883325 ATGA-ATTGCAATCTTAGAT
1 ATGATA-TGCAATCTTAGAT
9883344 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
9883362 AGATATGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
16 1 0.02
17 14 0.22
18 13 0.20
19 36 0.55
20 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9883381 original size:42 final size:37
Alignment explanation
Indices: 9883271--9883384 Score: 124
Period size: 35 Copynumber: 3.0 Consensus size: 37
9883261 ATAATCTTCA
* *
9883271 ATGATATGCAATCTTAGATATG-A-TATAATCTTATAT
1 ATGAT-TGCAATCTTAGATATGAATTGTAATCTTAGAT
*
9883307 ATGATTGCAATCTTAGATATGAATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGAATTGTAATCTTAGAT
*
9883344 ATGATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATGAT-TGCAATCTT---AGATATGA-ATTGTAATCTTAGA
9883385 GATTTAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
35 16 0.24
36 6 0.09
37 15 0.23
38 9 0.14
41 8 0.12
42 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (37 bp):
ATGATTGCAATCTTAGATATGAATTGTAATCTTAGAT
Found at i:9883387 original size:22 final size:22
Alignment explanation
Indices: 9883271--9883384 Score: 71
Period size: 19 Copynumber: 5.8 Consensus size: 22
9883261 ATAATCTTCA
9883271 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
9883290 ATGATAT--AATCTTAT---AT
1 ATGATATGCAATCTTAGAAGAT
9883307 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9883325 ATGA-ATTGCAATCTT---AGAT
1 ATGATA-TGCAATCTTAGAAGAT
9883344 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
9883366 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
9883385 GATTTAATTT
Statistics
Matches: 80, Mismatches: 2, Indels: 22
0.77 0.02 0.21
Matches are distributed among these distances:
16 1 0.01
17 13 0.16
18 12 0.15
19 33 0.41
20 1 0.01
22 8 0.10
23 12 0.15
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:9886458 original size:41 final size:41
Alignment explanation
Indices: 9886381--9886578 Score: 211
Period size: 41 Copynumber: 4.8 Consensus size: 41
9886371 CCGGGTTTTA
* * *** *
9886381 AGCCTAGCAGGCTTCGAGCCGGTGTACCATAACAGGCCTTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
* *
9886422 AGCCTAGCAAGCTTCGTGCTGGTGCATTGTATCAGGCCTTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
* * * *
9886463 AGCCTAGCAGGCTTCATGCTGGTATATTGTATTAGGCCGTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
** * *
9886504 AGTTTAGCAGGCTTCGTG-TCGGTGTATTATATCAGGCCTTA
1 AGCCTAGCAGGCTTCGTGCT-GGTGTATTGTATCAGGCCTTG
*
9886545 AGCCTAGCAGGCTTCGTG-TCGATGTATTGTATCA
1 AGCCTAGCAGGCTTCGTGCT-GGTGTATTGTATCA
9886579 AGTAATTTGT
Statistics
Matches: 130, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
40 1 0.01
41 129 0.99
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
Found at i:9887799 original size:20 final size:21
Alignment explanation
Indices: 9887754--9887799 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
9887744 GTGTGACCCA
9887754 TGTTTTCAAAATTTTTAATCT
1 TGTTTTCAAAATTTTTAATCT
** *
9887775 T-TTTTCAACTTTTTTGAT-T
1 TGTTTTCAAAATTTTTAATCT
9887794 TGTTTT
1 TGTTTT
9887800 AAATTAGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.65
Consensus pattern (21 bp):
TGTTTTCAAAATTTTTAATCT
Found at i:9894292 original size:12 final size:12
Alignment explanation
Indices: 9894275--9894305 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
9894265 ACTCGGGGAA
9894275 GAGGCCGTGGTC
1 GAGGCCGTGGTC
9894287 GAGGCCGTGGTC
1 GAGGCCGTGGTC
9894299 GAGGCCG
1 GAGGCCG
9894306 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:9899785 original size:40 final size:40
Alignment explanation
Indices: 9899731--9899915 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
9899721 CTTGCACAAG
* * *
9899731 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
9899771 GCCTTCGGGACTTAGCCCAGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
9899811 GCCTTCGGTTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
9899851 GCCTTC-GGATCTGAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
9899892 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
9899916 CATTCGAATA
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 26 0.22
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:9900553 original size:38 final size:38
Alignment explanation
Indices: 9900511--9900600 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
9900501 TGCTTACCTA
9900511 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
*
9900549 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
9900587 TGGCCGAACATACA
1 TGGCCGAACATACA
9900601 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATAAACTTATGTACTCATTCATG
Found at i:9907966 original size:40 final size:40
Alignment explanation
Indices: 9907912--9908096 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
9907902 CTTGCACAAG
* * *
9907912 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
9907952 GCCTTCGGGACTTAGCCCAGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
9907992 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
9908032 GCCTT-TGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
9908073 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
9908097 CATTCGAATA
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.03
40 86 0.73
41 26 0.22
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:9908733 original size:38 final size:38
Alignment explanation
Indices: 9908691--9908780 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
9908681 TGCTTACCTA
9908691 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
* *
9908729 TGGCCGGACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
9908767 TGGCCGAACATACA
1 TGGCCGAACATACA
9908781 TGTCTATGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATAAACTTATGTACTCATTCATG
Found at i:9910746 original size:26 final size:26
Alignment explanation
Indices: 9910710--9910765 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
9910700 TGATAAAAAT
*
9910710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9910736 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9910762 TGAT
1 TGAT
9910766 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9912283 original size:26 final size:26
Alignment explanation
Indices: 9912254--9912306 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9912244 TTTACAGTTT
9912254 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9912280 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9912306 T
1 T
9912307 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9916396 original size:17 final size:18
Alignment explanation
Indices: 9916362--9916397 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9916352 TGAATTTCTA
9916362 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
9916380 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
9916397 T
1 T
9916398 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:9917285 original size:36 final size:36
Alignment explanation
Indices: 9917244--9917316 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
9917234 TTGTACACAT
9917244 ATATTTTTGTACATTTGTACAATATCAATACCATAC
1 ATATTTTTGTACATTTGTACAATATCAATACCATAC
*
9917280 ATATTTTTGTACATTTGTACAATATCAATTCCATAC
1 ATATTTTTGTACATTTGTACAATATCAATACCATAC
9917316 A
1 A
9917317 ATTGTCATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (36 bp):
ATATTTTTGTACATTTGTACAATATCAATACCATAC
Found at i:9917657 original size:23 final size:24
Alignment explanation
Indices: 9917631--9917689 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
9917621 TTTATTTCCT
9917631 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
9917654 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
9917678 TTAA-ATAATATT
1 TTAATATAATATT
9917690 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:9924588 original size:27 final size:27
Alignment explanation
Indices: 9924558--9924762 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
9924548 ATATTGAGTC
* * *
9924558 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
9924585 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
9924612 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
9924639 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
* ** ** *
9924667 CGCACAGTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* * **
9924694 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
9924721 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
9924748 CCCACACTTAGTGCT
1 CGCACACTTAGTGCT
9924763 GTACAATTTA
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:9925325 original size:13 final size:13
Alignment explanation
Indices: 9925307--9925331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9925297 TACTAAATTT
9925307 TCATGGATTCAAG
1 TCATGGATTCAAG
9925320 TCATGGATTCAA
1 TCATGGATTCAA
9925332 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:9932499 original size:27 final size:27
Alignment explanation
Indices: 9932469--9932646 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
9932459 ATATTGAGTC
* * * *
9932469 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
9932496 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9932523 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9932551 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9932578 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9932605 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9932632 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9932647 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9932608 original size:82 final size:81
Alignment explanation
Indices: 9932490--9932645 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
9932480 TGCTATATAA
*
9932490 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9932555 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9932572 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9932636 CACTTAGTGC
65 CACTTAGTGC
9932646 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9933206 original size:13 final size:13
Alignment explanation
Indices: 9933188--9933212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9933178 TACTAAATTT
9933188 TCATGGATTCAAG
1 TCATGGATTCAAG
9933201 TCATGGATTCAA
1 TCATGGATTCAA
9933213 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:9945578 original size:26 final size:26
Alignment explanation
Indices: 9945548--9945604 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
9945538 TGAAATGCCC
*
9945548 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTGACCTAACCCATT
9945574 ATCATGGAACATTGACCTAACCCATT
1 ATCATGGAACATTGACCTAACCCATT
9945600 ATCAT
1 ATCAT
9945605 TTTTATCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTGACCTAACCCATT
Found at i:9950411 original size:12 final size:12
Alignment explanation
Indices: 9950394--9950424 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9950384 AGTACTACCT
9950394 CGGCCTCGACCA
1 CGGCCTCGACCA
9950406 CGGCCTCGACCA
1 CGGCCTCGACCA
*
9950418 TGGCCTC
1 CGGCCTC
9950425 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:9954536 original size:26 final size:26
Alignment explanation
Indices: 9954507--9954556 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9954497 AATTAATGCT
9954507 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
9954533 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
9954557 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:9956626 original size:26 final size:25
Alignment explanation
Indices: 9956597--9956671 Score: 105
Period size: 26 Copynumber: 3.0 Consensus size: 25
9956587 AATTAATGCT
*
9956597 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAATTGAAATATTGAATGTT-G
*
9956623 AATTAAATTGAAATATTGAATGTTT
1 AATTAAATTGAAATATTGAATGTTG
**
9956648 TCTTAAATTGAAATATTGAATGTT
1 AATTAAATTGAAATATTGAATGTT
9956672 TTCTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 22 0.49
26 23 0.51
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (25 bp):
AATTAAATTGAAATATTGAATGTTG
Found at i:9956682 original size:25 final size:25
Alignment explanation
Indices: 9956599--9956676 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
9956589 TTAATGCTAA
* ***
9956599 TTAAACTGAAATATTGAATGTTAGAA
1 TTAAATTGAAATATTGAATGTT-TTC
9956625 TTAAATTGAAATATTGAATGTTTTC
1 TTAAATTGAAATATTGAATGTTTTC
9956650 TTAAATTGAAATATTGAATGTTTTC
1 TTAAATTGAAATATTGAATGTTTTC
9956675 TT
1 TT
9956677 TTATTGTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
25 27 0.56
26 21 0.44
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (25 bp):
TTAAATTGAAATATTGAATGTTTTC
Found at i:9958768 original size:26 final size:26
Alignment explanation
Indices: 9958739--9958788 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9958729 AAGTAATGCT
*
9958739 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTAAAATATTGAATGTTAG
**
9958765 AATTAAGTTAAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
9958789 TTATTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTAG
Found at i:9960887 original size:26 final size:26
Alignment explanation
Indices: 9960858--9960907 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9960848 AATTAATGCT
9960858 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
9960884 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
9960908 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:9965657 original size:19 final size:19
Alignment explanation
Indices: 9965633--9965789 Score: 70
Period size: 19 Copynumber: 7.9 Consensus size: 19
9965623 ATTTTAAATA
9965633 TTTTATATATATTATTTAT
1 TTTTATATATATTATTTAT
*
9965652 TTTTATAAATATTATTTAT
1 TTTTATATATATTATTTAT
*** * *
9965671 ACATGTA-AAATTA-TTAT
1 TTTTATATATATTATTTAT
* * *
9965688 ATATA-ATATTTTTATTTAT
1 TTTTATATA-TATTATTTAT
* *
9965707 GTATTATTTATCATGTTATTTAT
1 -T-TT-TATAT-ATATTATTTAT
*
9965730 ATTTTATATATTTTATTTAT
1 -TTTTATATATATTATTTAT
*
9965750 AGCTTTTATTATATATTATATA-
1 ---TTTTA-TATATATTATTTAT
9965772 TTTTATTATATATTATTT
1 TTTTA-TATATATTATTT
9965790 TATTATTTTA
Statistics
Matches: 106, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
16 1 0.01
17 8 0.08
18 8 0.08
19 42 0.40
20 10 0.09
21 5 0.05
22 8 0.08
23 23 0.22
24 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATATATATTATTTAT
Found at i:9965688 original size:78 final size:79
Alignment explanation
Indices: 9965606--9965750 Score: 190
Period size: 78 Copynumber: 1.8 Consensus size: 79
9965596 TATATACATT
9965606 TTATATATAAT-TTGTTTATTTTAAATATT-TTATAT-ATATTATTTAT-TTTTATAAATATTAT
1 TTATATATAATATT-TTTA-TTTAAATATTATT-TATCATATTATTTATATTTTATAAATATTAT
9965667 TTATACATGTAAAATTA
63 TTATACATGTAAAATTA
** * * *
9965684 TTATATATAATATTTTTATTTATGTATTATTTATCATGTTATTTATATTTTATATATTTTATTTA
1 TTATATATAATATTTTTATTTAAATATTATTTATCATATTATTTATATTTTATAAATATTATTTA
9965749 TA
66 TA
9965751 GCTTTTATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
77 11 0.19
78 27 0.47
79 20 0.34
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (79 bp):
TTATATATAATATTTTTATTTAAATATTATTTATCATATTATTTATATTTTATAAATATTATTTA
TACATGTAAAATTA
Found at i:9965736 original size:23 final size:21
Alignment explanation
Indices: 9965699--9965809 Score: 102
Period size: 23 Copynumber: 5.1 Consensus size: 21
9965689 TATAATATTT
* * *
9965699 TTATTTATGTATTATTTATCATG
1 TTATTTATATTTTA-TTAT-ATA
*
9965722 TTATTTATATTTTA-TATATT
1 TTATTTATATTTTATTATATA
9965742 TTATTTATAGCTTTTATTATATA
1 TTATTTATA--TTTTATTATATA
9965765 TTA--TATATTTTATTATATA
1 TTATTTATATTTTATTATATA
*
9965784 TTATTTTATTATTTTATTATTTA
1 TTA-TTTA-TATTTTATTATATA
9965807 TTA
1 TTA
9965810 GTACATATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
19 15 0.20
20 11 0.14
21 7 0.09
22 7 0.09
23 36 0.47
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
TTATTTATATTTTATTATATA
Found at i:9965738 original size:47 final size:51
Alignment explanation
Indices: 9965630--9965749 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 51
9965620 TTTATTTTAA
9965630 ATATTTTATAT-ATATTATTTATTTTTATAAATATTATTTATACATGTAAAAT
1 ATATTTTATATAATATTATTTA-TTTTAT-AATATTATTTATACATGTAAAAT
* * * **
9965682 -TATTATATATAATATT-TTTA-TTTAT-GTATTATTTAT-CATGTTATTT
1 ATATTTTATATAATATTATTTATTTTATAATATTATTTATACATGTAAAAT
*
9965728 ATATTTTATAT-ATTTTATTTAT
1 ATATTTTATATAATATTATTTAT
9965750 AGCTTTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
46 11 0.19
47 23 0.40
49 5 0.09
51 13 0.23
52 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (51 bp):
ATATTTTATATAATATTATTTATTTTATAATATTATTTATACATGTAAAAT
Found at i:9965778 original size:12 final size:12
Alignment explanation
Indices: 9965733--9965808 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 12
9965723 TATTTATATT
9965733 TTATATATTTTA
1 TTATATATTTTA
**
9965745 TT-TATAGCTT-
1 TTATATATTTTA
*
9965755 TTAT-TA-TATA
1 TTATATATTTTA
9965765 TTATATATTTTA
1 TTATATATTTTA
9965777 TTATATATTATT-
1 TTATATATT-TTA
9965789 TTAT-TATTTTA
1 TTATATATTTTA
*
9965800 TTATTTATT
1 TTATATATT
9965809 AGTACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.02
10 10 0.19
11 17 0.33
12 22 0.42
13 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:9965799 original size:42 final size:40
Alignment explanation
Indices: 9965633--9965809 Score: 107
Period size: 42 Copynumber: 4.4 Consensus size: 40
9965623 ATTTTAAATA
* *
9965633 TTTTA-TATATATTATTTATTTTTATAAATATTATTTATAC
1 TTTTATTATATATTATATA-TTTTATATATATTATTTATAC
* * ** * * *
9965673 ATGTAAAAT-TATTATATA--TAATAT-TTTTATTTAT-G
1 TTTTATTATATATTATATATTTTATATATATTATTTATAC
* * *
9965708 TATTATTTATCATGTTATTTATATTTTATATATTTTATTTATAGC
1 TTTTA-TTAT-ATATTA--TATATTTTATATATATTATTTATA-C
9965753 TTTTATTATATATTATATATTTTATTATATATTATTTTATTA-
1 TTTTATTATATATTATATATTTTA-TATATATTA-TTTA-TAC
*
9965795 TTTTATTATTTATTA
1 TTTTATTATATATTA
9965810 GTACATATAA
Statistics
Matches: 103, Mismatches: 20, Indels: 26
0.69 0.13 0.17
Matches are distributed among these distances:
35 2 0.02
36 11 0.11
37 4 0.04
38 4 0.04
40 15 0.15
41 11 0.11
42 27 0.26
43 19 0.18
44 6 0.06
45 4 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (40 bp):
TTTTATTATATATTATATATTTTATATATATTATTTATAC
Found at i:9965804 original size:19 final size:20
Alignment explanation
Indices: 9965722--9965809 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 20
9965712 ATTTATCATG
9965722 TTATT-TATATTTTATATATT
1 TTATTATATATTTTAT-TATT
9965742 TTATT-TATAGCTTTTATTA-T
1 TTATTATATA--TTTTATTATT
*
9965762 ATATTATATATTTTATTATAT
1 TTATTATATATTTTATTAT-T
*
9965783 ATTATTTTATTATTTTATTA-T
1 -TTATTATA-TATTTTATTATT
9965804 TTATTA
1 TTATTA
9965810 GTACATATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
19 8 0.14
20 19 0.33
21 8 0.14
22 12 0.21
23 10 0.18
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (20 bp):
TTATTATATATTTTATTATT
Found at i:9965806 original size:7 final size:7
Alignment explanation
Indices: 9965754--9965809 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
9965744 ATTTATAGCT
9965754 TTTATTA
1 TTTATTA
*
9965761 TATATTA
1 TTTATTA
*
9965768 TATA-T-
1 TTTATTA
9965773 TTTATTA
1 TTTATTA
*
9965780 TATATTA
1 TTTATTA
9965787 TTTTATTA
1 -TTTATTA
9965795 TTTTATTA
1 -TTTATTA
9965803 TTTATTA
1 TTTATTA
9965810 GTACATATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 3 0.07
6 2 0.05
7 23 0.55
8 14 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:9965806 original size:15 final size:16
Alignment explanation
Indices: 9965753--9965809 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
9965743 TATTTATAGC
9965753 TTTTATTATATATTATATA
1 TTTTATTAT-T-TTAT-TA
*
9965772 TTTTATTA-TATATTA
1 TTTTATTATTTTATTA
9965787 TTTTATTATTTTATTA
1 TTTTATTATTTTATTA
9965803 -TTTATTA
1 TTTTATTA
9965810 GTACATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 17 0.49
16 9 0.26
17 1 0.03
19 8 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATTTTATTA
Found at i:9965971 original size:20 final size:18
Alignment explanation
Indices: 9965940--9965994 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
9965930 ATATTATTAT
*
9965940 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
9965958 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
9965978 TTTTATATATATATTAA
1 TTTTATATATATATTAA
9965995 TCGTTTCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:9966094 original size:14 final size:14
Alignment explanation
Indices: 9966068--9966096 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9966058 CTATTTTTAA
9966068 TTGTATTTGTTTTT
1 TTGTATTTGTTTTT
9966082 TTGT-TTTGTTTTT
1 TTGTATTTGTTTTT
9966095 TT
1 TT
9966097 ACTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (14 bp):
TTGTATTTGTTTTT
Found at i:9975379 original size:13 final size:13
Alignment explanation
Indices: 9975361--9975385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9975351 GAGACTTCTA
9975361 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
9975374 AAAAAGAAAAAA
1 AAAAAGAAAAAA
9975386 AATAAAATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:9977430 original size:28 final size:28
Alignment explanation
Indices: 9977367--9977548 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
9977357 ATATTAAGTC
*
9977367 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
9977394 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9977422 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9977450 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9977478 CGCACACTTAGTGCTATATAATCTAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
9977506 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
9977535 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9977549 CAATCTCATG
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 22 0.15
28 102 0.72
29 18 0.13
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9990880 original size:40 final size:40
Alignment explanation
Indices: 9990698--9990920 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
9990688 TCCTCGTTCA
* * * * *
9990698 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
9990737 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
9990777 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
9990817 AATGTCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
9990857 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
9990897 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9990921 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:9990929 original size:41 final size:41
Alignment explanation
Indices: 9990852--9990929 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
9990842 TTAGTATCTC
* * *
9990852 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
9990893 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
9990930 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:9997706 original size:40 final size:40
Alignment explanation
Indices: 9997524--9997746 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
9997514 TCCTCGTTCA
* * * * *
9997524 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
9997563 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
9997603 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
9997643 AATGTCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
9997683 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
9997723 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9997747 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 36 0.23
40 112 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Done.