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 178 of 255
Found at i:58776741 original size:286 final size:284
Alignment explanation
Indices: 58776240--58777041 Score: 1046
Period size: 286 Copynumber: 2.8 Consensus size: 284
58776230 AGTTATAGAT
* * * * * * * *
58776240 CTTATCTCATTGAAGTTACAGTGTAGCAGATCGAAGACAGTGAATCTTACTTCCCTGATGTTACA
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGAT-TAAGACAGCGAATCTTATTTCCCTGATGTTGCA
* * *
58776305 GTGAAACAGATTAAATCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
65 GTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* ** ** * *
58776370 TGAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCCGAGAAGACTGAAGATAGTGAATCTTATTT
129 TGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTCATTT
* * * * *
58776435 CTCTGAAGTTGTAGTGGAACAAATTGAAGTTATAAATTAAGGTAGATCTTATCTTTCTAAAGTTG
194 CTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTTG
* *
58776500 CAGTGGAGCAGATTGAAGCCACCAGC
259 CAATGGAGCAGATTGAAGCCACCAAC
* *
58776526 CTTATCTCCTTGAAGTTGCAGCGGAGCAGACTTAAGACAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGA-TTAAGACAGCGAATCTTATTTCCCTGATGTTGCA
* * * *
58776591 GTGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTGCAATGGAGCAGAT
65 GTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* *
58776656 TGACGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTCATTT
129 TGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTCATTT
* * * ** * * *
58776721 CCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAATTGTGGCGGATTTTATCTTCCTGAAGTTG
194 CTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTTG
*
58776786 CAATGGAGTAGATTGAAGCCACCAAC
259 CAATGGAGCAGATTGAAGCCACCAAC
* * * * *
58776812 CTTATCTCCCTGAACTTGCAGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTGATGTTGCA
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGATT-AAGACAGCGAATCTTATTTCCCTGATGTTGCA
*
58776877 GTGGAATAGATTAAAGCTACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
65 GTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
58776942 TGAAGCCATCAGCCTTATCTCCTTGGAGTTGTAGTGGAGCAAACTGAATATAGTGAATCTCATTT
129 TGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTCATTT
* * *
58777007 CTCTAAAGTTGCAGTGGAGCAAATTAAAGCTACAA
194 CTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAA
58777042 GTTACGGATC
Statistics
Matches: 445, Mismatches: 69, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
285 2 0.00
286 442 0.99
287 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (284 bp):
CTTATCTCCTTGAAGTTGCAGCGGAGCAGATTAAGACAGCGAATCTTATTTCCCTGATGTTGCAG
TGGAACAGATTAAAGCTACAAATTATGGAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTG
AAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTCATTTCT
CTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTTGCA
ATGGAGCAGATTGAAGCCACCAAC
Found at i:58776887 original size:45 final size:44
Alignment explanation
Indices: 58776769--58776893 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 44
58776759 GTGGCGGATT
* * * *
58776769 TTATCTTCCTGAAGTTGCAATGGAGTAGATTGAAGCCACCAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCAACCAACA
* * * *
58776813 TTATCTCCCTGAACTTGCAGCGGAGTAGATTGAAGACAACGAATA
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-CAACCAACA
* * * *
58776858 TTATTTCCCTGATGTTGCAGTGGAATAGATTAAAGC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
58776894 TACAAATTAT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 32 0.48
45 34 0.52
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCAACCAACA
Found at i:58777039 original size:429 final size:429
Alignment explanation
Indices: 58776253--58777041 Score: 1049
Period size: 429 Copynumber: 1.8 Consensus size: 429
58776243 ATCTCATTGA
* * * * *
58776253 AGTTACAGTGTAGCAGATCGAAGACAGTGAATCTTACTTCCCTGATGTTACAGTGAAACAGATTA
1 AGTTACAGTGGAGCAGATCGAAGACAGCGAATCTCACTTCCCTGAAGTTACAATGAAACAGATTA
* * * *
58776318 AATCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
66 AAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAAC
* * ** * * *
58776383 CTTATCTCCCTAAAGTTGCAGCCGAGAAGACTGAAGATAGTGAATCTTATTTCTCTGAAGTTGTA
131 CTTATCTCCCTAAACTTGCAGCCGAGAAGACTGAAGACAACGAATATTATTTCCCTGAAGTTGCA
* * * * * *
58776448 GTGGAACAAATTGAAGTTATAAATTAAGGTAGATCTTATCTTTCTAAAGTTGCAGTGGAGCAGAT
196 GTGGAACAAATTAAAGCTACAAATTAAGGCAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGAT
* * *
58776513 TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCGGAGCAGACTTAAGACAGCGAATCTTATTT
261 TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATCTCATTT
* * * *
58776578 CCCTGAAGTTGTAGTGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTG
326 CCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTG
58776643 CAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTGG
391 CAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTGG
* * * * *
58776682 AGTTGCAGTGGAGCAGA-CTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATT
1 AGTTACAGTGGAGCAGATC-GAAGACAGCGAATCTCACTTCCCTGAAGTTACAATGAAACAGATT
* * * * *
58776746 GAAGCTACAAATTGTGGCGGATTTTATCTTCCTGAAGTTGCAATGGAGTAGATTGAAGCCACCAA
65 AAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAA
* * * * *
58776811 CCTTATCTCCCTGAACTTGCAGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTGATGTTGC
130 CCTTATCTCCCTAAACTTGCAGCCGAGAAGACTGAAGACAACGAATATTATTTCCCTGAAGTTGC
* * * *
58776876 AGTGGAATAGATTAAAGCTACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
195 AGTGGAACAAATTAAAGCTACAAATTAAGGCAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGA
* * * * * * *
58776941 TTGAAGCCATCAGCCTTATCTCCTTGGAGTTGTAGTGGAGCAAACTGAATATAGTGAATCTCATT
260 TTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATCTCATT
* *
58777006 TCTCTAAAGTTGCAGTGGAGCAAATTAAAGCTACAA
325 TCCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAA
58777042 GTTACGGATC
Statistics
Matches: 302, Mismatches: 57, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
428 1 0.00
429 301 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (429 bp):
AGTTACAGTGGAGCAGATCGAAGACAGCGAATCTCACTTCCCTGAAGTTACAATGAAACAGATTA
AAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAAC
CTTATCTCCCTAAACTTGCAGCCGAGAAGACTGAAGACAACGAATATTATTTCCCTGAAGTTGCA
GTGGAACAAATTAAAGCTACAAATTAAGGCAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATCTCATTT
CCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTG
CAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTGG
Found at i:58777110 original size:15 final size:15
Alignment explanation
Indices: 58777090--58777123 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58777080 GCCAAAGTCA
58777090 TAAACCTTATCTTCC
1 TAAACCTTATCTTCC
58777105 TAAACCTTATCTTCC
1 TAAACCTTATCTTCC
58777120 TAAA
1 TAAA
58777124 GTTGCAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAACCTTATCTTCC
Found at i:58778136 original size:13 final size:13
Alignment explanation
Indices: 58778118--58778142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58778108 ATTTCTTTAG
58778118 TATTTTATTTACT
1 TATTTTATTTACT
58778131 TATTTTATTTAC
1 TATTTTATTTAC
58778143 ATTTATACTC
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:58784707 original size:35 final size:35
Alignment explanation
Indices: 58784668--58784738 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
58784658 CATTATAAGC
58784668 AGTGAATCGAATAATTAATTTGACAAATTAATTTA
1 AGTGAATCGAATAATTAATTTGACAAATTAATTTA
58784703 AGTGAATCGAATAATTAATTTGACAAATTAATTTA
1 AGTGAATCGAATAATTAATTTGACAAATTAATTTA
58784738 A
1 A
58784739 ATTAATTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (35 bp):
AGTGAATCGAATAATTAATTTGACAAATTAATTTA
Found at i:58784734 original size:17 final size:17
Alignment explanation
Indices: 58784679--58784735 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
58784669 GTGAATCGAA
58784679 TAATTAATTTGACAAAT
1 TAATTAATTTGACAAAT
* *
58784696 TAATTTAA-GTGAATCGAA-
1 TAA-TTAATTTG-A-CAAAT
58784714 TAATTAATTTGACAAAT
1 TAATTAATTTGACAAAT
58784731 TAATT
1 TAATT
58784736 TAAATTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
16 3 0.10
17 15 0.48
18 10 0.32
19 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (17 bp):
TAATTAATTTGACAAAT
Found at i:58794961 original size:95 final size:93
Alignment explanation
Indices: 58794798--58794990 Score: 350
Period size: 95 Copynumber: 2.1 Consensus size: 93
58794788 ATAGATAATA
*
58794798 TAAATGGAAAGATCAGATACTATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
1 TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
58794863 TTAATGTTGATTTTAACACTTCTCACTATT
66 TTAATGTTGATTTTAACAC-T-TCACTATT
*
58794893 TAAATGGAAAGATTAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
1 TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
58794958 TTAATGTTGATTTTAACACTTCACTATT
66 TTAATGTTGATTTTAACACTTCACTATT
58794986 TAAAT
1 TAAAT
58794991 TACACACACA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
93 13 0.14
94 1 0.01
95 82 0.85
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (93 bp):
TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
TTAATGTTGATTTTAACACTTCACTATT
Found at i:58805646 original size:27 final size:27
Alignment explanation
Indices: 58805593--58805665 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
58805583 CCATTTCCCT
* *
58805593 TGTCCTAATGGACCTACCCCGTGTTTAC
1 TGTCCTAGTGGACTTA-CCCGTGTTTAC
* * *
58805621 TGTTCTGGTGGACTTACCCGTGTTTAT
1 TGTCCTAGTGGACTTACCCGTGTTTAC
*
58805648 TGTCCTAGCGGACTTACC
1 TGTCCTAGTGGACTTACC
58805666 TCTATGGATG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 25 0.68
28 12 0.32
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (27 bp):
TGTCCTAGTGGACTTACCCGTGTTTAC
Found at i:58808258 original size:12 final size:12
Alignment explanation
Indices: 58808241--58808271 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
58808231 TGCCATACGA
58808241 CCATGTGGTAGG
1 CCATGTGGTAGG
58808253 CCATGTGGTAGG
1 CCATGTGGTAGG
*
58808265 CCGTGTG
1 CCATGTG
58808272 ATCGAGGAAG
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:0.19, G:0.42, T:0.26
Consensus pattern (12 bp):
CCATGTGGTAGG
Found at i:58822125 original size:37 final size:37
Alignment explanation
Indices: 58822066--58822137 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
58822056 AGCTCAAACG
*
58822066 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
58822103 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
58822138 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:58822409 original size:48 final size:48
Alignment explanation
Indices: 58822283--58822467 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
58822273 GCACATCGCC
*
58822283 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
58822333 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
58822381 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
58822429 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58822468 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:58822472 original size:98 final size:98
Alignment explanation
Indices: 58822283--58822466 Score: 302
Period size: 98 Copynumber: 1.9 Consensus size: 98
58822273 GCACATCGCC
*
58822283 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
58822348 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
58822381 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
*
58822444 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
58822467 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 50 0.62
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:58822516 original size:47 final size:47
Alignment explanation
Indices: 58822389--58822630 Score: 290
Period size: 47 Copynumber: 5.1 Consensus size: 47
58822379 CATACATATT
* * * * **
58822389 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
58822437 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
58822484 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58822531 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
58822578 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58822625 TCACAT
1 TCACAT
58822631 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
47 136 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58822557 original size:22 final size:22
Alignment explanation
Indices: 58822530--58822601 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
58822520 GCTCACATTC
58822530 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
58822552 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58822576 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58822599 ATC
1 ATC
58822602 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58822631 original size:25 final size:25
Alignment explanation
Indices: 58822552--58822631 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
58822542 ATTCGGCCTT
**
58822552 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58822577 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
58822599 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
58822624 ATCACATA
1 ATCACATA
58822632 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:58832072 original size:46 final size:46
Alignment explanation
Indices: 58832004--58832178 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
58831994 TCTCTGTCGA
* **
58832004 GGCCGATGCATGTCCCAGACATGTCTTACTTTGGCACTCATAATAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATAT
* * * * * * *
58832050 GGCTGAAGCATGTCCCAAACATGTCTTACAGTAGCCCTCGT-TTGGAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--AT
* * *
58832097 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGAAG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATAT
58832144 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGC
58832179 GCACAAATCA
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 51 0.49
47 30 0.29
48 21 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (46 bp):
GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATAT
Found at i:58832155 original size:94 final size:92
Alignment explanation
Indices: 58832005--58832173 Score: 266
Period size: 94 Copynumber: 1.8 Consensus size: 92
58831995 CTCTGTCGAG
** *
58832005 GCCGATGCATGTCCCAGACATGTCTTACTTTGGCACTCATAATATGGCTGAAGCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAAAC
58832070 ATGTCTTACAGTAGCCCTCGTTTGGAT
66 ATGTCTTACAGTAGCCCTCGTTTGGAT
* * *
58832097 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAA
58832162 ACATGTCTTACA
64 ACATGTCTTACA
58832174 CTGGCGCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.70
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAAAC
ATGTCTTACAGTAGCCCTCGTTTGGAT
Found at i:58832910 original size:12 final size:12
Alignment explanation
Indices: 58832893--58832917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58832883 TAAAAATGTA
58832893 AAAATCATCAAG
1 AAAATCATCAAG
58832905 AAAATCATCAAG
1 AAAATCATCAAG
58832917 A
1 A
58832918 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:58838727 original size:131 final size:131
Alignment explanation
Indices: 58838493--58838818 Score: 625
Period size: 131 Copynumber: 2.5 Consensus size: 131
58838483 GGAAACACCC
* *
58838493 ATTTGTTTAAAATTCATCACATTGCCGGCCAACACTATTAAAAGGGTGTAGTTGCCCTTTAAAAT
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
58838558 GATAGCCAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
66 GATAGCCAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
58838623 T
131 T
58838624 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
*
58838689 GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
66 GATAGCCAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
58838754 T
131 T
58838755 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAA
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAA
58838819 GCCCTAAATT
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 192 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (131 bp):
ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
GATAGCCAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
T
Found at i:58843774 original size:17 final size:16
Alignment explanation
Indices: 58843734--58843773 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
58843724 TTTTAAAAGG
*
58843734 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
58843750 AAAAAAAATGAATCTT
1 AAAAAAAATGAATCTT
58843766 AAAAAAAA
1 AAAAAAAA
58843774 ACTTAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:58859106 original size:48 final size:47
Alignment explanation
Indices: 58858986--58859161 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 47
58858976 CAAAATTGAG
* * * * *
58858986 GCCGACGCCATGTCCCAGACATGATCTTACACT-AGCTCTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TAT-CGT
58859036 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-CGT
*
58859084 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATCGT
* *
58859129 AGCTGATG-CATGTCCCAGATAT-GTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTG
58859162 GCTTACATCT
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.10
45 16 0.14
46 7 0.06
48 45 0.39
49 2 0.02
50 33 0.29
51 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATCGT
Found at i:58859171 original size:46 final size:46
Alignment explanation
Indices: 58858994--58859299 Score: 232
Period size: 46 Copynumber: 6.5 Consensus size: 46
58858984 AGGCCGACGC
* * *
58858994 CATGTCCCAGACATGATCTTACACTAGCTCTCACATATC-CATGCCGATG
1 CATGTCCCAGACATG-TCTTACACTGGCTCT--CATCTCGTA-GCCGATG
* * *
58859043 CCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGT-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-TCTC-ATCTCGTAGCCGATG
* * *
58859091 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAGCCGATG
*
58859137 CATGTCCCAGATATGTCTTACACTGGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTA-GCCGATG
* * ** **
58859183 CATGTCCCGGACATGTCTTACACTAGCTCTCATCTCAAAGTAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGCCGATG
* * * * *
58859229 CCATGTCCCAGAAAAGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAG-ACATGTCTTACACTGGCTCTCAT-CTCGTAGCCGATG
58859277 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
58859300 AAGTACACAA
Statistics
Matches: 208, Mismatches: 33, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.06
45 20 0.10
46 66 0.32
47 21 0.10
48 57 0.27
49 3 0.01
50 26 0.12
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGCCGATG
Found at i:58859278 original size:94 final size:92
Alignment explanation
Indices: 58858894--58859299 Score: 296
Period size: 94 Copynumber: 4.3 Consensus size: 92
58858884 TATAATGCCA
* *
58858894 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTTGATGCCATGTCCTAGAGA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGTCTCATCTCA--AAG-TGATGCCATGTCCCAGA-A
* * *
58858958 TAA--TCTTACACTAACTATCAAAATTGAGGCCG
61 -AAGGTCTTACACTGACTCTCATAA-TGAGGCCG
* * * * *
58858990 ACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATG-TCTTACACT-G-TCT--CATCTCAAAG-TGATGCCATGTCCCAGA
* * *
58859055 CATGGTCTTACACTGACACCTC-T-AT-ACGTGCCG
60 AAAGGTCTTACACTGAC-TCTCATAATGA-G-GCCG
* * ** * *
58859088 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATG-CATGTCCCAG-ATAT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGTCTCATCTCAAAG-TGATGCCATGTCCCAGAAAAG
* *
58859151 GTCTTACACTGGCT-TACAT-CTCGAGGCCG
64 GTCTTACACTGACTCT-CATAAT-GAGGCCG
*
58859180 ATG-CATGTCCCGGACATGTCTTACACTAGCTCTCATCTCAAAGTAGATGCCATGTCCCAGAAAA
1 ATGCCATGTCCCAGACATGTCTTACACT-G-TCTCATCTCAAAGT-GATGCCATGTCCCAGAAAA
* * *
58859244 GGTCTTACACTGGCTCTCATAATGTGGCCA
63 GGTCTTACACTGACTCTCATAATGAGGCCG
58859274 ATG-CATGTCCCAGACATGTCTTACAC
1 ATGCCATGTCCCAGACATGTCTTACAC
58859300 AAGTACACAA
Statistics
Matches: 247, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
90 11 0.04
91 16 0.06
92 34 0.14
93 21 0.09
94 61 0.25
95 3 0.01
96 28 0.11
97 5 0.02
98 33 0.13
99 29 0.12
100 5 0.02
101 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGTCTTACACTGTCTCATCTCAAAGTGATGCCATGTCCCAGAAAAGGT
CTTACACTGACTCTCATAATGAGGCCG
Found at i:58859954 original size:22 final size:22
Alignment explanation
Indices: 58859929--58859974 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
58859919 CTAATCCATG
58859929 ATAAATCCCTAGAATATCAACC
1 ATAAATCCCTAGAATATCAACC
*
58859951 ATAAATCCCTAGACTATCAACC
1 ATAAATCCCTAGAATATCAACC
58859973 AT
1 AT
58859975 TTTGCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (22 bp):
ATAAATCCCTAGAATATCAACC
Found at i:58860213 original size:9 final size:9
Alignment explanation
Indices: 58860201--58860226 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58860191 TTAATCTAGT
58860201 CACCAAACC
1 CACCAAACC
58860210 CACCAAACC
1 CACCAAACC
58860219 CACCAAAC
1 CACCAAAC
58860227 TTTGACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (9 bp):
CACCAAACC
Found at i:58866875 original size:49 final size:50
Alignment explanation
Indices: 58866811--58866987 Score: 150
Period size: 48 Copynumber: 3.6 Consensus size: 50
58866801 TCAAGTTGAT
* *
58866811 GCCATGTCTCTGACATGGTCTTACACTGACTATCGACAT-T-GAGGCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-ACATATCGAGGCAGAC
* * * * * *
58866860 GTCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCTATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCACATATCGAGGCAGAC
* * * * * *
58866910 GCCATGTCCCAGAAATGGTCTTACACTGAC-ACCTC-TATACGTGTC-GAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACATAT-CGAGGCAGAC
*
58866958 GCCATGTCCCAGACATGGTCTTACGCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
58866988 ACATCTAGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
48 39 0.38
49 33 0.32
50 31 0.30
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCGAGGCAGAC
Found at i:58866976 original size:48 final size:46
Alignment explanation
Indices: 58866862--58867029 Score: 150
Period size: 48 Copynumber: 3.6 Consensus size: 46
58866852 AGGCAGACGT
* *
58866862 CATGTCCCAGACATGGTCTTACACT-AGC-TCTCACATATCTATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGA-CACCTC-TATA-C--TG-CGATGC
*
58866912 CATGTCCCAGAAATGGTCTTACACTGACACCTCTATACGTGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACACCTCTATAC-TG-CGATGC
* *
58866960 CATGTCCCAGACATGGTCTTACGCTGACACATCTAGTAAC--CGATG-
1 CATGTCCCAGACATGGTCTTACACTGACACCTCTA-T-ACTGCGATGC
*
58867005 CATGTCCTAGACAT-GTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
58867030 GCCTACATCT
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.10
45 13 0.12
46 5 0.05
48 40 0.38
49 2 0.02
50 30 0.29
51 4 0.04
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGACACCTCTATACTGCGATGC
Found at i:58867048 original size:46 final size:44
Alignment explanation
Indices: 58866905--58867067 Score: 143
Period size: 48 Copynumber: 3.5 Consensus size: 44
58866895 CATATCTATG
* * *
58866905 CCGATGCCATGTCCCAGAAATGGTCTTACACTGACACCTCTA-T-A
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTAGTAA
* *
58866949 CGTGTCGATGCCATGTCCCAGACATGGTCTTACGCTGACACATCTAGTAA
1 C----CGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTAGTAA
* *
58866999 CCGATGCATGTCCTAGACATGTCTTACACTGGCCTACATCTCG-AGA
1 CCGATGCATGTCCTAGACATGTCTTACACT-GAC-ACATCTAGTA-A
58867045 CCGATGCATGTCCTAGACATGTC
1 CCGATGCATGTCCTAGACATGTC
58867068 CCAGATAGAG
Statistics
Matches: 103, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 36 0.35
48 38 0.37
49 1 0.01
50 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
CCGATGCATGTCCTAGACATGTCTTACACTGACACATCTAGTAA
Found at i:58876822 original size:20 final size:17
Alignment explanation
Indices: 58876783--58876816 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58876773 ACTAAGAAAC
*
58876783 AATCACAAAAACCTAGA
1 AATCACAAAAACCAAGA
58876800 AATCATCAAAAACCAAG
1 AATCA-CAAAAACCAAG
58876817 CAAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.24, G:0.06, T:0.12
Consensus pattern (17 bp):
AATCACAAAAACCAAGA
Found at i:58879561 original size:23 final size:24
Alignment explanation
Indices: 58879529--58879575 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
58879519 ACTACCATTT
58879529 TCTAAATAAAATAATAATA-AATA
1 TCTAAATAAAATAATAATACAATA
* *
58879552 TCTAAGTAAAATATTAATACAATA
1 TCTAAATAAAATAATAATACAATA
58879576 ATTTTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
TCTAAATAAAATAATAATACAATA
Found at i:58880546 original size:20 final size:20
Alignment explanation
Indices: 58880521--58880560 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58880511 GTTTTAAGTA
58880521 GTTTAAAGGTTGAGAATTAG
1 GTTTAAAGGTTGAGAATTAG
58880541 GTTTAAAGGTTGAGAATTAG
1 GTTTAAAGGTTGAGAATTAG
58880561 TCGTATGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (20 bp):
GTTTAAAGGTTGAGAATTAG
Found at i:58889029 original size:25 final size:25
Alignment explanation
Indices: 58888995--58889045 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
58888985 CATTGCTTAG
*
58888995 AGCCCAAGCATTTGAATGTGAGTTA
1 AGCCCAAGCATTTGAATATGAGTTA
58889020 AGCCCAAGCATTTGAATATGAGTTA
1 AGCCCAAGCATTTGAATATGAGTTA
58889045 A
1 A
58889046 CTTGTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCCCAAGCATTTGAATATGAGTTA
Found at i:58891959 original size:27 final size:26
Alignment explanation
Indices: 58891925--58891979 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
58891915 TTACATTATA
*
58891925 ATTTTTAATTTAATATT-GTATAGTTT
1 ATTTTTAAATTAATATTAGTAT-GTTT
*
58891951 ATTTATTAAATTAATTTTAGTATGTTT
1 ATTT-TTAAATTAATATTAGTATGTTT
58891978 AT
1 AT
58891980 AAGATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTAAATTAATATTAGTATGTTT
Found at i:58893587 original size:17 final size:16
Alignment explanation
Indices: 58893567--58893609 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
58893557 AAAAAATTTC
*
58893567 AAAAAGAAAATTAAAAA
1 AAAAAGAAAA-GAAAAA
*
58893584 AAAAAGTAAAGAAAAA
1 AAAAAGAAAAGAAAAA
*
58893600 AAAAGGAAAA
1 AAAAAGAAAA
58893610 AAAGGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAA
Found at i:58893611 original size:9 final size:9
Alignment explanation
Indices: 58893597--58893621 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58893587 AAGTAAAGAA
58893597 AAAAAAAGG
1 AAAAAAAGG
58893606 AAAAAAAGG
1 AAAAAAAGG
58893615 AAAAAAA
1 AAAAAAA
58893622 CACAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:58895355 original size:34 final size:33
Alignment explanation
Indices: 58895317--58895391 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
58895307 GAAAAATACG
* * *
58895317 GTAGCATTCAATATGCTTATAACAAATCGATTCA
1 GTAGCAAT-AATATGCTTATAACAAATCAACTCA
* *
58895351 GTAGCAAATAATATGCTTATAATAGATCAACTCA
1 GTAGC-AATAATATGCTTATAACAAATCAACTCA
58895385 GTAGCAA
1 GTAGCAA
58895392 AAGTCATTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.06
34 31 0.89
35 2 0.06
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (33 bp):
GTAGCAATAATATGCTTATAACAAATCAACTCA
Found at i:58895392 original size:34 final size:34
Alignment explanation
Indices: 58895326--58895392 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
58895316 GGTAGCATTC
* *
58895326 AATATGCTTATAACAAATCGATTCAGTAGCAAAT
1 AATATGCTTATAACAAATCAACTCAGTAGCAAAT
* *
58895360 AATATGCTTATAATAGATCAACTCAGTAGCAAA
1 AATATGCTTATAACAAATCAACTCAGTAGCAAA
58895393 AGTCATTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
AATATGCTTATAACAAATCAACTCAGTAGCAAAT
Found at i:58896647 original size:55 final size:55
Alignment explanation
Indices: 58896587--58896692 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
58896577 GCCGTGGGCA
*
58896587 ACACTGACTTATCAACACGGCCATGGCA-CACACCCGTGCT-GCCTGCCCGTGGATG
1 ACACTGACTTATCAACACGGCCATGG-AGCACACCCGTG-TGGCCTACCCGTGGATG
* * * *
58896642 ACACTGTCTTTTTAACACGGCCATGGAGCACGCCCGTGTGGCCTACCCGTG
1 ACACTGACTTATCAACACGGCCATGGAGCACACCCGTGTGGCCTACCCGTG
58896693 TACAACTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 2 0.05
55 42 0.95
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.21
Consensus pattern (55 bp):
ACACTGACTTATCAACACGGCCATGGAGCACACCCGTGTGGCCTACCCGTGGATG
Found at i:58904337 original size:55 final size:54
Alignment explanation
Indices: 58904223--58904343 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
58904213 TACCCTTCAG
**
58904223 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCTGTGCTGCCTGT
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCTGTGC-GCCTAC
* * *
58904278 CCGTGGACAACACTGTCTTTTTAACACGGCCATAGTGCACAC-CCGTGTG-GCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCAT-G-GCACACACC-TGTGCGCCTAC
*
58904333 CCGTGTACAAC
1 CCGTGGACAAC
58904344 TTTGAGCTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
55 44 0.77
56 3 0.05
57 10 0.18
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (54 bp):
CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCTGTGCGCCTAC
Found at i:58910232 original size:14 final size:14
Alignment explanation
Indices: 58910199--58910240 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
58910189 AATTGTGTCT
*
58910199 TTTAATGTT-TATA
1 TTTAATATTATATA
58910212 TTATAATATTATATA
1 TT-TAATATTATATA
*
58910227 TTTAATTTTATATA
1 TTTAATATTATATA
58910241 AATTACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTAATATTATATA
Found at i:58918656 original size:13 final size:13
Alignment explanation
Indices: 58918638--58918676 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
58918628 GTTTTCTATC
*
58918638 TTAATTATTTATT
1 TTAATTTTTTATT
*
58918651 TTAATTTTTTCCTT
1 TTAATTTTTT-ATT
58918665 TTAATTTTTTAT
1 TTAATTTTTTAT
58918677 CTGACTTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAATTTTTTATT
Found at i:58921199 original size:48 final size:48
Alignment explanation
Indices: 58920965--58921201 Score: 203
Period size: 48 Copynumber: 4.9 Consensus size: 48
58920955 GGGTGAATTA
* * * **
58920965 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACGTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* ** * * * *
58921013 CTGATATCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCAAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * *
58921061 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTAT-TACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGG
* * *
58921109 CCGATGCCATGTTCCA-ACCATGGTCTTACATTGGCTCTCATATCGTGG
1 CCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATATCATGG
* * * *
58921157 CCGATGCCATATCCCAGACATGGTGTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA
58921202 CCCAAATGTC
Statistics
Matches: 150, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.03
48 144 0.96
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:58928674 original size:48 final size:48
Alignment explanation
Indices: 58928607--58928879 Score: 239
Period size: 48 Copynumber: 5.7 Consensus size: 48
58928597 GTGAATTACT
** * * * *
58928607 GATGCCATGTTTCAAACATGGTCTTACACTGGCTCACATGTCTAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTATGCC
* * * * *
58928655 GATGTCATGTCCCAGACATGGTCTTGCACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTATGCC
* * * *
58928703 GATCCCATGTCCTAGACATGGTCTTACACTGGCTCTCACCT-TAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCT-ATGCC
* * * *
58928751 TATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTAT-TAC-ATTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-CTA-TGCC
* * * * * *
58928799 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGT-GGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC-TATGCC
* *
58928847 GATGCCATGTCCAAGACATGGTGTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
58928880 ACATATATTA
Statistics
Matches: 179, Mismatches: 39, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
47 2 0.01
48 176 0.98
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTATGCC
Found at i:58928852 original size:96 final size:94
Alignment explanation
Indices: 58928605--58928879 Score: 279
Period size: 96 Copynumber: 2.9 Consensus size: 94
58928595 GGGTGAATTA
* * *
58928605 CTGATGCCATGTTTCAAACATGGTCTTACACTGGCTCACATGTCTAGGCCGATGTCATGTCCCAG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT-TCT-GGCCGATGCCATGTCCCAA
* * *
58928670 ACATGGTCTTGCACTAGCTCTCGTCTCAATG
64 ACATGGTCTTACACTGGCTCTCATCTCAATG
* * * * * * *
58928701 CCGATCCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACCTTAAT-ACCTATGCCATGTCCC
1 CTGATGCCATGTTCC-AAACATGGTCTTACACTGG--CTCACATT-CTGGCCGATGCCATGTCCC
* *
58928764 AAACATGGTCTTACACTGGCTCTTAT-TACATTG
62 AAACATGGTCTTACACTGGCTCTCATCT-CAATG
*
58928797 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTGGTCGATGCCATGT-CCAA
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT-TC-TGGCCGATGCCATGTCCCAA
*
58928861 GACATGGTGTTACACTGGC
64 -ACATGGTCTTACACTGGC
58928880 ACATATATTA
Statistics
Matches: 145, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
94 6 0.04
95 9 0.06
96 119 0.82
97 4 0.03
98 7 0.05
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (94 bp):
CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATTCTGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:58941233 original size:22 final size:21
Alignment explanation
Indices: 58941204--58941244 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58941194 TAGCTTTTGT
*
58941204 TAGATGTCGTAACACTAAGTA
1 TAGATGTCATAACACTAAGTA
*
58941225 TAGAGTGTCATGACACTAAG
1 TAGA-TGTCATAACACTAAG
58941245 CCACAAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (21 bp):
TAGATGTCATAACACTAAGTA
Found at i:58943781 original size:128 final size:128
Alignment explanation
Indices: 58943553--58943811 Score: 358
Period size: 128 Copynumber: 2.0 Consensus size: 128
58943543 AATTGATTCC
* * * * * *
58943553 AGAGGTAGTCCTTGTCCAACTCCAACACTAATAAAAAATTCACATTGATGGGCATTTTGGGCAAA
1 AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
* * * *
58943618 ATTTTTGGGTTGTAATCAGAGCAAAAAGCCTTCTTTTGGTTGAGAGAAAGAAAAAATTGACTGT
66 ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATT-ACTCT
* * * *
58943682 AGAGGTAGTTCTTGTCCAACTCCAACACCAAT-AAAAATACACACTAAAGGGTATTTTGTACACA
1 AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
* *
58943746 ATTTTTGGGTTGTAATCAAAATAAAAAGGCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
66 ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
58943809 AGA
1 AGA
58943812 TTATTCAACT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
127 7 0.06
128 77 0.68
129 30 0.26
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (128 bp):
AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
Found at i:58948090 original size:46 final size:46
Alignment explanation
Indices: 58947944--58948247 Score: 201
Period size: 46 Copynumber: 6.5 Consensus size: 46
58947934 TGTGTACTAA
* * *
58947944 TGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATG-AGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAG
* * * * * *
58947990 TGCAAGACTATGTCTGGGACATAGCATCGGCATTGAAACG-AGAGCTAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCCAG
*
58948038 TATAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
* * *
58948084 TGTAAGACATGTCTAGGACATGCATCGG-CTACAAGATGT--GTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCCAG
* * * *
58948128 TGTAAGACCATGTTTGGGACATGTCATCGG-CACGGGTATGTTAAAGTCAG
1 TGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAG-ATG-T-AAGCCAG
* * * ** *
58948178 TGTAAGATCATGTTTGGGACATGGCATC-GACTTGACTTGTGAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAG
* *
58948225 TGTAAGATCGTGTCTGGAACATG
1 TGTAAGA-CATGTCTGGGACATG
58948248 GAATTGGTAT
Statistics
Matches: 209, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 69 0.33
47 52 0.25
48 23 0.11
49 4 0.02
50 32 0.15
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
Found at i:58958761 original size:43 final size:43
Alignment explanation
Indices: 58958712--58958862 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 43
58958702 TATCCCAGAT
* *
58958712 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
* *** *
58958755 AGGGTCTTACACAAAATCGA-ATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAAAC
* * *
58958798 ATGGTCCTACATGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAAC
58958841 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
58958863 CTCGGTAACC
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 85 0.97
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:58960746 original size:12 final size:12
Alignment explanation
Indices: 58960725--58960765 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
58960715 ATTATTTTCA
*
58960725 TATTAGTTGTTT
1 TATTATTTGTTT
58960737 TATTATTTGTTT
1 TATTATTTGTTT
58960749 TATTATTT-TTAT
1 TATTATTTGTT-T
58960761 TATTA
1 TATTA
58960766 ATGTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 2 0.07
12 25 0.93
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
TATTATTTGTTT
Found at i:58960760 original size:21 final size:20
Alignment explanation
Indices: 58960734--58960782 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
58960724 ATATTAGTTG
** *
58960734 TTTTATTATTTGTTTTATTA
1 TTTTATTATTAATGTTATTA
58960754 TTTTTATTATTAATGTTATTA
1 -TTTTATTATTAATGTTATTA
58960775 TTTTATTA
1 TTTTATTA
58960783 GTAGTAGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTATTATTAATGTTATTA
Found at i:58967475 original size:68 final size:68
Alignment explanation
Indices: 58967388--58967523 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
58967378 TTTCTTTGAG
58967388 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACGGATATACAATTAGATGAGCATGCATCTTC
1 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACGGATATACAATTAGATGAGCATGCATCTTC
58967453 TTC
66 TTC
*
58967456 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTTC
1 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACGGATATACAATTAGATGAGCATGCATCTTC
58967521 TTC
66 TTC
58967524 TGGTACACAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (68 bp):
AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACGGATATACAATTAGATGAGCATGCATCTTC
TTC
Found at i:58969390 original size:21 final size:21
Alignment explanation
Indices: 58969364--58969408 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
58969354 ATTAAGAAAG
*
58969364 AAAGAGCTTGAGAGAA-AAGAA
1 AAAGAGATTGA-AGAACAAGAA
*
58969385 AAAGAGATTGAAGAACACGAA
1 AAAGAGATTGAAGAACAAGAA
58969406 AAA
1 AAA
58969409 AAAAGTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.60, C:0.07, G:0.24, T:0.09
Consensus pattern (21 bp):
AAAGAGATTGAAGAACAAGAA
Found at i:58971322 original size:21 final size:21
Alignment explanation
Indices: 58971296--58971337 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
58971286 AATTTGAGAA
58971296 GAAAAAGCCATTGTTAGGGTT
1 GAAAAAGCCATTGTTAGGGTT
*
58971317 GAAAAATCCATTGTTAGGGTT
1 GAAAAAGCCATTGTTAGGGTT
58971338 CATCCATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (21 bp):
GAAAAAGCCATTGTTAGGGTT
Found at i:58972903 original size:30 final size:30
Alignment explanation
Indices: 58972867--58972981 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
58972857 ACTTTTCTCA
*
58972867 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
58972897 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
58972927 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
58972957 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
58972982 CTTGTACCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:58973498 original size:23 final size:23
Alignment explanation
Indices: 58973461--58973592 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
58973451 CTTTTTTTGT
58973461 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
58973484 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
58973506 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
* * *
58973529 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
58973556 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
58973581 TATTATTTATAT
1 TATTATATATAT
58973593 ATATATATTT
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.19
23 19 0.23
24 4 0.05
25 30 0.37
26 1 0.01
27 8 0.10
28 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:58973566 original size:25 final size:25
Alignment explanation
Indices: 58973538--58973596 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
58973528 ATATTACGTA
* *
58973538 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
58973563 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
58973588 TATATATAT
1 TATATATAT
58973597 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:58973685 original size:20 final size:19
Alignment explanation
Indices: 58973659--58973714 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
58973649 TTTTTAACAC
58973659 TATATTATGTACATATTTT
1 TATATTATGTACATATTTT
*
58973678 TAATATTAT-TACGTATTTT
1 T-ATATTATGTACATATTTT
*
58973697 TTTATATATGTACATATT
1 TATAT-TATGTACATATT
58973715 GATGTAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 14 0.45
20 14 0.45
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TATATTATGTACATATTTT
Found at i:58973696 original size:19 final size:20
Alignment explanation
Indices: 58973660--58973714 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
58973650 TTTTAACACT
58973660 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
*
58973680 ATATTAT-TACGTATTTTT-
1 ATATTATGTACATATTTTTA
*
58973698 TTATATATGTACATATT
1 ATAT-TATGTACATATT
58973715 GATGTAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 13 0.43
20 14 0.47
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:58973854 original size:16 final size:14
Alignment explanation
Indices: 58973835--58973868 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
58973825 TATTATTCTA
58973835 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
58973850 GATATTTTATATTTT
1 -ATATTTTATATTTT
58973865 ATAT
1 ATAT
58973869 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:58973863 original size:7 final size:8
Alignment explanation
Indices: 58973835--58973868 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
58973825 TATTATTCTA
58973835 ATATTTTG
1 ATATTTTG
58973843 ATATTTTG
1 ATATTTTG
58973851 ATATTTT-
1 ATATTTTG
58973858 ATATTTT-
1 ATATTTTG
58973865 ATAT
1 ATAT
58973869 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:58973870 original size:16 final size:15
Alignment explanation
Indices: 58973835--58973875 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
58973825 TATTATTCTA
58973835 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
58973851 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
58973867 ATATTTTAT
1 ATATTTTAT
58973876 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:58982346 original size:69 final size:69
Alignment explanation
Indices: 58982172--58982346 Score: 208
Period size: 70 Copynumber: 2.5 Consensus size: 69
58982162 CTTTCCAAGG
* * ** *
58982172 AAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
58982237 TTTT
66 TTTT
* ** * *
58982241 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-
58982306 TGTTTT
64 TGTTTT
** *
58982312 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
58982347 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
69 31 0.34
70 54 0.60
71 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
TTTT
Found at i:58982490 original size:76 final size:75
Alignment explanation
Indices: 58982364--58982705 Score: 440
Period size: 72 Copynumber: 4.5 Consensus size: 75
58982354 TTTGTTTTTC
* *
58982364 AAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
58982429 GTTGTTAAAAA
66 GTT-TTAAAAA
**
58982440 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
58982505 GTTTT---CA
66 GTTTTAAAAA
* * ** * * * *
58982512 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
58982577 GTTTTCAAAAAA
66 GTTTT--AAAAA
* * *
58982589 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
58982653 TCTGTTTTTAAAAA
63 TCTG-TTTTAAAAA
*
58982667 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
58982706 ATTACACACT
Statistics
Matches: 235, Mismatches: 21, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
72 65 0.28
75 2 0.01
76 65 0.28
77 34 0.14
78 40 0.17
79 25 0.11
80 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAAA
Found at i:58983113 original size:71 final size:72
Alignment explanation
Indices: 58982996--58983220 Score: 254
Period size: 73 Copynumber: 3.1 Consensus size: 72
58982986 TCGTTTTTTT
** * *
58982996 AATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAG
1 AATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAG
58983060 GTAATTTC
65 GTAATTTC
* **
58983068 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAG
** *
58983133 GTGGTTTT
65 GTAATTTC
* * * **
58983141 AATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTG
*
58983206 AGGTATTTTC
63 AGGTAATTTC
58983216 AATTT
1 AATTT
58983221 CTGGTTTTCA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
71 40 0.31
72 7 0.06
73 58 0.46
74 1 0.01
75 20 0.16
76 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (72 bp):
AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
TAATTTC
Found at i:58983157 original size:73 final size:71
Alignment explanation
Indices: 58982992--58983191 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
58982982 ATTTTCGTTT
** * *
58982992 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
58983057 GAGGTAA
65 GAGGTAA
* * **
58983064 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
58983129 TGAGGTGG
64 TGAGGTAA
* * *
58983137 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
58983192 TGGCTCACAC
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 40 0.37
72 10 0.09
73 59 0.54
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:58983230 original size:14 final size:14
Alignment explanation
Indices: 58983211--58983245 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
58983201 CGCTGAGGTA
58983211 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
58983225 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
58983239 TTTTCAA
1 TTTTCAA
58983246 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:58983281 original size:162 final size:162
Alignment explanation
Indices: 58983064--58983560 Score: 617
Period size: 162 Copynumber: 3.0 Consensus size: 162
58983054 GCTGAGGTAA
* * *
58983064 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * * * *
58983129 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
58983194 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
* *
58983226 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * *
58983291 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACCCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
* *
58983356 GCTCACATGCTGAGGTCTTTTCAATTTCT-GT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
** *
58983387 TCTTCAATTTCTGTTCGTAAAAAAAAT-GAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGAC
1 T-TTCAATTTCTGTT--TATCAAAAATCG-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* ** *
58983451 ACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
62 ACGCTGAGGTAATTTCAA-TT-T-ATGTT-AATCAAAAATTAACTCATATTGCGAGAGGTGAGTT
* *
58983516 GAGCCTCAGG---ACACGCTGAGGTATTTTTAAATTTCTGTT
123 GAGCCT-AGGCTCACACGCTGAGGTA-TTTTCAATTTCTGGT
58983555 TTTCAA
1 TTTCAA
58983561 AAATCAACTC
Statistics
Matches: 291, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
161 3 0.01
162 156 0.54
163 1 0.00
164 58 0.20
165 2 0.01
166 12 0.04
167 20 0.07
168 37 0.13
169 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (162 bp):
TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
GCTCACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:58983334 original size:235 final size:232
Alignment explanation
Indices: 58982851--58983595 Score: 693
Period size: 235 Copynumber: 3.2 Consensus size: 232
58982841 CTACTTTTTC
* * * * * *
58982851 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
** * *
58982916 GTGCTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
66 GTGCTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* *
58982981 AATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
131 AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
* *
58983046 CTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
196 CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
* *
58983083 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTA
1 AAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTA
* * *
58983147 TGTTCATCAAAAATT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGT
65 TGTGC-T-AAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGT
* *** * *
58983210 ATTTTCAA-TTTC-TGGTTTTCAATTTCTGTTT-TTCAAAAATCGACTCATATTGCGAGAGGTGA
125 ATTTTCAATTTTCGT-GTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGA
*
58983272 GTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
189 GTTGAGCCTC--AACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
* *
58983318 AAAATTAACCCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGG-----T--A--
* * * * *
58983382 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAATGAACTCATATTGCTAGAGGTGAGTTGAGCCTCA
54 ----TT-TTCAATTTATGTGC-T--AAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA
*
58983447 GGACACGCTGAGGTAATTTCAA-TTTC-TGTTGTT--A---A------AAAAAAAATCAACTCAT
111 GGACACGCTGAGGTATTTTCAATTTTCGTGTT-TTCAATTTATGTTTCAAAAAAAATCAACTCAT
* * * *
58983499 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCA
175 ATTGCGAGAAGTGAGTTGAGCCTCA--ACACGCTGAGGTA-ATTTCAATTTCTGTTTGTCA
* *
58983560 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 AAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCT
58983596 TGGGTTCACA
Statistics
Matches: 431, Mismatches: 49, Indels: 56
0.80 0.09 0.10
Matches are distributed among these distances:
232 59 0.14
233 70 0.16
234 24 0.06
235 86 0.20
237 10 0.02
241 50 0.12
242 51 0.12
249 3 0.01
250 5 0.01
251 37 0.09
252 6 0.01
253 28 0.06
254 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (232 bp):
AAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
GTGCTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:58983345 original size:73 final size:74
Alignment explanation
Indices: 58983226--58983387 Score: 236
Period size: 73 Copynumber: 2.2 Consensus size: 74
58983216 AATTTCTGGT
* * * *
58983226 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACG
1 TTTCAATTTCTGTTTGTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACG
58983290 CTGAGGTAA
66 CTGAGGTAA
* *
58983299 TTTCAATTTCTGTTTGTCAAAAATTAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACAC
**
58983364 GCTGAGGTCT
65 GCTGAGGTAA
58983374 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
58983388 CTTCAATTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 54 0.68
75 25 0.32
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (74 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACG
CTGAGGTAA
Found at i:58983394 original size:14 final size:14
Alignment explanation
Indices: 58983375--58983402 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58983365 CTGAGGTCTT
58983375 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
58983389 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
58983403 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:58983468 original size:89 final size:88
Alignment explanation
Indices: 58983300--58983560 Score: 271
Period size: 77 Copynumber: 3.1 Consensus size: 88
58983290 CTGAGGTAAT
* * *
58983300 TTCAATTTCTGTTTGT--CAAAAATTAACCCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTCAATTTCTG-TTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* *
58983362 ATGCTGAGGTCTTTTCAATTTCTGTTC
62 ACGCTGAGGTATTTTCAATTTCTGTTC
* *
58983389 TTCAATTTCTGTTCGTAAAAAAAATGAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTT-GTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
58983454 CTGAGGTAATTTCAATTTCTGTTG
65 CTGAGGTATTTTCAATTTCTGTTC
58983478 TT-AA----------AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
58983532 TGAGGTATTTTTAAATTTCTGTTT
66 TGAGGTA-TTTTCAATTTCTGTTC
58983556 TTCAA
1 TTCAA
58983561 AAATCAACTC
Statistics
Matches: 153, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
77 55 0.36
78 15 0.10
79 2 0.01
88 4 0.03
89 40 0.26
91 35 0.23
92 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (88 bp):
TTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTGTTC
Found at i:58983514 original size:77 final size:76
Alignment explanation
Indices: 58983389--58983595 Score: 296
Period size: 77 Copynumber: 2.7 Consensus size: 76
58983379 ATTTCTGTTC
* *
58983389 TTCAATTTCTGTTCG-TAAAAAAAATGAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTT-GTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
58983453 GCTGAGGTA-AT
65 GCTGAGGTATAT
58983464 TTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTCAATTTCTGTTGTT--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
58983529 CGCTGAGGTATTT
64 CGCTGAGGTATAT
* ** *
58983542 TTAAATTTCTGTT-TT-TCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 TTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
58983596 TGGGTTCACA
Statistics
Matches: 121, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
74 37 0.31
75 14 0.12
77 57 0.47
78 13 0.11
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (76 bp):
TTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATAT
Found at i:58984344 original size:30 final size:30
Alignment explanation
Indices: 58984308--58984482 Score: 296
Period size: 30 Copynumber: 5.8 Consensus size: 30
58984298 ACTTTTCTCA
*
58984308 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
58984338 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
58984368 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
58984398 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
58984428 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
58984458 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
58984483 CTTGTACCTA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:58984373 original size:60 final size:60
Alignment explanation
Indices: 58984308--58984482 Score: 332
Period size: 60 Copynumber: 2.9 Consensus size: 60
58984298 ACTTTTCTCA
*
58984308 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
58984368 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
58984428 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
58984483 CTTGTACCTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 113 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:58984999 original size:23 final size:23
Alignment explanation
Indices: 58984962--58985043 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
58984952 CTTTTTTTGT
58984962 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
58984985 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
58985007 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
58985030 TATTACGTATATAT
1 TATTA--TATATAT
58985044 ATATATTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.04
22 15 0.33
23 19 0.42
24 4 0.09
25 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:58985089 original size:25 final size:25
Alignment explanation
Indices: 58984968--58985189 Score: 93
Period size: 25 Copynumber: 8.7 Consensus size: 25
58984958 TTGTTATTAT
58984968 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATATTATATTATGTA
* *
58984992 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATATTATATTATGTA
* * *
58985014 TATATTTTAAATTTTATATTACGTATA
1 TATATTTTTAATATTATATTA--TGTA
* * *
58985041 TATATATATTTTATACTATTTTATGTA
1 TATAT-T-TTTAATATTATATTATGTA
* *
58985068 TATATCTTTAATATTATATTATTTATATA
1 TATATTTTTAATA-T-TA-TA-TTATGTA
* * *
58985097 TATATTTTTTTTACGTGTTATCTTATGTA
1 TATA---TTTTTA-ATATTATATTATGTA
*
58985126 TATA-TCTT-A-ATTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
* * *
58985148 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
*
58985173 CATATTTTTAATATTAT
1 TATATTTTTAATATTAT
58985190 TACGTATTTT
Statistics
Matches: 143, Mismatches: 34, Indels: 41
0.66 0.16 0.19
Matches are distributed among these distances:
21 2 0.01
22 29 0.20
23 11 0.08
24 9 0.06
25 35 0.24
27 15 0.10
28 2 0.01
29 30 0.21
30 1 0.01
31 2 0.01
32 6 0.04
33 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATGTA
Found at i:58985092 original size:29 final size:28
Alignment explanation
Indices: 58985027--58985152 Score: 89
Period size: 29 Copynumber: 4.4 Consensus size: 28
58985017 ATTTTAAATT
* * * *
58985027 TTATATTACGTATATATATATATTTTATA
1 TTAT-TTATGTATATATCTTTATATTATA
*
58985056 CTATTTTATGTATATATCTTTAATATTATA
1 TTA-TTTATGTATATATCTTT-ATATTATA
* * *
58985086 TTATTTATATATATAT-TTT-TTTTACGTG
1 TTATTTATGTATATATCTTTATATTA--TA
58985114 TTATCTTATGTATATATC-TTA-ATTATA
1 TTAT-TTATGTATATATCTTTATATTATA
*
58985141 TTATGTATGTAT
1 TTATTTATGTAT
58985153 TTTTAACACT
Statistics
Matches: 77, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
26 11 0.14
27 5 0.06
28 8 0.10
29 43 0.56
30 10 0.13
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (28 bp):
TTATTTATGTATATATCTTTATATTATA
Found at i:58985199 original size:19 final size:20
Alignment explanation
Indices: 58985163--58985218 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
58985153 TTTTAACACT
58985163 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
58985183 ATATTAT-TACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
58985202 TTATATATGTACATATT
1 ATAT-TATGTACATATT
58985219 GATGTAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:58985364 original size:16 final size:14
Alignment explanation
Indices: 58985345--58985378 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
58985335 TATTATTCTA
58985345 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
58985360 GATATTTTATATTTT
1 -ATATTTTATATTTT
58985375 ATAT
1 ATAT
58985379 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:58985373 original size:7 final size:8
Alignment explanation
Indices: 58985345--58985378 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
58985335 TATTATTCTA
58985345 ATATTTTG
1 ATATTTTG
58985353 ATATTTTG
1 ATATTTTG
58985361 ATATTTT-
1 ATATTTTG
58985368 ATATTTT-
1 ATATTTTG
58985375 ATAT
1 ATAT
58985379 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:58985380 original size:16 final size:15
Alignment explanation
Indices: 58985345--58985385 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
58985335 TATTATTCTA
58985345 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
58985361 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
58985377 ATATTTTAT
1 ATATTTTAT
58985386 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:58986678 original size:13 final size:13
Alignment explanation
Indices: 58986660--58986684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58986650 TTTCGAAGGG
58986660 CACACGGGTTAGT
1 CACACGGGTTAGT
58986673 CACACGGGTTAG
1 CACACGGGTTAG
58986685 GACACAGCCC
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
CACACGGGTTAGT
Found at i:58993984 original size:11 final size:11
Alignment explanation
Indices: 58993970--58994017 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
58993960 ATATTCAAAC
*
58993970 AATAATAATAA
1 AATAATAGTAA
*
58993981 AATAGTAGTAA
1 AATAATAGTAA
*
58993992 AATAATAGTGA
1 AATAATAGTAA
*
58994003 AATGATAGTAA
1 AATAATAGTAA
58994014 AATA
1 AATA
58994018 GTGAGAAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:58994488 original size:26 final size:25
Alignment explanation
Indices: 58994459--58994524 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
58994449 CAATAAATTT
58994459 TATTGTTAATAAGTATTTGAATTAAA
1 TATTGTTAATAAGTATTTGAATT-AA
* *
58994485 TATTGAATAATAA-TATTTTAATTAA
1 TATTG-TTAATAAGTATTTGAATTAA
58994510 TAATT-TTAA-AAGTAT
1 T-ATTGTTAATAAGTAT
58994525 CATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 2 0.06
24 6 0.18
25 3 0.09
26 17 0.50
27 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TATTGTTAATAAGTATTTGAATTAA
Found at i:58995111 original size:23 final size:21
Alignment explanation
Indices: 58995069--58995111 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
58995059 ACAATAATTA
**
58995069 TTATTTTCTTTAACTTTTTTT
1 TTATTTTCTTTAACAATTTTT
58995090 TTATTTTACATTTAACAATTTT
1 TTATTTT-C-TTTAACAATTTT
58995112 AGTTATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTCTTTAACAATTTTT
Found at i:58995229 original size:15 final size:15
Alignment explanation
Indices: 58995209--58995238 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58995199 ATAATTGATG
58995209 CAATTAACTCAAAAA
1 CAATTAACTCAAAAA
58995224 CAATTAACTCAAAAA
1 CAATTAACTCAAAAA
58995239 AAGCTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (15 bp):
CAATTAACTCAAAAA
Found at i:58996124 original size:26 final size:26
Alignment explanation
Indices: 58996088--58996197 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
58996078 TGATACAAAT
58996088 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
58996114 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58996140 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58996166 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
58996192 TGATAA
1 TGATAA
58996198 GAATTTTATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:58997893 original size:27 final size:27
Alignment explanation
Indices: 58997807--58997948 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
58997797 TGGAGGAAGC
* *
58997807 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
** * * * *
58997834 GACCTAGTGGCTCTACCACAAATATCC
1 GTTCTGGTGGCTCTGCCACATATATCT
* *
58997861 GATCTGGTGGCTCTGCCACATATATTT
1 GTTCTGGTGGCTCTGCCACATATATCT
58997888 GTTCTGGTGGCTCTGCCACGAT-TATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCT
* *
58997915 GTATCTGGTGACTCTGTCACAT-TATCT
1 GT-TCTGGTGGCTCTGCCACATATATCT
58997942 GTTCTGG
1 GTTCTGG
58997949 CAGCCATGCT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.05
27 75 0.77
28 17 0.18
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACATATATCT
Found at i:58998034 original size:19 final size:22
Alignment explanation
Indices: 58998010--58998049 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
58998000 CTCCCCACAC
58998010 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
58998029 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
58998050 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:58999776 original size:40 final size:40
Alignment explanation
Indices: 58999721--58999801 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
58999711 TAGGAACTGT
58999721 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
1 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
58999761 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
1 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
58999801 T
1 T
58999802 GTAGACGCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (40 bp):
TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
Found at i:59003113 original size:46 final size:49
Alignment explanation
Indices: 59002991--59003120 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 49
59002981 TGTAACCCGC
*
59002991 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGTTACAT
* * *
59003041 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGG-G-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTT-ACAT
59003084 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59003121 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 3 0.04
46 28 0.41
47 27 0.39
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTTACAT
Found at i:59003139 original size:46 final size:44
Alignment explanation
Indices: 59002996--59003139 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
59002986 CCCGCCCATA
*
59002996 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
59003043 CA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATCT
59003089 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
59003135 AGTGA
1 AGTGA
59003140 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 3 0.04
46 31 0.39
47 28 0.35
48 3 0.04
49 4 0.05
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:59005685 original size:26 final size:26
Alignment explanation
Indices: 59005649--59005784 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
59005639 TGATACAAAT
59005649 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59005675 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59005701 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59005727 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
59005753 TGATAAT-GGATTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
*
59005779 TTATAA
1 TGATAA
59005785 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 2 0.02
26 104 0.98
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59006975 original size:8 final size:8
Alignment explanation
Indices: 59006958--59006989 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
59006948 CTAGATTGGC
59006958 AAAAGCCG
1 AAAAGCCG
*
59006966 AAATGCCG
1 AAAAGCCG
59006974 AAAAGCCG
1 AAAAGCCG
59006982 AAAAGCCG
1 AAAAGCCG
59006990 GTATTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:59007490 original size:26 final size:26
Alignment explanation
Indices: 59007449--59007548 Score: 134
Period size: 26 Copynumber: 3.8 Consensus size: 26
59007439 CTACCACATA
59007449 TCTGCCA-A-TATCTGTTCTGGTGGC
1 TCTGCCACATTATCTGTTCTGGTGGC
59007473 TCTG-CACATATATCTGTTCTGGTGGC
1 TCTGCCACAT-TATCTGTTCTGGTGGC
*
59007499 TCTGCCACGATTATCTGTATCTGGTGAC
1 TCTGCCAC-ATTATCTGT-TCTGGTGGC
*
59007527 TCTGTCACATTATCTGTTCTGG
1 TCTGCCACATTATCTGTTCTGG
59007549 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.03
24 5 0.07
26 25 0.37
27 19 0.28
28 17 0.25
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
TCTGCCACATTATCTGTTCTGGTGGC
Found at i:59007634 original size:19 final size:22
Alignment explanation
Indices: 59007610--59007649 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
59007600 CTCCCCACAC
59007610 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
59007629 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
59007650 TTGGGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:59009274 original size:29 final size:29
Alignment explanation
Indices: 59009238--59009297 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 29
59009228 AATGATAAAA
*
59009238 AATAAAAATCAATAAAAATTATT-AAATTTT
1 AATAAAAAT--ATAAAAAATATTAAAATTTT
59009268 AATAAAAATATAAAAAATATTAAAATTTT
1 AATAAAAATATAAAAAATATTAAAATTTT
59009297 A
1 A
59009298 TTTAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AATAAAAATATAAAAAATATTAAAATTTT
Found at i:59009280 original size:28 final size:28
Alignment explanation
Indices: 59009238--59009326 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 28
59009228 AATGATAAAA
59009238 AATAAAAATCAATAAAAATTATTAAATTTT
1 AATAAAAAT--ATAAAAATTATTAAATTTT
*
59009268 AATAAAAATATAAAAAATATTAAAATTTT
1 AATAAAAATATAAAAATTATT-AAATTTT
* * *
59009297 ATTTAAAAACTTTAAAAATTA-TAATTTTT
1 A-ATAAAAA-TATAAAAATTATTAAATTTT
59009326 A
1 A
59009327 TAACTTTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 11 0.22
29 15 0.29
30 16 0.31
31 9 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAAATTATTAAATTTT
Found at i:59009325 original size:29 final size:29
Alignment explanation
Indices: 59009239--59009328 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 29
59009229 ATGATAAAAA
59009239 ATAAAAATCAATAAAAATTATTAAATTTTA-
1 ATAAAAAT--ATAAAAATTATTAAATTTTAT
*
59009269 ATAAAAATATAAAAAATATTAAAATTTTAT
1 ATAAAAATATAAAAATTATT-AAATTTTAT
* * *
59009299 TTAAAAACTTTAAAAATTA-TAATTTTTAT
1 ATAAAAA-TATAAAAATTATTAAATTTTAT
59009328 A
1 A
59009329 ACTTTTATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 11 0.22
29 16 0.31
30 15 0.29
31 9 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAAAAATATAAAAATTATTAAATTTTAT
Found at i:59012163 original size:17 final size:18
Alignment explanation
Indices: 59012131--59012175 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
59012121 TATAAAATTT
*
59012131 TTATTATATTTTTTAAAA
1 TTATTATATATTTTAAAA
59012149 TTATT-TATATTTTAAAA
1 TTATTATATATTTTAAAA
59012166 -T-TTATATATT
1 TTATTATATATT
59012176 ATTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 11 0.44
18 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATATATTTTAAAA
Found at i:59016375 original size:21 final size:21
Alignment explanation
Indices: 59016344--59016391 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
59016334 AATATAACAT
* *
59016344 CAATAATTTTAAGATATAATTA
1 CAAT-ATTTTAAAATATAAGTA
*
59016366 CAATATTTTAAAATTTAAGTA
1 CAATATTTTAAAATATAAGTA
59016387 CAATA
1 CAATA
59016392 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (21 bp):
CAATATTTTAAAATATAAGTA
Found at i:59017586 original size:39 final size:39
Alignment explanation
Indices: 59017539--59017629 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
59017529 AAAAGGTTGC
* * * *
59017539 GATCGTAAATTAGCGGACCATGAGAAAGCCAAAGGTCGT
1 GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
* * *
59017578 GATTGTAAATCAGCGAACCATAATAAAGCCAAATGTCAT
1 GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
59017617 GATCGTAAATCAG
1 GATCGTAAATCAG
59017630 TGACCCGCGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (39 bp):
GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
Found at i:59017736 original size:93 final size:92
Alignment explanation
Indices: 59017569--59017854 Score: 394
Period size: 93 Copynumber: 3.1 Consensus size: 92
59017559 TGAGAAAGCC
* * * * * **
59017569 AAAGGTCGTGATTGTAAATCAGCGAACCATAATAAAGCCAAATGTCATGATCGTAAATCAGTGAC
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAAAGA-
*
59017634 CCGCGAGATTTATAAAATCCCGTAAGTA
65 CCGCGAGATTTGTAAAATCCCGTAAGTA
*
59017662 AAAGGTCGTGATTGTAAATCAACGGATCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAACAGA
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAA-AGA
* *
59017727 CCGCAAGATTCGTAAAATCCCGTAAGTA
65 CCGCGAGATTTGTAAAATCCCGTAAGTA
* *
59017755 AAAGGTCGTAATTGTAAATCAACGGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCGGAAA-
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATC--AAAG
* *
59017819 ACTGCGAGATTTGTAAAATCCTGTAAGTA
64 ACCGCGAGATTTGTAAAATCCCGTAAGTA
59017848 AAAGGTC
1 AAAGGTC
59017855 ATAATCATAA
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
93 167 0.97
94 3 0.02
95 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (92 bp):
AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAAAGAC
CGCGAGATTTGTAAAATCCCGTAAGTA
Found at i:59017968 original size:54 final size:53
Alignment explanation
Indices: 59017822--59018035 Score: 225
Period size: 54 Copynumber: 4.0 Consensus size: 53
59017812 TCGGAAAACT
* * * * *
59017822 GCGAGATTTGTAAAATCCTGTAAGTAAAAGGTCATAATCATAAATCAGCGG-GC
1 GCGAGATTCGTAAAATCC-ATAAGTAAAAGGTCATGATCATAAATTAGCGGACC
* * *
59017875 ACGAGATTCGTAAAATCAATAAATAAAAGGTCATGATCATAAATTAGCGGACC
1 GCGAGATTCGTAAAATCCATAAGTAAAAGGTCATGATCATAAATTAGCGGACC
* * ** * * *
59017928 GCGAGATTCATAAAATCTCGTAAGTAAAAGGTTGTGATCATAATTTAACGGACT
1 GCGAGATTCGTAAAATC-CATAAGTAAAAGGTCATGATCATAAATTAGCGGACC
* * *
59017982 GCGAGATTCGTAAAATCCCATAAGTAAAAGATCGTGATC-TAAATTAGTGGACC
1 GCGAGATTCGTAAAAT-CCATAAGTAAAAGGTCATGATCATAAATTAGCGGACC
59018035 G
1 G
59018036 TAAGAAAGCC
Statistics
Matches: 132, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
52 28 0.21
53 42 0.32
54 61 0.46
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (53 bp):
GCGAGATTCGTAAAATCCATAAGTAAAAGGTCATGATCATAAATTAGCGGACC
Found at i:59018142 original size:78 final size:78
Alignment explanation
Indices: 59018045--59018195 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
59018035 GTAAGAAAGC
* * *
59018045 CAAAGGTCATGATTGTAAATCAGCAGACCCCGAGATTCATAAAATCCTGTAAGTAAAAGGTCATG
1 CAAAGGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
59018110 ATCGTAAAAAACT
66 ATCGTAAAAAACT
** * * *
59018123 CAAAGGTCATGACTATAAATCAGTGGACCGCGAGATTCGTAAAATCCCGTAAGTAAAAGGTTATG
1 CAAAGGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
59018188 ATCGTAAA
66 ATCGTAAA
59018196 CTAGCAGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (78 bp):
CAAAGGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
ATCGTAAAAAACT
Found at i:59018439 original size:42 final size:41
Alignment explanation
Indices: 59018336--59018456 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 41
59018326 TAAAAGGTCG
** *
59018336 TGATCGTAAATCAACAGACCGTAAGAAAGTCAAA--GGTTA
1 TGATCGTAAATCAGTAGACCATAAGAAAGTCAAAGTGGTTA
* * * *
59018375 TGATCGTAAATTAGTGGTCCATAAGAAAGTCAAATGTGGTTG
1 TGATCGTAAATCAGTAGACCATAAGAAAGTCAAA-GTGGTTA
* * *
59018417 TGGTCGTAAATCAGTAGACCATAAAAAAGTCGAAGGTGGT
1 TGATCGTAAATCAGTAGACCATAAGAAAGTC-AAAGTGGT
59018457 CGTGAACATA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
39 28 0.43
42 35 0.54
43 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (41 bp):
TGATCGTAAATCAGTAGACCATAAGAAAGTCAAAGTGGTTA
Found at i:59019509 original size:43 final size:43
Alignment explanation
Indices: 59019414--59019536 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
59019404 ATCGAGATGT
* * * *
59019414 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
** *
59019457 GATTACGTGTAAGATAATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCG-TAATGA
* * * *
59019500 GATTTCGTGTAAGACCCTGTCTAGGACAATGCCATCG
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCG
59019537 ATATGCGTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
Found at i:59021444 original size:42 final size:42
Alignment explanation
Indices: 59021337--59021558 Score: 184
Period size: 42 Copynumber: 5.4 Consensus size: 42
59021327 ATATGTAAAA
* * * *
59021337 GGTCATGATTGTAAATTAGCAGACCATAAGAAAGTCGAAGGT
1 GGTCATGATCGTAAATCAACAGACCATAAGAAAGCCGAAGGT
* * *
59021379 CGT-A--ATCGTAAATCAGCAGACCATAAAAAAGCCGAAGGT
1 GGTCATGATCGTAAATCAACAGACCATAAGAAAGCCGAAGGT
* * *
59021418 GGTCGTGATCGTAAATTAACAAACCATAAGAAAGCCGAAGGT
1 GGTCATGATCGTAAATCAACAGACCATAAGAAAGCCGAAGGT
* * *
59021460 GGTCATGATCGTAAATCAACAGACTC-TATGAAAGTCAAAGGT
1 GGTCATGATCGTAAATCAACAGAC-CATAAGAAAGCCGAAGGT
* * * * * ** **
59021502 GGCCGT-AGTTGTAAATCAGCAAATTATAAGAAAGAAGAAGGT
1 GGTCATGA-TCGTAAATCAACAGACCATAAGAAAGCCGAAGGT
*
59021544 GATCATGATCGTAAA
1 GGTCATGATCGTAAA
59021559 CTAGTGGACC
Statistics
Matches: 141, Mismatches: 32, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
39 33 0.23
41 2 0.01
42 104 0.74
43 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (42 bp):
GGTCATGATCGTAAATCAACAGACCATAAGAAAGCCGAAGGT
Found at i:59021516 original size:84 final size:84
Alignment explanation
Indices: 59021342--59021558 Score: 228
Period size: 84 Copynumber: 2.6 Consensus size: 84
59021332 TAAAAGGTCA
* * * *
59021342 TGATTGTAAATTAGCAGACCATAAGAAAGTCGAAGGTCGT-A--ATCGTAAATCAGCAGACCATA
1 TGATTGTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGACCATA
* *
59021404 AAAAAGCCGAAGGTGGTCG
66 AAAAAGCCAAAGGTGGCCG
* * *
59021423 TGATCGTAAATTAACAAACCATAAGAAAGCCGAAGGTGGTCATGATCGTAAATCAACAGACTC-T
1 TGATTGTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGAC-CAT
** *
59021487 ATGAAAGTCAAAGGTGGCCG
65 AAAAAAGCCAAAGGTGGCCG
* ** * *
59021507 T-AGTTGTAAATCAGCAAATTATAAGAAAGAAGAAGGTGATCATGATCGTAAA
1 TGA-TTGTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAA
59021559 CTAGTGGACC
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
81 35 0.31
82 1 0.01
83 1 0.01
84 74 0.66
85 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (84 bp):
TGATTGTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGACCATA
AAAAAGCCAAAGGTGGCCG
Found at i:59021651 original size:54 final size:54
Alignment explanation
Indices: 59021591--59021770 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
59021581 AAAGTAGTCG
* * ** *
59021591 TGATCGTAAATCAGTAGACCGCGAGATTTATAAAATCCCGTCTGTAAAAGGTCG
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
* * *
59021645 TTATCGTAAATCAATAGACCACGAGATTTATAAAATCCCATAAGTAAAAGGACA
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
* *** * * **
59021699 TGATCGTAAATTAGCGGACTACAAGATTCGTAAAATCCCGTAAGTAAAAGGTCA
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
*
59021753 TAATCGTAAATCAATAGA
1 TGATCGTAAATCAATAGA
59021771 TCGTAAGAAA
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (54 bp):
TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
Found at i:59021850 original size:147 final size:150
Alignment explanation
Indices: 59021651--59022008 Score: 362
Period size: 147 Copynumber: 2.4 Consensus size: 150
59021641 GTCGTTATCG
* ** ** * * * *
59021651 TAAATCAATAGACCACGAGATTTATAAAATCCCATAAGTAAAAGGACATGATCGTAAATTAGCGG
1 TAAATCAGTAGACCACGAGATTCGTAAAATCCTGTAAGTAAAAGGTCGTGATCGTAAATCAACGG
* * * *
59021716 ACTACAAGATTCGTAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGATCGTAAGAAA
66 ACTACAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
* *
59021781 G-CCAATG-A-TTGTGACCA
131 GTCCAAAGTAGTCGTGACCA
* * * * *
59021798 TAAATCAGCAGACTACGAGATTCGTAAAATCCTGTAAGTAAAATGTCGTGATCATAAATCAATGG
1 TAAATCAGTAGACCACGAGATTCGTAAAATCCTGTAAGTAAAAGGTCGTGATCGTAAATCAACGG
*** ** * * *
59021863 ACTGTGAGATCCATAAAATCCCGTAAGTAAAAGGTTGTGATCGTCAATCAGTAGACCATAAGAAA
66 ACTACAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
** ***
59021928 GTTGAAAGTAGTCGTGATTG
131 GTCCAAAGTAGTCGTGACCA
* * * *
59021948 TAAATCAGTGGACCACGAGATTCGTAAAGTCTTGTATGTAAAAGGTCGTGATCGTAAATCA
1 TAAATCAGTAGACCACGAGATTCGTAAAATCCTGTAAGTAAAAGGTCGTGATCGTAAATCA
59022009 GCATATTGTA
Statistics
Matches: 167, Mismatches: 41, Indels: 3
0.79 0.19 0.01
Matches are distributed among these distances:
147 105 0.63
148 3 0.02
149 1 0.01
150 58 0.35
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (150 bp):
TAAATCAGTAGACCACGAGATTCGTAAAATCCTGTAAGTAAAAGGTCGTGATCGTAAATCAACGG
ACTACAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
GTCCAAAGTAGTCGTGACCA
Found at i:59022142 original size:42 final size:42
Alignment explanation
Indices: 59022055--59022263 Score: 161
Period size: 42 Copynumber: 5.0 Consensus size: 42
59022045 TCAATAGACC
* * * * * **
59022055 ATAAAAAAGTCGAAGATAGCCGTGATCGTAAATTAACGGGTT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* * * *
59022097 ATAAGAAAGTCGAAGGTGGTCGTGATTGTAAATTAGTGGACT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* ** * * * * *
59022139 ATAAAAAAGTTAAAAGTGGTCGTGGTCATAAATCAGCAGACT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* * *
59022181 ATAAGAAAGTCGAAGGTAGTCGTAATCGTAAACCA-CTGGACC
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGC-GGACT
* * *
59022223 ATAAGAAAG-CAGAAAGTAGTAGTGATCATAAATCAGCGGAC
1 ATAAGAAAGTC-GAAGGTAGTCGTGATCGTAAATCAGCGGAC
59022264 CGCGAGATTT
Statistics
Matches: 129, Mismatches: 35, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
41 2 0.02
42 126 0.98
43 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.22
Consensus pattern (42 bp):
ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
Found at i:59022221 original size:84 final size:84
Alignment explanation
Indices: 59022096--59022259 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
59022086 ATTAACGGGT
* * * ** * * * * *
59022096 TATAAGAAAGTCGAAGGTGGTCGTGATTGTAAATTAGTGGACTATAAAAAAGTTA-AAAGTGGTC
1 TATAAGAAAGTCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAG-CAGAAAGTAGTA
*
59022160 GTGGTCATAAATCAGCAGAC
65 GTGATCATAAATCAGCAGAC
*
59022180 TATAAGAAAGTCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAGAAAGCAGAAAGTAGTAG
1 TATAAGAAAGTCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAGCAGAAAGTAGTAG
59022245 TGATCATAAATCAGC
66 TGATCATAAATCAGC
59022260 GGACCGCGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 1 0.01
84 66 0.99
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (84 bp):
TATAAGAAAGTCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAGCAGAAAGTAGTAG
TGATCATAAATCAGCAGAC
Found at i:59022326 original size:54 final size:54
Alignment explanation
Indices: 59022268--59022415 Score: 179
Period size: 54 Copynumber: 2.7 Consensus size: 54
59022258 GCGGACCGCG
* * **
59022268 AGATTTGTAAAATCCCGTATGTAAAAGGTCGTGATCGTAAATTAATGGACCACA
1 AGATTTGTAAAATCCCGTAAGTAAAAAGTCGTGATCGTAAATTAACAGACCACA
* * * * *
59022322 AGATTTGTAAAATCCCATAAGTAAAAAGTCGTGATCGTAAATTAGCAGATCGCG
1 AGATTTGTAAAATCCCGTAAGTAAAAAGTCGTGATCGTAAATTAACAGACCACA
* * * *
59022376 AGATTCGTAAAATCCTGTAAGTAAAATGTCGTAATCGTAA
1 AGATTTGTAAAATCCCGTAAGTAAAAAGTCGTGATCGTAA
59022416 GAAAGCCAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (54 bp):
AGATTTGTAAAATCCCGTAAGTAAAAAGTCGTGATCGTAAATTAACAGACCACA
Found at i:59022500 original size:54 final size:54
Alignment explanation
Indices: 59022437--59022551 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
59022427 GTTGTGACCA
* * * * * *
59022437 TAAATCAACAGACCGCGAGATTTATAAAATCACGTAAGTAAAGGGTCGTGATTG
1 TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
* * *
59022491 TAAATCAACAGACCGTAAGATCTATAAAATCTCATAAGTAAAATGTCATGATCG
1 TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
59022545 TAAATCA
1 TAAATCA
59022552 GTAGACTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (54 bp):
TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
Found at i:59031498 original size:20 final size:21
Alignment explanation
Indices: 59031460--59031501 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59031450 ATACATGGAA
*
59031460 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
59031481 TTAAAGAAAATAA-ACTTAAT
1 TTAAAAAAAATAACACTTAAT
59031501 T
1 T
59031502 ATCTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:59034895 original size:36 final size:36
Alignment explanation
Indices: 59034836--59034904 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
59034826 TGATTTATTT
*
59034836 ATTTATAAATAAATTATTGTAATATAAGTAAAAATA
1 ATTTAAAAATAAATTATTGTAATATAAGTAAAAATA
* *
59034872 ATTTAAAATATAAATT-TTTTAATATATGTAAAA
1 ATTTAAAA-ATAAATTATTGTAATATAAGTAAAA
59034905 GTAGCTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 22 0.76
37 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (36 bp):
ATTTAAAAATAAATTATTGTAATATAAGTAAAAATA
Found at i:59035025 original size:19 final size:18
Alignment explanation
Indices: 59034979--59035025 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
59034969 CATCCAAACA
59034979 CCAGAAAAGTAAATCATTT
1 CCAG-AAAGTAAATCATTT
*
59034998 CCATAAAAGTAAATCATTTT
1 CCA-GAAAGTAAATCA-TTT
59035018 CCAGAAAG
1 CCAGAAAG
59035026 CATTTAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (18 bp):
CCAGAAAGTAAATCATTT
Found at i:59054862 original size:43 final size:42
Alignment explanation
Indices: 59054798--59054915 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
59054788 TCGTACAATA
* * * *
59054798 CAATGTCCCAGA-TGTGGTCTTAAATGTAATCAAATATCGATGC
1 CAATGTCCCAGACAG-GGTCTTAAACGAAATCAAATA-CAATGC
* *
59054841 CACTGTCCCAGACAGGGTCTTACACGAAATCAAATACAATGC
1 CAATGTCCCAGACAGGGTCTTAAACGAAATCAAATACAATGC
* * *
59054883 CAATGTCCTAGACATGGTCTTACACGTAAATCA
1 CAATGTCCCAGACAGGGTCTTAAACG-AAATCA
59054916 TAAGTCGGTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.44
43 35 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
CAATGTCCCAGACAGGGTCTTAAACGAAATCAAATACAATGC
Done.