Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 8 of 333
Found at i:2011956 original size:26 final size:27
Alignment explanation
Indices: 2011927--2012002 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
2011917 CAAAATTAAC
*
2011927 CCTAGGGGTATAACGGTAATTTT-ACA
1 CCTAGGGGTATAACAGTAATTTTCACA
*
2011953 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTT-CACA
* *
2011981 CATAGGGGTATTACAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
2012003 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.50
28 22 0.50
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCACA
Found at i:2011996 original size:28 final size:26
Alignment explanation
Indices: 2011929--2012002 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 26
2011919 AAATTAACCC
* *
2011929 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
2011955 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
*
2011983 TAGGGGTATTACAGTAATTT
1 TAGGGGTATAACAGTAATTT
2012003 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 20 0.48
28 22 0.52
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:2013480 original size:26 final size:26
Alignment explanation
Indices: 2013444--2013553 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
2013434 CATGAAATTC
2013444 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2013470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2013496 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
2013522 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2013548 TTATCA
1 TTATCA
2013554 ATTTGTATCA
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:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2017457 original size:19 final size:22
Alignment explanation
Indices: 2017418--2017457 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
2017408 AGAAACCCAA
2017418 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
2017440 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
2017458 GTGTGGGGAG
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:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:2017548 original size:26 final size:26
Alignment explanation
Indices: 2017519--2017659 Score: 183
Period size: 27 Copynumber: 5.3 Consensus size: 26
2017509 AGCATGGCTG
* *
2017519 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
2017545 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
2017573 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
2017600 CCAGATCAGATATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
2017626 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
2017653 CCAGAAC
1 CCAGAAC
2017660 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 30 0.29
27 58 0.55
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:2017636 original size:53 final size:55
Alignment explanation
Indices: 2017519--2017657 Score: 203
Period size: 53 Copynumber: 2.6 Consensus size: 55
2017509 AGCATGGCTG
* *
2017519 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
*
2017573 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGAT-ATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
2017626 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
2017658 ACGCTTCCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 43 0.55
54 17 0.22
55 18 0.23
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:2017789 original size:26 final size:27
Alignment explanation
Indices: 2017760--2017835 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
2017750 CAAAATTAAC
*
2017760 CCTAGGGGTATAACGGTAATTTT-ACA
1 CCTAGGGGTATAACAGTAATTTTCACA
*
2017786 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTT-CACA
* *
2017814 CATAGGGGTATTACAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
2017836 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.50
28 22 0.50
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCACA
Found at i:2017829 original size:28 final size:26
Alignment explanation
Indices: 2017762--2017835 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 26
2017752 AAATTAACCC
* *
2017762 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
2017788 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
*
2017816 TAGGGGTATTACAGTAATTT
1 TAGGGGTATAACAGTAATTT
2017836 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 20 0.48
28 22 0.52
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:2019315 original size:26 final size:26
Alignment explanation
Indices: 2019277--2019360 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
2019267 CATGAAATTC
*
2019277 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
2019303 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
2019329 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
2019355 TTATCA
1 TTATCA
2019361 GTTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:2021535 original size:13 final size:13
Alignment explanation
Indices: 2021519--2021552 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
2021509 TGCATATAAT
2021519 ATATATACACACA
1 ATATATACACACA
2021532 ATATATACACACA
1 ATATATACACACA
2021545 ATTATATA
1 A-TATATA
2021553 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATATACACACA
Found at i:2022099 original size:42 final size:42
Alignment explanation
Indices: 2022048--2022334 Score: 452
Period size: 42 Copynumber: 6.8 Consensus size: 42
2022038 GTTTACAAAC
*
2022048 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
2022090 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
2022132 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
2022174 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
2022216 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
2022258 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-GAGG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-A
* *
2022300 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
2022335 TTTTTTTTCT
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 5 0.02
42 220 0.96
43 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:2022512 original size:14 final size:14
Alignment explanation
Indices: 2022489--2022522 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2022479 GCCCTCCTGT
*
2022489 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
2022503 AGCAACATTTCAAA
1 AGCAACATTTCAAA
2022517 AGCAAC
1 AGCAAC
2022523 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:2022795 original size:21 final size:20
Alignment explanation
Indices: 2022748--2022803 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
2022738 TTGCTCTGCT
* *
2022748 CTGCTTCTCTTGCTGCAGTC
1 CTGCTTCCCTCGCTGCAGTC
*
2022768 TTCGCTTCCCTCGCTGCAGTC
1 CT-GCTTCCCTCGCTGCAGTC
2022789 GCTGCTTCCCTCGCT
1 -CTGCTTCCCTCGCT
2022804 TCCGCCTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.04, C:0.41, G:0.20, T:0.36
Consensus pattern (20 bp):
CTGCTTCCCTCGCTGCAGTC
Found at i:2028314 original size:11 final size:9
Alignment explanation
Indices: 2028266--2028663 Score: 78
Period size: 7 Copynumber: 46.0 Consensus size: 9
2028256 AATTGCAATG
2028266 GTAAGTTAT
1 GTAAGTTAT
2028275 GTAAGTTAT
1 GTAAGTTAT
2028284 GTAAGTTAAAT
1 GTAAGTT--AT
2028295 GT-A-TTAT
1 GTAAGTTAT
2028302 GTAAGTTAAAT
1 GTAAGTT--AT
2028313 GTAAG-T-T
1 GTAAGTTAT
2028320 GTAAGTTAT
1 GTAAGTTAT
*
2028329 -TATGTATTAT
1 GTAAG--TTAT
2028339 GTAAG-T-T
1 GTAAGTTAT
2028346 GTAAGTTAAAT
1 GTAAGTT--AT
*
2028357 GT-A-TTGT
1 GTAAGTTAT
2028364 GTAAG-T-T
1 GTAAGTTAT
2028371 GTAAGTTAAAT
1 GTAAGTT--AT
2028382 GT-A-TTAT
1 GTAAGTTAT
2028389 GTAAG-T-T
1 GTAAGTTAT
2028396 GTAAGTTAT
1 GTAAGTTAT
*
2028405 -TATGTATTAT
1 GTAAG--TTAT
2028415 GTAAG-T-T
1 GTAAGTTAT
2028422 GTAAGTTAT
1 GTAAGTTAT
* *
2028431 -TATGTATTGT
1 GTAAG--TTAT
2028441 GTAAG-T-T
1 GTAAGTTAT
*
2028448 GCAAGTTAAAT
1 GTAAGTT--AT
2028459 GT-A-TTAT
1 GTAAGTTAT
2028466 GTAAG-T-T
1 GTAAGTTAT
2028473 GTAAGTTAT
1 GTAAGTTAT
*
2028482 -TATGTATTAT
1 GTAAG--TTAT
2028492 GTAAG-T-T
1 GTAAGTTAT
2028499 GTAAGTTAT
1 GTAAGTTAT
* *
2028508 -TATGTATTGT
1 GTAAG--TTAT
2028518 GTAAG-T-T
1 GTAAGTTAT
2028525 GTAAGTTAT
1 GTAAGTTAT
*
2028534 -TATGTATTAT
1 GTAAG--TTAT
2028544 GTAAG-T-T
1 GTAAGTTAT
2028551 GTAAGTTATT
1 GTAAGTTA-T
* *
2028561 GTGTA-TTGT
1 GT-AAGTTAT
2028570 GTAAG-T-T
1 GTAAGTTAT
2028577 GTAAGTTAAAT
1 GTAAGTT--AT
2028588 GT-A-TTAT
1 GTAAGTTAT
2028595 GTAAG-T-T
1 GTAAGTTAT
2028602 GTAAGTTAT
1 GTAAGTTAT
*
2028611 -TATGTATTAT
1 GTAAG--TTAT
*
2028621 GTAAGTAAT
1 GTAAGTTAT
2028630 GTAAGTTAAAT
1 GTAAGTT--AT
2028641 GT-A-TTAT
1 GTAAGTTAT
2028648 GTAAG-T-T
1 GTAAGTTAT
2028655 GTAAGTTAT
1 GTAAGTTAT
2028664 TATGTATTAT
Statistics
Matches: 289, Mismatches: 24, Indels: 152
0.62 0.05 0.33
Matches are distributed among these distances:
7 100 0.35
8 53 0.18
9 50 0.17
10 38 0.13
11 48 0.17
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:2028345 original size:26 final size:26
Alignment explanation
Indices: 2028311--2028673 Score: 574
Period size: 26 Copynumber: 14.1 Consensus size: 26
2028301 TGTAAGTTAA
2028311 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
2028337 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
2028362 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028387 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028413 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
2028439 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028464 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028490 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
2028516 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
2028542 ATGTAAGTTGTAAGTTATTGTGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
2028568 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028593 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
2028619 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
2028646 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
2028672 AT
1 AT
2028674 TTAATAAAAT
Statistics
Matches: 311, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
25 100 0.32
26 187 0.60
27 15 0.05
28 9 0.03
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:2028475 original size:77 final size:78
Alignment explanation
Indices: 2028311--2028671 Score: 588
Period size: 77 Copynumber: 4.7 Consensus size: 78
2028301 TGTAAGTTAA
*
2028311 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
2028375 GTTA-AATGTATT
66 GTTATAATGTATT
*
2028387 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
2028452 GTTA-AATGTATT
66 GTTATAATGTATT
2028464 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
*
2028529 GTTATTATGTATT
66 GTTATAATGTATT
* * * *
2028542 ATGTAAGTTGTAAGTTATTGTGTATTGTGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
*
2028606 GTTATTATGTATT
66 GTTATAATGTATT
*
2028619 ATGTAAGTAATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
2028672 ATTTAATAAA
Statistics
Matches: 268, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
76 43 0.16
77 139 0.52
78 70 0.26
79 16 0.06
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (78 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
GTTATAATGTATT
Found at i:2028793 original size:73 final size:73
Alignment explanation
Indices: 2028710--2028859 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
2028700 ACATTACTAA
2028710 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
2028775 TATTTTTT
66 TATTTTTT
2028783 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
2028848 TATTTTTT
66 TATTTTTT
2028856 TATA
1 TATA
2028860 TTTTATTTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:2028853 original size:35 final size:35
Alignment explanation
Indices: 2028741--2028853 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
2028731 ATAAAATAAC
2028741 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
2028776 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
2028814 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
2028849 ATTTT
1 ATTTT
2028854 TTTATATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:2029024 original size:13 final size:13
Alignment explanation
Indices: 2029006--2029102 Score: 140
Period size: 13 Copynumber: 7.5 Consensus size: 13
2028996 ATTTATAATT
2029006 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
2029019 ATTTAAGTAACAT
1 ATTTAAGTAATAA
2029032 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
2029045 ATTTAAGTAACAT
1 ATTTAAGTAATAA
2029058 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
2029071 ATTTAAGTAACAT
1 ATTTAAGTAATAA
2029084 ATTTAAGTAATAA
1 ATTTAAGTAATAA
2029097 ATTTAA
1 ATTTAA
2029103 ACAAATAAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 72 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:2029035 original size:26 final size:26
Alignment explanation
Indices: 2029005--2029102 Score: 196
Period size: 26 Copynumber: 3.8 Consensus size: 26
2028995 TATTTATAAT
2029005 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
2029031 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
2029057 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
2029083 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
2029103 ACAAATAAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:2031490 original size:115 final size:114
Alignment explanation
Indices: 2031352--2031668 Score: 553
Period size: 115 Copynumber: 2.8 Consensus size: 114
2031342 AATAAACACC
2031352 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
2031417 TAACATTGTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACATT-TTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
2031467 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
2031532 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
2031582 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
2031647 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
2031669 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
114 50 0.26
115 103 0.54
116 37 0.19
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:2031495 original size:40 final size:40
Alignment explanation
Indices: 2031417--2031495 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
2031407 AAACACAAAA
* * * * *
2031417 TAACATTGTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATTGTTTGCGGCATTTTAACAAAAACGCCACTAAAG
2031457 TAACATAT-TTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACAT-TGTTTGCGGCATTTTAACAAAAACGCCACTAAA
2031496 TACATAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (40 bp):
TAACATTGTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:2031610 original size:40 final size:39
Alignment explanation
Indices: 2031533--2031610 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
2031523 AAACACATAA
* * *
2031533 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
2031572 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
2031611 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:2031759 original size:75 final size:74
Alignment explanation
Indices: 2031572--2031743 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
2031562 GCCGCTAAAG
2031572 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
2031637 AAACACAAAA
65 AAACACAAAA
*
2031647 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
2031712 AAACACAAAA
65 AAACACAAAA
*
2031722 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
2031744 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:2031784 original size:189 final size:189
Alignment explanation
Indices: 2031457--2031835 Score: 589
Period size: 189 Copynumber: 2.0 Consensus size: 189
2031447 GCCGCTAAAG
2031457 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * *
2031522 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
2031587 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
2031647 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
2031711 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
2031776 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
2031835 T
1 T
2031836 CCAACAAAAC
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 26 0.15
189 140 0.81
190 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:2032253 original size:21 final size:21
Alignment explanation
Indices: 2032229--2032302 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
2032219 GCCTAGACCC
*
2032229 TAAACTCCAACCCGTAAACCT
1 TAAACCCCAACCCGTAAACCT
2032250 TAAACCCCAACCCCAACCCGTAAACCT
1 TAAA---C---CCCAACCCGTAAACCT
* *
2032277 TAAACCCCAACTCGTAAACCC
1 TAAACCCCAACCCGTAAACCT
2032298 TAAAC
1 TAAAC
2032303 TGTAAACCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 23 0.52
24 2 0.05
27 19 0.43
ACGTcount: A:0.39, C:0.42, G:0.04, T:0.15
Consensus pattern (21 bp):
TAAACCCCAACCCGTAAACCT
Found at i:2032265 original size:27 final size:27
Alignment explanation
Indices: 2032235--2032287 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2032225 ACCCTAAACT
2032235 CCAACCCGTAAACCTTAAACCCCAACC
1 CCAACCCGTAAACCTTAAACCCCAACC
2032262 CCAACCCGTAAACCTTAAACCCCAAC
1 CCAACCCGTAAACCTTAAACCCCAAC
2032288 TCGTAAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
CCAACCCGTAAACCTTAAACCCCAACC
Found at i:2032866 original size:73 final size:72
Alignment explanation
Indices: 2032757--2032894 Score: 190
Period size: 73 Copynumber: 1.9 Consensus size: 72
2032747 AAAGACTCGA
2032757 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
2032821 AGCCTCCC
65 AGCCTCCC
* * * * *
2032829 AAACTAAGAAAAACGATGTCGTTGGGCTTCA-GTTTTTTGTGGCGATTTTTAAAAAATGCCGCTA
1 AAACTAAG-AAAACGATGTCGTTGGGCTT-AGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTA
2032893 AA
64 AA
2032895 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
72 8 0.14
73 44 0.76
74 6 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:2032948 original size:114 final size:113
Alignment explanation
Indices: 2032794--2033119 Score: 381
Period size: 113 Copynumber: 2.9 Consensus size: 113
2032784 TAGGCTTTTT
* * * **
2032794 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGC-TTTCCCAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTT-
* * * * * *
2032859 A-GTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
64 AGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* *
2032908 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGACGTTGGGCTTA
1 GCGGCGCTTTCCC-AAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
2032972 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
65 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
2033021 -CTTGCGC-TTCTCCAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTTT
1 GC-GGCGCTTTC-CCAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTT
*
2033084 AGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 AGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
2033120 TGCTCATTAT
Statistics
Matches: 181, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
112 34 0.19
113 114 0.63
114 33 0.18
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (113 bp):
GCGGCGCTTTCCCAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:2033133 original size:39 final size:37
Alignment explanation
Indices: 2033090--2033218 Score: 107
Period size: 39 Copynumber: 3.3 Consensus size: 37
2033080 GTTTAGGTTT
*
2033090 TTAGCGGCGCTTTTTAAGAAACGCCGCTAATGCTCATTA
1 TTAGCGGCG-TTTTTAA-AAACGCCGCTAATGCTAATTA
* * * *
2033129 TTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA-TA
1 TTAGCGGCG-TTTT-TAAAAACGCCGCTAATGCTAATTA
** * *
2033167 TTTAGCGGCGTTTTTTTTAATCGCCGCTAATGCTTAATTT
1 -TTAGCGGCG-TTTTTAAAAACGCCGCTAATGC-TAATTA
2033207 TTAGCGGCGTTT
1 TTAGCGGCGTTT
2033219 GTTGTCCAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
38 18 0.24
39 52 0.70
40 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (37 bp):
TTAGCGGCGTTTTTAAAAACGCCGCTAATGCTAATTA
Found at i:2033814 original size:20 final size:20
Alignment explanation
Indices: 2033789--2033828 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2033779 AAATCTATAA
2033789 GATCTAAAAAATGAATCAAT
1 GATCTAAAAAATGAATCAAT
2033809 GATCTAAAAAATGAATCAAT
1 GATCTAAAAAATGAATCAAT
2033829 CCAAAATTAA
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:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
GATCTAAAAAATGAATCAAT
Found at i:2036671 original size:15 final size:15
Alignment explanation
Indices: 2036648--2036682 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2036638 AATTCTTGCA
2036648 TAAAATAAAATAAAT
1 TAAAATAAAATAAAT
* *
2036663 TAAATTAAATTAAAT
1 TAAAATAAAATAAAT
2036678 TAAAA
1 TAAAA
2036683 ATGAATTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATAAAATAAAT
Found at i:2054662 original size:62 final size:62
Alignment explanation
Indices: 2054562--2054689 Score: 177
Period size: 62 Copynumber: 2.1 Consensus size: 62
2054552 AAGTAGTAGG
* * * *
2054562 CTTTTATTTAAATAGTTTCCTTTGAATGGAGTGCGTACATTTATAGTATAGGTATGCCTCTA
1 CTTTTATTTAAATAATTTCCTTTGAATGGAGTCCGTACATATATAGTATAGGTATGCCCCTA
* * *
2054624 CTTTTATTTGAGTAATTTCCTTTGAATGTAG-CCTGTACATATATAGTATAGGTATGCCCCTA
1 CTTTTATTTAAATAATTTCCTTTGAATGGAGTCC-GTACATATATAGTATAGGTATGCCCCTA
2054686 CTTT
1 CTTT
2054690 ATGTGTGAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 1 0.02
62 57 0.98
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (62 bp):
CTTTTATTTAAATAATTTCCTTTGAATGGAGTCCGTACATATATAGTATAGGTATGCCCCTA
Found at i:2054924 original size:17 final size:18
Alignment explanation
Indices: 2054875--2054924 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
2054865 TGTTATTGTG
*
2054875 AAATTATATTAAAATTTAA
1 AAATTATATTTAAA-TTAA
*
2054894 AAATTA-AATT-AATT-A
1 AAATTATATTTAAATTAA
2054909 AAATTATATTTAAATT
1 AAATTATATTTAAATT
2054925 CATTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 6 0.23
18 2 0.08
19 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTATATTTAAATTAA
Found at i:2059933 original size:69 final size:70
Alignment explanation
Indices: 2059853--2059993 Score: 239
Period size: 69 Copynumber: 2.0 Consensus size: 70
2059843 AATTTTACCC
* *
2059853 AAGCCCGACCCGAATAAAAATATTAAAACCCAAAGTAGCAACATAATAGTAAAATAGTAGCAAAA
1 AAGCCCAACCCGAATAAAAATATTAAAACCCAAAGTAACAACATAATAGTAAAATAGTAGCAAAA
2059918 -AAAA
66 TAAAA
* *
2059922 AAGCCCAACCCGAATAAAAATGTTAAAACCCAAAGTAATAACATAATAGTAAAATAGTAGCAAAA
1 AAGCCCAACCCGAATAAAAATATTAAAACCCAAAGTAACAACATAATAGTAAAATAGTAGCAAAA
2059987 TAAAA
66 TAAAA
2059992 AA
1 AA
2059994 AACAATAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 61 0.91
70 6 0.09
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (70 bp):
AAGCCCAACCCGAATAAAAATATTAAAACCCAAAGTAACAACATAATAGTAAAATAGTAGCAAAA
TAAAA
Found at i:2073492 original size:21 final size:21
Alignment explanation
Indices: 2073468--2073531 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2073458 GTCTTCGTCA
2073468 TGTTCCAAGGATGCATAATAG
1 TGTTCCAAGGATGCATAATAG
* * *
2073489 TGTTGC-A-GAT-TAT-ATGG
1 TGTTCCAAGGATGCATAATAG
2073506 TTGTTCCAAGGATGCATAATAG
1 -TGTTCCAAGGATGCATAATAG
2073528 TGTT
1 TGTT
2073532 GCAGATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 3 0.09
18 7 0.22
19 4 0.12
20 4 0.12
21 11 0.34
22 3 0.09
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (21 bp):
TGTTCCAAGGATGCATAATAG
Found at i:2073522 original size:39 final size:39
Alignment explanation
Indices: 2073468--2073546 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
2073458 GTCTTCGTCA
2073468 TGTTCCAAGGATGCATAATAGTGTTGCAGATTATATGGT
1 TGTTCCAAGGATGCATAATAGTGTTGCAGATTATATGGT
2073507 TGTTCCAAGGATGCATAATAGTGTTGCAGATTATATGGT
1 TGTTCCAAGGATGCATAATAGTGTTGCAGATTATATGGT
2073546 T
1 T
2073547 AAGTATGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (39 bp):
TGTTCCAAGGATGCATAATAGTGTTGCAGATTATATGGT
Found at i:2074692 original size:10 final size:10
Alignment explanation
Indices: 2074679--2074762 Score: 70
Period size: 10 Copynumber: 8.6 Consensus size: 10
2074669 ATTGTTAAAA
2074679 ATAAAATATT
1 ATAAAATATT
2074689 ATAAAAT-TT
1 ATAAAATATT
*
2074698 ATACTAA-ATT
1 ATA-AAATATT
2074708 ATAAAA-ATTT
1 ATAAAATA-TT
*
2074718 ATAAAAT-TA
1 ATAAAATATT
2074727 ATAAAATATAT
1 ATAAAATAT-T
* *
2074738 TTAAAAAATT
1 ATAAAATATT
2074748 -TAAAATATT
1 ATAAAATATT
2074757 ATAAAA
1 ATAAAA
2074763 ACATATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
9 24 0.40
10 29 0.48
11 7 0.12
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAAAATATT
Found at i:2074710 original size:19 final size:17
Alignment explanation
Indices: 2074647--2074733 Score: 61
Period size: 20 Copynumber: 4.7 Consensus size: 17
2074637 TTAAAAAAAG
2074647 AAATTGATATAAATTTATGA
1 AAATT-ATA-AAATTTAT-A
* *
2074667 AAATTGTTAAAA-ATA-A
1 AAATT-ATAAAATTTATA
2074683 AATATTATAAAATTTATA
1 AA-ATTATAAAATTTATA
2074701 CTAAATTATAAAAATTTATA
1 --AAATTAT-AAAATTTATA
2074721 AAATTAATAAAAT
1 AAATT-ATAAAAT
2074734 ATATTTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
16 8 0.14
17 5 0.09
18 13 0.23
19 10 0.18
20 20 0.36
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTATAAAATTTATA
Found at i:2074715 original size:9 final size:9
Alignment explanation
Indices: 2074679--2074848 Score: 67
Period size: 9 Copynumber: 17.8 Consensus size: 9
2074669 ATTGTTAAAA
2074679 ATAAAATATT
1 ATAAAA-ATT
*
2074689 ATAAAATTT
1 ATAAAAATT
*
2074698 ATACTAAATT
1 ATA-AAAATT
2074708 ATAAAAATT
1 ATAAAAATT
2074717 -TATAAAATT
1 ATA-AAAATT
2074726 AATAAAATATAT
1 -ATAAAA-AT-T
*
2074738 TTAAAAAATT
1 AT-AAAAATT
2074748 -TAAAATATT
1 ATAAAA-ATT
*
2074757 ATAAAAACAT
1 ATAAAAA-TT
*
2074767 ATTAAAATTCT
1 A-TAAAAAT-T
*
2074778 ATAAAAATC
1 ATAAAAATT
*
2074787 ATAAAAAAT
1 ATAAAAATT
* *
2074796 GT-AAAACT
1 ATAAAAATT
* *
2074804 ATTAAAAGT
1 ATAAAAATT
* *
2074813 ATTAAAATCA
1 ATAAAAAT-T
* *
2074823 ATATAAACTA
1 ATA-AAAATT
2074833 ATAAAAATT
1 ATAAAAATT
2074842 ATAAAAA
1 ATAAAAA
2074849 AATCATAAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
8 12 0.10
9 52 0.42
10 36 0.29
11 18 0.15
12 5 0.04
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:2074743 original size:30 final size:29
Alignment explanation
Indices: 2074709--2074793 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 29
2074699 TACTAAATTA
*
2074709 TAAAAATTTATAAAATTA-ATAAAATATATT
1 TAAAAATTTATAAAATTATA-AAAACATA-T
2074739 TAAAAAATTTA-AAATATTATAAAAACATAT
1 T-AAAAATTTATAAA-ATTATAAAAACATAT
*
2074769 T-AAAATTCTATAAAAATCATAAAAA
1 TAAAAATT-TAT-AAAATTATAAAAA
2074794 ATGTAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
28 6 0.13
29 2 0.04
30 15 0.32
31 23 0.49
32 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAAAATTTATAAAATTATAAAAACATAT
Found at i:2074751 original size:20 final size:20
Alignment explanation
Indices: 2074714--2074774 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
2074704 AATTATAAAA
*
2074714 ATTTATAAAATTAATAAAATAT
1 ATTTAAAAAATT--TAAAATAT
2074736 ATTTAAAAAATTTAAAATAT
1 ATTTAAAAAATTTAAAATAT
*
2074756 -TATAAAAACATATTAAAAT
1 ATTTAAAAA-AT-TTAAAAT
2074775 TCTATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
21 7 0.20
22 11 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAAAATTTAAAATAT
Found at i:2074769 original size:31 final size:30
Alignment explanation
Indices: 2074705--2074773 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 30
2074695 TTTATACTAA
*
2074705 ATTATAAAAATTTATAAAATTAATAAAATAT
1 ATTA-AAAAATTTATAAAATTAATAAAACAT
2074736 ATTTAAAAAATTTA-AAATATT-ATAAAAACAT
1 A-TTAAAAAATTTATAAA-ATTAAT-AAAACAT
2074767 ATTAAAA
1 ATTAAAA
2074774 TTCTATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
30 11 0.32
31 20 0.59
32 3 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (30 bp):
ATTAAAAAATTTATAAAATTAATAAAACAT
Found at i:2074773 original size:21 final size:22
Alignment explanation
Indices: 2074728--2074789 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
2074718 ATAAAATTAA
*
2074728 TAAAATATATTTAAAAA-AT-T
1 TAAAATATATATAAAAACATAT
2074748 TAAAATAT-TATAAAAACATAT
1 TAAAATATATATAAAAACATAT
*
2074769 TAAAAT-TCTATAAAAATCATA
1 TAAAATATATATAAAAA-CATA
2074790 AAAAATGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.19
20 11 0.30
21 15 0.41
22 4 0.11
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATATATATAAAAACATAT
Found at i:2074794 original size:21 final size:21
Alignment explanation
Indices: 2074756--2074795 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2074746 TTTAAAATAT
*
2074756 TATAAAAACATATTAAAATTC
1 TATAAAAACATATAAAAATTC
2074777 TATAAAAATCATA-AAAAAT
1 TATAAAAA-CATATAAAAAT
2074796 GTAAAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
TATAAAAACATATAAAAATTC
Found at i:2075434 original size:27 final size:27
Alignment explanation
Indices: 2075387--2075451 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
2075377 TTAAATAAGC
2075387 TTTATTAATTTTTTACAA-TTTTTATAA
1 TTTATTAATTTTTTACAATTTTTTA-AA
**
2075414 TTTATTAGATTTTTT-TTATTTTTTAAA
1 TTTATTA-ATTTTTTACAATTTTTTAAA
2075441 TTTA-TAATTTT
1 TTTATTAATTTT
2075452 ATAGTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 14 0.41
28 13 0.38
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTATTAATTTTTTACAATTTTTTAAA
Found at i:2076323 original size:19 final size:20
Alignment explanation
Indices: 2076274--2076325 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
2076264 CAAGCAAGAT
*
2076274 TTTTTTTA-AATACAAATAA
1 TTTTTTTATAATTCAAATAA
*
2076293 TTTTTTAGATAATTC-AATAA
1 TTTTTT-TATAATTCAAATAA
2076313 TTTTTTTATAATT
1 TTTTTTTATAATT
2076326 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 12 0.43
21 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTTTATAATTCAAATAA
Found at i:2082785 original size:33 final size:33
Alignment explanation
Indices: 2082748--2082813 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2082738 TCCTACACGA
*
2082748 ATGGTGGATTAAAATGTCAAATTCTTCTATTTT
1 ATGGTGGATTAAAATGTCAAATTCTTCCATTTT
2082781 ATGGTGGATTAAAATGTCAAATTCTTCCATTTT
1 ATGGTGGATTAAAATGTCAAATTCTTCCATTTT
2082814 TTAAATTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (33 bp):
ATGGTGGATTAAAATGTCAAATTCTTCCATTTT
Found at i:2091364 original size:13 final size:13
Alignment explanation
Indices: 2091346--2091371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2091336 CGTAAAAGAA
2091346 AAAAAATTAAATT
1 AAAAAATTAAATT
2091359 AAAAAATTAAATT
1 AAAAAATTAAATT
2091372 GCTTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATTAAATT
Found at i:2097316 original size:18 final size:19
Alignment explanation
Indices: 2097293--2097332 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2097283 ATTATAAAGG
2097293 AAATTTAT-AAAATCATTA
1 AAATTTATAAAAATCATTA
*
2097311 AAATTTATAAAAATTATTA
1 AAATTTATAAAAATCATTA
2097330 AAA
1 AAA
2097333 ACATATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTATAAAAATCATTA
Found at i:2099641 original size:13 final size:13
Alignment explanation
Indices: 2099620--2099661 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
2099610 AATTTTAAAT
*
2099620 AAAATTTAAATAG
1 AAAAATTAAATAG
2099633 AAAAATT-AATAG
1 AAAAATTAAATAG
2099645 AAAAATATAAATA-
1 AAAAAT-TAAATAG
2099658 AAAA
1 AAAA
2099662 TTTGTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 11 0.42
13 11 0.42
14 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
AAAAATTAAATAG
Found at i:2100153 original size:52 final size:54
Alignment explanation
Indices: 2100062--2100184 Score: 205
Period size: 53 Copynumber: 2.3 Consensus size: 54
2100052 TTTTAATATT
* *
2100062 TTTTTTCAATTTGATACCTGAGTTAGACAATTAATG-TTTTTTTAGTATGTAAA
1 TTTTTTAAATTTTATACCTGAGTTAGACAATTAATGTTTTTTTTAGTATGTAAA
*
2100115 TTTTTTAAATTTTATACCTGAGTTAGAC-ATTAATGTTTTTTTTAGTATGTAAG
1 TTTTTTAAATTTTATACCTGAGTTAGACAATTAATGTTTTTTTTAGTATGTAAA
2100168 TTTTTTAAATTTTATAC
1 TTTTTTAAATTTTATAC
2100185 TTGAATTTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 7 0.11
53 59 0.89
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (54 bp):
TTTTTTAAATTTTATACCTGAGTTAGACAATTAATGTTTTTTTTAGTATGTAAA
Found at i:2101758 original size:19 final size:19
Alignment explanation
Indices: 2101709--2101746 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2101699 AAATATTCAC
2101709 ATGATTAAAAAAATTAAAG
1 ATGATTAAAAAAATTAAAG
*
2101728 ATGAATAGAAAAAATTAAA
1 ATGATTA-AAAAAATTAAA
2101747 TTGACTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
ATGATTAAAAAAATTAAAG
Found at i:2103250 original size:6 final size:6
Alignment explanation
Indices: 2103239--2103264 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2103229 TAAAGATTTC
2103239 GCCTTT GCCTTT GCCTTT GCCTTT GC
1 GCCTTT GCCTTT GCCTTT GCCTTT GC
2103265 TTGTTTGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.19, T:0.46
Consensus pattern (6 bp):
GCCTTT
Found at i:2105484 original size:27 final size:26
Alignment explanation
Indices: 2105438--2105489 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2105428 TTGTTAAAGG
* *
2105438 TGATTTTTTTAGTTTCTTTCTTTTTT
1 TGATTTTGTTAGTTTCTTTCATTTTT
*
2105464 TGATTTTGTTATTATTCTTTCATTTT
1 TGATTTTGTTAGT-TTCTTTCATTTT
2105490 CTTCTTGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (26 bp):
TGATTTTGTTAGTTTCTTTCATTTTT
Found at i:2106380 original size:25 final size:22
Alignment explanation
Indices: 2106326--2106380 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
2106316 TATTATTTTA
* *
2106326 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
2106348 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
2106372 TCGTATATA
1 T-GTATATA
2106381 GCTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:2108757 original size:266 final size:266
Alignment explanation
Indices: 2108283--2108814 Score: 1001
Period size: 266 Copynumber: 2.0 Consensus size: 266
2108273 CGTGATAAGA
*
2108283 GAAGGATGATAGTTTAATGGAGGACCACACAACTATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
* * *
2108348 AAGGATTATTTGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCACTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
*
2108413 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
131 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
*
2108478 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
2108543 CCGTAT
261 CCGTAT
2108549 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
2108614 AAGGATTATTCGAGAGCCACTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCACTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
*
2108679 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
2108744 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
2108809 CCGTAT
261 CCGTAT
2108815 ATGTATCCGC
Statistics
Matches: 259, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 259 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGGATTATTCGAGAGCCACTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
CCGTAT
Found at i:2113387 original size:104 final size:105
Alignment explanation
Indices: 2113223--2113414 Score: 278
Period size: 104 Copynumber: 1.8 Consensus size: 105
2113213 TTTGTATTCT
* *
2113223 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
*
2113288 ATCCGTTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
** * *
2113331 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
*
2113395 CATTTTGATAATCTTTTTCA
66 CATTGTGATAATCTTTTTCA
2113415 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
104 57 0.75
108 19 0.25
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.47
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
Found at i:2113933 original size:44 final size:45
Alignment explanation
Indices: 2113797--2114487 Score: 603
Period size: 44 Copynumber: 15.7 Consensus size: 45
2113787 ATAGGTCCTA
* * * *
2113797 TCTTCTTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
2113840 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
2113885 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
*
2113929 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
2113972 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAACAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
2114017 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
2114061 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
2114104 TCTTCCCATATTGGTGGCGAAGTAGATC-ATAGAAAGCATATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGA-AGATAGCAGATCTTG
* * * *
2114149 TCTTCATATATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
2114193 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
2114236 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
2114281 TCTTCATGTATTAG-CGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
2114325 TCTTCCTATATTGATAG-GAAGTGGATCCAAGATA-CAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
2114368 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
2114413 TC--CCTGTATTTGG-CAGTGGAA-TAGATTGAGGATTGCAGATCTTG
1 TCTTCCTATA-TTGGTC-GT-GAAGTAGATCGAAGATAGCAGATCTTG
* * *
2114457 CCTTCCTGTATTTGG-CAGTGAAGCAGATCGA
1 TCTTCCTATA-TTGGTC-GTGAAGTAGATCGA
2114488 CGATGGCGGA
Statistics
Matches: 516, Mismatches: 110, Indels: 41
0.77 0.16 0.06
Matches are distributed among these distances:
43 107 0.21
44 285 0.55
45 103 0.20
46 21 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:2114029 original size:132 final size:132
Alignment explanation
Indices: 2113792--2114414 Score: 1077
Period size: 132 Copynumber: 4.7 Consensus size: 132
2113782 CGTAAATAGG
* *
2113792 TCCTATCTTCTTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
2113857 CGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
2113922 GA
131 GA
*
2113924 TCCTATCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
2113989 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
2114054 GA
131 GA
2114056 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
2114121 CGAAGTAGATC-ATAGAAAGCATATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGGTAGC
66 CGAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGC
2114185 AGA
130 AGA
2114188 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
2114253 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
*
2114318 GG
131 GA
* * * *
2114320 TCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
2114385 TGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTC
2114415 CCTGTATTTG
Statistics
Matches: 466, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
132 466 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
GA
Found at i:2115407 original size:26 final size:25
Alignment explanation
Indices: 2115362--2115412 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2115352 TTGTTAAAGG
* *
2115362 TGATTTTTTTAGTTTCTTTCTTTTT
1 TGATTTTGTTAGTTTCTTTCATTTT
*
2115387 TGATTTTGTTATTATTCTTTCATTTT
1 TGATTTTGTTAGT-TTCTTTCATTTT
2115413 CTTCTTGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (25 bp):
TGATTTTGTTAGTTTCTTTCATTTT
Found at i:2116298 original size:25 final size:22
Alignment explanation
Indices: 2116244--2116298 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
2116234 TATTATTTTA
* *
2116244 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
2116266 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
2116290 TCGTATATA
1 T-GTATATA
2116299 GCTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:2118271 original size:24 final size:25
Alignment explanation
Indices: 2118236--2118282 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2118226 AAGTCAAATA
2118236 TAATCTTATAAGA-TATTATCCCCT
1 TAATCTTATAAGATTATTATCCCCT
* *
2118260 TAATCTTCTAAGATTATTTTCCC
1 TAATCTTATAAGATTATTATCCC
2118283 TATTTACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (25 bp):
TAATCTTATAAGATTATTATCCCCT
Found at i:2122802 original size:3 final size:3
Alignment explanation
Indices: 2122794--2122825 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2122784 ATGCAAATTC
2122794 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2122826 ATAAAGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2125618 original size:18 final size:18
Alignment explanation
Indices: 2125597--2125635 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2125587 TTTCTTCAAC
* *
2125597 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
2125615 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
2125633 TTC
1 TTC
2125636 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:2129663 original size:22 final size:19
Alignment explanation
Indices: 2129641--2129687 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2129631 TTAAAAATAT
2129641 TATTTTTATACTTTTTAATTA
1 TATTTTTATA--TTTTAATTA
*
2129662 T-TTTTTATATTTTATTTAA
1 TATTTTTATATTTTAATT-A
2129681 TATTTTT
1 TATTTTT
2129688 TTGAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 13 0.57
21 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTTTATATTTTAATTA
Found at i:2129688 original size:22 final size:20
Alignment explanation
Indices: 2129636--2129689 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
2129626 AAAACTTAAA
2129636 AATATTATTTTTATACTTTTT
1 AATATT-TTTTTATACTTTTT
*
2129657 AAT-TATTTTTTATATTTTATTT
1 AATAT-TTTTTTATA-CTT-TTT
2129679 AATATTTTTTT
1 AATATTTTTTT
2129690 GAAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 9 0.32
21 6 0.21
22 12 0.43
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
AATATTTTTTTATACTTTTT
Found at i:2130578 original size:10 final size:9
Alignment explanation
Indices: 2130557--2130616 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
2130547 AAACGATTAT
2130557 AAATA-AAA
1 AAATATAAA
2130565 AAATATAGAA
1 AAATATA-AA
2130575 AAATATATTAA
1 AAATATA--AA
2130586 AAATATAAAAAA
1 AAATAT---AAA
*
2130598 AAAGATAAA
1 AAATATAAA
2130607 AAATATAAA
1 AAATATAAA
2130616 A
1 A
2130617 TTACTAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
8 5 0.12
9 13 0.30
10 9 0.21
11 8 0.19
12 7 0.16
14 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAATATAAA
Found at i:2130588 original size:12 final size:11
Alignment explanation
Indices: 2130559--2130613 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
2130549 ACGATTATAA
2130559 ATAAAAAA-AT
1 ATAAAAAATAT
2130569 ATAGAAAAATAT
1 ATA-AAAAATAT
*
2130581 ATTAAAAATAT
1 ATAAAAAATAT
* *
2130592 A-AAAAAAAAG
1 ATAAAAAATAT
2130602 ATAAAAAATAT
1 ATAAAAAATAT
2130613 A
1 A
2130614 AAATTACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
10 10 0.28
11 22 0.61
12 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:2130588 original size:21 final size:21
Alignment explanation
Indices: 2130562--2130616 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2130552 ATTATAAATA
* * *
2130562 AAAAAATATAGAAAAATATAT
1 AAAAAATATAAAAAAAAAGAT
*
2130583 TAAAAATATAAAAAAAAAGAT
1 AAAAAATATAAAAAAAAAGAT
2130604 AAAAAATATAAAA
1 AAAAAATATAAAA
2130617 TTACTAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAAATATAAAAAAAAAGAT
Found at i:2130687 original size:11 final size:10
Alignment explanation
Indices: 2130662--2130707 Score: 60
Period size: 9 Copynumber: 4.7 Consensus size: 10
2130652 TAATATCAAC
2130662 TTATAAA-AA
1 TTATAAAGAA
2130671 TTATAAAGAA
1 TTATAAAGAA
2130681 TTTATAAAGAA
1 -TTATAAAGAA
*
2130692 TTATAAA-TA
1 TTATAAAGAA
2130701 TTATAAA
1 TTATAAA
2130708 ACATCTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
9 15 0.44
10 9 0.26
11 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (10 bp):
TTATAAAGAA
Found at i:2131260 original size:10 final size:10
Alignment explanation
Indices: 2131245--2131301 Score: 64
Period size: 10 Copynumber: 5.6 Consensus size: 10
2131235 TTTATATCAA
2131245 TTTTAATATT
1 TTTTAATATT
2131255 TTTTAATATT
1 TTTTAATATT
2131265 TTTT-ATAATT
1 TTTTAAT-ATT
2131275 TTTTACA-ATT
1 TTTTA-ATATT
*
2131285 CTTTTATTATT
1 -TTTTAATATT
2131296 TTTTAA
1 TTTTAA
2131302 AAATTCTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.05
10 29 0.73
11 8 0.20
12 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTAATATT
Found at i:2131275 original size:20 final size:20
Alignment explanation
Indices: 2131252--2131302 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
2131242 CAATTTTAAT
2131252 ATTTTTTAATATT-TTTTATA
1 ATTTTTTAA-ATTCTTTTATA
*
2131272 ATTTTTTACAATTCTTTTATT
1 ATTTTTTA-AATTCTTTTATA
2131293 ATTTTTTAAA
1 ATTTTTTAAA
2131303 AATTCTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTTAAATTCTTTTATA
Found at i:2131306 original size:22 final size:21
Alignment explanation
Indices: 2131245--2131308 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
2131235 TTTATATCAA
* *
2131245 TTTTAATATTTTTTAATATT-
1 TTTTATTATTTTTTAAAATTC
* *
2131265 TTTTATAATTTTTTACAATTC
1 TTTTATTATTTTTTAAAATTC
2131286 TTTTATTATTTTTTAAAAATTC
1 TTTTATTATTTTTT-AAAATTC
2131308 T
1 T
2131309 AATACGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 16 0.44
21 13 0.36
22 7 0.19
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTATTTTTTAAAATTC
Found at i:2131433 original size:19 final size:19
Alignment explanation
Indices: 2131409--2131451 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2131399 AATTTTAATA
2131409 TTTATAATATTTATAAATT
1 TTTATAATATTTATAAATT
* * *
2131428 TTTATAATTTTTATGATTT
1 TTTATAATATTTATAAATT
2131447 TTTAT
1 TTTAT
2131452 GGAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATAATATTTATAAATT
Found at i:2131446 original size:9 final size:9
Alignment explanation
Indices: 2131357--2131448 Score: 64
Period size: 9 Copynumber: 10.1 Consensus size: 9
2131347 TTATAAAAAA
2131357 TATAATTTAT
1 TATAATTT-T
*
2131367 TATAATTCT
1 TATAATTTT
*
2131376 TATCATTTT
1 TATAATTTT
* *
2131385 AATAAGTTTA
1 TATAA-TTTT
2131395 TATCAA--TT
1 TAT-AATTTT
*
2131403 T-TAATATT
1 TATAATTTT
*
2131411 TATAATATT
1 TATAATTTT
2131420 TATAAATTTT
1 TAT-AATTTT
2131430 TATAATTTT
1 TATAATTTT
*
2131439 TATGATTTT
1 TATAATTTT
2131448 T
1 T
2131449 TATGGAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.03
7 1 0.02
8 5 0.08
9 36 0.55
10 20 0.30
11 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:2132902 original size:31 final size:31
Alignment explanation
Indices: 2132835--2132927 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
2132825 GTTAGTCCTC
*
2132835 AAACTTGACAATTGTTCCCATATTAGAGCTT
1 AAACTTGACAATTATTCCCATATTAGAGCTT
* * *
2132866 GAACTTGATAATTATTCCCATATT-GGGACTT
1 AAACTTGACAATTATTCCCATATTAGAG-CTT
* * * * *
2132897 AAACTTGGCAATTGTTTCCACATTGGAGCTT
1 AAACTTGACAATTATTCCCATATTAGAGCTT
2132928 GAACATACTC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 2 0.04
31 45 0.92
32 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (31 bp):
AAACTTGACAATTATTCCCATATTAGAGCTT
Found at i:2133882 original size:3 final size:3
Alignment explanation
Indices: 2133874--2133898 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2133864 TCATACTATG
2133874 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
2133899 GATTCATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2136313 original size:9 final size:8
Alignment explanation
Indices: 2136288--2136312 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2136278 CCAGCTAGAA
2136288 TCTTTTTT
1 TCTTTTTT
2136296 TCTTTTTT
1 TCTTTTTT
2136304 TCTTTTTT
1 TCTTTTTT
2136312 T
1 T
2136313 TTTCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:2137778 original size:29 final size:29
Alignment explanation
Indices: 2137745--2137805 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
2137735 ACTAGAAAGC
2137745 TTCTCATAAAATCAGCTAGCTATAATTGT
1 TTCTCATAAAATCAGCTAGCTATAATTGT
2137774 TTCTCATAAAATCAGCTAGCTATAATTGT
1 TTCTCATAAAATCAGCTAGCTATAATTGT
2137803 TTC
1 TTC
2137806 AAAGCTACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (29 bp):
TTCTCATAAAATCAGCTAGCTATAATTGT
Found at i:2137923 original size:25 final size:25
Alignment explanation
Indices: 2137889--2137939 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2137879 ACCCTAAAGA
2137889 CCATGACTTTAGTTTATCTCTCTTT
1 CCATGACTTTAGTTTATCTCTCTTT
2137914 CCATGACTTTAGTTTATCTCTCTTT
1 CCATGACTTTAGTTTATCTCTCTTT
2137939 C
1 C
2137940 TCTCTCAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.08, T:0.51
Consensus pattern (25 bp):
CCATGACTTTAGTTTATCTCTCTTT
Found at i:2144293 original size:23 final size:24
Alignment explanation
Indices: 2144267--2144312 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2144257 ATACAAAAAG
*
2144267 TTTTCAAAAAATT-TAAAAAAATC
1 TTTTCAAAAAATTAGAAAAAAATC
*
2144290 TTTTTAAAAAATTAGAAAAAAAT
1 TTTTCAAAAAATTAGAAAAAAAT
2144313 ATATAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TTTTCAAAAAATTAGAAAAAAATC
Found at i:2151277 original size:21 final size:20
Alignment explanation
Indices: 2151240--2151278 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2151230 TTTAATGGTT
*
2151240 TCGAATTTGAATTAATAAAA
1 TCGAATTTGAATCAATAAAA
*
2151260 TCGAATTTTGAGTCAATAA
1 TCGAA-TTTGAATCAATAA
2151279 TAAATTGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
TCGAATTTGAATCAATAAAA
Found at i:2164180 original size:38 final size:38
Alignment explanation
Indices: 2164121--2164226 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
2164111 CATTTTTAAG
*
2164121 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
2164158 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
2164196 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
2164227 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:2164618 original size:19 final size:17
Alignment explanation
Indices: 2164594--2164642 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 17
2164584 TAATATTAGA
2164594 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
2164613 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
2164633 AAAATATATA
1 AAAATATATA
2164643 CAATGATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 8 0.30
20 9 0.33
21 2 0.07
22 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:2165073 original size:3 final size:3
Alignment explanation
Indices: 2165042--2165109 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
2165032 ATACACGTAC
* * * *
2165042 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
2165089 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
2165110 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2165517 original size:18 final size:18
Alignment explanation
Indices: 2165490--2165533 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2165480 AGAAAAAAAA
* *
2165490 AGAAGAGAGAGGGAAGAG
1 AGAAGGGAGAGAGAAGAG
*
2165508 AGAAGGGAGAGAGAAGGG
1 AGAAGGGAGAGAGAAGAG
*
2165526 AGAGGGGA
1 AGAAGGGA
2165534 AGGAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (18 bp):
AGAAGGGAGAGAGAAGAG
Found at i:2165527 original size:11 final size:11
Alignment explanation
Indices: 2165493--2165529 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2165483 AAAAAAAAGA
2165493 AGAGAG-AGGG
1 AGAGAGAAGGG
2165503 AAGAGAGAAGGG
1 -AGAGAGAAGGG
2165515 AGAGAGAAGGG
1 AGAGAGAAGGG
2165526 AGAG
1 AGAG
2165530 GGGAAGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:2165677 original size:27 final size:27
Alignment explanation
Indices: 2165627--2165678 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2165617 AATATTTTTT
* *
2165627 TTATTTTTTTATGTTTATATTATATTG
1 TTATTTTTATATGTTTATAGTATATTG
* *
2165654 TTATTTTTATATTTTTTTAGTATAT
1 TTATTTTTATATGTTTATAGTATAT
2165679 ATATATGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (27 bp):
TTATTTTTATATGTTTATAGTATATTG
Found at i:2166839 original size:46 final size:45
Alignment explanation
Indices: 2166678--2167610 Score: 356
Period size: 44 Copynumber: 20.6 Consensus size: 45
2166668 TTTTAATCCA
* * * *
2166678 CTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* *
2166722 CTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * **
2166766 CTCCATTGTAATCTCAGGGAGATAAGATCTGAA-ATTTTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
* * **
2166812 TTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATC-----TG
* * * *
2166861 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* * * * *
2166910 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATATCTTCAATCTG
* * * **
2166954 CTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* ** *
2166998 CTCCACTGTAACCTCAGGGAGATAAGATCTGAA-ATTCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
* * * * * * * *
2167044 CTCCCCTGTAACCTCAGGGTGATAAGACCT--GAT-GT-GATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
** * * * *
2167085 CTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* **
2167129 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTAT-TT-GGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT--AA-TATCTTCAATCTG
* * **
2167175 TTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATC-----TG
* * * *
2167224 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* * * * *
2167273 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATATCTTCAATCTG
* * * **
2167317 CTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * ** *
2167361 CTCCATTGTAACCTCAGGGAGATAAGATCTGAA-ATTCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
* * * * * * * *
2167407 CTCCCCTGTAACCTCAGGGTGATAAGACCT--GA--TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
** * * * *
2167448 CTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* ***
2167492 CTCCACTGTAATCTCAGGGAGATAGGATCTGAA-ATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
* * ***
2167538 TTCCACTGTAATCTCAGGGAGATAGGATCTGAA-ATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
*
2167584 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
2167611 CCTGTATAAT
Statistics
Matches: 697, Mismatches: 128, Indels: 126
0.73 0.13 0.13
Matches are distributed among these distances:
40 2 0.00
41 54 0.08
42 8 0.01
43 15 0.02
44 310 0.44
45 11 0.02
46 214 0.31
47 9 0.01
49 6 0.01
51 2 0.00
52 2 0.00
53 4 0.01
54 54 0.08
55 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
Found at i:2167041 original size:232 final size:217
Alignment explanation
Indices: 2166594--2167218 Score: 752
Period size: 232 Copynumber: 2.8 Consensus size: 217
2166584 TTCAGTCTGT
* * * *** * * *
2166594 TCCACTGCAACATCAGGGGGATAAGACCTGACACGATCTCCTCTACTGTAACTTCAAAAAGATAA
1 TCCACTGTAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAA
*
2166659 GATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACT
66 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG-AGATAGGATTACTA-CTTCAATCTACT
** * *
2166724 CCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTCAATCTGCTCCATTGTAATCTCAGGGAGA
129 CCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
* **
2166788 TAAGATCTGAAATTTTTCGGTCTGT
193 TAAGATCTGAAATTCTTCGGTCTAC
*
2166813 TCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAAC
1 TCCACTGTAACCTCAGGGAGATAAGA----------C---CTGATGTGATCTACTCTACTGTAAC
2166878 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAGAGATAGGATTACT
53 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-TCAG-GAGATAGGATTACT
*
2166942 AGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGT
116 A-CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGT
2167007 AACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
180 AACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
* * *
2167045 TCCCCTGTAACCTCAGGGTGATAAGACCTGATGTGATCTACTCTGCTGTAACTTCAGAGAGATAA
1 TCCACTGTAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAA
* ***
2167110 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTA-TTTGGTCT
66 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCA-GGAGATAGGAT-T---ACTACTTCAATCT
** *
2167174 GTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
126 ACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
2167219 ATGTGATCTA
Statistics
Matches: 352, Mismatches: 32, Indels: 42
0.83 0.08 0.10
Matches are distributed among these distances:
219 102 0.29
220 3 0.01
221 46 0.13
222 1 0.00
223 3 0.01
229 1 0.00
231 1 0.00
232 193 0.55
233 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (217 bp):
TCCACTGTAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGAGATAGGATTACTACTTCAATCTACTCC
GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
GATCTGAAATTCTTCGGTCTAC
Found at i:2167105 original size:131 final size:131
Alignment explanation
Indices: 2166949--2167201 Score: 339
Period size: 131 Copynumber: 1.9 Consensus size: 131
2166939 ACTAGCTTCA
* *
2166949 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCTC
* * *
2167013 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATG
65 AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
2167078 TG
130 TG
* * * * *
2167080 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTC
* * ** *
2167144 AGGGAGATAGGATCTGAAATTATTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
65 AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
2167202 TCTCTGGCTT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.01
131 102 0.97
132 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
G
Found at i:2167382 original size:363 final size:362
Alignment explanation
Indices: 2166717--2167567 Score: 1537
Period size: 363 Copynumber: 2.3 Consensus size: 362
2166707 ACTATCTTCA
* * * * * *
2166717 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT--TACTATCTTCAATCTGCTCCATTGTAATC
1 ATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTAATCCGCTCCACTGTAATC
*
2166779 TCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCT
63 TCAGGGAGATAGGATCTGAAATTTTT-GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCT
2166844 GGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
127 GGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
2166909 GCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGA
192 GCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGA
2166974 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
257 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
*
2167039 GTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGTG
322 GTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCG
2167080 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
2167145 GGGAGATAGGATCTGAAATTATTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
66 GGGAGATAGGATCTGAAATT-TTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
2167210 TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
130 TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
2167275 CCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGAT
195 CCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGAT
*
2167340 AAGATCTCTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTC
260 AAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTC
2167405 TACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCG
325 TACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCG
2167443 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
*
2167508 GGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAGGATCT
66 GGGAGATAGGATCTGAAATT-TTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT
2167568 GAAATTCTTT
Statistics
Matches: 473, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
363 465 0.98
364 7 0.01
365 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (362 bp):
ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
GGGAGATAGGATCTGAAATTTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCT
TCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
CACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATA
AGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
ACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCG
Found at i:2167470 original size:131 final size:131
Alignment explanation
Indices: 2167312--2167561 Score: 333
Period size: 131 Copynumber: 1.9 Consensus size: 131
2167302 ACTAGCTTCA
* * *
2167312 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCATTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCTC
* *
2167376 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATG
65 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
2167441 CG
130 CG
* * * * *
2167443 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTC
* * ** *
2167507 AGGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATA
65 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
2167562 GGATCTGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
130 1 0.01
131 99 0.97
132 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
G
Found at i:2178756 original size:38 final size:38
Alignment explanation
Indices: 2178697--2178802 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
2178687 CATTTTTAAG
*
2178697 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
2178734 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
2178772 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
2178803 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:2179192 original size:19 final size:17
Alignment explanation
Indices: 2179168--2179216 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 17
2179158 TAATATTAGA
2179168 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
2179187 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
2179207 AAAATATATA
1 AAAATATATA
2179217 CAATGATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 8 0.30
20 9 0.33
21 2 0.07
22 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:2179241 original size:15 final size:16
Alignment explanation
Indices: 2179210--2179247 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2179200 TAATATTAAA
*
2179210 ATATATACAATGATAT
1 ATATATACAAAGATAT
2179226 ATATATA-AAAGATAT
1 ATATATACAAAGATAT
*
2179241 ATGTATA
1 ATATATA
2179248 TATAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (16 bp):
ATATATACAAAGATAT
Found at i:2179643 original size:3 final size:3
Alignment explanation
Indices: 2179612--2179679 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
2179602 ATACACGTAC
* * * *
2179612 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
2179659 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
2179680 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2180161 original size:11 final size:12
Alignment explanation
Indices: 2180145--2180180 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
2180135 GAAAAAAAAA
2180145 GAAGAGAG-AGG
1 GAAGAGAGAAGG
2180156 GAAGAGAGAAGG
1 GAAGAGAGAAGG
2180168 G-AGAGAGAAGG
1 GAAGAGAGAAGG
2180179 GA
1 GA
2180181 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:2180336 original size:35 final size:32
Alignment explanation
Indices: 2180271--2180338 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2180261 TGTAAAAAAA
*
2180271 ATATTTTTTTTTTATTTTTTTATGTTTATATT
1 ATATTTTATTTTTATTTTTTTATGTTTATATT
*
2180303 ATATTGTTATTTTTATATTTTTTA-GTATATA-T
1 ATATT-TTATTTTTAT-TTTTTTATGTTTATATT
2180335 ATAT
1 ATAT
2180339 GGGAAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.31
33 15 0.47
34 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (32 bp):
ATATTTTATTTTTATTTTTTTATGTTTATATT
Found at i:2183162 original size:133 final size:133
Alignment explanation
Indices: 2182919--2183250 Score: 408
Period size: 133 Copynumber: 2.5 Consensus size: 133
2182909 ATAATTATTC
*
2182919 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGACAATTCGAGGAATCGTGCCCTACCGTG
1 AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGACAATTCGAGGAATCGTGCCCTACCGTG
* * *
2182984 CTGGGTTGCAATTTCTCATTCGTTCAAAATAATCGAATATTCCTTTGGAATTTCAGTCATGTCTT
66 CTGGGTTGCAATTTCCCATTCGTTCAAAATAATCGAATATCCCTTTAGAATTTCAGTCATGTCTT
2183049 TAA
131 TAA
* * * * *
2183052 AAAAATTCTTTAAAACGATGGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGACAATTCGAGGAATCGTGCCCTACCGTG
* * * * *
2183117 CTGGGTTGCAATTTCCCGTTTGTTCAAGATAATCGAATATCCCTTTAGAATTTCACTAATGT-TT
66 CTGGGTTGCAATTTCCCATTCGTTCAAAATAATCGAATATCCCTTTAGAATTTCAGTCATGTCTT
2183181 T--
131 TAA
* * * * * * * *
2183182 CAAAATTC--TAAAAC-AAAGCAATGCTCAATGCCTAGA-AATTCGAGGAATCGTGCCCTACTGT
1 AAAAATTCTTTAAAACGAAGGAAATGTTCGATG-TTTGACAATTCGAGGAATCGTGCCCTACCGT
2183243 GCTGGGTT
65 GCTGGGTT
2183251 TATATTTTTT
Statistics
Matches: 171, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
127 40 0.23
128 8 0.05
130 7 0.04
132 3 0.02
133 113 0.66
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGACAATTCGAGGAATCGTGCCCTACCGTG
CTGGGTTGCAATTTCCCATTCGTTCAAAATAATCGAATATCCCTTTAGAATTTCAGTCATGTCTT
TAA
Found at i:2184029 original size:16 final size:16
Alignment explanation
Indices: 2184008--2184041 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2183998 TTATTACCAC
*
2184008 ATAGAACATCACATCA
1 ATAGAAAATCACATCA
*
2184024 ATAGAAAATGACATCA
1 ATAGAAAATCACATCA
2184040 AT
1 AT
2184042 TATAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.18, G:0.09, T:0.21
Consensus pattern (16 bp):
ATAGAAAATCACATCA
Found at i:2184579 original size:22 final size:23
Alignment explanation
Indices: 2184532--2184585 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
2184522 AATTTATGAA
2184532 TTTAATTATTTAATGTATATTCAC
1 TTTAATTATTT-ATGTATATTCAC
*
2184556 TTTTAATTATTT-T-TATATTTAC
1 -TTTAATTATTTATGTATATTCAC
2184578 TTTAATTA
1 TTTAATTA
2184586 AATTAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 8 0.29
22 8 0.29
23 1 0.04
25 11 0.39
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTAATTATTTATGTATATTCAC
Found at i:2192449 original size:19 final size:19
Alignment explanation
Indices: 2192425--2192461 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2192415 CCATATTTTT
2192425 TTATTAGTAAATTTATTAA
1 TTATTAGTAAATTTATTAA
*
2192444 TTATTAGTAATTTTATTA
1 TTATTAGTAAATTTATTA
2192462 GAAAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTATTAGTAAATTTATTAA
Found at i:2193036 original size:21 final size:22
Alignment explanation
Indices: 2193010--2193052 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2193000 ATAATTGTAA
*
2193010 TTTTATTT-ATTAAATATTATT
1 TTTTATTTAATAAAATATTATT
2193031 TTTTATTTAATAAAATATTATT
1 TTTTATTTAATAAAATATTATT
2193053 AATGTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATTTAATAAAATATTATT
Found at i:2197078 original size:28 final size:28
Alignment explanation
Indices: 2197058--2197126 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
2197048 AAATATATTT
2197058 AAAATTGA-AAATTTTATAAAAATAGTAA
1 AAAATT-ATAAATTTTATAAAAATAGTAA
* *
2197086 AAAATTATAAATTTTATAGAATTA-TAA
1 AAAATTATAAATTTTATAAAAATAGTAA
*
2197113 AAAAATATAAATTT
1 AAAATTATAAATTT
2197127 GTAAGAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTATAAATTTTATAAAAATAGTAA
Found at i:2197113 original size:27 final size:27
Alignment explanation
Indices: 2197058--2197151 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 27
2197048 AAATATATTT
* *
2197058 AAAATTGA-AAATTTTATAAAAATAGTAA
1 AAAATT-ATAAATTTTATAGAATTA-TAA
2197086 AAAATTATAAATTTTATAGAATTATAA
1 AAAATTATAAATTTTATAGAATTATAA
* *
2197113 AAAAATATAAATTTGTA-AGAAAATTATAC
1 AAAATTATAAATTT-TATAG--AATTATAA
2197142 AAAATT-TAAA
1 AAAATTATAAA
2197152 GAAATATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
27 19 0.33
28 26 0.46
29 12 0.21
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (27 bp):
AAAATTATAAATTTTATAGAATTATAA
Found at i:2197140 original size:29 final size:27
Alignment explanation
Indices: 2197066--2197126 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
2197056 TTAAAATTGA
* * *
2197066 AAATTTTATAAAAATAGTAAAAAATTAT
1 AAATTTTATAGAATTA-TAAAAAAATAT
2197094 AAATTTTATAGAATTATAAAAAAATAT
1 AAATTTTATAGAATTATAAAAAAATAT
2197121 AAATTT
1 AAATTT
2197127 GTAAGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
AAATTTTATAGAATTATAAAAAAATAT
Found at i:2197184 original size:38 final size:39
Alignment explanation
Indices: 2197105--2197187 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 39
2197095 AATTTTATAG
* *
2197105 AATTATAAAAAAATATAAATTTGTAAGAAAATTATACAA
1 AATTATAAAAAAATATAAATTTATAAGAAAATTACACAA
*
2197144 AATT-TAAAGAAATATAAATTTCATAA-AGAAATTACA-AA
1 AATTATAAAAAAATATAAATTT-ATAAGA-AAATTACACAA
2197182 AATTAT
1 AATTAT
2197188 CATACTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (39 bp):
AATTATAAAAAAATATAAATTTATAAGAAAATTACACAA
Found at i:2214204 original size:51 final size:51
Alignment explanation
Indices: 2214128--2214232 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
2214118 CGAATTATGT
2214128 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
1 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
2214179 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
1 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
2214230 TAA
1 TAA
2214233 TTCTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.47
Consensus pattern (51 bp):
TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
Found at i:2220336 original size:30 final size:30
Alignment explanation
Indices: 2220300--2220359 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2220290 CAGAACTAGA
2220300 ACAATTCTCTGTTGGTGTACTCGAATTATC
1 ACAATTCTCTGTTGGTGTACTCGAATTATC
2220330 ACAATTCTCTGTTGGTGTACTCGAATTATC
1 ACAATTCTCTGTTGGTGTACTCGAATTATC
2220360 CTCTAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (30 bp):
ACAATTCTCTGTTGGTGTACTCGAATTATC
Found at i:2226490 original size:30 final size:30
Alignment explanation
Indices: 2226393--2226492 Score: 75
Period size: 30 Copynumber: 3.3 Consensus size: 30
2226383 CATCAATAAT
2226393 ATATTAAA-TATTTTTAAATTAAA-AATTA
1 ATATTAAATTATTTTTAAATTAAATAATTA
* * * *
2226421 GTTTTTAGAAAATATTTTTAAAATTACTATACA--A
1 -ATATT--AAATTATTTTT-AAATTA-AATA-ATTA
2226455 A-ATTAAATTATTTTTAAATTAAATAATTA
1 ATATTAAATTATTTTTAAATTAAATAATTA
2226484 ATATTAAAT
1 ATATTAAAT
2226493 ACAATTAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
27 1 0.02
28 3 0.06
29 11 0.20
30 17 0.31
31 3 0.06
32 9 0.17
33 6 0.11
34 2 0.04
35 1 0.02
36 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (30 bp):
ATATTAAATTATTTTTAAATTAAATAATTA
Found at i:2232061 original size:25 final size:25
Alignment explanation
Indices: 2232033--2232080 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2232023 AAAACAAGGG
*
2232033 AAAATGAAAAGAAAAAAACAAAATC
1 AAAATCAAAAGAAAAAAACAAAATC
* *
2232058 AAAATCAAAATAAAAAAATAAAA
1 AAAATCAAAAGAAAAAAACAAAA
2232081 AGAAAAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (25 bp):
AAAATCAAAAGAAAAAAACAAAATC
Found at i:2232086 original size:25 final size:25
Alignment explanation
Indices: 2232032--2232086 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2232022 AAAAACAAGG
* *
2232032 GAAAATGAAAAGAAAAAAACAAAAT
1 GAAAATCAAAAGAAAAAAACAAAAA
* * *
2232057 CAAAATCAAAATAAAAAAATAAAAA
1 GAAAATCAAAAGAAAAAAACAAAAA
2232082 GAAAA
1 GAAAA
2232087 AGAGAAATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.09
Consensus pattern (25 bp):
GAAAATCAAAAGAAAAAAACAAAAA
Found at i:2234002 original size:86 final size:87
Alignment explanation
Indices: 2233806--2234063 Score: 324
Period size: 86 Copynumber: 3.0 Consensus size: 87
2233796 CAATGAAGTT
* * **
2233806 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCATCGG
* * *
2233870 TTG-TGATAGAGCTGGTTGAAGACA
64 TTGCAG-TGGAGCTGGTTAAAGACA
* * * *
2233894 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCGTCCATCGATT
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
*
2233959 GCAGTGGAGCTAGTTAAAGA-A
66 GCAGTGGAGCTGGTTAAAGACA
* * *
2233980 GCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTT
1 ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
*
2234045 GCATTGGAGCTGGTTAAAG
66 GCAGTGGAGCTGGTTAAAG
2234064 GTTACAGATT
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
86 81 0.55
87 28 0.19
88 38 0.26
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (87 bp):
ACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
GCAGTGGAGCTGGTTAAAGACA
Found at i:2234296 original size:44 final size:42
Alignment explanation
Indices: 2234243--2234566 Score: 252
Period size: 44 Copynumber: 7.7 Consensus size: 42
2234233 AAAGCCAGAG
*
2234243 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGT
* * * * *
2234286 AATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG--G-
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT
* * * * **
2234326 ATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACATCAG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAAGT
* * * *
2234367 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA-GT
*
2234410 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT
1 ---ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGT
* * * * *
2234456 AATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG--G-
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT
* * *
2234496 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGT
*
2234539 ATCCTATCTCCCTGA-AGTTACAGTGGAG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAG
2234567 TGGATTAAAA
Statistics
Matches: 217, Mismatches: 48, Indels: 31
0.73 0.16 0.10
Matches are distributed among these distances:
38 1 0.00
39 57 0.26
41 32 0.15
42 2 0.01
43 24 0.11
44 64 0.29
46 36 0.17
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT
Found at i:2234435 original size:46 final size:46
Alignment explanation
Indices: 2234363--2234451 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
2234353 GAAGATCACA
* *
2234363 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATT
* *
2234409 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGA
2234452 TAGTAATCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATT
Found at i:2234512 original size:83 final size:82
Alignment explanation
Indices: 2234242--2234575 Score: 354
Period size: 83 Copynumber: 4.0 Consensus size: 82
2234232 TAAAGCCAGA
*
2234242 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-ATCCTATCTCCCTGAGATTA
2234307 CAATGGAGCGGATTAAAG
65 CAATGGAGCGGATTAAAG
* ** * * * *
2234325 GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG-GTCTTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCAAAGAT-AGTATCCTATCTCCCTGAGATT
* * * **
2234386 ACAGTGGAACAGACCAAAG
64 ACAATGGAGCGGATTAAAG
*
2234405 AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTT
1 -------GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-ATCCTATCTCCCT
2234470 GAGATTACAATGGAGCGGATTAAAG
58 GAGATTACAATGGAGCGGATTAAAG
* * *
2234495 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA-AGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTATCCTATCTCCCTGAGA-TTA
* *
2234559 CAGTGGAGTGGATTAAA
65 CAATGGAGCGGATTAAA
2234576 ATAAAGGATC
Statistics
Matches: 204, Mismatches: 32, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
80 30 0.15
81 4 0.02
82 35 0.17
83 70 0.34
87 29 0.14
88 3 0.01
89 3 0.01
90 30 0.15
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (82 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTATCCTATCTCCCTGAGATTAC
AATGGAGCGGATTAAAG
Found at i:2234606 original size:170 final size:170
Alignment explanation
Indices: 2234241--2234565 Score: 494
Period size: 170 Copynumber: 1.9 Consensus size: 170
2234231 CTAAAGCCAG
2234241 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
* * * * *
2234306 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGAAGATCACAACAGATCC
**
2234371 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTAA
2234411 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
* * *
2234476 ACAATGGAGCGGATTAAAGGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGA-AGACACT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCCCTGAAG-TTACAGCAGAGAAGATC-ACA-ACA-G
2234539 ATCCTATCTCCCTGA-AGTTACAGTGGA
127 ATCCTATCTCCCTGAGA-TTACAGTGGA
2234566 GTGGATTAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
169 2 0.01
170 113 0.80
171 4 0.03
172 23 0.16
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGAAGATCACAACAGATCC
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTAA
Found at i:2237709 original size:3 final size:3
Alignment explanation
Indices: 2237696--2237888 Score: 86
Period size: 3 Copynumber: 63.3 Consensus size: 3
2237686 TGGTGTCAAC
* * * **
2237696 ATT ACT ATT ATT ATT TTT CATGT ATAT ATT AGT ATT -TAT ATT ATT GCT
1 ATT ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT AT-T ATT ATT ATT
* * * * * * * *
2237744 ATT ATT ACT ATT GTT AAT ATT CTT ATT ATT ACT ATC ATT TTT ATT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
2237792 TTT ATT ATTT ATT ATT ATC AAT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
2237837 ATT GTT GTT GTT GA-T GTT GTT GTT GTT GTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2237882 ATT ATT A
1 ATT ATT A
2237889 ACATTTTTAA
Statistics
Matches: 147, Mismatches: 35, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
2 3 0.02
3 133 0.90
4 10 0.07
5 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (3 bp):
ATT
Done.