Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 135 of 161
Found at i:42041338 original size:40 final size:38
Alignment explanation
Indices: 42041290--42041370 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
42041280 AAATTGTTTG
*
42041290 ATATATATATGTATGCATTCGGCATATGTGAATT-ATAAGT
1 ATATATATATG--TGCATTCGGCACATGTG-ATTGATAAGT
*
42041330 ATATATATATGTGCATTCGGCACATGTGGTTGATAAGT
1 ATATATATATGTGCATTCGGCACATGTGATTGATAAGT
42041368 ATA
1 ATA
42041371 ATTATTTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 2 0.05
38 25 0.66
40 11 0.29
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (38 bp):
ATATATATATGTGCATTCGGCACATGTGATTGATAAGT
Found at i:42042526 original size:13 final size:13
Alignment explanation
Indices: 42042486--42042541 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
42042476 TTGGGTTGAG
42042486 AAATTAATTAGA--
1 AAATTAATTA-ATT
*
42042498 AAATTAATTTAGTT
1 AAATTAA-TTAATT
42042512 AAATTAATTAATT
1 AAATTAATTAATT
*
42042525 AAATTAATTGATT
1 AAATTAATTAATT
42042538 AAAT
1 AAAT
42042542 AAATAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 7 0.18
13 24 0.63
14 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:42042539 original size:26 final size:26
Alignment explanation
Indices: 42042486--42042541 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
42042476 TTGGGTTGAG
*
42042486 AAATTAATTAGAAAATTAATTTAGTT
1 AAATTAATTAGAAAATTAATTGAGTT
42042512 AAATTAATTA-ATTAAATTAATTGA-TT
1 AAATTAATTAGA--AAATTAATTGAGTT
42042538 AAAT
1 AAAT
42042542 AAATAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 1 0.04
26 16 0.59
27 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (26 bp):
AAATTAATTAGAAAATTAATTGAGTT
Found at i:42045192 original size:7 final size:7
Alignment explanation
Indices: 42045180--42045210 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
42045170 AGGACTCAGA
42045180 ATTATAG
1 ATTATAG
42045187 ATTATAG
1 ATTATAG
42045194 ATTATAG
1 ATTATAG
42045201 ATTATAG
1 ATTATAG
42045208 ATT
1 ATT
42045211 TATTGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (7 bp):
ATTATAG
Found at i:42048356 original size:12 final size:11
Alignment explanation
Indices: 42048323--42048358 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
42048313 TTGCTTAGCT
42048323 AGAAAAG-AAA
1 AGAAAAGAAAA
42048333 AGAAAAGAAAA
1 AGAAAAGAAAA
42048344 AGAAAATGAAAA
1 AGAAAA-GAAAA
42048356 AGA
1 AGA
42048359 TGATTAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.29
11 9 0.38
12 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:42048441 original size:6 final size:6
Alignment explanation
Indices: 42048424--42048463 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
42048414 GTGGGGGGCA
* * *
42048424 AAGTGC ATGTGC AAGTGC AAGTGC ATGTGC AAGTTC AAGT
1 AAGTGC AAGTGC AAGTGC AAGTGC AAGTGC AAGTGC AAGT
42048464 TCAATGCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (6 bp):
AAGTGC
Found at i:42048447 original size:18 final size:18
Alignment explanation
Indices: 42048424--42048463 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
42048414 GTGGGGGGCA
42048424 AAGTGCATGTGCAAGTGC
1 AAGTGCATGTGCAAGTGC
*
42048442 AAGTGCATGTGCAAGTTC
1 AAGTGCATGTGCAAGTGC
42048460 AAGT
1 AAGT
42048464 TCAATGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (18 bp):
AAGTGCATGTGCAAGTGC
Found at i:42060795 original size:16 final size:16
Alignment explanation
Indices: 42060774--42060804 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42060764 TGTAACACCC
42060774 CCTAACCCCAAACCGG
1 CCTAACCCCAAACCGG
42060790 CCTAACCCCAAACCG
1 CCTAACCCCAAACCG
42060805 TGGCCGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.52, G:0.10, T:0.06
Consensus pattern (16 bp):
CCTAACCCCAAACCGG
Found at i:42062396 original size:13 final size:13
Alignment explanation
Indices: 42062375--42062406 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42062365 GCTTGGATCA
*
42062375 TCATCAAATAAAT
1 TCATAAAATAAAT
42062388 TCATAAAATAAAT
1 TCATAAAATAAAT
42062401 TCATAA
1 TCATAA
42062407 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:42062653 original size:30 final size:30
Alignment explanation
Indices: 42062618--42062675 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42062608 CCTCGACTCT
*
42062618 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
42062648 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
42062676 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:42069709 original size:50 final size:50
Alignment explanation
Indices: 42069594--42069884 Score: 456
Period size: 50 Copynumber: 5.8 Consensus size: 50
42069584 GATAATAACA
* ** *
42069594 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
42069645 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
42069695 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
42069745 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
42069795 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
42069845 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
42069885 TTTTACCCAA
Statistics
Matches: 220, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
50 187 0.85
51 33 0.15
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:42070246 original size:29 final size:29
Alignment explanation
Indices: 42070212--42070267 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
42070202 CCTCGACTCT
*
42070212 AACTTTT-CAAAATTATGATTTTGCCCCTA
1 AACTTTTGCAAAATTACG-TTTTGCCCCTA
*
42070241 AACTTTTGCATAATTACGTTTTGCCCC
1 AACTTTTGCAAAATTACGTTTTGCCCC
42070268 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (29 bp):
AACTTTTGCAAAATTACGTTTTGCCCCTA
Found at i:42078532 original size:50 final size:50
Alignment explanation
Indices: 42078478--42078638 Score: 169
Period size: 50 Copynumber: 3.2 Consensus size: 50
42078468 ATTTGCTGTC
* **
42078478 GTAGCTTTAATCTGTTTCATTGCACTGCAAAAGAAGTAAGATTCGCCGTT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
* * * * ** * *
42078528 GTAGCTTTAGTCTTTTTAACTGCAATGCTGGGGAAGCAAGATTCACCGTT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
* * * * **
42078578 GTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTCGCTATT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
42078628 GTAGCTTTAAT
1 GTAGCTTTAAT
42078639 GTCGGGGAAG
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
Found at i:42078700 original size:85 final size:85
Alignment explanation
Indices: 42078557--42078723 Score: 289
Period size: 85 Copynumber: 2.0 Consensus size: 85
42078547 CTGCAATGCT
*
42078557 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTC
1 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
42078622 GCTATTGTAGCTTTAATGTC
66 GCTATTGTAGCTTTAATGTC
* **
42078642 GGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAAATAAGATTC
1 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
*
42078707 GCTGTTGTAGCTTTAAT
66 GCTATTGTAGCTTTAAT
42078724 CTTTTTTAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (85 bp):
GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
GCTATTGTAGCTTTAATGTC
Found at i:42079047 original size:45 final size:45
Alignment explanation
Indices: 42078967--42079067 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
42078957 TTACAACTTC
* * *
42078967 AGGGAGATAGGATTATCTTGTTCAATCTGCTCCACTGCAACCT-T
1 AGGGAGATAAGATTATCTTGTTCAATCTGCCCCACTGCAACCTCA
* *
42079011 AGGGAGATAAGATTTATCATT-TTCGATCTGCCCCACTTCAACCTCA
1 AGGGAGATAAGA-TTATC-TTGTTCAATCTGCCCCACTGCAACCTCA
42079057 AGGG-GATAAGA
1 AGGGAGATAAGA
42079068 CCTGCTTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 11 0.22
45 32 0.65
46 6 0.12
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATTATCTTGTTCAATCTGCCCCACTGCAACCTCA
Found at i:42079565 original size:44 final size:44
Alignment explanation
Indices: 42079517--42080029 Score: 701
Period size: 44 Copynumber: 11.7 Consensus size: 44
42079507 TTCAACCTGC
* * * *
42079517 TCCACTGTTGCTCAAGGAGCTAGGACTTACAATCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* *
42079561 TCCACTGCTGTTCAGGGAGCTAGGACTTACAACCTTCCACTTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
42079605 TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* *
42079649 TCCACTGCTGTTCAGGGAGCTAGGACTTACAGTCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
42079693 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCT-AGGACTTACAATCTTCCACCTAT
* *
42079737 TCCACTGCTGTTCAGGGAGCTAGGACTTACAGTCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
42079781 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCT-AGGACTTACAATCTTCCACCTAT
* *
42079825 TCCACTGCTGTTCAGGGAGCTAGGACTTACAGTCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
42079869 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCT-AGGACTTACAATCTTCCACCTAT
* *
42079913 TCCACTGCTGTTCAGGGAGCTAGGACTTACAGTCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
42079957 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCT-AGGACTTACAATCTTCCACCTAT
42080001 TCCACTGCTGTTCAGGGAGCTAGGACTTA
1 TCCACTGCTGTTCAGGGAGCTAGGACTTA
42080030 TAGTTTCACT
Statistics
Matches: 408, Mismatches: 53, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
43 4 0.01
44 400 0.98
45 4 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
Found at i:42079666 original size:88 final size:88
Alignment explanation
Indices: 42079517--42080029 Score: 904
Period size: 88 Copynumber: 5.8 Consensus size: 88
42079507 TTCAACCTGC
* * * * **
42079517 TCCACTGTTGCTCAAGGAGCT-AGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGC
1 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGC
** * *
42079581 TAGGACTTACAACCTTCCACTTAT
65 TAGGACTTACAGTCTTCTACCTAT
42079605 TCCACTGCTGGTCAGGGAGCT-AGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGC
1 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGC
42079669 TAGGACTTACAGTCTTCTACCTAT
65 TAGGACTTACAGTCTTCTACCTAT
42079693 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
42079758 AGGACTTACAGTCTTCTACCTAT
66 AGGACTTACAGTCTTCTACCTAT
42079781 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
42079846 AGGACTTACAGTCTTCTACCTAT
66 AGGACTTACAGTCTTCTACCTAT
42079869 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
42079934 AGGACTTACAGTCTTCTACCTAT
66 AGGACTTACAGTCTTCTACCTAT
42079957 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
42080022 AGGACTTA
66 AGGACTTA
42080030 TAGTTTCACT
Statistics
Matches: 414, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
88 413 1.00
89 1 0.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (88 bp):
TCCACTGCTGGTCAGGGAGCTCAGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
AGGACTTACAGTCTTCTACCTAT
Found at i:42087747 original size:9 final size:9
Alignment explanation
Indices: 42087733--42087757 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42087723 GAAGCAATGA
42087733 AAAAAAAAG
1 AAAAAAAAG
42087742 AAAAAAAAG
1 AAAAAAAAG
42087751 AAAAAAA
1 AAAAAAA
42087758 TTAAAGCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:42088055 original size:21 final size:22
Alignment explanation
Indices: 42088016--42088057 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
42088006 GTAGGTGTGG
42088016 CGTACGGATGGTGGACGTGGCA
1 CGTACGGATGGTGGACGTGGCA
42088038 CGTACGGA-GGTGCG-CGTGGC
1 CGTACGGATGGTG-GACGTGGC
42088058 TGGGGAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (22 bp):
CGTACGGATGGTGGACGTGGCA
Found at i:42094251 original size:27 final size:27
Alignment explanation
Indices: 42094221--42094295 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
42094211 AGAAGGCTTG
*
42094221 GCGAGCTAGTATATGCCAGCAGGTCTA
1 GCGAGCTAGTATATGCCAGCAGGTCCA
* * * *
42094248 GCGAGATGGTATACGCTAGCAGGTCCA
1 GCGAGCTAGTATATGCCAGCAGGTCCA
* *
42094275 ACGAGACGA-TATATGCCAGCA
1 GCGAG-CTAGTATATGCCAGCA
42094296 AGCTTGGCAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (27 bp):
GCGAGCTAGTATATGCCAGCAGGTCCA
Found at i:42094843 original size:27 final size:27
Alignment explanation
Indices: 42094807--42094886 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
42094797 AGCAATAAAA
* *
42094807 ATTCTTACAGAGTACGCCACAAAGGTT
1 ATTCATACAGAGTACGCCACAAAGGTG
*
42094834 ATAT-ATACAGAGTATGCCACAAAGGTG
1 AT-TCATACAGAGTACGCCACAAAGGTG
*
42094861 ATTCATATAGAGTACGCCACAAAGGT
1 ATTCATACAGAGTACGCCACAAAGGT
42094887 AGACAAGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
ATTCATACAGAGTACGCCACAAAGGTG
Found at i:42095828 original size:17 final size:17
Alignment explanation
Indices: 42095773--42095829 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
42095763 ATAAATATTA
42095773 ATAAATGTCTTGCAATC
1 ATAAATGTCTTGCAATC
42095790 ATAATTATCCAG-CTTGGCAATC
1 ATAA--AT---GTCTT-GCAATC
42095812 ATAAATGTCTTGCAATC
1 ATAAATGTCTTGCAATC
42095829 A
1 A
42095830 CAATATTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
17 12 0.36
18 3 0.09
19 2 0.06
20 2 0.06
21 3 0.09
22 11 0.33
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (17 bp):
ATAAATGTCTTGCAATC
Found at i:42104103 original size:21 final size:20
Alignment explanation
Indices: 42104075--42104116 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
42104065 GATTCCATAA
42104075 TTATTATTTTATTAAATTTT
1 TTATTATTTTATTAAATTTT
* *
42104095 TTATATATTTTTTTAGATTTT
1 TTAT-TATTTTATTAAATTTT
42104116 T
1 T
42104117 AAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATTATTTTATTAAATTTT
Found at i:42104125 original size:23 final size:23
Alignment explanation
Indices: 42104099--42104143 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
42104089 AATTTTTTAT
* *
42104099 ATATTTTTTTAGATTTTTAAAAA
1 ATATTTATATAGATTTTTAAAAA
*
42104122 ATATTTATATATATTTTTAAAA
1 ATATTTATATAGATTTTTAAAA
42104144 TACAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTATATAGATTTTTAAAAA
Found at i:42104156 original size:24 final size:23
Alignment explanation
Indices: 42104111--42104164 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
42104101 ATTTTTTTAG
*
42104111 ATTTTTAAAAAATATTTATATAT
1 ATTTTTAAAAAAAATTTATATAT
*
42104134 ATTTTTAAAATACAAATTTTATAAAT
1 ATTTTTAAAA-A-AAA-TTTATATAT
42104160 ATTTT
1 ATTTT
42104165 GAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 2 0.08
26 13 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAAAAAATTTATATAT
Found at i:42104171 original size:18 final size:19
Alignment explanation
Indices: 42104148--42104209 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
42104138 TTAAAATACA
*
42104148 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
*
42104166 AATTTTAAAAATTATTTTCA
1 AATTTTAAAAATTATTTT-G
* *
42104186 AATTTTGAAAATTACTTTG
1 AATTTTAAAAATTATTTTG
42104205 -ATTTT
1 AATTTT
42104210 TTTTTGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 15 0.41
19 6 0.16
20 16 0.43
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:42104191 original size:20 final size:20
Alignment explanation
Indices: 42104146--42104199 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
42104136 TTTTAAAATA
*
42104146 CAAATTTTATAAA-TATTTT
1 CAAATTTTAAAAATTATTTT
*
42104165 -GAATTTTAAAAATTATTTT
1 CAAATTTTAAAAATTATTTT
*
42104184 CAAATTTTGAAAATTA
1 CAAATTTTAAAAATTA
42104200 CTTTGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
CAAATTTTAAAAATTATTTT
Found at i:42104391 original size:9 final size:9
Alignment explanation
Indices: 42104375--42104404 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
42104365 ATTCGAGTTG
42104375 ACTCGAATA
1 ACTCGAATA
*
42104384 ATTCGAATA
1 ACTCGAATA
42104393 ACTCGAATA
1 ACTCGAATA
42104402 ACT
1 ACT
42104405 TGATTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
ACTCGAATA
Found at i:42105616 original size:42 final size:42
Alignment explanation
Indices: 42105505--42105677 Score: 179
Period size: 43 Copynumber: 4.1 Consensus size: 42
42105495 TCCCGAGGTG
* * *
42105505 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCG-ATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
*
42105546 TGAGATTACGTATAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
* * * * *
42105590 TGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCG-TATA
* * * * *
42105633 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
42105674 TGAT
1 TGAT
42105678 ATATGTGTTT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 8 0.07
42 39 0.36
43 58 0.53
44 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:42105618 original size:85 final size:84
Alignment explanation
Indices: 42105505--42105677 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 84
42105495 TCCCGAGGTG
* * * * *
42105505 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACGTATAAGACCATGTC
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
42105570 TGGGACATTGGCATCGTATA
66 TGGGACA-TGGCATCGTATA
* * * * *
42105590 TGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATATC
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
* *
42105655 TGGGATATGGCATTGTATA
66 TGGGACATGGCATCGTATA
42105674 TGAT
1 TGAT
42105678 ATATGTGTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 15 0.20
85 61 0.80
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (84 bp):
TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
TGGGACATGGCATCGTATA
Found at i:42108721 original size:99 final size:98
Alignment explanation
Indices: 42108641--42108836 Score: 329
Period size: 99 Copynumber: 2.0 Consensus size: 98
42108631 TTAGAAACTC
* *
42108641 AAAAAAATATTTGGGAAACAACCAATAGTAAATTAGTAAATAATTAGATAAAATATGAATTTTAA
1 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
42108706 GAAAATAAATTATAATATTAAATTGAAAAAAAGA
66 GAAAATAAATTATAATA-TAAATTGAAAAAAAGA
*
42108740 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATTAATTTTAA
1 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
* *
42108805 GAAAGTAGATTATAATATTAAATTGAAAAAAA
66 GAAAATAAATTATAATA-TAAATTGAAAAAAA
42108837 AGGTAAAGTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.29
Consensus pattern (98 bp):
AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
GAAAATAAATTATAATATAAATTGAAAAAAAGA
Found at i:42117156 original size:17 final size:18
Alignment explanation
Indices: 42117134--42117167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42117124 TTGTTTATAA
42117134 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
42117151 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
42117168 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:42119575 original size:2 final size:2
Alignment explanation
Indices: 42119568--42119605 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
42119558 GAGACAGGGT
42119568 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
42119606 AGAAATTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:42120019 original size:41 final size:41
Alignment explanation
Indices: 42119956--42120064 Score: 173
Period size: 41 Copynumber: 2.7 Consensus size: 41
42119946 TTTCGGGACA
* * *
42119956 TTAGCGGCCTTTTTAGAAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
42119997 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
42120038 TTAGCAGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
42120065 AAAAACATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:42120456 original size:22 final size:21
Alignment explanation
Indices: 42120407--42120484 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 21
42120397 TATGATTTAG
*
42120407 AGTTTAAGGTTTA-AGAGTTACT
1 AGTTTAAGGTTTATGGA-TTA-T
*
42120429 ATTTTAAGGTTTATGGATTAT
1 AGTTTAAGGTTTATGGATTAT
* *
42120450 GAGTTTAAGGGTTATGGTTTAT
1 -AGTTTAAGGTTTATGGATTAT
*
42120472 AGTTTATGGTTTA
1 AGTTTAAGGTTTA
42120485 AGATTTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 12 0.26
22 33 0.70
23 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.47
Consensus pattern (21 bp):
AGTTTAAGGTTTATGGATTAT
Found at i:42120476 original size:7 final size:7
Alignment explanation
Indices: 42120431--42120519 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
42120421 GAGTTACTAT
*
42120431 TTTAAGG
1 TTTATGG
42120438 TTTATGG
1 TTTATGG
*
42120445 ATTATGAG
1 TTTATG-G
*
42120453 TTTAAGG
1 TTTATGG
*
42120460 GTTATGG
1 TTTATGG
*
42120467 TTTATAG
1 TTTATGG
42120474 TTTATGG
1 TTTATGG
* *
42120481 TTTAAGA
1 TTTATGG
*
42120488 TTTAGGG
1 TTTATGG
*
42120495 TTTAAGG
1 TTTATGG
* **
42120502 GTTGCGG
1 TTTATGG
42120509 TTTATGG
1 TTTATGG
42120516 TTTA
1 TTTA
42120520 ATGTTATAGG
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:42120477 original size:21 final size:21
Alignment explanation
Indices: 42120387--42120520 Score: 74
Period size: 21 Copynumber: 6.3 Consensus size: 21
42120377 AAGGTTTTTG
* *
42120387 GTTT-AGGGTATATGATTTAGA
1 GTTTAAGGGT-TATGGTTTATA
* *
42120408 GTTTAAGGTTTAAGAG-TTACTA
1 GTTTAAGGGTTATG-GTTTA-TA
* * *
42120430 TTTTAAGGTTTATGGATTATGA
1 GTTTAAGGGTTATGGTTTAT-A
42120452 GTTTAAGGGTTATGGTTTATA
1 GTTTAAGGGTTATGGTTTATA
* * * * **
42120473 GTTTATGGTTTAAGATTTAGG
1 GTTTAAGGGTTATGGTTTATA
** *
42120494 GTTTAAGGGTTGCGGTTTATG
1 GTTTAAGGGTTATGGTTTATA
42120515 GTTTAA
1 GTTTAA
42120521 TGTTATAGGT
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
21 49 0.56
22 38 0.44
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GTTTAAGGGTTATGGTTTATA
Found at i:42120558 original size:21 final size:21
Alignment explanation
Indices: 42120534--42120597 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
42120524 TATAGGTTAA
42120534 GGGTTGAGGTTTAAGGTTTAG
1 GGGTTGAGGTTTAAGGTTTAG
42120555 GGGTTGAGAG-TTAAGAG-TTAG
1 GGGTTGAG-GTTTAAG-GTTTAG
* *
42120576 GGGTTTAGGATTTAGGGTTTAG
1 GGGTTGAGG-TTTAAGGTTTAG
42120598 ATTAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTTGAGGTTTAAGGTTTAG
Found at i:42120724 original size:16 final size:17
Alignment explanation
Indices: 42120705--42120743 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
42120695 AAATTCTTTA
42120705 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
42120721 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
42120738 TAAATA
1 TAAATA
42120744 TAGTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:42120954 original size:21 final size:22
Alignment explanation
Indices: 42120930--42120970 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42120920 ATGGTTTATT
42120930 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
42120951 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
42120971 GGGGTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:42120973 original size:8 final size:8
Alignment explanation
Indices: 42120951--42120979 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
42120941 GGGATTTAAA
42120951 GTTTAGGG
1 GTTTAGGG
42120959 G-TTAGGG
1 GTTTAGGG
42120966 GTTTAGGG
1 GTTTAGGG
42120974 GTTTAG
1 GTTTAG
42120980 AGTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (8 bp):
GTTTAGGG
Found at i:42121360 original size:36 final size:35
Alignment explanation
Indices: 42121299--42121366 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
42121289 TTTAAAAAAA
* *
42121299 TTAATAAATAAATAAAATCACTTAACTAATAATTT
1 TTAATAAATAAATAAAATAACTTAACAAATAATTT
*
42121334 TTAATAAATAAAATAAAA-AATTTTAACAAATAA
1 TTAATAAAT-AAATAAAATAA-CTTAACAAATAA
42121367 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.36
36 18 0.64
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (35 bp):
TTAATAAATAAATAAAATAACTTAACAAATAATTT
Found at i:42121423 original size:39 final size:39
Alignment explanation
Indices: 42121380--42121464 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
42121370 AATAAAATCA
*
42121380 CTAAAAATAAGCATTAGCGGCGCTTTTCGAAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
* * * *
42121419 CTAAAAATGAGCATTAGTGGCGTTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
*
42121458 CAAAAAA
1 CTAAAAA
42121465 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
Found at i:42122294 original size:38 final size:38
Alignment explanation
Indices: 42122214--42122295 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
42122204 GGTTACAAAC
* * * *
42122214 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
42122252 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
42122290 TTTATC
1 TTTATC
42122296 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:42126504 original size:43 final size:43
Alignment explanation
Indices: 42126457--42126840 Score: 525
Period size: 43 Copynumber: 8.9 Consensus size: 43
42126447 TTGTTTAAGT
** * *
42126457 GTCGCTAAAGGTTGTGGTTTTTAGCGGCGTTTTTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * *
42126500 GTCGCTAAAGGTCAGGGTCTTTAGTGGCGTTTGTCGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * *
42126543 GTCGCTAAAAGTCATCGTCTTTAGCGGCGTTTGTCGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* *
42126586 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* ***
42126629 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCAAAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* *
42126672 GTCCCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* ***
42126715 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCAAAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * * *
42126758 GTCCCTAAAGATCATGGTCTTTAGCGTCATTTGTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
*
42126801 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAA
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAA
42126841 GCGCCGCAAA
Statistics
Matches: 296, Mismatches: 45, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 296 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:42126901 original size:22 final size:21
Alignment explanation
Indices: 42126867--42126909 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
42126857 TAGCGGCGCT
* *
42126867 AAAAACGCTGCTAAAGGCCTA
1 AAAAACGCCGCTAAAAGCCTA
42126888 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAA-CGCCGCTAAAAGCCTA
42126910 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (21 bp):
AAAAACGCCGCTAAAAGCCTA
Found at i:42130976 original size:51 final size:51
Alignment explanation
Indices: 42130909--42131101 Score: 214
Period size: 51 Copynumber: 3.8 Consensus size: 51
42130899 TAATGATGTT
* * * *
42130909 CGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACAATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCATC
* * *
42130960 CGATACACGTAGTAGCCTGCACGTAGTACTACACACGTGATCGAA--ACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-C-AATTACCATC
* * * * * *
42131011 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGAC--TTATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCA-TC
42131061 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
42131102 CATCACTTTC
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 72 0.62
52 1 0.01
53 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCATC
Found at i:42131093 original size:101 final size:101
Alignment explanation
Indices: 42130916--42131100 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
42130906 GTTCGGTTCA
* *
42130916 CATAGTAGCCTGCACATAGTACTATACATGTGACAATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGAC-ATTACCATCCGATACACGTAGTAGCCTGCA
*
42130981 CGTAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
42131018 CATAGTAGCCTGCACATAGTACTACACATGCGAC-TTATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACATTACCA-TCCGATACACGTAGTAGCCTGCA
42131082 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
42131101 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 5 0.06
101 40 0.52
102 32 0.42
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACATTACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:42134283 original size:2 final size:2
Alignment explanation
Indices: 42134276--42134304 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
42134266 TTGCGTTGTT
42134276 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42134305 AGGTAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42137180 original size:39 final size:39
Alignment explanation
Indices: 42137114--42137218 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
42137104 GTATCGAGCC
* * *
42137114 TTGAGCCTAACAAGCCTCATG-CTGGTGACTGATCAGGCT
1 TTGAGCCTAACAGGCTTCGTGTC-GGTGACTGATCAGGCT
* *
42137153 TTGAGCCTAGCAGGCTTCGTGTCGGTGACTTATCAGGCT
1 TTGAGCCTAACAGGCTTCGTGTCGGTGACTGATCAGGCT
42137192 TTGAGCCTAACAGGCTTCGTGTCGGTG
1 TTGAGCCTAACAGGCTTCGTGTCGGTG
42137219 TTTATCGAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 58 0.98
40 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.29
Consensus pattern (39 bp):
TTGAGCCTAACAGGCTTCGTGTCGGTGACTGATCAGGCT
Found at i:42138602 original size:71 final size:72
Alignment explanation
Indices: 42138527--42138766 Score: 191
Period size: 71 Copynumber: 3.3 Consensus size: 72
42138517 CACATGATAT
** **
42138527 ATCTCAGCCAAT-GATAAAGT-ATAATGTGATGCTGCTCACTCAAGCTGTCGAGAATCTGCAACA
1 ATCTCAGCCAATCGATAAA-TAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACA
42138590 CATGTTGG
65 CATGTTGG
* * * **
42138598 ATCTCAACC-ATCGCTAAATAATGATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACTT
1 ATCTCAGCCAATCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACAC
42138662 ATGTTGG
66 ATGTTGG
* * * * * * * *
42138669 ATCTTAGCCATAACAGTTCGTTATATAATAATACGATGTTGCTCACCCAAGCTATCGAGAATCCG
1 ATCTCAGCC---A-A--TCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCC
*** *
42138734 CAATTTATGTTGA
60 CAACACATGTTGG
42138747 ATCTCAGCC-ATCGAATAAAT
1 ATCTCAGCCAATCG-ATAAAT
42138767 CTCTATATCA
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
70 3 0.02
71 67 0.50
72 4 0.03
73 1 0.01
76 1 0.01
78 59 0.44
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (72 bp):
ATCTCAGCCAATCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACAC
ATGTTGG
Found at i:42140327 original size:21 final size:21
Alignment explanation
Indices: 42140266--42140327 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
42140256 CCTTCATTCC
42140266 TTCATTTCCTCGGTTCCCTC-
1 TTCATTTCCTCGGTTCCCTCT
* * *
42140286 TTCAATTAT-CGCAGTT--TTCT
1 TTC-ATT-TCCTCGGTTCCCTCT
42140306 TTCATTTCCTCGGTTCCCTCT
1 TTCATTTCCTCGGTTCCCTCT
42140327 T
1 T
42140328 CTCCGTATCC
Statistics
Matches: 30, Mismatches: 6, Indels: 11
0.64 0.13 0.23
Matches are distributed among these distances:
18 1 0.03
19 10 0.33
20 6 0.20
21 12 0.40
22 1 0.03
ACGTcount: A:0.10, C:0.32, G:0.10, T:0.48
Consensus pattern (21 bp):
TTCATTTCCTCGGTTCCCTCT
Found at i:42143293 original size:34 final size:35
Alignment explanation
Indices: 42143236--42143302 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
42143226 CAAACACCAG
*
42143236 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
*
42143271 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAA
42143303 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
Found at i:42143301 original size:14 final size:15
Alignment explanation
Indices: 42143275--42143319 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
42143265 AAAAGTAAAA
*
42143275 CATTTT-CTAGAAAT
1 CATTTTACTGGAAAT
*
42143289 CATTTTAC-GGAAAA
1 CATTTTACTGGAAAT
42143303 CATTTTACTGGAAAT
1 CATTTTACTGGAAAT
42143318 CA
1 CA
42143320 AACAGACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (15 bp):
CATTTTACTGGAAAT
Found at i:42151816 original size:15 final size:16
Alignment explanation
Indices: 42151779--42151824 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
42151769 ATAATAGTTT
42151779 ATATTATATTATAAAA
1 ATATTATATTATAAAA
*
42151795 ATATTATTTTAT-AAA
1 ATATTATATTATAAAA
* *
42151810 ATTTTATATAATAAA
1 ATATTATATTATAAA
42151825 TATAAAGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATATTATAAAA
Found at i:42156340 original size:42 final size:42
Alignment explanation
Indices: 42156280--42156428 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
42156270 CCGAAGGCTG
** * * *
42156280 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
*
42156322 AACGGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
** * * * *
42156364 AACAGAAGC-TCAATAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTTGTA-AGAGCTAAACAGAAACCCATAAGGGTTA
* *
42156406 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTTGTAAGAGCTAAA
42156429 TGGAAAGTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
41 2 0.02
42 85 0.98
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:42156428 original size:21 final size:21
Alignment explanation
Indices: 42156280--42156428 Score: 102
Period size: 21 Copynumber: 7.1 Consensus size: 21
42156270 CCGAAGGCTG
*
42156280 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
42156301 AATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* **
42156322 AACGGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * *
42156343 AACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
*
42156364 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * *
42156385 AACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
42156406 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
42156427 AA
1 AA
42156429 TGGAAAGTAA
Statistics
Matches: 89, Mismatches: 37, Indels: 4
0.68 0.28 0.03
Matches are distributed among these distances:
20 1 0.01
21 87 0.98
22 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:42162143 original size:21 final size:21
Alignment explanation
Indices: 42162105--42162145 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42162095 TATTTTTAAT
42162105 AAATATATTATTTGAAATTTG
1 AAATATATTATTTGAAATTTG
*
42162126 AAAT-TATTATTGTTAAATTT
1 AAATATATTATT-TGAAATTT
42162146 TATTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
AAATATATTATTTGAAATTTG
Found at i:42162209 original size:29 final size:29
Alignment explanation
Indices: 42162147--42162211 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
42162137 GTTAAATTTT
*
42162147 ATTATTAAAATAAAATTGTAGTATTAAAA
1 ATTATTAAAATAAAAATGTAGTATTAAAA
42162176 ATTATTAAAATAATAAAT-TA-TATTAATAA
1 ATTATTAAAATAA-AAATGTAGTATTAA-AA
*
42162205 TTTATTA
1 ATTATTA
42162212 TATTATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.19
29 23 0.72
30 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTATTAAAATAAAAATGTAGTATTAAAA
Found at i:42163524 original size:7 final size:7
Alignment explanation
Indices: 42163512--42163545 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
42163502 CTAGAGCAGT
42163512 GTAAAGA
1 GTAAAGA
42163519 GTAAAGA
1 GTAAAGA
42163526 GTAAAGA
1 GTAAAGA
42163533 GTAAAGA
1 GTAAAGA
42163540 GTAAAG
1 GTAAAG
42163546 GAGTGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (7 bp):
GTAAAGA
Found at i:42169645 original size:23 final size:22
Alignment explanation
Indices: 42169602--42169659 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
42169592 AAAAGGTATC
* *
42169602 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42169623 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
42169646 TGCATATCATATCT
1 TACAAATCATATCT
42169660 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42170238 original size:45 final size:45
Alignment explanation
Indices: 42170181--42170654 Score: 294
Period size: 45 Copynumber: 10.8 Consensus size: 45
42170171 TTGTTCATTT
* ** * *
42170181 AGTCTGCCCCACTGCAGTTTCAAGGG-GATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTCGCTTTCTTG
42170226 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* *
42170271 GGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * * ** * *
42170316 GGTCTGTTCCACTGTAACTTCAATGAGATAAGAC-C-CAATGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGC-TTTCTTG
* *
42170358 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-TGATT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTC-GCT--TTCTTG
* ** * ** *
42170400 AATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * * *
42170445 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTTCTTG
* * * * *
42170489 AGTCTGCTCCATTGCAACTTTAGGGAGATAAGACTAG-ATGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * *
42170531 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGC-TT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGCTTTCTTG
* * * ** * *
42170573 AATCTGCTCCACTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TCTTG
* *
42170617 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGC
42170655 CATCTTCAGT
Statistics
Matches: 336, Mismatches: 60, Indels: 65
0.73 0.13 0.14
Matches are distributed among these distances:
40 41 0.12
41 14 0.04
42 8 0.02
43 16 0.05
44 113 0.34
45 144 0.43
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
Found at i:42170419 original size:44 final size:44
Alignment explanation
Indices: 42170358--42170650 Score: 221
Period size: 44 Copynumber: 6.8 Consensus size: 44
42170348 ACCCAATGCG
* *
42170358 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
** **
42170401 ATCCACTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTA
* * * *
42170446 GTCTGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTA
* * * * ***
42170490 GTCTGCTCCATTGCAACTTTAGGGAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * *
42170531 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGCTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * **
42170574 ATCTGCTCCACTGCGACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
42170618 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
42170651 TCGCCATCTT
Statistics
Matches: 193, Mismatches: 41, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
40 20 0.10
41 8 0.04
42 2 0.01
43 17 0.09
44 116 0.60
45 30 0.16
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
Found at i:42170428 original size:84 final size:84
Alignment explanation
Indices: 42170318--42170602 Score: 285
Period size: 84 Copynumber: 3.3 Consensus size: 84
42170308 CTTTCTTGGG
* * **
42170318 TCTGTTCCACTGTAACTTCAATGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
*
42170383 ATAAGATCTGTGATTTTAA
66 ATAAGATCTGTGCTTTTAA
** * * *
42170402 TCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCC-AT-CTTTAGTCTGCCTCACTACAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-CCAATGC--GA-TCTG-CTCTCTGCAACTT
* *
42170465 CAG-GAGGATAAG-GCT-TGCTTACTTAG
59 CAGAGA-GATAAGATCTGTGCTT--TTAA
* * *
42170491 TCTGCTCCATTGCAACTTTAGGGAGATAAGA-CTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCA-ATGCGATCTGCTCTCTGCAACTTCAGAGA
42170555 GATAAGATCTGTGCTTTTAA
65 GATAAGATCTGTGCTTTTAA
*
42170575 TCTGCTCCACTGCGACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
42170603 GGATTATTGG
Statistics
Matches: 160, Mismatches: 25, Indels: 32
0.74 0.12 0.15
Matches are distributed among these distances:
84 73 0.46
85 10 0.06
86 9 0.06
87 9 0.06
88 9 0.06
89 50 0.31
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (84 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGCTTTTAA
Found at i:42170551 original size:173 final size:174
Alignment explanation
Indices: 42170232--42170654 Score: 500
Period size: 173 Copynumber: 2.4 Consensus size: 174
42170222 CTTGAGTCTG
* ** * **
42170232 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGTAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTCCACTACAACTTCAGGGA
* * * * *
42170297 GATAAGACTCGCTTTCTTGGGTCTGTTCCACTGTAACTTCAATGAGATAAGACCCAATGCGATCT
66 GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCAATGCGATCT
42170362 GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
131 GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
*
42170406 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTGC-CTCACTACAACTTCA-GG
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTC-CACTACAACTTCAGGG
* * * * * *
42170469 AGGATAAGGCTTGCTTACTT-AGTCTGCTCCATTGCAACTTTAGGGAGATAAGA-CTAGATGCGA
65 A-GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCA-ATGCGA
* **
42170532 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGCTTTTAATCTG
128 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
* * * * * *
42170579 CTCCACTGCGACTTCAGGGAGATAGGATTATTGGC-T-TT-AATCTGCTCCACTGCAACTTCAGG
1 CTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTGAGTCTGCTCCACTACAACTTCAGG
*
42170641 GAGATAAGATTCGC
64 GAGATAAGACTCGC
42170655 CATCTTCAGT
Statistics
Matches: 212, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
172 29 0.14
173 111 0.52
174 69 0.33
175 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (174 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTCCACTACAACTTCAGGGA
GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCAATGCGATCT
GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
Found at i:42171065 original size:44 final size:44
Alignment explanation
Indices: 42171015--42171136 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 44
42171005 ATCTGCTATT
* *
42171015 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATC
* *
42171059 TTCAACCTATTCCATTGCTGAC-CAGGGAGATATGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATC
42171103 TTCAACCTATTCCACTGCTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCT-CAGGGAGATAGG
42171137 GCTGGGGTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 65 0.96
45 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATC
Found at i:42171198 original size:88 final size:88
Alignment explanation
Indices: 42171136--42171713 Score: 823
Period size: 88 Copynumber: 6.6 Consensus size: 88
42171126 AGGGAGATAG
* * * ** *
42171136 GGCTGGGGTCATCGATCTGCTTTGCTGTCGGTGCAGGAAGATAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
42171201 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
42171224 GACTGGTGTCTTCAATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
42171289 TCCGCTACAACCCAGAGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * **
42171312 GGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* * *
42171377 TTCGCTACAACCCAGAGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
42171400 GGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAATCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
42171465 TCTGCTGCAACCCAGGGAGGGAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
42171488 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
*
42171553 TCCGTTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
42171576 GGCTAGTGTCTTCGATCTGCTTCGCTGGCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
42171641 TCCGCTACAACCCAGGGAAGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
42171664 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAAGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
42171714 TTATCTTCAC
Statistics
Matches: 436, Mismatches: 54, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 436 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:42171310 original size:44 final size:43
Alignment explanation
Indices: 42171178--42171400 Score: 117
Period size: 44 Copynumber: 5.1 Consensus size: 43
42171168 GCAGGAAGAT
*
42171178 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCA-GGAGGC
* * * * * * * ****
42171222 AAGA-CTGGTGTCTTCAATCTGCTTCACTATCGGTGCAGGAAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTA-CAACCCAGG-AGGC
*
42171266 AAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGAGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAG-GAGGC
* * * * ** * * * ***
42171310 AAGGT-TGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGG-AGGC
* * *
42171354 AAGATCTGCTATTTTTAATCTGTTTCGCTACAACCCAGAGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAG-GAGGC
42171398 AAG
1 AAG
42171401 GCTGGTGTCT
Statistics
Matches: 123, Mismatches: 48, Indels: 16
0.66 0.26 0.09
Matches are distributed among these distances:
43 35 0.28
44 52 0.42
45 36 0.29
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGAGGC
Found at i:42171442 original size:44 final size:44
Alignment explanation
Indices: 42171306--42171708 Score: 154
Period size: 44 Copynumber: 9.2 Consensus size: 44
42171296 CAACCCAGAG
*
42171306 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * * ** * * ***
42171350 AGGCAAGATCTGCTATTTTTAATCTGTTTCGCT-ACAACCCA-GA
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* *
42171393 GAGGCAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGA
1 -AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* *** * ** * *** *
42171438 AGGCAAGATCTGCAATTTTTAATCTAC-TCTGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTC-GCTGTCAGTGCAGGA
* *
42171482 AGGGAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * * ** * * * *** *
42171526 AGGCAAGATCTGCTATTTTTAACCTGCTCCGTTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * *
42171570 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGGCAGTGCAAGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * * ** * * * ***
42171614 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGGGA
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCA-GGA
* * *
42171659 A-GCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
*
42171702 AAGCAAG
1 AGGCAAG
42171709 ATCTGTTATC
Statistics
Matches: 234, Mismatches: 111, Indels: 28
0.63 0.30 0.08
Matches are distributed among these distances:
43 70 0.30
44 95 0.41
45 69 0.29
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
Found at i:42173062 original size:14 final size:15
Alignment explanation
Indices: 42173039--42173071 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42173029 ATCGACGCTT
42173039 TTCCAAATAAGG-CC
1 TTCCAAATAAGGCCC
*
42173053 TTCCACATAAGGCCC
1 TTCCAAATAAGGCCC
42173068 TTCC
1 TTCC
42173072 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.24
Consensus pattern (15 bp):
TTCCAAATAAGGCCC
Found at i:42173944 original size:25 final size:26
Alignment explanation
Indices: 42173893--42173953 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
42173883 AAGAAAATCC
* **
42173893 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
42173919 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
42173944 AAAATGAATG
1 AAAA-GAATG
42173954 GAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:42178573 original size:19 final size:19
Alignment explanation
Indices: 42178541--42178594 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
42178531 AATCATATCT
*
42178541 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
42178560 TCTAATATTACATATCATA
1 TCTAAGATTACATATCATA
*
42178579 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
42178595 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:42178590 original size:38 final size:40
Alignment explanation
Indices: 42178518--42178594 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
42178508 AAATTAAATC
42178518 TCTAATATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAATATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
42178560 TCTAATATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAATATTACAAAATCATATTCTAAGATTGCATATC
42178595 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (40 bp):
TCTAATATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:42179794 original size:185 final size:185
Alignment explanation
Indices: 42179482--42179853 Score: 717
Period size: 185 Copynumber: 2.0 Consensus size: 185
42179472 TATTCAAGTA
42179482 AATACCTCATGATAAGTTATGTTCATTATTAATAGATGTGTCTATCCCAATAGGCATTCATTGAA
1 AATACCTCATGATAAGTTATGTTCATTATTAATAGATGTGTCTATCCCAATAGGCATTCATTGAA
*
42179547 TAGTTATATCATATTAATAAGAGATAAATTTCATTTGCAAGACATACCAAAAATCACCAAGACAT
66 TAGTTATATCATATTAATAAGAGATAAATTTCATTTGCAAGACATACCAAAAACCACCAAGACAT
42179612 AGCCAAAACTCAAATATTTACTTCAGAATAGCCTCCAACTTTAGGCACCAAGATG
131 AGCCAAAACTCAAATATTTACTTCAGAATAGCCTCCAACTTTAGGCACCAAGATG
*
42179667 AATACCTCATGATAAGTTATGTTCATTATTAATAGATGTGTCTATCCCAATAGGCATTTATTGAA
1 AATACCTCATGATAAGTTATGTTCATTATTAATAGATGTGTCTATCCCAATAGGCATTCATTGAA
*
42179732 TAGTTATATCATATTAATAAGAGATAAATTTCATTTGCAAGACATACCAAAAGCCACCAAGACAT
66 TAGTTATATCATATTAATAAGAGATAAATTTCATTTGCAAGACATACCAAAAACCACCAAGACAT
42179797 AGCCAAAACTCAAATATTTACTTCAGAATAGCCTCCAACTTTAGGCACCAAGATG
131 AGCCAAAACTCAAATATTTACTTCAGAATAGCCTCCAACTTTAGGCACCAAGATG
42179852 AA
1 AA
42179854 AAAAAAAAGT
Statistics
Matches: 184, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 184 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (185 bp):
AATACCTCATGATAAGTTATGTTCATTATTAATAGATGTGTCTATCCCAATAGGCATTCATTGAA
TAGTTATATCATATTAATAAGAGATAAATTTCATTTGCAAGACATACCAAAAACCACCAAGACAT
AGCCAAAACTCAAATATTTACTTCAGAATAGCCTCCAACTTTAGGCACCAAGATG
Found at i:42183232 original size:16 final size:15
Alignment explanation
Indices: 42183211--42183240 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42183201 GGAAAATAAG
42183211 AATATAACAGTAACAT
1 AATATAACA-TAACAT
42183227 AATATAACATAACA
1 AATATAACATAACA
42183241 CTGAACTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (15 bp):
AATATAACATAACAT
Found at i:42183969 original size:23 final size:23
Alignment explanation
Indices: 42183939--42183984 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
42183929 AACACTTAAA
42183939 ACATGAACAGAACTTTTATTATT
1 ACATGAACAGAACTTTTATTATT
42183962 ACATGAACAGAACTTTTATTATT
1 ACATGAACAGAACTTTTATTATT
42183985 TTAACTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
ACATGAACAGAACTTTTATTATT
Found at i:42194745 original size:30 final size:30
Alignment explanation
Indices: 42194709--42194777 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
42194699 ATTTTGGCAA
* *
42194709 AAAACTCTTAAATTTCTCCCTAAATTTTTC
1 AAAACTCTCAAATTTCTCCCTAAATTTCTC
*
42194739 AAAACTCTCAAATTTCTCCTTAAATTTCTC
1 AAAACTCTCAAATTTCTCCCTAAATTTCTC
42194769 AAAACTCTC
1 AAAACTCTC
42194778 TTTAATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAACTCTCAAATTTCTCCCTAAATTTCTC
Found at i:42200107 original size:67 final size:69
Alignment explanation
Indices: 42200033--42200166 Score: 191
Period size: 67 Copynumber: 2.0 Consensus size: 69
42200023 AAACACAATA
42200033 TTATTTAAAAAAACTAAACCCTAAATTAATTAATTTTTT-AAA-AACACTAAACCTTAATTTATT
1 TTATTTAAAAAAACTAAACCCTAAATTAATTAATTTTTTAAAAGAACACTAAACCTTAATTTATT
42200096 TAAT
66 TAAT
*** * * *
42200100 TTATTTAAAACCCCTAAACCCTAATTTAATTAATTTTTTAAAAAGAACACTAAATCTTGATTTAT
1 TTATTTAAAAAAACTAAACCCTAAATTAATTAATTTTTT-AAAAGAACACTAAACCTTAATTTAT
42200165 TT
65 TT
42200167 TTTAAAATTC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
67 35 0.60
69 3 0.05
70 20 0.34
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.41
Consensus pattern (69 bp):
TTATTTAAAAAAACTAAACCCTAAATTAATTAATTTTTTAAAAGAACACTAAACCTTAATTTATT
TAAT
Found at i:42200117 original size:34 final size:33
Alignment explanation
Indices: 42200036--42200143 Score: 153
Period size: 33 Copynumber: 3.2 Consensus size: 33
42200026 CACAATATTA
* *
42200036 TTTAAAAAAACTAAACCCTAAATTAATTAATTT
1 TTTAAAAACACTAAACCCTAATTTAATTAATTT
* *
42200069 TTTAAAAACACTAAACCTTAATTTATTTAATTT
1 TTTAAAAACACTAAACCCTAATTTAATTAATTT
* *
42200102 ATTTAAAACCCCTAAACCCTAATTTAATTAATTT
1 -TTTAAAAACACTAAACCCTAATTTAATTAATTT
42200136 TTTAAAAA
1 TTTAAAAA
42200144 GAACACTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
33 36 0.55
34 29 0.45
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTAAAAACACTAAACCCTAATTTAATTAATTT
Found at i:42200252 original size:42 final size:42
Alignment explanation
Indices: 42200193--42200273 Score: 137
Period size: 42 Copynumber: 1.9 Consensus size: 42
42200183 CTTAGAACCC
*
42200193 TAAATTATTTTAACAAAACCCTAAACCCTACAAA-CCTAACAT
1 TAAATTATTTTAACAAAACCCT-AACCCTAAAAATCCTAACAT
42200235 TAAATTATTTTAACAAAACCCTAACCCTAAAAATCCTAA
1 TAAATTATTTTAACAAAACCCTAACCCTAAAAATCCTAA
42200274 ACCAAAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 10 0.27
42 27 0.73
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (42 bp):
TAAATTATTTTAACAAAACCCTAACCCTAAAAATCCTAACAT
Found at i:42202717 original size:24 final size:23
Alignment explanation
Indices: 42202679--42202737 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
42202669 TTTACCATTC
42202679 ATATATATATGTATACATTATTAT
1 ATATATATATGTATACA-TATTAT
* * *
42202703 ATATATGTATTTATACATATTCT
1 ATATATATATGTATACATATTAT
*
42202726 ATA-ATTTATGTA
1 ATATATATATGTA
42202738 CATACCTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 7 0.23
23 8 0.27
24 15 0.50
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
ATATATATATGTATACATATTAT
Found at i:42202976 original size:4 final size:4
Alignment explanation
Indices: 42202969--42202993 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
42202959 CGGTGTTTGT
42202969 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
42202994 GCCCATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:42203345 original size:109 final size:109
Alignment explanation
Indices: 42203152--42203474 Score: 463
Period size: 109 Copynumber: 3.0 Consensus size: 109
42203142 AAGAATTTTT
*
42203152 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTGATGTGCTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
42203217 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * *
42203261 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAAGGTGCCCTAATTTGCTGGATTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
42203326 CGATTTTTCTCGCTT-GACCAAATAACTAAATATCCTTTCAAAAA
66 CGATTTTTCTCG-TTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * * * * * *
42203370 TTTCAAAATAAGGCAATGTTTTGTGTTTGGAAACTCGAGAAAACTTGCTCTAATGCGTTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
42203435 CGA--TTTCTCGTTGGACCAAATAGCCGAATATCCTCTTAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
42203475 TCTTAATCTA
Statistics
Matches: 190, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
106 2 0.01
107 29 0.15
109 157 0.83
110 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:42207293 original size:23 final size:23
Alignment explanation
Indices: 42207267--42207364 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
42207257 ATAAGTGCCA
42207267 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42207290 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42207313 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42207335 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
42207358 CACTGAT
1 CACTGAT
42207365 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:42207332 original size:45 final size:45
Alignment explanation
Indices: 42207274--42207362 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
42207264 CCACACTGAT
* *
42207274 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
42207319 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
42207363 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:42214666 original size:23 final size:23
Alignment explanation
Indices: 42214640--42214737 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
42214630 ATAAGTGCCA
42214640 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42214663 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42214686 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
42214708 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42214731 CACTGAT
1 CACTGAT
42214738 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:42214705 original size:45 final size:45
Alignment explanation
Indices: 42214647--42214735 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
42214637 CCACACTGAT
* *
42214647 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
42214692 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
42214736 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:42218776 original size:14 final size:13
Alignment explanation
Indices: 42218750--42218815 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 13
42218740 AAATTGTTAA
42218750 AAAAAAG-AAAAG
1 AAAAAAGAAAAAG
*
42218762 AAAGAAGGAAAAAG
1 AAA-AAAGAAAAAG
42218776 AAAAAAGAAAGAAG
1 AAAAAAGAAA-AAG
42218790 AAGAAAA-AATAAA-
1 AA-AAAAGAA-AAAG
42218803 AAGAAAAGAAAAA
1 AA-AAAAGAAAAA
42218816 ATGAGAGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.07
13 19 0.41
14 19 0.41
15 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:42218784 original size:17 final size:17
Alignment explanation
Indices: 42218751--42218816 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
42218741 AATTGTTAAA
*
42218751 AAAAAGAAAAGAAAGAAGG
1 AAAAAG-AAA-AAAGAAAG
42218770 AAAAAGAAAAAAGAAAG
1 AAAAAGAAAAAAGAAAG
* * *
42218787 AAGAAGAAAAAATAAAA
1 AAAAAGAAAAAAGAAAG
42218804 AGAAAAGAAAAAA
1 A-AAAAGAAAAAA
42218817 TGAGAGGCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
17 22 0.54
18 13 0.32
19 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAG
Found at i:42218810 original size:24 final size:25
Alignment explanation
Indices: 42218750--42218812 Score: 87
Period size: 23 Copynumber: 2.6 Consensus size: 25
42218740 AAATTGTTAA
42218750 AAAAAAGAAAAGAAAGAAGGAAAAAG
1 AAAAAAGAAAAG-AAGAAGGAAAAAG
42218776 AAAAAAG-AAAGAAGAA-GAAAAA-
1 AAAAAAGAAAAGAAGAAGGAAAAAG
42218798 ATAAAAAGAAAAGAA
1 A-AAAAAGAAAAGAA
42218813 AAAATGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 12 0.34
24 11 0.31
25 4 0.11
26 7 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (25 bp):
AAAAAAGAAAAGAAGAAGGAAAAAG
Found at i:42218815 original size:18 final size:18
Alignment explanation
Indices: 42218771--42218817 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
42218761 GAAAGAAGGA
*
42218771 AAAAG-AAAAA-AGAAAG
1 AAAAGAAAAAATAAAAAG
42218787 AAGAAGAAAAAATAAAAAG
1 AA-AAGAAAAAATAAAAAG
42218806 AAAAGAAAAAAT
1 AAAAGAAAAAAT
42218818 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 15 0.56
19 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAATAAAAAG
Found at i:42218816 original size:7 final size:7
Alignment explanation
Indices: 42218748--42218809 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
42218738 TAAAATTGTT
42218748 AAAAAA-
1 AAAAAAG
42218754 AAGAAAAG
1 AA-AAAAG
*
42218762 AAAGAAG
1 AAAAAAG
*
42218769 GAAAAAG
1 AAAAAAG
42218776 AAAAAAG
1 AAAAAAG
*
42218783 AAAGAAG
1 AAAAAAG
*
42218790 AAGAAAAA
1 AA-AAAAG
42218798 ATAAAAAG
1 A-AAAAAG
42218806 AAAA
1 AAAA
42218810 GAAAAAATGA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
6 2 0.05
7 30 0.68
8 11 0.25
9 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:42220236 original size:44 final size:44
Alignment explanation
Indices: 42220188--42220400 Score: 143
Period size: 44 Copynumber: 4.8 Consensus size: 44
42220178 AAACCACCAC
* *
42220188 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGA
* * * *
42220232 TCCTATCTTCCTAAGCAATAGTGGAGCAGATCGAAGACAGTG-A-A
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAG--ATTGCAGA
* * * ** * *
42220276 TCTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAA-A--CCACCA
1 TCCTATC-TCCCTAA-GCAGTAGTGG-AGTAGATCGAAGATTGCA-GA
*
42220319 CTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGA
* * * * *
42220364 TTCTGTCTCCCTAAGTAATAGTGAAGTAGATCGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
42220401 CAGTAAATCT
Statistics
Matches: 129, Mismatches: 26, Indels: 28
0.70 0.14 0.15
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 18 0.14
44 85 0.66
45 19 0.15
46 5 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGA
Found at i:42220293 original size:132 final size:132
Alignment explanation
Indices: 42220056--42220417 Score: 557
Period size: 132 Copynumber: 2.8 Consensus size: 132
42220046 AAGCCATTAG
* * * *
42220056 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAATATTGTAGATCCTGTC-TCTCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTTC-CTAAGCAATA
* * *
42220120 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGGGAAGCAAATTTAAACCAC
65 GTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAACCAC
42220185 CAC
130 CAC
*
42220188 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTATCTTCCTAAGCAATAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTTCCTAAGCAATAG
*
42220253 TGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAACCACC
66 TGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAACCACC
42220318 AC
131 AC
* * * *
42220320 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCTCCCTAAGTAATAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTTCCTAAGCAATAG
* * *
42220385 TGAAGTAGATCGAAGACAGTAAATCTTA-CTTCC
66 TGGAGCAGATCGAAGACAGTGAATCTTATCTTCC
42220418 TTGGCGGTGC
Statistics
Matches: 212, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
131 5 0.02
132 205 0.97
133 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTTCCTAAGCAATAG
TGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAACCACC
AC
Found at i:42220467 original size:50 final size:50
Alignment explanation
Indices: 42220406--42221016 Score: 337
Period size: 50 Copynumber: 12.3 Consensus size: 50
42220396 GAAGACAGTA
** *
42220406 AATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * ** * ** * * * * * *
42220456 AATCTTGCTTCCCCGACATTGCAATTAAAAATATTGAGGCCATAACGGCA
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * *
42220506 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTATAACGGTG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
** * ** * * ** * * * *
42220556 AATCTCGCTTCCCCGACATTGAAATTAAAAAGATTAAAGCCACAACAGCG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * *
42220606 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGTG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * ** * ** * * * *
42220656 AATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACGACG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * * *
42220706 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTTGCAACGGTG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
** **** * * * * * * *
42220756 AATCTCGCTTCCCCGATATTGAAAT-TAAAAGATTGAGGCCACAACGACG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * * * *
42220805 AATCTTACATT-CCAGGTGGTGCAGTGGAATAGGTTGAAGCTACAACGGAG
1 AATCTTAC-TTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
** * ** * * * * * * **
42220855 AATCTCGCTTCCCCGACATTGTAAT-TAAAAGATTGAGGCCACAACGGTA
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * * *
42220904 AATCTTACTTCCCTGGTGGTGCAGTGGAATAGATTGAAGCTACAACGACG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
* * ** * ** * * *
42220954 AATCTTTCTTCCCCGACATTGCATTTAAATAGATTGAAGCTACAACAGTG
1 AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
42221004 AATCTTACTTCCC
1 AATCTTACTTCCC
42221017 TGACGAACAG
Statistics
Matches: 390, Mismatches: 167, Indels: 8
0.69 0.30 0.01
Matches are distributed among these distances:
49 65 0.17
50 325 0.83
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AATCTTACTTCCCCGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCG
Found at i:42220842 original size:99 final size:100
Alignment explanation
Indices: 42220406--42221018 Score: 813
Period size: 100 Copynumber: 6.2 Consensus size: 100
42220396 GAAGACAGTA
* * * *
42220406 AATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
* * * *
42220471 ACATTGCAATTAAAAATATTGAGGCCATAACGGCA
66 ACATTGCAATTAAAAAGATTGAGGCCACAACGACG
* *
42220506 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTATAACGGTGAATCTCGCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
* * *
42220571 ACATTGAAATTAAAAAGATTAAAGCCACAAC-AGCG
66 ACATTGCAATTAAAAAGATTGAGGCCACAACGA-CG
* *
42220606 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
42220671 ACATTGCAATTAAAAAGATTGAGGCCACAACGACG
66 ACATTGCAATTAAAAAGATTGAGGCCACAACGACG
* *
42220706 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTTGCAACGGTGAATCTCGCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
* *
42220771 ATATTGAAATT-AAAAGATTGAGGCCACAACGACG
66 ACATTGCAATTAAAAAGATTGAGGCCACAACGACG
* * * * *
42220805 AATCTTACATT-CCAGGTGGTGCAGTGGAATAGGTTGAAGCTACAACGGAGAATCTCGCTTCCCC
1 AATCTTAC-TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCC
* ***
42220869 GACATTGTAATT-AAAAGATTGAGGCCACAACGGTA
65 GACATTGCAATTAAAAAGATTGAGGCCACAACGACG
* * ** **
42220904 AATCTTACTTCCCTGGTGGTGCAGTGGAATAGATTGAAGCTACAACGACGAATCTTTCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
* * * * *
42220969 ACATTGCATTTAAATAGATTGAAGCTACAAC-AGTG
66 ACATTGCAATTAAAAAGATTGAGGCCACAACGA-CG
42221004 AATCTTACTTCCCTG
1 AATCTTACTTCCCTG
42221019 ACGAACAGAT
Statistics
Matches: 456, Mismatches: 51, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
98 2 0.00
99 172 0.38
100 281 0.62
101 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCG
ACATTGCAATTAAAAAGATTGAGGCCACAACGACG
Found at i:42223370 original size:109 final size:109
Alignment explanation
Indices: 42223179--42223605 Score: 635
Period size: 109 Copynumber: 3.9 Consensus size: 109
42223169 AATTTTTTTT
* *
42223179 AAAATAAGGCAATGTTTTGCGTTCGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
* *
42223244 TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTC
66 TTTTCTCGTTTGACCAAATAACCAAATATCCTTTTAAAAATTTC
* * * *
42223288 AAAATAAGGCAACGTTTTGCATTTGGAAATTCGAGAAAATGTGCCATAATGTGCTGGGTTTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
*
42223353 TTTTCTCGTTTGACCAAATAACAAAATATCCTTTTAAAAATTTC
66 TTTTCTCGTTTGACCAAATAACCAAATATCCTTTTAAAAATTTC
42223397 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
* * *
42223462 TTTTCTCGCTTGACCAAATAACTAAATATCCTTTCAAAAATTTC
66 TTTTCTCGTTTGACCAAATAACCAAATATCCTTTTAAAAATTTC
* * * * * *
42223506 AAAATAAGGCAGTGTTTTGTGTTTGGAAACTCGAG-AAACTTGCTCTAATGCGCTGGGTTTCGA-
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
* * * *
42223569 -TTTCTCATTGGACCAAATAGCCGAATATCCTTTTAAA
66 TTTTCTCGTTTGACCAAATAACCAAATATCCTTTTAAA
42223606 TCTTAATCCA
Statistics
Matches: 289, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
106 30 0.10
108 25 0.09
109 234 0.81
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
TTTTCTCGTTTGACCAAATAACCAAATATCCTTTTAAAAATTTC
Found at i:42244069 original size:16 final size:16
Alignment explanation
Indices: 42244048--42244080 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42244038 TGAGAAAAGA
42244048 AATCTTGTCCTGGGGC
1 AATCTTGTCCTGGGGC
42244064 AATCTTGTCCTGGGGC
1 AATCTTGTCCTGGGGC
42244080 A
1 A
42244081 GCTGGCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.30
Consensus pattern (16 bp):
AATCTTGTCCTGGGGC
Found at i:42259218 original size:64 final size:64
Alignment explanation
Indices: 42259101--42259224 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 64
42259091 CATTAAGAGC
* * * ** * *
42259101 CATATATCGGGACGCTCATAAAGAGCTGCGGTATGTCTGCATTATATGCAGGATCTATACTAAT
1 CATATAACAGGACGCTCACAAAGAGCTGCGGTATGTCTGCAACACATGCAGGATCAATACTAAT
* * *
42259165 CATATAACAGGACGCTTACAAAGAGCTGCGGTATAT-TCGCAACACATGTAGGATCAATAC
1 CATATAACAGGACGCTCACAAAGAGCTGCGGTATGTCT-GCAACACATGCAGGATCAATAC
42259225 CGATTGGGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
63 1 0.02
64 48 0.98
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (64 bp):
CATATAACAGGACGCTCACAAAGAGCTGCGGTATGTCTGCAACACATGCAGGATCAATACTAAT
Found at i:42261538 original size:12 final size:12
Alignment explanation
Indices: 42261523--42261554 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
42261513 TTTTCTCAAT
42261523 TTTTCCTTCCCA
1 TTTTCCTTCCCA
42261535 TTTTCCTTCCCA
1 TTTTCCTTCCCA
42261547 TTTTCCTT
1 TTTTCCTT
42261555 TTTGTTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTCCTTCCCA
Found at i:42278111 original size:64 final size:64
Alignment explanation
Indices: 42277993--42278122 Score: 143
Period size: 64 Copynumber: 2.0 Consensus size: 64
42277983 TCATTAAGAG
* * * * * ** * * *
42277993 TCATATATCGGGACGCTCATAAAGAGTTGCGGTATATCTGCATTATATGTAGGATCCATACCGA
1 TCATATAACAGGACGCTCACAAAGAGCTGCGGTATATCAGCAACACATGCAGGATCAATACCGA
* * *
42278057 TCATATAACAGGATGCTCACAAAGAGCTGTGGTATATCAGCAACACATGCAGGATCAATACTGA
1 TCATATAACAGGACGCTCACAAAGAGCTGCGGTATATCAGCAACACATGCAGGATCAATACCGA
42278121 TC
1 TC
42278123 GGGATGCTCG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (64 bp):
TCATATAACAGGACGCTCACAAAGAGCTGCGGTATATCAGCAACACATGCAGGATCAATACCGA
Found at i:42284017 original size:17 final size:18
Alignment explanation
Indices: 42283995--42284035 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
42283985 AGTTAAAATG
42283995 TAATTT-TATTATTT-TAA
1 TAATTTATATT-TTTATAA
42284012 TAATTTATATTTTTATAA
1 TAATTTATATTTTTATAA
42284030 -AATTTA
1 TAATTTA
42284036 AAAGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTTATATTTTTATAA
Found at i:42288337 original size:16 final size:17
Alignment explanation
Indices: 42288305--42288337 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42288295 AAATGGCACC
*
42288305 TCAATTCAAACACCAAA
1 TCAATCCAAACACCAAA
42288322 TCAATCCAAA-ACCAAA
1 TCAATCCAAACACCAAA
42288338 GCTATGTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (17 bp):
TCAATCCAAACACCAAA
Found at i:42289134 original size:36 final size:36
Alignment explanation
Indices: 42289019--42289134 Score: 137
Period size: 35 Copynumber: 3.2 Consensus size: 36
42289009 GGTGCCTAAT
* *
42289019 GGATAAATCGTAACAAAGTTTTGCACCCAGCACTAGTC
1 GGATAAATCG--ACAAAGATTTGCACCTAGCACTAGTC
* *
42289057 GGATAAACCGACAATAGATGTGC-CCT-GCACTAGTC
1 GGATAAATCGACAA-AGATTTGCACCTAGCACTAGTC
* *
42289092 GAATAAATCGACAAAGATTTGCACCTAGCGCTAGTC
1 GGATAAATCGACAAAGATTTGCACCTAGCACTAGTC
42289128 GGATAAA
1 GGATAAA
42289135 CTGATAGTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
34 7 0.11
35 24 0.36
36 20 0.30
37 6 0.09
38 9 0.14
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (36 bp):
GGATAAATCGACAAAGATTTGCACCTAGCACTAGTC
Found at i:42292263 original size:19 final size:19
Alignment explanation
Indices: 42292225--42292265 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
42292215 AAAATTTTAA
* *
42292225 AATATTTTTCATAATGTTT
1 AATATTTTTAATAATATTT
*
42292244 AATATTTTTAATGATATTT
1 AATATTTTTAATAATATTT
42292263 AAT
1 AAT
42292266 TTTGAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
AATATTTTTAATAATATTT
Found at i:42295408 original size:3 final size:3
Alignment explanation
Indices: 42295400--42295428 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42295390 TAATTGATTA
42295400 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
42295429 ATCATTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:42295961 original size:80 final size:80
Alignment explanation
Indices: 42295818--42295968 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 80
42295808 TGTGATAGAT
* ** * *
42295818 TAAAATTTGTATATACGATTGAATTTAGTCAATTGAGTATTAGTTCGATTGGTATGGATATTGTT
1 TAAAATTTGTATATACAATTGAATTTAGTCAATTGAGTATTAACTCGATTGGCATGGACATTGTT
*
42295883 GTCAATGTAAGAGAA
66 GCCAATGTAAGAGAA
* * * *
42295898 TAAATTTTTTATATACAATTGAATTTGGTCGATTGAGTATTAACTCGATTGGCATGGACATTGTT
1 TAAAATTTGTATATACAATTGAATTTAGTCAATTGAGTATTAACTCGATTGGCATGGACATTGTT
42295963 GCCAAT
66 GCCAAT
42295969 ACAGGAGGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
TAAAATTTGTATATACAATTGAATTTAGTCAATTGAGTATTAACTCGATTGGCATGGACATTGTT
GCCAATGTAAGAGAA
Found at i:42296869 original size:18 final size:17
Alignment explanation
Indices: 42296838--42296871 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
42296828 AGAGAAATGC
42296838 AAAAAAAAAAAAAGAAT
1 AAAAAAAAAAAAAGAAT
*
42296855 AAAAAAGAAAGAAAGAA
1 AAAAAA-AAAAAAAGAA
42296872 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAT
Found at i:42298254 original size:16 final size:16
Alignment explanation
Indices: 42298223--42298256 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42298213 TTCATACATG
*
42298223 TTCAAAACATACCATA
1 TTCAAAACAAACCATA
*
42298239 TTCAAAACAAATCATA
1 TTCAAAACAAACCATA
42298255 TT
1 TT
42298257 ATATAAACAT
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:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (16 bp):
TTCAAAACAAACCATA
Found at i:42305427 original size:4 final size:4
Alignment explanation
Indices: 42305413--42305443 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
42305403 ACAGGCACCC
42305413 ATGG CATGG ATGG ATGG ATGG ATGG ATGG AT
1 ATGG -ATGG ATGG ATGG ATGG ATGG ATGG AT
42305444 TGTTAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.03, G:0.45, T:0.26
Consensus pattern (4 bp):
ATGG
Found at i:42312167 original size:24 final size:23
Alignment explanation
Indices: 42312127--42312171 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
42312117 TCAAAGGTTT
*
42312127 AAAGACCTAAATAGTAAATAAGA
1 AAAGACCAAAATAGTAAATAAGA
*
42312150 AAAGATCCAAAATGGTAAATAA
1 AAAGA-CCAAAATAGTAAATAA
42312172 ACCATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (23 bp):
AAAGACCAAAATAGTAAATAAGA
Found at i:42312806 original size:13 final size:13
Alignment explanation
Indices: 42312788--42312819 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
42312778 CGAGTTAGTA
42312788 AATATTATTTAAT
1 AATATTATTTAAT
42312801 AATATTATTTAAT
1 AATATTATTTAAT
42312814 AATATT
1 AATATT
42312820 TAAGAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTATTTAAT
Found at i:42315939 original size:16 final size:16
Alignment explanation
Indices: 42315918--42315951 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42315908 ATTATTTAAT
42315918 AATATCAAAGATTCTC
1 AATATCAAAGATTCTC
*
42315934 AATATCAAATATTCTC
1 AATATCAAAGATTCTC
42315950 AA
1 AA
42315952 CACTCTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (16 bp):
AATATCAAAGATTCTC
Found at i:42324460 original size:43 final size:43
Alignment explanation
Indices: 42324391--42324519 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
42324381 GGCTCGTACA
* * *
42324391 ATGCCAACGTCCCGGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
* *
42324434 ATGCC-ACTGTCCCAGACATGGCCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAACACATA-TCG
* *
42324477 ATGCCAACATCCCAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
42324520 GAATCCTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 3 0.04
43 67 0.92
44 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:42327493 original size:92 final size:92
Alignment explanation
Indices: 42327383--42328147 Score: 1235
Period size: 92 Copynumber: 8.3 Consensus size: 92
42327373 GTTTTATACA
* * * *
42327383 TTGCCGAATTAATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATATATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
*
42327448 CGAAATTGATTTGTATATAAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
* *
42327475 TTGTCAAATTGATTCGTATATGATTATACATTTG-TGAAATTTATTTGTATATGGTTATACATTA
1 TTGCCGAATTGATTCGTATATGATTATACA-TTGCTGAAATTTATTTGTATATGGTTATACATTA
*
42327539 TCGAAATTGATTTGTAAATGAAGATAAG
65 TCGAAATTGATTTGTATATGAAGATAAG
* * *
42327567 TTGTCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTACATGGTTATACATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
42327632 CGAAATTGATTTGTATATGAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
*
42327659 TTGCCGAATTGATTCGTATATGATTATACTTTGCTGAAATTTATTTGTATATGGTTATACATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
* * *
42327724 CAAAATTTATTTGTATATGAAGATAAA
66 CGAAATTGATTTGTATATGAAGATAAG
* * *
42327751 TTGCTGAATTGATTCGTATATGATTATACTTTGCTGAAATATATTTGTATATGGTTATACATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
*
42327816 CGAAATTGATTTGTAAATGAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
42327843 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
*
42327908 CGAAATTGATTTGTAAATGAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
** ** * *
42327935 TTGTTGAATTGATTCGTATACAATTATACATTGCTAAAATTTATTTGTATATGGTTATGCATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
42328000 CGAAATTGATTTGTATATGAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
* * *
42328027 TTGCCGAATTGATTCGTATATGATTATACTTTGCTAAAATTTATGTGTATATGGTTATACATTAT
1 TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
42328092 CGAAATTGATTTGTATATGAAGATAAG
66 CGAAATTGATTTGTATATGAAGATAAG
*
42328119 TTGCCGAATTTGATTCGTATATGAATATA
1 TTGCCGAA-TTGATTCGTATATGATTATA
42328148 TATATTGTTG
Statistics
Matches: 627, Mismatches: 43, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
91 3 0.00
92 602 0.96
93 22 0.04
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (92 bp):
TTGCCGAATTGATTCGTATATGATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
CGAAATTGATTTGTATATGAAGATAAG
Found at i:42327947 original size:30 final size:31
Alignment explanation
Indices: 42327448--42328143 Score: 213
Period size: 31 Copynumber: 22.7 Consensus size: 31
42327438 TATATATTAT
* * *
42327448 CGAAATTGATTTGTATATAAAGATA-AGTTGT
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * **
42327479 C-AAATTGATTCGTATATGATTATACATTTG-
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * * *** **
42327509 TGAAATTTATTTGTATATGGTTATACATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
*
42327540 CGAAATTGATTTGTAAATGAAGATA-AGTTGT
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * *
42327571 CG-AATTGATTCGTATAT-AATTATACATTGC
1 CGAAATTGATTTGTAAATGAA-GATACATTGC
* * * *** **
42327601 TGAAATTTATTTGTACATGGTTATACATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
*
42327632 CGAAATTGATTTGTATATGAAGATA-AGTTGC
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * ** *
42327663 CG-AATTGATTCGTATATGATTATACTTTGC
1 CGAAATTGATTTGTAAATGAAGATACATTGC
* * * *** **
42327693 TGAAATTTATTTGTATATGGTTATACATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
* * * *
42327724 CAAAATTTATTTGTATATGAAGATAAATTGC
1 CGAAATTGATTTGTAAATGAAGATACATTGC
* * * ** *
42327755 TG-AATTGATTCGTATATGATTATACTTTGC
1 CGAAATTGATTTGTAAATGAAGATACATTGC
* * *** **
42327785 TGAAATAT-ATTTGTATATGGTTATACATTAT
1 CGAAAT-TGATTTGTAAATGAAGATACATTGC
42327816 CGAAATTGATTTGTAAATGAAGATA-AGTTGC
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * **
42327847 CG-AATTGATTCGTATATGATTATACATTGC
1 CGAAATTGATTTGTAAATGAAGATACATTGC
* * * *** **
42327877 TGAAATTTATTTGTATATGGTTATACATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
*
42327908 CGAAATTGATTTGTAAATGAAGATA-AGTTGT
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * * * *
42327939 TG-AATTGATTCGTATA-CAATTATACATTGC
1 CGAAATTGATTTGTAAATGAA-GATACATTGC
** * * *** * **
42327969 TAAAATTTATTTGTATATGGTTATGCATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
*
42328000 CGAAATTGATTTGTATATGAAGATA-AGTTGC
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * ** *
42328031 CG-AATTGATTCGTATATGATTATACTTTGC
1 CGAAATTGATTTGTAAATGAAGATACATTGC
** * * * *** **
42328061 TAAAATTTATGTGTATATGGTTATACATTAT
1 CGAAATTGATTTGTAAATGAAGATACATTGC
*
42328092 CGAAATTGATTTGTATATGAAGATA-AGTTGC
1 CGAAATTGATTTGTAAATGAAGATACA-TTGC
* * *
42328123 CGAATTTGATTCGTATATGAA
1 CGAAATTGATTTGTAAATGAA
42328144 TATATATATT
Statistics
Matches: 498, Mismatches: 141, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
29 4 0.01
30 161 0.32
31 332 0.67
32 1 0.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CGAAATTGATTTGTAAATGAAGATACATTGC
Found at i:42328351 original size:43 final size:41
Alignment explanation
Indices: 42328290--42328406 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 41
42328280 TATGTGATCT
42328290 CGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTAAGAAAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGAA-TAAG-AAA
* * * * **
42328333 CGTGTAAGACCATGTCTGGGACGTGGGCATCGTATATGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGAATAAGAAA
* * *
42328374 CGTATAAGACCCTGTCTGGGACAGTGGCATCGA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA
42328407 TATGCGTTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
41 28 0.45
42 3 0.05
43 31 0.50
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGAATAAGAAA
Found at i:42330766 original size:15 final size:15
Alignment explanation
Indices: 42330746--42330782 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
42330736 CAGACTGTGA
42330746 TTGCTTTCTATTTGT
1 TTGCTTTCTATTTGT
42330761 TTGCTTTCTATTTGT
1 TTGCTTTCTATTTGT
42330776 TTGCTTT
1 TTGCTTT
42330783 ATATGGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.14, T:0.68
Consensus pattern (15 bp):
TTGCTTTCTATTTGT
Found at i:42334769 original size:23 final size:23
Alignment explanation
Indices: 42334740--42334838 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
42334730 ATAAGTGCCA
*
42334740 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42334763 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42334786 CACTGAAATGTTGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42334809 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42334832 CACTGAT
1 CACTGAT
42334839 CAATAACACT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:42334807 original size:46 final size:46
Alignment explanation
Indices: 42334740--42334837 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
42334730 ATAAGTGCCA
* *
42334740 CACTGATATGTAGCTGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* * *
42334786 CACTGAAATGTTGCCGAAGCTACCACTGATATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
42334832 CACTGA
1 CACTGA
42334838 TCAATAACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Done.