Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 135 of 141
Found at i:43722462 original size:43 final size:43
Alignment explanation
Indices: 43722379--43722504 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
43722369 CATAAAAACG
* * * * *
43722379 CCGCTAAAGAACATGATCTTTAACGGCGTTT-TCAGTAAAAGCA
1 CCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GGGAAAAGCA
* **
43722422 CCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGAAAAGTG
1 CCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCA
* * *
43722465 CCGATAAATG-TCATGTTCTTTAGTGGTGTTTGTGGGAAAA
1 CCGCTAAA-GATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
43722505 CGCCACTAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 67 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
CCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCA
Found at i:43734710 original size:18 final size:19
Alignment explanation
Indices: 43734687--43734725 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
43734677 CTTGGCCCAT
* *
43734687 TACAGTATCA-ATATTCAG
1 TACAGTAACAGATATGCAG
43734705 TACAGTAACAGATATGCAG
1 TACAGTAACAGATATGCAG
43734724 TA
1 TA
43734726 TCAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
TACAGTAACAGATATGCAG
Found at i:43735087 original size:247 final size:247
Alignment explanation
Indices: 43734648--43735136 Score: 798
Period size: 247 Copynumber: 2.0 Consensus size: 247
43734638 TTAGCCCATT
*
43734648 ACAATACAGAAGCAGTCATGCATTTGGGCCTTGGCCCATTACAGTATCAATATTCAGTACAGTAA
1 ACAATACAGAAGCAGTCATGCATTTGGGCCTTGGCCCATTACAGTATCAATACTCAGTACAGTAA
* * * *
43734713 CAGATATGCAGTATCAAATCCTACCCAACTAGCCTCTACACTCCAACTCTATCTAACCCTACACT
66 CAGATATGCAGTATCAAATCCTACACAACCAGCCTCTACACTCCAACTCCATCCAACCCTACACT
* *
43734778 CCATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAAAAGTACCAAATCCGGCACTAGA
131 CCATGTGAGGATATAATCAACCCACCCATCCCTACACTCCAAAAAGAACCAAATCCGGCACTAGA
*
43734843 TAGTGGTTTGCAGTTGAACTGCCAGTAAATTAGGCTCGAGGCCTTTCTCCGA
196 TAGTGGTTTGCAGCTGAACTGCCAGTAAATTAGGCTCGAGGCCTTTCTCCGA
* *
43734895 ACAATACATAAGCAGTCATGCATTTGGGCCTTGGCCCATTACAGTATCAATACTCAGTACCGTAA
1 ACAATACAGAAGCAGTCATGCATTTGGGCCTTGGCCCATTACAGTATCAATACTCAGTACAGTAA
* *
43734960 CAGATATGCAGTATCAAATCCTACACAGCCAGCCTCTACACTCCAACTCCGTCCAACCCTACACT
66 CAGATATGCAGTATCAAATCCTACACAACCAGCCTCTACACTCCAACTCCATCCAACCCTACACT
* * ** **
43735025 CCATGTGAGGATATAATCAACCCACCCATCCTTACCCTCCAAAAAGAACTGAATGTGGCACTAGA
131 CCATGTGAGGATATAATCAACCCACCCATCCCTACACTCCAAAAAGAACCAAATCCGGCACTAGA
* *
43735090 TAGTGGTTTGCAGCTGAGCTGCCTGTAAATTAGGCTCGAGGCCTTTC
196 TAGTGGTTTGCAGCTGAACTGCCAGTAAATTAGGCTCGAGGCCTTTC
43735137 AGTGCACTTC
Statistics
Matches: 222, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
247 222 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (247 bp):
ACAATACAGAAGCAGTCATGCATTTGGGCCTTGGCCCATTACAGTATCAATACTCAGTACAGTAA
CAGATATGCAGTATCAAATCCTACACAACCAGCCTCTACACTCCAACTCCATCCAACCCTACACT
CCATGTGAGGATATAATCAACCCACCCATCCCTACACTCCAAAAAGAACCAAATCCGGCACTAGA
TAGTGGTTTGCAGCTGAACTGCCAGTAAATTAGGCTCGAGGCCTTTCTCCGA
Found at i:43743146 original size:34 final size:35
Alignment explanation
Indices: 43743108--43743183 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 35
43743098 ACTTTAAATG
43743108 TTTAAATGTTTATGTAAGTTATGATAATC-TTAAC
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAAC
* *
43743142 TTTAAATGTTTATTTAAGTTATGATTATCATTAAC
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAAC
43743177 TTTAAAT
1 TTTAAAT
43743184 ATGATTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 27 0.69
35 12 0.31
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (35 bp):
TTTAAATGTTTATGTAAGTTATGATAATCATTAAC
Found at i:43743164 original size:43 final size:43
Alignment explanation
Indices: 43743067--43743153 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
43743057 TTATATTCTC
*
43743067 TAAATGTTTATATAAGTTATGATAATCATTAACTTTAAATGTT
1 TAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATGTT
43743110 TAAATGTTTATGTAAGTTATGATAATC-TTAACTTTAAATGTT
1 TAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATGTT
43743152 TA
1 TA
43743154 TTTAAGTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 17 0.40
43 26 0.60
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (43 bp):
TAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATGTT
Found at i:43743279 original size:59 final size:59
Alignment explanation
Indices: 43743180--43743426 Score: 379
Period size: 59 Copynumber: 4.2 Consensus size: 59
43743170 CATTAACTTT
* *
43743180 AAATATGATTATTTATTTAATTAATCAAAAATTAAATAATTATTCATAAAATTATTATG
1 AAATATGATTATTTATTTAATTAATCAAAAACTAATTAATTATTCATAAAATTATTATG
** * * * *
43743239 AAATATGATTATTTATTTAATTAATTGAAAACTAATTAATTAATAATAGAATTATTATA
1 AAATATGATTATTTATTTAATTAATCAAAAACTAATTAATTATTCATAAAATTATTATG
*
43743298 AAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAAATTATTATG
1 AAATATGATTATTTATTTAATTAATCAAAAACTAATTAATTATTCATAAAATTATTATG
* *
43743357 AAATATGATTATTTATTTAATTATTC-AAAACTTAATTAATTATTCATAGAATTATTATG
1 AAATATGATTATTTATTTAATTAATCAAAAAC-TAATTAATTATTCATAAAATTATTATG
43743416 AAATATGATTA
1 AAATATGATTA
43743427 ATAGTTAAAT
Statistics
Matches: 169, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
58 4 0.02
59 165 0.98
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (59 bp):
AAATATGATTATTTATTTAATTAATCAAAAACTAATTAATTATTCATAAAATTATTATG
Found at i:43743310 original size:118 final size:118
Alignment explanation
Indices: 43743180--43743426 Score: 433
Period size: 118 Copynumber: 2.1 Consensus size: 118
43743170 CATTAACTTT
43743180 AAATATGATTATTTATTTAATTAATCAAAAATTAAATAATTATTCATAAAATTATTATGAAATAT
1 AAATATGATTATTTATTTAATTAATCAAAAATTAAATAATTATTCATAAAATTATTATGAAATAT
*
43743245 GATTATTTATTTAATTAATTGAAAAC-TAATTAATTAATAATAGAATTATTATA
66 GATTATTTATTTAATT-ATTCAAAACTTAATTAATTAATAATAGAATTATTATA
*
43743298 AAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATAT
1 AAATATGATTATTTATTTAATTAATCAAAAATTAAATAATTATTCATAAAATTATTATGAAATAT
* * *
43743363 GATTATTTATTTAATTATTCAAAACTTAATTAATTATTCATAGAATTATTATG
66 GATTATTTATTTAATTATTCAAAACTTAATTAATTAATAATAGAATTATTATA
43743416 AAATATGATTA
1 AAATATGATTA
43743427 ATAGTTAAAT
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
117 8 0.07
118 115 0.93
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (118 bp):
AAATATGATTATTTATTTAATTAATCAAAAATTAAATAATTATTCATAAAATTATTATGAAATAT
GATTATTTATTTAATTATTCAAAACTTAATTAATTAATAATAGAATTATTATA
Found at i:43743338 original size:19 final size:20
Alignment explanation
Indices: 43743314--43743351 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
43743304 GATTATTTAT
43743314 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
43743333 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
43743352 TTATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:43746186 original size:17 final size:18
Alignment explanation
Indices: 43746164--43746206 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43746154 AATGAGATAA
*
43746164 AAATAAATAA-AATAAAT
1 AAATAAATAAGAAAAAAT
43746181 AAATAAATAAGAAAAAAT
1 AAATAAATAAGAAAAAAT
*
43746199 AAACAAAT
1 AAATAAAT
43746207 GACAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAATAAGAAAAAAT
Found at i:43746213 original size:18 final size:18
Alignment explanation
Indices: 43746168--43746214 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
43746158 AGATAAAAAT
* *
43746168 AAATAA-AATAAATAAAT
1 AAATAACAAAAAATAAAC
*
43746185 AAATAAGAAAAAATAAAC
1 AAATAACAAAAAATAAAC
*
43746203 AAATGACAAAAA
1 AAATAACAAAAA
43746215 TCAATAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATAACAAAAAATAAAC
Found at i:43747666 original size:20 final size:20
Alignment explanation
Indices: 43747637--43747676 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43747627 CAAATAGGGC
*
43747637 TAAATTGAAATTAAAAAAAT
1 TAAATGGAAATTAAAAAAAT
43747657 TAAATGGAAATTAAAAAAAT
1 TAAATGGAAATTAAAAAAAT
43747677 AAAAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAATGGAAATTAAAAAAAT
Found at i:43749386 original size:50 final size:50
Alignment explanation
Indices: 43749242--43749388 Score: 132
Period size: 50 Copynumber: 2.9 Consensus size: 50
43749232 ACTGGAATAT
* * * ** *
43749242 CGGGGAAACAAGATTCGCCATCGTAGCTTTAATCTATTCCACTATACTGC
1 CGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTATTCCATTGCAATGC
** * * * * * ** *
43749292 CAAGGAAATAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTATTCCATTGCAATGC
* *
43749342 TGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCATTGCAA
1 CGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTATTCCATTGCAA
43749389 CATCAAGGCG
Statistics
Matches: 71, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (50 bp):
CGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTATTCCATTGCAATGC
Found at i:43749507 original size:44 final size:44
Alignment explanation
Indices: 43749461--43750727 Score: 1373
Period size: 44 Copynumber: 29.7 Consensus size: 44
43749451 TGCTATTTTC
* * ** *
43749461 AACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCATGATCTTC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTT
* *
43749505 AACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTT
* * * * * *
43749549 AATCTATTCCACTGCTGCCCAGAGAGATAGAATTCTCAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
*
43749593 AACCTATTCCAAC-GCTGACCAGAGAGATAGGATTCACAATCTTT
1 AACCTATTCC-ACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43749637 AACCTATTCCACTGCTGTCCAGAGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43749681 AACCTATTCCACTGCTGTCCAGAGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * *
43749725 AACCTATTCCA-TGCTGACTAGCGAGATAGG----GC--TCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * * *
43749762 AATCTATTCCACTGCT-CCCTAGGGAGATAGAATTCTCAATCTTC
1 AACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTT
* * *
43749806 AACTTATCCCACTGCTGACCAGGGAGATAGAATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * *
43749850 AACCTATTCCACTACTGTCCAAGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43749894 AACCTATTCCACTACTGACCAGGGAGATAGG----GC--TCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * ** * *
43749932 AATCTATTCCACTGCT-TCCTAGGGAGATAAAATTCTCAATCTTA
1 AACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTT
43749976 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43750020 AACCTGTTCCACTGCTGTCCAGGGAGATAGG----AC--TCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * * *
43750058 AATCTATTCCACTGCTG-CTTAGGGAGATAGAATTCTCAATCTTC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTT
43750102 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43750146 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCAAAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
*
43750190 AACCTATTCCACTGCTGACCAGGGAGATAGG----GC--TCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* ** * *
43750228 AATCTATTCCACTGCT-ACCTAGGGAGATAAAATTCTCAATCTTC
1 AACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTT
* *
43750272 AGCCTATTCCACTGCTGACCAGGGAAATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
*
43750316 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * *
43750360 AACGTATTCCACTACTGACCAGGGAGATAGG----GC--TTTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * *
43750398 AATCTATTCCACTGCTGACCAAGGAGATAGGATTCTCAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
*
43750442 AACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * *
43750486 AACTTATTCCACTACTGACCAGGGAGATAGG----GC--TCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * * ** *
43750524 AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTTAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43750568 AACCTATTCCACTACTGACCATGGAGATAGGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * * *
43750612 AACCTATTCCTCTACTGTCCAAGGAGATAAGATTCACAATCTTT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * *
43750656 AACCTATTCCACT-TTGTCCAGGGAGATAGGATTCACAATCTCT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
43750699 AACCTATTCCACTGCTGACCAGGGAGATA
1 AACCTATTCCACTGCTGACCAGGGAGATA
43750728 TGGCTGGGGT
Statistics
Matches: 1039, Mismatches: 133, Indels: 102
0.82 0.10 0.08
Matches are distributed among these distances:
37 22 0.02
38 163 0.16
39 1 0.00
40 5 0.00
42 5 0.00
43 58 0.06
44 773 0.74
45 12 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
Found at i:43749770 original size:37 final size:38
Alignment explanation
Indices: 43749720--43749791 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
43749710 GGATTCACAA
*
43749720 TCTTTAACCTATTCCA-TGCTGACTAGCGAGATAGGGC
1 TCTTTAACCTATTCCACTGCTCACTAGCGAGATAGGGC
* * *
43749757 TCTTTAATCTATTCCACTGCTCCCTAGGGAGATAG
1 TCTTTAACCTATTCCACTGCTCACTAGCGAGATAG
43749792 AATTCTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTCACTAGCGAGATAGGGC
Found at i:43749966 original size:126 final size:127
Alignment explanation
Indices: 43749461--43750727 Score: 1144
Period size: 126 Copynumber: 9.9 Consensus size: 127
43749451 TGCTATTTTC
* * ** *
43749461 AACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCATGATCTTCAACCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC
* * * * * *
43749525 AGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTCTCAATC
65 AGGGAGATAGG---TTC--TCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
*
43749590 TTC
125 TTT
* *
43749593 AACCTATTCCAAC-GCTGACCAGAGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCC
1 AACCTATTCC-ACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC
* * * *
43749657 AGAGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGAGAGATAGGATTCACAATC
65 AGGGAGATAGG-TT--C--TCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
43749722 TTT
125 TTT
* * * * *
43749725 AACCTATTCCA-TGCTGACTAGCGAGATAGG----GC--TCTTTAATCTATTCCACTGCT-CCCT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC-
* * *
43749782 AGGGAGATAGAATTCTCAATCTTCAACTTATCCCACTGCTGACCAGGGAGATAGAATTCACAATC
65 AGGGAGATAG-GTTCTC--T-TT-AACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
43749847 TTT
125 TTT
* * * *
43749850 AACCTATTCCACTACTGTCCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * * * * *
43749915 GGGAGATAGG-GCTCTTTAATCTATTCCACTGCT-TCCTAGGGAGATAAAATTCTCAATCTTA
66 GGGAGATAGGTTCTCTTTAACCTATTCCACTGCTGACC-AGGGAGATAGAATTCACAATCTTT
* *
43749976 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTGTTCCACTGCTGTCCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * * * *
43750041 GGGAGATAGG-ACTCTTTAATCTATTCCACTGCTG-CTTAGGGAGATAGAATTCTCAATCTTC
66 GGGAGATAGGTTCTCTTTAACCTATTCCACTGCTGAC-CAGGGAGATAGAATTCACAATCTTT
*
43750102 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
**
43750167 GGGAGATAGGATTCAAAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAG----GGC--TCT
66 GGGAGATAGG-TTC----TCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCT
43750226 TT
126 TT
* ** * * *
43750228 AATCTATTCCACTGCT-ACCTAGGGAGATAAAATTCTCAATCTTCAGCCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC
* * *
43750292 AGGGAAATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
65 AGGGAGATAGG-TT--C--TCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
43750357 TTT
125 TTT
* * * * *
43750360 AACGTATTCCACTACTGACCAGGGAGATAGG----GC--TTTTTAATCTATTCCACTGCTGACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * *
43750419 AGGAGATAGGATTCTCAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCT
66 GGGAGATAGG-TTCTC--T-TT-AACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCT
43750484 TT
126 TT
* * * * * *
43750486 AACTTATTCCACTACTGACCAGGGAGATAGG----GC--TCTTTAATCTATTCCACTACTGCCCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * * * *
43750545 GGGAGATAGAATTCTTAATCTTCAACCTATTCCACTACTGACCATGGAGATAGGATTCACAATCT
66 GGGAGATAG-GTTC----TCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCT
43750610 TT
126 TT
* * * * * * *
43750612 AACCTATTCCTCTACTGTCCAAGGAGATAAGATTCACAATCTTTAACCTATTCCACT-TTGTCCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
*
43750676 GGGAGATAGGATTCACAATCTCTAACCTATTCCACTGCTGACCAGGGAGATA
66 GGGAGATAGG-TT--C--TCTTTAACCTATTCCACTGCTGACCAGGGAGATA
43750728 TGGCTGGGGT
Statistics
Matches: 968, Mismatches: 110, Indels: 115
0.81 0.09 0.10
Matches are distributed among these distances:
121 2 0.00
122 2 0.00
123 2 0.00
124 6 0.01
125 88 0.09
126 552 0.57
127 4 0.00
128 6 0.01
130 9 0.01
131 65 0.07
132 222 0.23
133 10 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (127 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
GGGAGATAGGTTCTCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCTTT
Found at i:43749999 original size:170 final size:171
Alignment explanation
Indices: 43749461--43750727 Score: 1347
Period size: 170 Copynumber: 7.4 Consensus size: 171
43749451 TGCTATTTTC
* * ** *
43749461 AACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCATGATCTTCAACCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGTC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC
* * * *
43749525 AGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTCTCAATC
65 AGGGAGATAGGA-C-ACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAG--GTCTC-ATC
*
43749590 TTCAACCTATTCCAAC-GCTGACCAGAGAGATAGGATTCACAATCTTT
125 TTCAACCTATTCC-ACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43749637 AACCTATTCCACTGCTGTCCAGAGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * * * *
43749702 GAGAGATAGGATTCACAATCTTTAACCTATTCCA-TGCTGACTAGCGAGATAGGGCTC-T-TT-A
66 GGGAGATAGGA--CACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAGGTCTCATCTTCA
* * * * *
43749763 ATCTATTCCACTGCT-CCCTAGGGAGATAGAATTCTCAATCTTC
129 ACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTT
* * * * * *
43749806 AACTTATCCCACTGCTGACCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTACTGTCCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * * *
43749871 AGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGGCTC-T-TT-A
66 GGGAGATAGGA--CACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAGGTCTCATCTTCA
* * ** * *
43749933 ATCTATTCCACTGCT-TCCTAGGGAGATAAAATTCTCAATCTTA
129 ACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTT
* * *
43749976 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTGTTCCACTGCTGTCCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* *
43750041 GGGAGATAGG--AC--TCTTTAATCTATTCCACTGCTG-CTTAGGGAGATAGAATTCTCAATCTT
66 GGGAGATAGGACACAATCTTTAATCTATTCCACTGCTGAC-CAGGGAGATAG--GTCTC-ATCTT
43750101 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
127 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
*
43750146 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCAAAATCTTTAACCTATTCCACTGCTGACCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* **
43750211 GGGAGATAGG--GC--TCTTTAATCTATTCCACTGCT-ACCTAGGGAGATAAAATTCTCAATCTT
66 GGGAGATAGGACACAATCTTTAATCTATTCCACTGCTGACC-AGGGAGAT--AGGTCTC-ATCTT
* *
43750271 CAGCCTATTCCACTGCTGACCAGGGAAATAGGATTCACAATCTTT
127 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43750316 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACGTATTCCACTACTGACCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* * *
43750381 GGGAGATAGG--GC--TTTTTAATCTATTCCACTGCTGACCAAGGAGATAGGATTCTCAATCTTC
66 GGGAGATAGGACACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAGG--TCTC-ATCTTC
*
43750442 AACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTT
128 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* * * * * * *
43750486 AACTTATTCCACTACTGACCAGGGAGATAGG----GC--TCTTTAATCTATTCCACTACTGCCCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
* ** * * * * *
43750545 GGGAGATAGAATTCTTAATCTTCAACCTATTCCACTACTGACCATGGAGATAGGATTCACAATCT
66 GGGAGATAGGA--CACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAGG--TCTC-ATCT
* * * * * *
43750610 TTAACCTATTCCTCTACTGTCCAAGGAGATAAGATTCACAATCTTT
126 TCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
* *
43750656 AACCTATTCCACT-TTGTCCAGGGAGATAGGATTCACAATCTCTAACCTATTCCACTGCTGACCA
1 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
43750720 GGGAGATA
66 GGGAGATA
43750728 TGGCTGGGGT
Statistics
Matches: 958, Mismatches: 101, Indels: 65
0.85 0.09 0.06
Matches are distributed among these distances:
163 1 0.00
164 62 0.06
166 6 0.01
168 6 0.01
169 140 0.15
170 601 0.63
171 6 0.01
172 1 0.00
173 4 0.00
175 45 0.05
176 84 0.09
177 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (171 bp):
AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
GGGAGATAGGACACAATCTTTAATCTATTCCACTGCTGACCAGGGAGATAGGTCTCATCTTCAAC
CTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
Found at i:43750903 original size:79 final size:78
Alignment explanation
Indices: 43750772--43751019 Score: 280
Period size: 79 Copynumber: 3.0 Consensus size: 78
43750762 TAGGAAGGCA
* * *
43750772 AGATCTTCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTATTCGATCTGC
1 AGATCTGCTATTTTTAGCCTGCTCCGCTGCAA-CCATGGAGGCAAGGCTGGTGTCTTCGATCTGC
43750837 TTCGCTGTCGGTGC
65 TTCGCTGTCGGTGC
* * * *
43750851 AGATCTGCTATTTTTAGCCTGCTTCGCTGCAACCAATGGAGACAAGGTTGGTGTCTTCGATTTGC
1 AGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC-ATGGAGGCAAGGCTGGTGTCTTCGATCTGC
* *
43750916 TTCGTTGTCGATGCAGGAAGGC
65 TTCG--CT-G-T-C-GG--TGC
* *
43750938 AAGATCTGATATTTTTAGCCTGCTCCGCTACAATCCATGGAGGCAAGGCTGGTGTCTTCGATCTG
1 -AGATCTGCTATTTTTAGCCTGCTCCGCTGCAA-CCATGGAGGCAAGGCTGGTGTCTTCGATCTG
*
43751003 CTTCACTGTCGGTGC
64 CTTCGCTGTCGGTGC
43751018 AG
1 AG
43751020 GAAGGCAAGA
Statistics
Matches: 140, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
78 2 0.01
79 61 0.44
80 2 0.01
81 1 0.01
82 3 0.02
83 2 0.01
84 2 0.01
85 3 0.02
86 1 0.01
87 2 0.01
88 59 0.42
89 2 0.01
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (78 bp):
AGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCATGGAGGCAAGGCTGGTGTCTTCGATCTGCT
TCGCTGTCGGTGC
Found at i:43751005 original size:88 final size:88
Alignment explanation
Indices: 43750851--43751033 Score: 269
Period size: 88 Copynumber: 2.1 Consensus size: 88
43750841 CTGTCGGTGC
* * * * *
43750851 AGATCTGCTATTTTTAGCCTGCTTCGCTGCAACCAATGGAGACAAGGTTGGTGTCTTCGATTTGC
1 AGATCTGATATTTTTAGCCTGCTCCGCTACAACCAATGGAGACAAGGCTGGTGTCTTCGATCTGC
**
43750916 TTCGTTGTCGATGCAGGAAGGCA
66 TTCACTGTCGATGCAGGAAGGCA
*
43750939 AGATCTGATATTTTTAGCCTGCTCCGCTACAATCC-ATGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AGATCTGATATTTTTAGCCTGCTCCGCTACAA-CCAATGGAGACAAGGCTGGTGTCTTCGATCTG
*
43751003 CTTCACTGTCGGTGCAGGAAGGCA
65 CTTCACTGTCGATGCAGGAAGGCA
43751027 AGATCTG
1 AGATCTG
43751034 CTCTCTGGGG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 83 0.98
89 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (88 bp):
AGATCTGATATTTTTAGCCTGCTCCGCTACAACCAATGGAGACAAGGCTGGTGTCTTCGATCTGC
TTCACTGTCGATGCAGGAAGGCA
Found at i:43757754 original size:17 final size:19
Alignment explanation
Indices: 43757734--43757797 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 19
43757724 GATTACAAAA
43757734 TCATATC-T-TCCAAGATT
1 TCATATCATATCCAAGATT
43757751 TCATATCATATCCAAGATT
1 TCATATCATATCCAAGATT
* *
43757770 GCATATATCATATCTAAGATT
1 TC--ATATCATATCCAAGATT
*
43757791 GCATATC
1 TCATATC
43757798 CTTGAAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.17
18 1 0.02
19 15 0.37
21 18 0.44
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (19 bp):
TCATATCATATCCAAGATT
Found at i:43757766 original size:19 final size:19
Alignment explanation
Indices: 43757742--43757797 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
43757732 AATCATATCT
*
43757742 TCCAAGATTTCATATCATA
1 TCCAAGATTGCATATCATA
43757761 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
43757782 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
43757798 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:43757779 original size:21 final size:21
Alignment explanation
Indices: 43757753--43757796 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
43757743 CCAAGATTTC
43757753 ATATCATATCCAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
*
43757774 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
43757795 AT
1 AT
43757797 CCTTGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTGCAT
Found at i:43763187 original size:48 final size:48
Alignment explanation
Indices: 43763116--43763213 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
43763106 TTTTAAGTCA
43763116 TCCAATTAGTTAATTATCATTATTACATGTAAATCATTCGTTAATCGG
1 TCCAATTAGTTAATTATCATTATTACATGTAAATCATTCGTTAATCGG
43763164 TCCAATTAGTTAATTATCATTATTACATGTAAATCATTCGTTAATCGG
1 TCCAATTAGTTAATTATCATTATTACATGTAAATCATTCGTTAATCGG
43763212 TC
1 TC
43763214 TTACATACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (48 bp):
TCCAATTAGTTAATTATCATTATTACATGTAAATCATTCGTTAATCGG
Found at i:43766629 original size:41 final size:41
Alignment explanation
Indices: 43766561--43766663 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
43766551 CTTAGTGGAT
* *
43766561 TCAGCACTTAGCAACAACC-TTAAATTCAGTGATACAGGGAA
1 TCAGCACATAGCAAC-CCCTTTAAATTCAGTGATACAGGGAA
* *
43766602 TCAGCACATAGCAACCCCTTTATATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCCCTTTAAATTCAGTGATACAGGGAA
43766643 TCAGCACATAGCAACCCCTTT
1 TCAGCACATAGCAACCCCTTT
43766664 CATAATCAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 2 0.04
41 55 0.96
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTAAATTCAGTGATACAGGGAA
Found at i:43770624 original size:20 final size:19
Alignment explanation
Indices: 43770599--43770638 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43770589 CATCTTTAAA
*
43770599 ATCAAATTAAAATGATTTTT
1 ATCAAA-TAAAATAATTTTT
*
43770619 ATCAAATCAAATAATTTTT
1 ATCAAATAAAATAATTTTT
43770638 A
1 A
43770639 AACTAGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (19 bp):
ATCAAATAAAATAATTTTT
Found at i:43770856 original size:103 final size:103
Alignment explanation
Indices: 43770666--43770883 Score: 233
Period size: 103 Copynumber: 2.1 Consensus size: 103
43770656 CCAGGCCAAA
* * * *
43770666 AAGTATCGATACCTTTTTGGCCAATTATTGATATTTTATGAATTATCGATACCCTTATGAAAAGC
1 AAGTATCGATACCTTTTCGGCCAAGTATTGATATTTTATGAAATATCGATACCCTTATGAAAAAC
* *
43770731 AATACCAAAACGACATTATATTTTTCACAAACCCTATT
66 AATACCAAAAAGACATTATATTTCTCACAAACCCTATT
* * * * *
43770769 AAGTATTGATACC-TTTCGGTCAAGTATTGATATTTTTTGAAATATCGATACCCCTTCTTAAAAA
1 AAGTATCGATACCTTTTCGGCCAAGTATTGATATTTTATGAAATATCGATA-CCCTTATGAAAAA
** * * * * **
43770833 TGATACTAAAATAG-CATTCTATTTCTCACAAAACTTACA
65 CAATACCAAAA-AGACATTATATTTCTCACAAACCCTATT
43770872 AAGTATCGATAC
1 AAGTATCGATAC
43770884 AGTATCAATA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
102 32 0.34
103 60 0.65
104 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (103 bp):
AAGTATCGATACCTTTTCGGCCAAGTATTGATATTTTATGAAATATCGATACCCTTATGAAAAAC
AATACCAAAAAGACATTATATTTCTCACAAACCCTATT
Found at i:43771900 original size:17 final size:17
Alignment explanation
Indices: 43771851--43771904 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
43771841 TGTCCTTAAG
43771851 CAAACT-AAAC-GAAAA
1 CAAACTAAAACTGAAAA
*
43771866 CAAAATAAAAACCTGAAAA
1 CAAACT-AAAA-CTGAAAA
*
43771885 TAAACTAAAACTGAAAA
1 CAAACTAAAACTGAAAA
43771902 CAA
1 CAA
43771905 GAAATAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 5 0.16
17 12 0.39
18 5 0.16
19 9 0.29
ACGTcount: A:0.67, C:0.17, G:0.06, T:0.11
Consensus pattern (17 bp):
CAAACTAAAACTGAAAA
Found at i:43772656 original size:12 final size:11
Alignment explanation
Indices: 43772639--43772672 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43772629 ATCATGAATG
43772639 CTTTTCATTTC
1 CTTTTCATTTC
*
43772650 TCTTTTCCTTTC
1 -CTTTTCATTTC
43772662 CTTTTCATTTC
1 CTTTTCATTTC
43772673 ATTAATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (11 bp):
CTTTTCATTTC
Found at i:43782312 original size:32 final size:31
Alignment explanation
Indices: 43782267--43782326 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
43782257 TTTCTAAAGG
* * *
43782267 TATGTTATATATATGTATGTGTATGTGTTTT
1 TATGGTATATATATCTATGTCTATGTGTTTT
*
43782298 TATGGTATAATATATCTATTTCTATGTGT
1 TATGGTAT-ATATATCTATGTCTATGTGT
43782327 GTGGGACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 7 0.29
32 17 0.71
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (31 bp):
TATGGTATATATATCTATGTCTATGTGTTTT
Found at i:43787101 original size:27 final size:26
Alignment explanation
Indices: 43786867--43787099 Score: 322
Period size: 27 Copynumber: 8.7 Consensus size: 26
43786857 GTAATGGGCC
43786867 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
*
43786894 TAAAATGACCGAAATACCCCCGAATGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
*
43786921 TAAAATGACCGAAATACCCCGAGGGG
1 TAAAATGACCGAAATACCCCGAAGGG
*
43786947 TAAAATGGCCGAAATACCCCTGAAGGG
1 TAAAATGACCGAAATACCCC-GAAGGG
* *
43786974 TAAAATGACCAAAATACCCCAGAAGAG
1 TAAAATGACCGAAATACCCC-GAAGGG
*
43787001 TAAAATGACCGAAACACCCCTGAAGGG
1 TAAAATGACCGAAATACCCC-GAAGGG
*
43787028 TAAAATGACCAAAATACCCCCGAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
*
43787055 TAAAATGACTGAAATACCTCCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
*
43787082 TAAAATGACTGAAATACC
1 TAAAATGACCGAAATACC
43787100 TCTAGGAGTT
Statistics
Matches: 185, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
26 29 0.16
27 149 0.81
28 7 0.04
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:43789069 original size:16 final size:16
Alignment explanation
Indices: 43789045--43789079 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
43789035 TTTTTTATCA
43789045 AAAACAAAATATTTTC
1 AAAACAAAATATTTTC
*
43789061 AAAATAAAATATTTTC
1 AAAACAAAATATTTTC
43789077 AAA
1 AAA
43789080 CTAATAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAACAAAATATTTTC
Found at i:43804088 original size:15 final size:15
Alignment explanation
Indices: 43804068--43804111 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
43804058 TCAATCAAAT
43804068 CATACTTATAGTGAC
1 CATACTTATAGTGAC
43804083 CATACTTATAGTGAC
1 CATACTTATAGTGAC
43804098 CATACTTATAGTGA
1 CATACTTATAGTGA
43804112 ACATCTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (15 bp):
CATACTTATAGTGAC
Found at i:43807870 original size:50 final size:50
Alignment explanation
Indices: 43807818--43808102 Score: 363
Period size: 50 Copynumber: 5.7 Consensus size: 50
43807808 TACTGCCTAT
* * * * ** * * * *
43807818 GCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCTAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* ** * * *
43807868 GCCATGTCCCAGACACGGTCTTACGGGGGACCTCTCATCTTGGCGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * *
43807918 GCCATGTCCCAAACATGGTCTTACATGGGACATGTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
43807968 ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
43808018 GTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
43808068 GCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43808103 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 204 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:43813981 original size:20 final size:20
Alignment explanation
Indices: 43813958--43814010 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
43813948 ACCCTTTCAA
*
43813958 ATTTTCTTA-TTTTCATTTGC
1 ATTTTCTTACTTTCCA-TTGC
43813978 A-TTTCATTACTTTCCATTGC
1 ATTTTC-TTACTTTCCATTGC
*
43813998 ATTTTCTTTCTTT
1 ATTTTCTTACTTT
43814011 AGCTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTCTTACTTTCCATTGC
Found at i:43814678 original size:25 final size:26
Alignment explanation
Indices: 43814650--43814770 Score: 93
Period size: 25 Copynumber: 4.7 Consensus size: 26
43814640 TGTACATATA
*
43814650 TGCTCACACGAGCTATGAATATGCG-
1 TGCTCACACGAGCTATGAAAATGCGC
* * * *
43814675 TGCTTACATGAGCTGTGAAAATGGGTC
1 TGCTCACACGAGCTATGAAAATGCG-C
* * *
43814702 TACTCACACGAGATATGAATATGCG-
1 TGCTCACACGAGCTATGAAAATGCGC
** * *
43814727 TGCTCACATAAGCTGTGAAAATGGGTC
1 TGCTCACACGAGCTATGAAAATGCG-C
*
43814754 TGCTCAGACGAGCTATG
1 TGCTCACACGAGCTATG
43814771 GGTCAGAATG
Statistics
Matches: 69, Mismatches: 23, Indels: 6
0.70 0.23 0.06
Matches are distributed among these distances:
25 38 0.55
27 31 0.45
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
TGCTCACACGAGCTATGAAAATGCGC
Found at i:43814730 original size:52 final size:52
Alignment explanation
Indices: 43814652--43814770 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
43814642 TACATATATG
* *
43814652 CTCACACGAGCTATGAATATGCGTGCTTACATGAGCTGTGAAAATGGGTCTA
1 CTCACACGAGCTATGAATATGCGTGCTCACATAAGCTGTGAAAATGGGTCTA
* *
43814704 CTCACACGAGATATGAATATGCGTGCTCACATAAGCTGTGAAAATGGGTCTG
1 CTCACACGAGCTATGAATATGCGTGCTCACATAAGCTGTGAAAATGGGTCTA
*
43814756 CTCAGACGAGCTATG
1 CTCACACGAGCTATG
43814771 GGTCAGAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (52 bp):
CTCACACGAGCTATGAATATGCGTGCTCACATAAGCTGTGAAAATGGGTCTA
Found at i:43819061 original size:31 final size:31
Alignment explanation
Indices: 43819026--43819101 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
43819016 AAATTTTGTT
*
43819026 ATTTTAATCACTCTTATTAGATAAGTTGTCA
1 ATTTTAGTCACTCTTATTAGATAAGTTGTCA
43819057 ATTTTAGTCACTCTTATTAGATAAGTTGTCA
1 ATTTTAGTCACTCTTATTAGATAAGTTGTCA
43819088 ATTTTAGTCACTCT
1 ATTTTAGTCACTCT
43819102 AAGTCACTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (31 bp):
ATTTTAGTCACTCTTATTAGATAAGTTGTCA
Found at i:43827927 original size:16 final size:17
Alignment explanation
Indices: 43827900--43827931 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43827890 ATAATGATAT
43827900 AAATTAATATATTAGTG
1 AAATTAATATATTAGTG
43827917 AAATT-ATATATTAGT
1 AAATTAATATATTAGT
43827932 TTTTATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTAATATATTAGTG
Found at i:43828615 original size:15 final size:15
Alignment explanation
Indices: 43828595--43828625 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43828585 TATATTTATG
*
43828595 TATGAAATTATAATA
1 TATGAAATTAAAATA
43828610 TATGAAATTAAAATA
1 TATGAAATTAAAATA
43828625 T
1 T
43828626 CAAAAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
TATGAAATTAAAATA
Found at i:43840959 original size:26 final size:26
Alignment explanation
Indices: 43840930--43840979 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
43840920 GATACAAACG
43840930 TATACCTATAAAATAAATCTATATTC
1 TATACCTATAAAATAAATCTATATTC
** *
43840956 TATATGTTTAAAATAAATCTATAT
1 TATACCTATAAAATAAATCTATAT
43840980 GTTATCCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (26 bp):
TATACCTATAAAATAAATCTATATTC
Found at i:43842269 original size:78 final size:78
Alignment explanation
Indices: 43842119--43842302 Score: 230
Period size: 78 Copynumber: 2.4 Consensus size: 78
43842109 AATTCAACTA
*
43842119 AACAATTCTGTTTCAGGATTTTATTCCTGCAATTTAACAGGATTTGTTCGATTTTTGTTTCAAAC
1 AACAATTCTGTTTCAGGATTTTATTCCTGCAATTTAACAGGATTTGTTCAATTTTTGTTTCAAAC
*
43842184 AAAAAATCTATTG
66 AAAAAATCGATTG
* ** *
43842197 AACAATTCTGTTTTAGGATTTTATTTTTGTC-ATTTAATAGGATTTGTTCAATTTCTTGTTTCAA
1 AACAATTCTGTTTCAGGATTTTATTCCTG-CAATTTAACAGGATTTGTTCAATTT-TTGTTTCAA
* *
43842261 A-TAGAAATCGATTG
64 ACAAAAAATCGATTG
* *
43842275 AACAATTATGTTTCAAGATTCTT-TTCCT
1 AACAATTCTGTTTCAGGATT-TTATTCCT
43842303 ATCATTCAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
78 77 0.86
79 13 0.14
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (78 bp):
AACAATTCTGTTTCAGGATTTTATTCCTGCAATTTAACAGGATTTGTTCAATTTTTGTTTCAAAC
AAAAAATCGATTG
Found at i:43845041 original size:20 final size:21
Alignment explanation
Indices: 43845002--43845042 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
43844992 ATTCGAAATT
43845002 AAATCAAAACAAAATAGAAAA
1 AAATCAAAACAAAATAGAAAA
* *
43845023 AAATTAAAA-AAAATTGAAAA
1 AAATCAAAACAAAATAGAAAA
43845043 TTTGAAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATCAAAACAAAATAGAAAA
Found at i:43846414 original size:40 final size:40
Alignment explanation
Indices: 43846364--43846554 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
43846354 AATGGAATCG
* * * *
43846364 AAGTGCAAACAGGGGAAAAAATGTGCATTCAGGGACACCA
1 AAGTACAAACAGGGGCACATATGTGCATTCAGGGACACCA
* * * * *
43846404 AAGTAAAAACAGGGGTAGATATGTGCATTCAGGGGCACCG
1 AAGTACAAACAGGGGCACATATGTGCATTCAGGGACACCA
* **
43846444 AAGTGCAAACAGGGGCACATATGTGCATTCAGGGACACTG
1 AAGTACAAACAGGGGCACATATGTGCATTCAGGGACACCA
* ** * *
43846484 AAGTGCAAACAGGGGCATGTATGTGCGTTCAAGGG-TACCA
1 AAGTACAAACAGGGGCACATATGTGCATTC-AGGGACACCA
43846524 AAGTACAAACAGGGGCACATATGTGCATTCA
1 AAGTACAAACAGGGGCACATATGTGCATTCA
43846555 ATAGTAGTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 122 0.96
41 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACATATGTGCATTCAGGGACACCA
Found at i:43846436 original size:20 final size:20
Alignment explanation
Indices: 43846413--43846477 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
43846403 AAAGTAAAAA
*
43846413 CAGGGGTAGATATGTGCATT
1 CAGGGGCAGATATGTGCATT
**
43846433 CAGGGGCACCGA-A-GTGCAAA
1 CAGGGGCA--GATATGTGCATT
*
43846453 CAGGGGCACATATGTGCATT
1 CAGGGGCAGATATGTGCATT
43846473 CAGGG
1 CAGGG
43846478 ACACTGAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.86
21 1 0.03
22 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.35, T:0.18
Consensus pattern (20 bp):
CAGGGGCAGATATGTGCATT
Found at i:43846452 original size:80 final size:80
Alignment explanation
Indices: 43846362--43846554 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 80
43846352 TCAATGGAAT
* * * *
43846362 CGAAGTGCAAACAGGGGAAAAAATGTGCATTCAGGGACACCAAAGTAAAAACAGGGGTA-GATAT
1 CGAAGTGCAAACAGGGGCACATATGTGCATTCAGGGACACCAAAGTAAAAACAGGGGCATG-TAT
*
43846426 GTGCATTCAGGGGCAC
65 GTGCATTCAAGGGCAC
** **
43846442 CGAAGTGCAAACAGGGGCACATATGTGCATTCAGGGACACTGAAGTGCAAACAGGGGCATGTATG
1 CGAAGTGCAAACAGGGGCACATATGTGCATTCAGGGACACCAAAGTAAAAACAGGGGCATGTATG
* *
43846507 TGCGTTCAAGGGTAC
66 TGCATTCAAGGGCAC
* *
43846522 CAAAGTACAAACAGGGGCACATATGTGCATTCA
1 CGAAGTGCAAACAGGGGCACATATGTGCATTCA
43846555 ATAGTAGTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 98 0.99
81 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (80 bp):
CGAAGTGCAAACAGGGGCACATATGTGCATTCAGGGACACCAAAGTAAAAACAGGGGCATGTATG
TGCATTCAAGGGCAC
Found at i:43846489 original size:20 final size:20
Alignment explanation
Indices: 43846426--43846500 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
43846416 GGGTAGATAT
*
43846426 GTGCATTCAGGGGCACCGAA
1 GTGCATTCAGGGGCACTGAA
** *
43846446 GTGCAAACAGGGGCACAT-AT
1 GTGCATTCAGGGGCAC-TGAA
*
43846466 GTGCATTCAGGGACACTGAA
1 GTGCATTCAGGGGCACTGAA
**
43846486 GTGCAAACAGGGGCA
1 GTGCATTCAGGGGCA
43846501 TGTATGTGCG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (20 bp):
GTGCATTCAGGGGCACTGAA
Found at i:43846509 original size:20 final size:20
Alignment explanation
Indices: 43846446--43846509 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
43846436 GGGCACCGAA
**
43846446 GTGCAAACAGGGGCACATAT
1 GTGCAAACAGGGGCATGTAT
** * *
43846466 GTGCATTCAGGGACACTG-AA
1 GTGCAAACAGGGGCA-TGTAT
43846486 GTGCAAACAGGGGCATGTAT
1 GTGCAAACAGGGGCATGTAT
43846506 GTGC
1 GTGC
43846510 GTTCAAGGGT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.19
Consensus pattern (20 bp):
GTGCAAACAGGGGCATGTAT
Found at i:43846555 original size:40 final size:40
Alignment explanation
Indices: 43846316--43846555 Score: 209
Period size: 40 Copynumber: 6.0 Consensus size: 40
43846306 TGCATAAAAG
* * *
43846316 GGGCACCAAAGTGCAATCAGGAGCACGA-ATGTGTGA-TCAA
1 GGGCACCAAAGTGCAAACAGGGGCAC-ATATGTG-CATTCAA
* * * * * * *
43846356 TGGAATCGAAGTGCAAACAGGGGAAAAAATGTGCATTC-A
1 GGGCACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
** * * *
43846395 GGGACACCAAAGTAAAAACAGGGGTAGATATGTGCATTCAG
1 GGG-CACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
*
43846436 GGGCACCGAAGTGCAAACAGGGGCACATATGTGCATTC-A
1 GGGCACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
** ** *
43846475 GGGACACTGAAGTGCAAACAGGGGCATGTATGTGCGTTCAA
1 GGG-CACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
* *
43846516 GGGTACCAAAGTACAAACAGGGGCACATATGTGCATTCAA
1 GGGCACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
43846556 TAGTAGTTTC
Statistics
Matches: 158, Mismatches: 36, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
39 8 0.05
40 143 0.91
41 7 0.04
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (40 bp):
GGGCACCAAAGTGCAAACAGGGGCACATATGTGCATTCAA
Found at i:43846941 original size:17 final size:18
Alignment explanation
Indices: 43846903--43846941 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
43846893 AATATAATTT
*
43846903 ATTTCATTTATTAGCTTAA
1 ATTTCATATATTAGC-TAA
43846922 ATTTCATATATTAG-TAA
1 ATTTCATATATTAGCTAA
43846939 ATT
1 ATT
43846942 CTAAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTTCATATATTAGCTAA
Found at i:43847475 original size:13 final size:13
Alignment explanation
Indices: 43847454--43847487 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43847444 GAGATAATAG
*
43847454 TTTTGATTTATAT
1 TTTTTATTTATAT
*
43847467 TTTTTATTTATGT
1 TTTTTATTTATAT
43847480 TTTTTATT
1 TTTTTATT
43847488 AATTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:43850195 original size:478 final size:478
Alignment explanation
Indices: 43849299--43850258 Score: 1832
Period size: 478 Copynumber: 2.0 Consensus size: 478
43849289 GGATATTTTT
*
43849299 TTACATTGGGAGGAGGAGTTGTGTCATGGAAATCCTCAAAACAAATGATTATAACCAGATCTACA
1 TTACATTGGGAGGAGGAGTTGTGTCATGGAAATCCTCAAAACAAACGATTATAACCAGATCTACA
*
43849364 ATAGAATCTAAGTTTGTAGCTCTAGACAAATCTAGAGAAGAGGCTAAACAGATTCGAAACTTCTT
66 ATAGAATCTAAGTTTGTAGCTCTAGACAAATCTAGAGAAGAGGCTAAACAGATTCAAAACTTCTT
43849429 GGAGGATATTCCTAACTGGCCAAAGCCTATGCCCACAATATGCATATATTGTGATAACTAAGAAA
131 GGAGGATATTCCTAACTGGCCAAAGCCTATGCCCACAATATGCATATATTGTGATAACTAAGAAA
43849494 CAATTGGTAGAGCACAGAATGTAATGTATAATGGTAAGTTGAGACATATGCGTCATCGACACAGT
196 CAATTGGTAGAGCACAGAATGTAATGTATAATGGTAAGTTGAGACATATGCGTCATCGACACAGT
43849559 ACCGTTAGACAACTGATCTCAAATGGAGTTATCTCTATTTATTTTGTAAAATAAAAAGATAACAT
261 ACCGTTAGACAACTGATCTCAAATGGAGTTATCTCTATTTATTTTGTAAAATAAAAAGATAACAT
43849624 TGCGAATCTGCTAACTAAAGGATTAAATTGAGATTAGGTTGATAAAACCATCAAAAGGATGGGAC
326 TGCGAATCTGCTAACTAAAGGATTAAATTGAGATTAGGTTGATAAAACCATCAAAAGGATGGGAC
43849689 TAAAGCCCATGAAAATTAAAGGTTCTATGTGAAGGAAAACCCAACCTAGTTGACTGGAGATCCCA
391 TAAAGCCCATGAAAATTAAAGGTTCTATGTGAAGGAAAACCCAACCTAGTTGACTGGAGATCCCA
43849754 AGATCTAGGTTTAAAGGGACAAC
456 AGATCTAGGTTTAAAGGGACAAC
*
43849777 TTACATTGGGAGGAGGAGTTGTGTCATGGAAATCCTTAAAACAAACGATTATAACCAGATCTACA
1 TTACATTGGGAGGAGGAGTTGTGTCATGGAAATCCTCAAAACAAACGATTATAACCAGATCTACA
* **
43849842 ATAGAATCTGAGTTTGTAGCTCTAGACAAATCTAGAGAAGAGGCTAAATGGATTCAAAACTTCTT
66 ATAGAATCTAAGTTTGTAGCTCTAGACAAATCTAGAGAAGAGGCTAAACAGATTCAAAACTTCTT
*
43849907 GGAGGATATTCCTAACTGGCCAAAGCCTGTGCCCACAATATGCATATATTGTGATAACTAAGAAA
131 GGAGGATATTCCTAACTGGCCAAAGCCTATGCCCACAATATGCATATATTGTGATAACTAAGAAA
43849972 CAATTGGTAGAGCACAGAATGTAATGTATAATGGTAAGTTGAGACATATGCGTCATCGACACAGT
196 CAATTGGTAGAGCACAGAATGTAATGTATAATGGTAAGTTGAGACATATGCGTCATCGACACAGT
43850037 ACCGTTAGACAACTGATCTCAAATGGAGTTATCTCTATTTATTTTGTAAAATAAAAAGATAACAT
261 ACCGTTAGACAACTGATCTCAAATGGAGTTATCTCTATTTATTTTGTAAAATAAAAAGATAACAT
43850102 TGCGAATCTGCTAACTAAAGGATTAAATTGAGATTAGGTTGATAAAA-CATCAAAAGGAATGGGA
326 TGCGAATCTGCTAACTAAAGGATTAAATTGAGATTAGGTTGATAAAACCATCAAAAGG-ATGGGA
*
43850166 CTAAAGCCCATGAAAATTAAAGGTTCTATGTGAAGGAAAACCCAGCCTAGTTGACTGGAGATCCC
390 CTAAAGCCCATGAAAATTAAAGGTTCTATGTGAAGGAAAACCCAACCTAGTTGACTGGAGATCCC
43850231 AAGATCTAGGTTTAAAGGGACAAC
455 AAGATCTAGGTTTAAAGGGACAAC
43850255 TTAC
1 TTAC
43850259 TTGCATAGAC
Statistics
Matches: 473, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
477 10 0.02
478 463 0.98
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (478 bp):
TTACATTGGGAGGAGGAGTTGTGTCATGGAAATCCTCAAAACAAACGATTATAACCAGATCTACA
ATAGAATCTAAGTTTGTAGCTCTAGACAAATCTAGAGAAGAGGCTAAACAGATTCAAAACTTCTT
GGAGGATATTCCTAACTGGCCAAAGCCTATGCCCACAATATGCATATATTGTGATAACTAAGAAA
CAATTGGTAGAGCACAGAATGTAATGTATAATGGTAAGTTGAGACATATGCGTCATCGACACAGT
ACCGTTAGACAACTGATCTCAAATGGAGTTATCTCTATTTATTTTGTAAAATAAAAAGATAACAT
TGCGAATCTGCTAACTAAAGGATTAAATTGAGATTAGGTTGATAAAACCATCAAAAGGATGGGAC
TAAAGCCCATGAAAATTAAAGGTTCTATGTGAAGGAAAACCCAACCTAGTTGACTGGAGATCCCA
AGATCTAGGTTTAAAGGGACAAC
Found at i:43853470 original size:30 final size:30
Alignment explanation
Indices: 43853436--43853493 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
43853426 CATACTTATG
*
43853436 TTATGGAGGTGAGTGATTCTTTCAAGTTGT
1 TTATGGAGGTGAGTAATTCTTTCAAGTTGT
*
43853466 TTATGGTGGTGAGTAATTCTTTCAAGTT
1 TTATGGAGGTGAGTAATTCTTTCAAGTT
43853494 AGCCAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.45
Consensus pattern (30 bp):
TTATGGAGGTGAGTAATTCTTTCAAGTTGT
Found at i:43865846 original size:20 final size:20
Alignment explanation
Indices: 43865809--43865848 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43865799 CGAGACTAAA
* *
43865809 TCAGAAATTTAGAGAATTTT
1 TCAGAAACTTAGAAAATTTT
*
43865829 TCAGAAACTTATAAAATTTT
1 TCAGAAACTTAGAAAATTTT
43865849 CAAAACTGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (20 bp):
TCAGAAACTTAGAAAATTTT
Found at i:43867226 original size:25 final size:25
Alignment explanation
Indices: 43867180--43867248 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
43867170 GCTCTAAACG
* *
43867180 GTAAGCTCC-TCTGCGCTAAATAACA
1 GTAAGCTCCTTC-GAGCTGAATAACA
**
43867205 GTAAGCTCCTTCGAGCTGAATAATG
1 GTAAGCTCCTTCGAGCTGAATAACA
* *
43867230 GTAAGCTCATACGAGCTGA
1 GTAAGCTCCTTCGAGCTGA
43867249 GTATCGGTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 35 0.95
26 2 0.05
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (25 bp):
GTAAGCTCCTTCGAGCTGAATAACA
Found at i:43867257 original size:25 final size:25
Alignment explanation
Indices: 43867205--43867265 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
43867195 CTAAATAACA
* *
43867205 GTAAGCTCCTTCGAGCTGAATAATG
1 GTAAGCTCATACGAGCTGAATAATG
*
43867230 GTAAGCTCATACGAGCTGAGT-ATCG
1 GTAAGCTCATACGAGCTGAATAAT-G
*
43867255 GTAACCTCATA
1 GTAAGCTCATA
43867266 TAAGCTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATAATG
Found at i:43867271 original size:25 final size:24
Alignment explanation
Indices: 43867229--43867284 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
43867219 GCTGAATAAT
* * *
43867229 GGTAAGCTCATACGAGCTGAGTATC
1 GGTAACCTCATACAAGCTGA-AATC
* *
43867254 GGTAACCTCATATAAGCTTAAATC
1 GGTAACCTCATACAAGCTGAAATC
43867278 GGTAACC
1 GGTAACC
43867285 CTAATGACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
GGTAACCTCATACAAGCTGAAATC
Found at i:43874804 original size:25 final size:24
Alignment explanation
Indices: 43874763--43874819 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
43874753 TCCTATACAT
*
43874763 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTATAAA-CG
* *
43874788 GTATGCTCTTACTAGCTATAAACG
1 GTATGCTCATACGAGCTATAAACG
*
43874812 GTAAGCTC
1 GTATGCTC
43874820 CTTTGAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATGCTCATACGAGCTATAAACG
Found at i:43874878 original size:25 final size:25
Alignment explanation
Indices: 43874828--43874906 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
43874818 TCCTTTGAGT
* * *
43874828 TGAATAACAGTAAGCTCCTCCTAGC
1 TGAATAACAGTAAGCTCATACAAGC
* *
43874853 TGAATAACAGTAAGCTCATGCGAGC
1 TGAATAACAGTAAGCTCATACAAGC
* *
43874878 TGAGTATC-GATAAGCTCATACAAGC
1 TGAATAACAG-TAAGCTCATACAAGC
43874903 TGAA
1 TGAA
43874907 ATCGGTAACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
24 1 0.02
25 44 0.98
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (25 bp):
TGAATAACAGTAAGCTCATACAAGC
Found at i:43878838 original size:12 final size:12
Alignment explanation
Indices: 43878808--43878856 Score: 73
Period size: 13 Copynumber: 4.0 Consensus size: 12
43878798 AAAAATAAAT
43878808 AAATAAACAAAA
1 AAATAAACAAAA
43878820 GAAATAAACAAAA
1 -AAATAAACAAAA
43878833 AAATAAACAAAAA
1 AAATAAAC-AAAA
43878846 AAATAAA-AAAA
1 AAATAAACAAAA
43878857 CCAATCAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.11
12 8 0.23
13 23 0.66
ACGTcount: A:0.84, C:0.06, G:0.02, T:0.08
Consensus pattern (12 bp):
AAATAAACAAAA
Found at i:43878839 original size:25 final size:25
Alignment explanation
Indices: 43878790--43878856 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
43878780 AAAATAGATC
43878790 AAGAGAATAAAAATAAATAAATAAACAA
1 AAGA-AAT-AAAA-AAATAAATAAACAA
43878818 AAGAAATAAACAAAA-AAATAAACAA
1 AAGAAATAAA-AAAATAAATAAACAA
*
43878843 AAAAAATAAAAAAA
1 AAGAAATAAAAAAA
43878857 CCAATCAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 4 0.11
25 19 0.51
26 6 0.16
27 4 0.11
28 4 0.11
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.10
Consensus pattern (25 bp):
AAGAAATAAAAAAATAAATAAACAA
Found at i:43879880 original size:19 final size:19
Alignment explanation
Indices: 43879856--43879893 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43879846 CAACACTTAC
43879856 AAAATGTGTTAAAAATACT
1 AAAATGTGTTAAAAATACT
43879875 AAAATGTGTTAAAAATACT
1 AAAATGTGTTAAAAATACT
43879894 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAATGTGTTAAAAATACT
Found at i:43881701 original size:29 final size:28
Alignment explanation
Indices: 43881610--43881704 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
43881600 TCCTTAGGTT
* * *
43881610 TTATCAGGCACTAGGTATCGGTGATTATA
1 TTATCAGGTACTACGTACCGGTGA-TATA
* * ** *
43881639 TTTATCAGATACTACATACCAATGAGTATT
1 -TTATCAGGTACTACGTACCGGTGA-TATA
*
43881669 TTATCAGGTACTATGTACCGGTGATCATA
1 TTATCAGGTACTACGTACCGGTGAT-ATA
43881698 TTATCAG
1 TTATCAG
43881705 ATAGTTTGTA
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
28 1 0.02
29 28 0.57
30 20 0.41
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (28 bp):
TTATCAGGTACTACGTACCGGTGATATA
Found at i:43883779 original size:50 final size:50
Alignment explanation
Indices: 43883715--43883897 Score: 276
Period size: 50 Copynumber: 3.7 Consensus size: 50
43883705 TTGGGTAAAA
* * *
43883715 AGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGACACCAAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* * *
43883765 AGGTCCCATTTAAGACCATGTCTGAGACATGGCGTTGGCACTGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* *
43883815 AGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGACATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
**
43883865 AGGTCCCCCGTAAGACCATGTCTGGGACATGGC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGC
43883898 ATGGGNNNNN
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 119 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
Found at i:43888797 original size:50 final size:50
Alignment explanation
Indices: 43888717--43888883 Score: 219
Period size: 50 Copynumber: 3.3 Consensus size: 50
43888707 CAAAGTCATA
* * ** *
43888717 TCCCAGATATAGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATG
* * * *
43888767 TCCCAGGCATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATG
*
43888817 TCCCAGACATGGCCTTACATGGGACCTCTCATCTCGGTG-CCAGTGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCA-TGCCATG
*
43888867 TCCCAAACATGGTCTTA
1 TCCCAGACATGGTCTTA
43888884 TACTGGCTCA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
49 2 0.02
50 98 0.98
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATG
Found at i:43890041 original size:21 final size:22
Alignment explanation
Indices: 43890008--43890048 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43889998 CAATTTTTCA
* *
43890008 ATCTAATATATATATTTCAATC
1 ATCTAAGATATATAATTCAATC
43890030 ATCTAAGA-ATATAATTCAA
1 ATCTAAGATATATAATTCAA
43890049 GTTACATGAA
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:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
ATCTAAGATATATAATTCAATC
Found at i:43893844 original size:29 final size:29
Alignment explanation
Indices: 43893772--43893857 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
43893762 ACTATGTGTT
*
43893772 GGTGATTATATTTATTAGATACTATGTACC
1 GGTGATCATA-TTATTAGATACTATGTACC
* * * *
43893802 GAT-AACTATTTTATTAGGTACTATGTACC
1 GGTGATC-ATATTATTAGATACTATGTACC
* *
43893831 GGTGATCATATTATCAGATATTATGTA
1 GGTGATCATATTATTAGATACTATGTA
43893858 TTGGTGTTCA
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
29 37 0.86
30 6 0.14
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (29 bp):
GGTGATCATATTATTAGATACTATGTACC
Found at i:43896037 original size:20 final size:20
Alignment explanation
Indices: 43896012--43896054 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43896002 CTGTGTGCCA
43896012 GACCGTGTGCAGCATAAAGT
1 GACCGTGTGCAGCATAAAGT
43896032 GACCGTGTGCAGCATAAAGT
1 GACCGTGTGCAGCATAAAGT
43896052 GAC
1 GAC
43896055 TTTACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (20 bp):
GACCGTGTGCAGCATAAAGT
Found at i:43920535 original size:15 final size:16
Alignment explanation
Indices: 43920506--43920535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43920496 CAAACATGCT
43920506 TTAACACATTATCAAA
1 TTAACACATTATCAAA
43920522 TTAACACA-TATCAA
1 TTAACACATTATCAA
43920536 CAACGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:43926760 original size:15 final size:16
Alignment explanation
Indices: 43926731--43926760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43926721 CAAACATGCT
43926731 TTAACACATTATCAAA
1 TTAACACATTATCAAA
43926747 TTAACACA-TATCAA
1 TTAACACATTATCAA
43926761 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:43934177 original size:27 final size:27
Alignment explanation
Indices: 43934140--43934203 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
43934130 ATGTGTTCTT
43934140 TTTTTAATTTAAAATTTAAAAAAAATA
1 TTTTTAATTTAAAATTTAAAAAAAATA
43934167 TTTTTAATTTAAAATTTAAAAAAAATA
1 TTTTTAATTTAAAATTTAAAAAAAATA
*
43934194 TTTTTTATTT
1 TTTTTAATTT
43934204 GGTGGATCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTTAATTTAAAATTTAAAAAAAATA
Found at i:43936140 original size:14 final size:15
Alignment explanation
Indices: 43936123--43936152 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43936113 CATAATTCAA
43936123 AAAATAT-ATTTTAC
1 AAAATATAATTTTAC
43936137 AAAATATAATTTTAC
1 AAAATATAATTTTAC
43936152 A
1 A
43936153 TTTCAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATAATTTTAC
Found at i:43939907 original size:3 final size:3
Alignment explanation
Indices: 43939899--43939982 Score: 68
Period size: 3 Copynumber: 28.7 Consensus size: 3
43939889 TTAGTCCTCG
* * *
43939899 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TCA -AA CTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
43939943 AT- TTA TCA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
43939983 TACTCATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.08
3 58 0.88
4 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43940085 original size:2 final size:2
Alignment explanation
Indices: 43940018--43940070 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
43940008 TAGATTTAAT
* * * * *
43940018 TA TA TA TA TA TA TA TA TA TA CA TA CA TA TC TT TGA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
43940061 TA TA TA TA TA
1 TA TA TA TA TA
43940071 CTTATTTTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 40 0.98
3 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:43940450 original size:20 final size:20
Alignment explanation
Indices: 43940427--43940464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43940417 TTGCTCATAT
43940427 TATTT-TTATTCACATTATCA
1 TATTTATTATTC-CATTATCA
43940447 TATTTATTATTCCATTAT
1 TATTTATTATTCCATTAT
43940465 GCATGTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTATTATTCCATTATCA
Found at i:43940738 original size:108 final size:107
Alignment explanation
Indices: 43940506--43940816 Score: 448
Period size: 106 Copynumber: 2.9 Consensus size: 107
43940496 TTATTCTAAA
43940506 TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTT-
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTC
*
43940570 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAG
66 TCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAG
* *
43940612 TAAGGCGATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTT
* * * **
43940677 CTCGTTCGACCAAATAACCAAATATCTTTTTTAAATTTTGAAG
65 CTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAG
* * *
43940720 TAAGGTAATATTTTGCGTTTGGAAATTC-AAATAAACGTGCCCTAATGTGCTGGGTTTTGA-TTT
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGA-AAACGTGCCCTAATGTGCTGGGTTTCGATTTT
* * * *
43940783 CCCATTTGACCAAATAGCCAAATATCCTCTTAAA
65 CTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
43940817 TCTCAATCCA
Statistics
Matches: 182, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
106 88 0.48
107 6 0.03
108 88 0.48
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (107 bp):
TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTC
TCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAG
Found at i:43941043 original size:22 final size:22
Alignment explanation
Indices: 43941000--43941044 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
43940990 TCGTGGATTA
* *
43941000 AAATCGTTGTTTTAATAAAATC
1 AAATCGTTGTATTAAAAAAATC
43941022 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
43941044 A
1 A
43941045 CTTGTTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATCGTTGTATTAAAAAAATC
Found at i:43946003 original size:3 final size:3
Alignment explanation
Indices: 43945997--43946041 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
43945987 AGTACCGTTG
43945997 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43946042 AAGATAGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43962347 original size:56 final size:55
Alignment explanation
Indices: 43962261--43962368 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
43962251 GTATCCATTG
*
43962261 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTACAAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCACAAATAATT-AATTTGTAA
**
43962317 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCACAAATAATTAATTTG
43962369 CAATCTACAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCACAAATAATTAATTTGTAA
Found at i:43967395 original size:25 final size:26
Alignment explanation
Indices: 43967349--43967617 Score: 169
Period size: 25 Copynumber: 10.8 Consensus size: 26
43967339 TACGAGCATG
* * **
43967349 TAATCAGGAAGCTCTTTCGAGCCATA
1 TAATCGGGAAGCTCATGAGAGCCATA
* *
43967375 TAAT-GGGAAGCTCATGTGAGCCATG
1 TAATCGGGAAGCTCATGAGAGCCATA
* * *
43967400 TAAT-GGTAAGCTCATAAGAGTC--A
1 TAATCGGGAAGCTCATGAGAGCCATA
* *
43967423 TAATCGAGAAGCTCATGCGAGCCA-A
1 TAATCGGGAAGCTCATGAGAGCCATA
*
43967448 T-ATCGGAAAGCTC-TGGAGAGCCAT-
1 TAATCGGGAAGCTCAT-GAGAGCCATA
* *
43967472 TAATCGAGAAGCTCGTGAGAGCCAGT-
1 TAATCGGGAAGCTCATGAGAGCCA-TA
**
43967498 T-ATCATGAAGCTCAT-ACGAGCCATA
1 TAATCGGGAAGCTCATGA-GAGCCATA
* *
43967523 -AA-CGGGAAGCT-TTGAAGAGCTAT-
1 TAATCGGGAAGCTCATG-AGAGCCATA
43967546 TAATCGGGAAGCTCATGAGAGCCA-A
1 TAATCGGGAAGCTCATGAGAGCCATA
* * *
43967571 TTATCGAGAAGCTC-TGGAGAGCCAAA
1 TAATCGGGAAGCTCAT-GAGAGCCATA
*
43967597 TAA-CGGGAAGCTCATAAGAGC
1 TAATCGGGAAGCTCATGAGAGC
43967618 TATGGTGTGT
Statistics
Matches: 190, Mismatches: 34, Indels: 39
0.72 0.13 0.15
Matches are distributed among these distances:
23 6 0.03
24 49 0.26
25 122 0.64
26 13 0.07
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (26 bp):
TAATCGGGAAGCTCATGAGAGCCATA
Found at i:43967593 original size:74 final size:74
Alignment explanation
Indices: 43967367--43967617 Score: 223
Period size: 74 Copynumber: 3.4 Consensus size: 74
43967357 AAGCTCTTTC
* * * * *
43967367 GAGCCATATAATGGGAAGCTCATG-TGAGCCATGTAAT-G-GTAAGCTCATAAGAGTC-ATAATC
1 GAGCCA-ATAACGGGAAGCTC-TGAAGAGCCAT-TAATCGAG-AAGCTCATGAGAGCCAATTATC
*
43967428 GAGAAGCTCATGC
62 GAGAAGCTCATGA
* * * * *
43967441 GAGCCAATATCGGAAAGCTCTGGAGAGCCATTAATCGAGAAGCTCGTGAGAGCCAGTTATC-ATG
1 GAGCCAATAACGGGAAGCTCTGAAGAGCCATTAATCGAGAAGCTCATGAGAGCCAATTATCGA-G
43967505 AAGCTCAT-A
65 AAGCTCATGA
* * *
43967514 CGAGCC-ATAAACGGGAAGCTTTGAAGAGCTATTAATCGGGAAGCTCATGAGAGCCAATTATCGA
1 -GAGCCAAT-AACGGGAAGCTCTGAAGAGCCATTAATCGAGAAGCTCATGAGAGCCAATTATCGA
43967578 GAAGCTC-TGGA
64 GAAGCTCAT-GA
43967589 GAGCCAAATAACGGGAAGCTCAT-AAGAGC
1 GAGCC-AATAACGGGAAGCTC-TGAAGAGC
43967618 TATGGTGTGT
Statistics
Matches: 145, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
72 6 0.04
73 35 0.24
74 82 0.57
75 19 0.13
76 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (74 bp):
GAGCCAATAACGGGAAGCTCTGAAGAGCCATTAATCGAGAAGCTCATGAGAGCCAATTATCGAGA
AGCTCATGA
Found at i:43967754 original size:8 final size:8
Alignment explanation
Indices: 43967741--43967781 Score: 82
Period size: 8 Copynumber: 5.1 Consensus size: 8
43967731 ATACTTTCGG
43967741 ATATGTTT
1 ATATGTTT
43967749 ATATGTTT
1 ATATGTTT
43967757 ATATGTTT
1 ATATGTTT
43967765 ATATGTTT
1 ATATGTTT
43967773 ATATGTTT
1 ATATGTTT
43967781 A
1 A
43967782 AGTAATCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (8 bp):
ATATGTTT
Found at i:43970272 original size:55 final size:55
Alignment explanation
Indices: 43970188--43970294 Score: 180
Period size: 55 Copynumber: 1.9 Consensus size: 55
43970178 GTATCCATTG
*
43970188 GATGATAAATCATCACTTTTACTTTGAATAGTGC-AATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATT-AATTTGTAA
*
43970243 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATTAATTTG
43970295 CAATCTATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 39 0.80
56 10 0.20
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.39
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATTAATTTGTAA
Found at i:43970730 original size:18 final size:18
Alignment explanation
Indices: 43970685--43970730 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
43970675 TGGCTAGGGT
*
43970685 ACGAAGAATCTGAAAGGC
1 ACGAAGAATTTGAAAGGC
43970703 ACGAAGAATTTGAAAGGC
1 ACGAAGAATTTGAAAGGC
*
43970721 ATGAAGAATT
1 ACGAAGAATT
43970731 GAGGCAGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (18 bp):
ACGAAGAATTTGAAAGGC
Found at i:43973233 original size:16 final size:16
Alignment explanation
Indices: 43973212--43973247 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43973202 TTTGGTTTGC
43973212 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43973228 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43973244 TGTA
1 TGTA
43973248 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43977374 original size:9 final size:9
Alignment explanation
Indices: 43977355--43977392 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
43977345 GTGTTGATTC
43977355 TTAAAAA-T
1 TTAAAAATT
43977363 TTAAAAATT
1 TTAAAAATT
43977372 TTAAAAATAT
1 TTAAAAAT-T
43977382 TT-AAAATT
1 TTAAAAATT
43977390 TTA
1 TTA
43977393 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 10 0.37
9 14 0.52
10 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAAAATT
Found at i:43977413 original size:23 final size:23
Alignment explanation
Indices: 43977369--43977427 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
43977359 AAATTTAAAA
**
43977369 ATTTTAAAAATATTTAAAATTTT
1 ATTTTAAAAATACATAAAATTTT
* *
43977392 ATTTTATAAATACATAAGATTTT
1 ATTTTAAAAATACATAAAATTTT
43977415 A---TAAAAATACATA
1 ATTTTAAAAATACATA
43977428 CAAAATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
23 20 0.65
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTAAAAATACATAAAATTTT
Found at i:43980859 original size:2 final size:2
Alignment explanation
Indices: 43980852--43980890 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
43980842 GAAGGACAAA
43980852 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43980891 AGTACCTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43983490 original size:20 final size:22
Alignment explanation
Indices: 43983452--43983499 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
43983442 TAGAAATTAG
43983452 TAGAATTGTAATTCCTAGAAAA
1 TAGAATTGTAATTCCTAGAAAA
*
43983474 TAGAATT-T-ATTCTTAGAAAA
1 TAGAATTGTAATTCCTAGAAAA
43983494 TA-AATT
1 TAGAATT
43983500 CTCACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 1 0.04
22 7 0.28
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGAATTGTAATTCCTAGAAAA
Found at i:43985098 original size:48 final size:49
Alignment explanation
Indices: 43985039--43985271 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 49
43985029 GGGATGAGAC
* * **
43985039 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTA-ATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAGAGGT
* * *
43985087 CCCACATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAGGT
* * * * **
43985137 CCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAGGT
* * * * * * **
43985187 CCCATGTAAGACCATATCTGGGATATGGCATTGG-AAGTACAGGAAACAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATGAGAGGT
* * *
43985236 CCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
43985272 TGTTATTTTC
Statistics
Matches: 151, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 33 0.22
49 38 0.25
50 80 0.53
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAGAGGT
Found at i:43985153 original size:50 final size:49
Alignment explanation
Indices: 43985039--43985220 Score: 213
Period size: 50 Copynumber: 3.7 Consensus size: 49
43985029 GGGATGAGAC
* * **
43985039 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-TTAATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATGAGAGGT
* *
43985087 CCCACATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-ATGAGAGGT
* * * **
43985137 CCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-ATGAGAGGT
* * *
43985187 CCCATGTAAGACCATATCTGGGATATGGCATTGG
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGG
43985221 AAGTACAGGA
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
48 32 0.29
49 1 0.01
50 79 0.71
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATGAGAGGT
Found at i:43985498 original size:20 final size:20
Alignment explanation
Indices: 43985473--43985521 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43985463 TGAGTTATTT
43985473 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
43985493 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
43985513 AAG-AAGCAA
1 AAGTAAGCAA
43985522 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:43989373 original size:20 final size:20
Alignment explanation
Indices: 43989334--43989397 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
43989324 ACACCAGGGA
*
43989334 GCACCGTAGTGCTATCAGAG
1 GCACCGTAGTGCAATCAGAG
43989354 GCACCGTAGTGCAAAT-AGAG
1 GCACCGTAGTGC-AATCAGAG
* * *
43989374 GTA-CGATTGTGCAGTCAGAG
1 GCACCG-TAGTGCAATCAGAG
43989394 GCAC
1 GCAC
43989398 TGGAGTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (20 bp):
GCACCGTAGTGCAATCAGAG
Found at i:43989424 original size:20 final size:20
Alignment explanation
Indices: 43989401--43989443 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43989391 GAGGCACTGG
*
43989401 AGTGAAAATAGAGACACCAA
1 AGTGAAAACAGAGACACCAA
* *
43989421 AGTGTAAACAGAGGCACCAA
1 AGTGAAAACAGAGACACCAA
43989441 AGT
1 AGT
43989444 CCAAGTAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (20 bp):
AGTGAAAACAGAGACACCAA
Found at i:43993973 original size:36 final size:36
Alignment explanation
Indices: 43993924--43993996 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
43993914 TCAGTTTATC
*
43993924 TCAGCCTACTTCTTTTC-ATTGCAGATATCTTCAATT
1 TCAGCCTACTTC-TTTCAAATGCAGATATCTTCAATT
** *
43993960 TCAGCCTGTTTCTTTCAAATGCAGATATCTTCCATT
1 TCAGCCTACTTCTTTCAAATGCAGATATCTTCAATT
43993996 T
1 T
43993997 TATATGCTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (36 bp):
TCAGCCTACTTCTTTCAAATGCAGATATCTTCAATT
Found at i:43996267 original size:24 final size:24
Alignment explanation
Indices: 43996231--43996277 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43996221 CACACGACCG
*
43996231 TGTCACAGCCCATGTCCTAGGCCA
1 TGTCACAGCCCATGTCCCAGGCCA
*
43996255 TGTCACAGTCCATGTCCCAGGCC
1 TGTCACAGCCCATGTCCCAGGCC
43996278 CTGTGCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.21
Consensus pattern (24 bp):
TGTCACAGCCCATGTCCCAGGCCA
Found at i:43997022 original size:20 final size:20
Alignment explanation
Indices: 43996996--43997043 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
43996986 TTCCATATTT
43996996 CAGAGGCACCATAGTGCTTA
1 CAGAGGCACCATAGTGCTTA
*
43997016 TAGAGGCACCATAGTGCTTA
1 CAGAGGCACCATAGTGCTTA
43997036 CAGAGGCA
1 CAGAGGCA
43997044 TGAATGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (20 bp):
CAGAGGCACCATAGTGCTTA
Found at i:43997151 original size:60 final size:60
Alignment explanation
Indices: 43997052--43997165 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
43997042 CATGAATGTG
* * * *
43997052 CAAACAAGGGTACCGAAGTACAAATAGGGGAACTAAAGTAAAAACAGGAGTACCAAAGTA
1 CAAACAAGGGTACCGAAGTACAAACAGGAGAACCAAAGTAAAAACAGAAGTACCAAAGTA
* * * * *
43997112 CAAACAGGGGTACCGAAGTACAAGCAGGAGTACCGAAGTACAAACAGAAGTACC
1 CAAACAAGGGTACCGAAGTACAAACAGGAGAACCAAAGTAAAAACAGAAGTACC
43997166 TGTAACAACC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (60 bp):
CAAACAAGGGTACCGAAGTACAAACAGGAGAACCAAAGTAAAAACAGAAGTACCAAAGTA
Found at i:43997163 original size:20 final size:20
Alignment explanation
Indices: 43997052--43997165 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
43997042 CATGAATGTG
43997052 CAAACAAGG-GTACCGAAGTA
1 CAAAC-AGGAGTACCGAAGTA
* * * **
43997072 CAAATAGGGGAACTAAAGTA
1 CAAACAGGAGTACCGAAGTA
* *
43997092 AAAACAGGAGTACCAAAGTA
1 CAAACAGGAGTACCGAAGTA
*
43997112 CAAACAGGGGTACCGAAGTA
1 CAAACAGGAGTACCGAAGTA
*
43997132 CAAGCAGGAGTACCGAAGTA
1 CAAACAGGAGTACCGAAGTA
*
43997152 CAAACAGAAGTACC
1 CAAACAGGAGTACC
43997166 TGTAACAACC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 3 0.04
20 74 0.96
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
CAAACAGGAGTACCGAAGTA
Found at i:44005615 original size:20 final size:20
Alignment explanation
Indices: 44005589--44005640 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
44005579 GGCGTGTTAC
*
44005589 AGTACCGAAGTCCAAACAGG
1 AGTACCGAAGTACAAACAGG
*
44005609 GGTACCGAAGTACAAACAGG
1 AGTACCGAAGTACAAACAGG
44005629 AGTACCGAAGTA
1 AGTACCGAAGTA
44005641 AATTCCTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
AGTACCGAAGTACAAACAGG
Found at i:44009829 original size:16 final size:17
Alignment explanation
Indices: 44009799--44009831 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44009789 TGCCAAAATG
*
44009799 AGATCAAAATCATCAAA
1 AGATAAAAATCATCAAA
44009816 AGATAAAAAT-ATCAAA
1 AGATAAAAATCATCAAA
44009832 CTAGCAGGGA
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:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
AGATAAAAATCATCAAA
Found at i:44012852 original size:20 final size:19
Alignment explanation
Indices: 44012829--44012995 Score: 122
Period size: 20 Copynumber: 8.4 Consensus size: 19
44012819 TTACAGAGGC
44012829 ACAAATGTACAAACAGGGGT
1 ACAAA-GTACAAACAGGGGT
*
44012849 ACAAAAGTACAAATAGGGGT
1 AC-AAAGTACAAACAGGGGT
* **
44012869 ACCGAAGTACAAGTA-GGGT
1 A-CAAAGTACAAACAGGGGT
* *
44012888 ACCAAAGTATAAACGGGGGT
1 A-CAAAGTACAAACAGGGGT
* *
44012908 ACTGAAGTACAAACAGTGGT
1 AC-AAAGTACAAACAGGGGT
* *
44012928 ACTGAAGTACAAATA-GGGT
1 AC-AAAGTACAAACAGGGGT
44012947 ACGAAAGTACAAACAGGGGT
1 AC-AAAGTACAAACAGGGGT
* * *
44012967 ACCAGAGTACAAATAGGAGT
1 A-CAAAGTACAAACAGGGGT
44012987 ACCAAAGTA
1 A-CAAAGTA
44012996 AATTCCCATA
Statistics
Matches: 120, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
19 30 0.25
20 85 0.71
21 5 0.04
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.16
Consensus pattern (19 bp):
ACAAAGTACAAACAGGGGT
Found at i:44012895 original size:39 final size:39
Alignment explanation
Indices: 44012835--44012995 Score: 164
Period size: 39 Copynumber: 4.1 Consensus size: 39
44012825 AGGCACAAAT
*
44012835 GTACAAACAGGGGTACAAAAGTACAAATAGGGGTACCGAA
1 GTACAAACA-GGGTACCAAAGTACAAATAGGGGTACCGAA
** * ** *
44012875 GTACAAGTAGGGTACCAAAGTATAAACGGGGGTACTGAA
1 GTACAAACAGGGTACCAAAGTACAAATAGGGGTACCGAA
**
44012914 GTACAAACAGTGGTACTGAAGTACAAATA-GGGTA-CGAAA
1 GTACAAACAG-GGTACCAAAGTACAAATAGGGGTACCG-AA
* * *
44012953 GTACAAACAGGGGTACCAGAGTACAAATAGGAGTACCAAA
1 GTACAAACA-GGGTACCAAAGTACAAATAGGGGTACCGAA
44012993 GTA
1 GTA
44012996 AATTCCCATA
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
38 1 0.01
39 64 0.67
40 30 0.31
41 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (39 bp):
GTACAAACAGGGTACCAAAGTACAAATAGGGGTACCGAA
Found at i:44012917 original size:59 final size:58
Alignment explanation
Indices: 44012830--44012995 Score: 197
Period size: 59 Copynumber: 2.8 Consensus size: 58
44012820 TACAGAGGCA
*
44012830 CAAATGTACAAACAGGGGTACAAAAGTACAAATAGGGGTACCGAAGTACAAGTAGGGTAC
1 CAAA-GTACAAACAGGGGTAC-AAAGTACAAATAGGGGTACCGAAGTACAAATAGGGTAC
* * * * * *
44012890 CAAAGTATAAACGGGGGTACTGAAGTACAAACAGTGGTACTGAAGTACAAATAGGGTAC
1 CAAAGTACAAACAGGGGTAC-AAAGTACAAATAGGGGTACCGAAGTACAAATAGGGTAC
* * * *
44012949 GAAAGTACAAACAGGGGTACCAGAGTACAAATAGGAGTACCAAAGTA
1 CAAAGTACAAACAGGGGTA-CAAAGTACAAATAGGGGTACCGAAGTA
44012996 AATTCCCATA
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
59 82 0.94
60 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (58 bp):
CAAAGTACAAACAGGGGTACAAAGTACAAATAGGGGTACCGAAGTACAAATAGGGTAC
Found at i:44022891 original size:20 final size:20
Alignment explanation
Indices: 44022866--44022905 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
44022856 TCTGAAAGAA
44022866 GTTACACGAGGCTTTGGGCT
1 GTTACACGAGGCTTTGGGCT
44022886 GTTACACGAGGCTTTGGGCT
1 GTTACACGAGGCTTTGGGCT
44022906 CAAGACTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (20 bp):
GTTACACGAGGCTTTGGGCT
Found at i:44025565 original size:27 final size:27
Alignment explanation
Indices: 44025196--44025563 Score: 459
Period size: 27 Copynumber: 13.7 Consensus size: 27
44025186 GATTCGTGGG
* **
44025196 AAAATGACTGAAATACCCTTAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
44025223 AAAATGACCGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
44025250 AAAATGGCTGAAATACCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
44025277 AAAATGACCGAAATACCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
44025304 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
44025331 AAAATGAACGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
44025358 AAAATGACTAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
44025385 AAAATGATCAAAATACCCTCAAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
44025412 AAAATAACAGAAATACCCT-GAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
44025438 AAAATGACTAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
44025465 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
44025492 AAAATAACCGAAATACACTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
44025519 AAAATAACCGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
44025546 AAAATGATTGAAATACCC
1 AAAATGACCGAAATACCC
44025564 CCATAGAGTA
Statistics
Matches: 294, Mismatches: 46, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.07
27 273 0.93
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:44025806 original size:26 final size:26
Alignment explanation
Indices: 44025777--44025827 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
44025767 GCCACATATA
44025777 CTATTACAT-GCAGCTTCGCTGCGATT
1 CTATTAC-TGGCAGCTTCGCTGCGATT
*
44025803 CTATTACTGGCAGCTTTGCTGCGAT
1 CTATTACTGGCAGCTTCGCTGCGAT
44025828 ATTAGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
CTATTACTGGCAGCTTCGCTGCGATT
Found at i:44025975 original size:28 final size:28
Alignment explanation
Indices: 44025935--44025998 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
44025925 CACTGTACTG
* * * *
44025935 GTTATTGTATTGGGCTAAGGCCCGCACT
1 GTTACTGTTTTGGGCTAAAGCCCACACT
44025963 GTTACTGTTTTGGGCTAAAGCCCACACT
1 GTTACTGTTTTGGGCTAAAGCCCACACT
44025991 G-TACTGTT
1 GTTACTGTT
44025999 ACTATATAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (28 bp):
GTTACTGTTTTGGGCTAAAGCCCACACT
Found at i:44029851 original size:18 final size:18
Alignment explanation
Indices: 44029803--44029853 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
44029793 CGAGTTTAGG
*
44029803 CATGCACTCCATGCATTC
1 CATGCAATCCATGCATTC
* *
44029821 CATACGAAT-CATGCATTT
1 CATGC-AATCCATGCATTC
*
44029839 CATGCATTCCATGCA
1 CATGCAATCCATGCA
44029854 ACCCATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.29
Consensus pattern (18 bp):
CATGCAATCCATGCATTC
Found at i:44029864 original size:27 final size:27
Alignment explanation
Indices: 44029812--44029870 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
44029802 GCATGCACTC
* *
44029812 CATGCATTCCATACGAATCATGCATTT
1 CATGCATTCCATACGAACCATACATTT
*
44029839 CATGCATTCCATGC-AACCCATACATTT
1 CATGCATTCCATACGAA-CCATACATTT
44029866 CATGC
1 CATGC
44029871 GGATCATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (27 bp):
CATGCATTCCATACGAACCATACATTT
Found at i:44029869 original size:36 final size:36
Alignment explanation
Indices: 44029803--44029890 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
44029793 CGAGTTTAGG
* ** **
44029803 CATGCACTCCATGCATTCCATACGAATCATGCATTT
1 CATGCATTCCATGCAACCCATACGAATCATGCAGAT
* *
44029839 CATGCATTCCATGCAACCCATAC-ATTTCATGCGGAT
1 CATGCATTCCATGCAACCCATACGA-ATCATGCAGAT
*
44029875 CATGCATCCCATGCAA
1 CATGCATTCCATGCAA
44029891 TATGCTGCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.27
Consensus pattern (36 bp):
CATGCATTCCATGCAACCCATACGAATCATGCAGAT
Found at i:44041307 original size:6 final size:7
Alignment explanation
Indices: 44041279--44041305 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44041269 AATTGAAATG
44041279 ATTTTTT
1 ATTTTTT
44041286 ATTTTTT
1 ATTTTTT
44041293 ATTTTTT
1 ATTTTTT
44041300 ATTTTT
1 ATTTTT
44041306 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:44045072 original size:59 final size:58
Alignment explanation
Indices: 44044923--44045072 Score: 140
Period size: 59 Copynumber: 2.6 Consensus size: 58
44044913 GGCTGTCATA
** * * * * *
44044923 GCATCTTTCATTTATGGTCTTACAC-CGCAACTTTATACCTTATACCGTGTTGCCATG
1 GCATCTTTCATCCATGGTCTTACACACGTACCTTTATACCTGATACCATATTGCCATG
** * * ** * *
44044980 GTGTCTTTCATCCATAGTCTTACGCCATATACCTTTTTACCTGGTACCATATTGCCATG
1 GCATCTTTCATCCATGGTCTTAC-ACACGTACCTTTATACCTGATACCATATTGCCATG
44045039 GCATCTTTCATCCATGGTCTTACACTACGTACCT
1 GCATCTTTCATCCATGGTCTTACAC-ACGTACCT
44045073 CATACCAAAC
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
57 18 0.26
58 2 0.03
59 49 0.71
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (58 bp):
GCATCTTTCATCCATGGTCTTACACACGTACCTTTATACCTGATACCATATTGCCATG
Found at i:44051108 original size:29 final size:26
Alignment explanation
Indices: 44051053--44051118 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 26
44051043 ACTCTTAGTG
44051053 ATTTTAAAATTTATTCTTTTACTTTT
1 ATTTTAAAATTTATTCTTTTACTTTT
*
44051079 ATTTTAAGGAATTTAATTTTTTTACTTTT
1 ATTTTAA--AATTT-ATTCTTTTACTTTT
44051108 ATGATTTAAAA
1 AT--TTTAAAA
44051119 ATGCAAGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 7 0.21
28 5 0.15
29 17 0.50
31 5 0.15
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTTTAAAATTTATTCTTTTACTTTT
Found at i:44051441 original size:3 final size:3
Alignment explanation
Indices: 44051433--44051484 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
44051423 CGTTTATCAA
44051433 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
44051481 AAG A
1 AAG A
44051485 GAAAAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44052264 original size:3 final size:3
Alignment explanation
Indices: 44052258--44052298 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
44052248 TTACAATCTT
44052258 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
44052299 AATCTTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:44052307 original size:3 final size:3
Alignment explanation
Indices: 44052301--44052333 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
44052291 ATCATCATAA
*
44052301 TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
44052334 CTGTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:44052496 original size:31 final size:30
Alignment explanation
Indices: 44052459--44052527 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
44052449 ATGTTAGTGC
*
44052459 GTGACTGATTTGTCACTTTTTGATAACGTT-A
1 GTGACTGATTTGTCA-TTTTT-ATAAAGTTGA
* * *
44052490 GTGACTGTTTTGTTATTTTTCTAAAGTTGA
1 GTGACTGATTTGTCATTTTTATAAAGTTGA
44052520 GTGACTGA
1 GTGACTGA
44052528 AATGAAACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 6 0.19
30 13 0.41
31 13 0.41
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (30 bp):
GTGACTGATTTGTCATTTTTATAAAGTTGA
Found at i:44055541 original size:3 final size:3
Alignment explanation
Indices: 44055535--44055639 Score: 81
Period size: 3 Copynumber: 35.3 Consensus size: 3
44055525 ATAATAATAA
* * *
44055535 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT T-T TGT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
44055581 ATCT TCA- TCT TAA TAA TAA TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
44055627 TAT TTT TAT TAT T
1 TAT TAT TAT TAT T
44055640 TTGTTTCATG
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
2 3 0.04
3 81 0.95
4 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:44058856 original size:16 final size:15
Alignment explanation
Indices: 44058824--44058854 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44058814 TCTCTAGAAC
44058824 TATCAAACATTTTTT
1 TATCAAACATTTTTT
44058839 TATCAAACATTTTTT
1 TATCAAACATTTTTT
44058854 T
1 T
44058855 TACTCGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (15 bp):
TATCAAACATTTTTT
Found at i:44093161 original size:43 final size:44
Alignment explanation
Indices: 44093092--44093241 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 44
44093082 ATATCCCAGA
* * * *
44093092 TATGGTCTTACATGTAATCTCCTATCGATGCTAATAG-CTCA-GC
1 TATGGTCTTACATGAAATCTCATATCGATGCCAAT-GTCTCATAC
* *
44093135 TATGGTCTTACATGAAATCACATATCGATGCCAGTGTCTCATAC
1 TATGGTCTTACATGAAATCTCATATCGATGCCAATGTCTCATAC
* * * *
44093179 -ATGGTCTTACATGAAGTCTCATATCGATGCC-ATATCCCA-AA
1 TATGGTCTTACATGAAATCTCATATCGATGCCAATGTCTCATAC
* *
44093220 TATGGTCTTACACGTAATCTCA
1 TATGGTCTTACATGAAATCTCA
44093242 AAAATCCTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 63 0.71
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
TATGGTCTTACATGAAATCTCATATCGATGCCAATGTCTCATAC
Found at i:44093853 original size:26 final size:26
Alignment explanation
Indices: 44093817--44093871 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
44093807 ATAGAACTTG
*
44093817 TATGATTCACAAAAAATTTCATAATC
1 TATGATTCACAAAAAAATTCATAATC
44093843 TATGATTCACAAAAAAATTCATAATC
1 TATGATTCACAAAAAAATTCATAATC
44093869 TAT
1 TAT
44093872 CATCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (26 bp):
TATGATTCACAAAAAAATTCATAATC
Done.