Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 163 of 318
Found at i:50306796 original size:47 final size:47
Alignment explanation
Indices: 50306741--50306861 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
50306731 ATGCCTTGGT
* * * * *
50306741 ATGGTCTTACATGATAACCTTATCTTACCAAATGCCATGTTCCAAAG
1 ATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAAC
50306788 ATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAAC
50306835 ATGGTCTTACATGGTATCCTTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
50306862 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAAC
Found at i:50320436 original size:49 final size:49
Alignment explanation
Indices: 50320383--50321146 Score: 1234
Period size: 49 Copynumber: 15.7 Consensus size: 49
50320373 GATTTTATGC
* * *
50320383 GATGAATGTGAATGTGTATATATATGAGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
50320432 GATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCTGATGT
1 GATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGT
50320483 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320532 GACGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
50320581 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
50320630 GACGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
50320679 GACGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
50320728 GACGAATGTGAAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320777 GATGAATGTGAAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320826 GATGAATGTGAAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320875 GATGAATGTGAAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320924 GACGAATGTGAAAGTG--TGTATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50320971 GAAGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
50321020 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
50321067 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
50321116 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
50321147 TCCCGAAGGG
Statistics
Matches: 683, Mismatches: 26, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 101 0.15
48 1 0.00
49 535 0.78
51 46 0.07
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:50323651 original size:18 final size:18
Alignment explanation
Indices: 50323618--50323652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50323608 ACGATGGTTA
*
50323618 GAGTTGATAAAGGACTAT
1 GAGTTGATAAACGACTAT
*
50323636 GAGTTGATAATCGACTA
1 GAGTTGATAAACGACTA
50323653 CCACCCGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (18 bp):
GAGTTGATAAACGACTAT
Found at i:50326611 original size:49 final size:47
Alignment explanation
Indices: 50326552--50326659 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 47
50326542 TGAGATGTGT
*
50326552 TAGTGGAAGACCTATCTAGGACATGGCATAAACACAGATAAGTGAGAGA
1 TAGTGTAAGACCTATCTAGGACATGGCATAAACACAGAT--GTGAGAGA
* * * ** *
50326601 TAGTGTAAGACCTGTCTCGGACATGGCATCAACTTAGATGTGAGAGC
1 TAGTGTAAGACCTATCTAGGACATGGCATAAACACAGATGTGAGAGA
*
50326648 CAGTGTAAGACC
1 TAGTGTAAGACC
50326660 ATGTTTGGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 18 0.35
49 33 0.65
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (47 bp):
TAGTGTAAGACCTATCTAGGACATGGCATAAACACAGATGTGAGAGA
Found at i:50330308 original size:30 final size:30
Alignment explanation
Indices: 50330272--50330372 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
50330262 GACAAGATTG
* * *
50330272 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50330302 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50330330 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
50330359 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50330373 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:50330384 original size:29 final size:28
Alignment explanation
Indices: 50330301--50330376 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
50330291 AAAATTGTAC
* *
50330301 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
50330329 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
50330358 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
50330377 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:50338199 original size:30 final size:30
Alignment explanation
Indices: 50338163--50338263 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
50338153 GACAAGATTG
* * *
50338163 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50338193 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50338221 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
50338250 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50338264 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:50338275 original size:29 final size:28
Alignment explanation
Indices: 50338192--50338267 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
50338182 AAAATTGTAC
* *
50338192 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
50338220 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
50338249 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
50338268 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:50341885 original size:38 final size:38
Alignment explanation
Indices: 50341824--50341936 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
50341814 ATTTGATGTG
* *
50341824 TATCCGGGCTTAAACACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTAGTGCTGGTAAAA
* **
50341864 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAAAA
* * *
50341902 TATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
50341937 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAAAA
Found at i:50341937 original size:38 final size:38
Alignment explanation
Indices: 50341840--50341942 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
50341830 GGCTTAAACA
* ** * *
50341840 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
*
50341878 CCCGCAGGCTTTGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
*
50341916 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTAGTGCTGGTATTATAT
50341943 TCGGGCCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
Found at i:50342279 original size:43 final size:43
Alignment explanation
Indices: 50341940--50342266 Score: 591
Period size: 43 Copynumber: 7.6 Consensus size: 43
50341930 GCTGGTATTA
50341940 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
50341983 TATTCGGGCCTTCATGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
50342026 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
50342069 TATTCGGGCCTTCGCGCCTAGTAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
50342112 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
50342155 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
50342198 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
50342241 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
50342267 GTAATGCCGG
Statistics
Matches: 274, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 274 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:50344097 original size:54 final size:54
Alignment explanation
Indices: 50343912--50344217 Score: 393
Period size: 55 Copynumber: 5.6 Consensus size: 54
50343902 AACTTACCAT
** *
50343912 TGCCATGTTTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * *
50343965 TGCCATGCCTT-AGCATGGTCTTACATGGGACCCTTGCCTTATAATAACTCATCAA
1 TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTAT-AGAACTCATCAA
* * *
50344020 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * *
50344074 TGCCATGCCTTGTCATGTTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAA
* * * *
50344129 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* *
50344183 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
50344218 ATCTTACCAA
Statistics
Matches: 218, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.00
53 38 0.17
54 87 0.40
55 89 0.41
56 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
Found at i:50344113 original size:109 final size:108
Alignment explanation
Indices: 50343912--50344209 Score: 481
Period size: 109 Copynumber: 2.7 Consensus size: 108
50343902 AACTTACCAT
* * *
50343912 TGCCATGTTTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
50343976 AGCATGGTCTTACATGGGACCCTTGCCTTATAATAACTCATCAA
66 -GCATGGTCTTACATGGGACCCTTGCCTTATAATAACTCATCAA
*
50344020 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
* * *
50344085 GTCATGTTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 G-CATGGTCTTACATGGGACCCTTGCCTTATAATAACTCATCAA
* *
50344129 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
50344194 GGCATGGTCTTACATG
66 -GCATGGTCTTACATG
50344210 ATATCCTTAT
Statistics
Matches: 176, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
108 41 0.23
109 134 0.76
110 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
GCATGGTCTTACATGGGACCCTTGCCTTATAATAACTCATCAA
Found at i:50344253 original size:47 final size:47
Alignment explanation
Indices: 50344196--50344317 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
50344186 CATGCCTTGG
* *
50344196 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
50344243 CATGGACTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
50344290 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
50344318 GTGCCAATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:50345121 original size:29 final size:30
Alignment explanation
Indices: 50345078--50345134 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
50345068 CTAACTCAAA
50345078 CTTTGGCAAAATTACAATTTTGCCCCTAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAC
* *
50345108 CTTT-GCAGAATTACGATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
50345135 GGCTCAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAC
Found at i:50346706 original size:21 final size:22
Alignment explanation
Indices: 50346666--50346707 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50346656 ACAAAGAAGG
*
50346666 CCACATGGGCGTGTTGCCCCTT
1 CCACACGGGCGTGTTGCCCCTT
50346688 CCACACGGGCGTG-TGCCCCT
1 CCACACGGGCGTGTTGCCCCT
50346708 GTTTCAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
CCACACGGGCGTGTTGCCCCTT
Found at i:50348472 original size:38 final size:39
Alignment explanation
Indices: 50348430--50348516 Score: 95
Period size: 44 Copynumber: 2.1 Consensus size: 39
50348420 TCTAGCTAAA
50348430 CAAAATTAAACTATCATCGTTAAT-AAAAAACATCAAAG
1 CAAAATTAAACTATCATCGTTAATAAAAAAACATCAAAG
* *
50348468 CAAAATGCAAATTAAGCTATCATTGTTAATAAAAAAACATCAAAG
1 C---A---AAATTAAACTATCATCGTTAATAAAAAAACATCAAAG
50348513 CAAA
1 CAAA
50348517 TTGCAAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
38 1 0.03
39 2 0.05
41 1 0.03
42 1 0.03
44 20 0.50
45 15 0.38
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (39 bp):
CAAAATTAAACTATCATCGTTAATAAAAAAACATCAAAG
Found at i:50348480 original size:44 final size:45
Alignment explanation
Indices: 50348432--50348523 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
50348422 TAGCTAAACA
50348432 AAATTAAACTATCATCGTTAAT-AAAAAACATCAAAGCAAAATGC
1 AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGCAAAATGC
* * *
50348476 AAATTAAGCTATCATTGTTAATAAAAAAACATCAAAGCAAATTGC
1 AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGCAAAATGC
50348521 AAA
1 AAA
50348524 CATATTGAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (45 bp):
AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGCAAAATGC
Found at i:50358423 original size:40 final size:40
Alignment explanation
Indices: 50358295--50358425 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
50358285 TATGCTGGAA
* * * *
50358295 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
50358335 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
50358375 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
50358415 ATTATATCCGG
1 ATTATATCCGG
50358426 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:50366428 original size:40 final size:40
Alignment explanation
Indices: 50366300--50366430 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
50366290 TATGCTGGAA
* * * *
50366300 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
50366340 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
50366380 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
50366420 ATTATATCCGG
1 ATTATATCCGG
50366431 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:50374472 original size:37 final size:37
Alignment explanation
Indices: 50374362--50374474 Score: 181
Period size: 37 Copynumber: 3.1 Consensus size: 37
50374352 CTTTAGCTCA
* * *
50374362 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCA
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
50374399 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
50374436 GACATAATCCCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
50374473 GA
1 GA
50374475 ATATATTTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:50374758 original size:47 final size:47
Alignment explanation
Indices: 50374687--50374966 Score: 452
Period size: 47 Copynumber: 6.0 Consensus size: 47
50374677 TTTCACACTA
* * * * *
50374687 GCCATCCGGCTTTACCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
50374734 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
50374781 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
50374828 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
50374875 CCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
***
50374922 GCCATTCGGCCTTATCACATATATGCACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
50374967 AAAATCCTAA
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:50374776 original size:25 final size:25
Alignment explanation
Indices: 50374747--50374824 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
50374737 ATTCGGCCTT
50374747 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
50374772 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
50374794 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
50374819 ATCACA
1 ATCACA
50374825 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:50374963 original size:25 final size:25
Alignment explanation
Indices: 50374841--50374967 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
50374831 ATTCGGCCTT
***
50374841 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
50374866 ATCAC--AT-TGCCCATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
50374888 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
50374913 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
50374935 ATCACATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
50374960 ATCACATA
1 ATCACATA
50374968 AAATCCTAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
22 20 0.27
23 11 0.15
24 11 0.15
25 31 0.42
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:50378660 original size:12 final size:12
Alignment explanation
Indices: 50378615--50378665 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
50378605 ACTTAATCAC
50378615 TTTAATATTAAA
1 TTTAATATTAAA
50378627 -TTAATATAGATAAA
1 TTTAATAT---TAAA
50378641 TATT-ATATTAAA
1 T-TTAATATTAAA
50378653 TTTAATATTAAA
1 TTTAATATTAAA
50378665 T
1 T
50378666 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
11 9 0.27
12 14 0.42
14 4 0.12
15 4 0.12
16 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:50384152 original size:42 final size:43
Alignment explanation
Indices: 50384051--50384209 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
50384041 AGTAAATACA
* * *
50384051 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAACTTCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAACTTCG
* * *
50384094 ATGCCATTATCCCAGACAGGGTCTTACACGAAATCATA-TAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAACT-TCG
* * * *
50384136 ATGCCAATGTCCCAGACATGGTCTTACACATAAAACAGAA-GTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAC-GAAATCA-AACTTCG
* *
50384180 ATGCCAACGCCCCAGAC-GTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
50384210 CAAAATAGAT
Statistics
Matches: 93, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 28 0.30
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAACTTCG
Found at i:50389423 original size:46 final size:46
Alignment explanation
Indices: 50389373--50389548 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
50389363 TGGTTGAGCA
50389373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
50389419 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
50389464 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50389512 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50389549 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.56
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50389529 original size:93 final size:93
Alignment explanation
Indices: 50389370--50389541 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
50389360 GGATGGTTGA
*
50389370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
50389435 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
50389463 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
50389527 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
50389542 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50396986 original size:46 final size:46
Alignment explanation
Indices: 50396936--50397111 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
50396926 TGGTTGAGCA
50396936 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50396982 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
50397027 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50397075 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50397112 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 62 0.56
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50397092 original size:93 final size:93
Alignment explanation
Indices: 50396933--50397104 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
50396923 GGATGGTTGA
*
50396933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
50396998 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
50397026 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
50397090 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
50397105 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50403605 original size:26 final size:26
Alignment explanation
Indices: 50403544--50403607 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
50403534 CCCAAAAAAT
*
50403544 GATGAATGACTGTTATGCCCCTATGA
1 GATGAATGACTATTATGCCCCTATGA
* * *
50403570 GGTAAAATGACTATTATGCCCTTATGA
1 GAT-GAATGACTATTATGCCCCTATGA
*
50403597 GATGTATGACT
1 GATGAATGACT
50403608 GTACTGAGCA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (26 bp):
GATGAATGACTATTATGCCCCTATGA
Found at i:50410508 original size:44 final size:43
Alignment explanation
Indices: 50410456--50410617 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
50410446 TGAAAAAAAT
* * * **
50410456 GCCA-TAAAAGATCAAGACTTTTAGCAGTGTTTTTGGGAAAGGC
1 GCCACTAAAAG-TCATGGCTTTTAGCAGCGTTTGCGGGAAAGGC
* *
50410499 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGCGGGAAAGGC
1 GCCACTAAAAGTCATGGCTTTTAGCAGCGTTTGCGGGAAAGGC
** *
50410542 GCCACTAAAAGTCATGGCTTTTAGTGGCGTTTGTGGGGAAA-GC
1 GCCACTAAAAGTCATGGCTTTTAGCAGCGTTTG-CGGGAAAGGC
* ** **
50410585 GTCGTTAAAAGTCATGGCTTTTAGTGGCGTTTG
1 GCCACTAAAAGTCATGGCTTTTAGCAGCGTTTG
50410618 TGGTGGAAGC
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 92 0.88
44 12 0.12
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
GCCACTAAAAGTCATGGCTTTTAGCAGCGTTTGCGGGAAAGGC
Found at i:50410520 original size:43 final size:42
Alignment explanation
Indices: 50410473--50410747 Score: 239
Period size: 43 Copynumber: 6.4 Consensus size: 42
50410463 AAGATCAAGA
* *
50410473 CTTTTAGCAGTGTTTTTGGGAAAGGCGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCGTTTTTGGGAAA-GCGCCGCTAAAAGTCATGG
** *
50410516 CTTTTAGCGGCGTTTGCGGGAAAGGCGCCACTAAAAGTCATGG
1 CTTTTAGCGGCGTTTTTGGGAAA-GCGCCGCTAAAAGTCATGG
* * * *
50410559 CTTTTAGTGGCGTTTGTGGGGAAAGCGTCGTTAAAAGTCATGG
1 CTTTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAAAAGTCATGG
* * * * * **
50410602 CTTTTAGTGGCGTTTGTGGTGGAAGCGCCGTTAAAAGACATTA
1 CTTTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAAAAGTCATGG
* *
50410645 CTTTTTGCGGCGTTTTTGGGTCAAAGTGCCGCTAAAAGTCAT-G
1 CTTTTAGCGGCGTTTTTGGG--AAAGCGCCGCTAAAAGTCATGG
** *** * *
50410688 CTTTTAG-GGCACTTTTCCTACAAACGCCGCTAAAAGTCATGT
1 CTTTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAAAAGTCATGG
*
50410730 CTTTTAGCGGCGCTTTTG
1 CTTTTAGCGGCGTTTTTG
50410748 TTACAAACAC
Statistics
Matches: 188, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.01
41 17 0.09
42 17 0.09
43 131 0.70
44 22 0.12
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
CTTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAAGTCATGG
Found at i:50410718 original size:41 final size:43
Alignment explanation
Indices: 50410672--50410763 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
50410662 GGGTCAAAGT
50410672 GCCGCTAAAAGTCATG-CTTTTAG-GGCACTTTTCCTACAAAC
1 GCCGCTAAAAGTCATGTCTTTTAGCGGCACTTTTCCTACAAAC
* **
50410713 GCCGCTAAAAGTCATGTCTTTTAGCGGCGCTTTTGTTACAAAC
1 GCCGCTAAAAGTCATGTCTTTTAGCGGCACTTTTCCTACAAAC
*
50410756 ACCGCTAA
1 GCCGCTAA
50410764 TTTTGGCAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 16 0.36
42 7 0.16
43 22 0.49
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGTCTTTTAGCGGCACTTTTCCTACAAAC
Found at i:50412915 original size:30 final size:30
Alignment explanation
Indices: 50412860--50413049 Score: 282
Period size: 30 Copynumber: 6.5 Consensus size: 30
50412850 ATAGTGAATC
50412860 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50412889 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50412919 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50412948 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
50412978 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50413006 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50413036 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50413050 CAATCTTGTC
Statistics
Matches: 150, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.01
28 22 0.15
29 48 0.32
30 77 0.51
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50412952 original size:59 final size:59
Alignment explanation
Indices: 50412860--50413049 Score: 294
Period size: 59 Copynumber: 3.2 Consensus size: 59
50412850 ATAGTGAATC
50412860 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
50412919 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * * * *
50412978 CGCACACTTAGTGCTATATA--ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATATTTTC-AGCTCGCACACTTAGTGCTATATAATTTTCAGCT
50413036 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50413050 CAATCTTGTC
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
57 2 0.02
58 42 0.34
59 79 0.64
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50414733 original size:13 final size:14
Alignment explanation
Indices: 50414706--50414737 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
50414696 ATTAACGACG
50414706 AATTAAACTATTAT
1 AATTAAACTATTAT
50414720 AATTAAAC-ATTAT
1 AATTAAACTATTAT
50414733 AATTA
1 AATTA
50414738 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTAAACTATTAT
Found at i:50416594 original size:21 final size:19
Alignment explanation
Indices: 50416578--50416613 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50416568 AAAAATTGAA
50416578 AAAGCAGCCATTAAAA-TG
1 AAAGCAGCCATTAAAATTG
*
50416596 GAAGCAGCCATTAAAATT
1 AAAGCAGCCATTAAAATT
50416614 TATTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
AAAGCAGCCATTAAAATTG
Found at i:50418535 original size:28 final size:29
Alignment explanation
Indices: 50418477--50418549 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
50418467 TTAATCAAAA
* *
50418477 CCCTAAACCTTAAAC-CATTAAACTTTCTC
1 CCCTAAACCTTAAACTCA-TAAACTATATC
50418506 CCC-ATAACCTTAAACTC-TAAACTATATC
1 CCCTA-AACCTTAAACTCATAAACTATATC
*
50418534 CCCTAAACCCTAAACT
1 CCCTAAACCTTAAACT
50418550 ATATCCCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 23 0.61
29 14 0.37
30 1 0.03
ACGTcount: A:0.37, C:0.36, G:0.00, T:0.27
Consensus pattern (29 bp):
CCCTAAACCTTAAACTCATAAACTATATC
Found at i:50418540 original size:21 final size:21
Alignment explanation
Indices: 50418516--50418569 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
50418506 CCCATAACCT
*
50418516 TAAACTCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
50418537 TAAACCCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
50418558 TAAACCATAAAC
1 TAAACCCTAAAC
50418570 CACAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:50418777 original size:35 final size:35
Alignment explanation
Indices: 50418738--50418806 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
50418728 AACTATATCC
50418738 CCTAAACCCTAAACCACAAAACAATAACCCCTAAG
1 CCTAAACCCTAAACCACAAAACAATAACCCCTAAG
* ** * *
50418773 CCTAAACCCTCAACCATTAACCCATAACCCCTAA
1 CCTAAACCCTAAACCACAAAACAATAACCCCTAA
50418807 ACCCCTAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.41, G:0.01, T:0.14
Consensus pattern (35 bp):
CCTAAACCCTAAACCACAAAACAATAACCCCTAAG
Found at i:50418808 original size:29 final size:28
Alignment explanation
Indices: 50418773--50418856 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
50418763 AACCCCTAAG
50418773 CCTAAACCCTCAACCATTAACCCATAACC
1 CCTAAACCC-CAACCATTAACCCATAACC
* **
50418802 CCTAAACCCCTAACCACTAACTTATAACC
1 CCTAAACCCC-AACCATTAACCCATAACC
* * *
50418831 CTTAAACCCCAACCCTTAAACCATAA
1 CCTAAACCCCAACCATTAACCCATAA
50418857 GTCATAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 12 0.27
29 33 0.73
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (28 bp):
CCTAAACCCCAACCATTAACCCATAACC
Found at i:50418885 original size:15 final size:15
Alignment explanation
Indices: 50418865--50418893 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50418855 AAGTCATAAA
50418865 ATAATCCCTAAACCC
1 ATAATCCCTAAACCC
50418880 ATAATCCCTAAACC
1 ATAATCCCTAAACC
50418894 TTTAAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAATCCCTAAACCC
Found at i:50422392 original size:13 final size:13
Alignment explanation
Indices: 50422376--50422408 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50422366 TTTAATTAAA
*
50422376 TTAGTTAATTAGT
1 TTAGATAATTAGT
50422389 TTAGATAATTAGT
1 TTAGATAATTAGT
50422402 TTA-ATAA
1 TTAGATAA
50422409 ACGAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50428943 original size:40 final size:40
Alignment explanation
Indices: 50428833--50428999 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
50428823 TCTTCAGAAT
* * * *
50428833 TTAG-CCGGATATAATCCACAAGCACAATTTCCTTCGGGTC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * *** *
50428873 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
50428913 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCCGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
50428953 TTAGCCCGGATATGATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AACAACTAGCACAAATGCCTTCGGGTC
50428993 TTAGCCC
1 TTAGCCC
50429000 AGGTATCATT
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 92 0.91
41 9 0.09
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:50436938 original size:40 final size:40
Alignment explanation
Indices: 50436889--50437055 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
50436879 TCTTCGGAAT
* * *
50436889 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
50436928 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50436968 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
50437008 TTAGCCCGGATATATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
50437047 TTAGCCCGG
1 TTAGCCCGG
50437056 TATCATTCAA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 31 0.29
40 75 0.71
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:50437016 original size:80 final size:79
Alignment explanation
Indices: 50436880--50437055 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 79
50436870 AACCGAGTTT
* * * * *
50436880 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATAT-AT
*
50436944 AACTTGCACAAATGC
65 AACTAGCACAAATGC
* ** *
50436959 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAT
* *
50437023 CACTAGCATAAATGC
65 AACTAGCACAAATGC
50437038 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
50437056 TATCATTCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 40 0.49
80 40 0.49
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATATA
ACTAGCACAAATGC
Found at i:50439123 original size:6 final size:6
Alignment explanation
Indices: 50439108--50439193 Score: 70
Period size: 6 Copynumber: 14.7 Consensus size: 6
50439098 TCCTCCTATC
* * *
50439108 TTTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTATTA TTTTTC TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * **
50439154 TTTTTC TTTTT- CTTTTA TTTTCA TTTCAA TTTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTT
50439194 GAAAGACATA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
5 14 0.21
6 48 0.73
7 4 0.06
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:50439124 original size:11 final size:11
Alignment explanation
Indices: 50439108--50439179 Score: 58
Period size: 11 Copynumber: 6.3 Consensus size: 11
50439098 TCCTCCTATC
50439108 TTTTTATTTTA
1 TTTTTATTTTA
50439119 TTTTTATTTT-
1 TTTTTATTTTA
50439129 TATTTTATTATTA
1 T-TTTTATT-TTA
* *
50439142 TTTTTCTTTTTC
1 TTTTT-ATTTTA
*
50439154 TTTTTCTTTT-
1 TTTTTATTTTA
50439164 TCTTTTATTTTCA
1 T-TTTTATTTT-A
50439177 TTT
1 TTT
50439180 CAATTTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.04
11 29 0.58
12 15 0.30
13 4 0.08
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:50439130 original size:17 final size:17
Alignment explanation
Indices: 50439108--50439179 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
50439098 TCCTCCTATC
50439108 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
*
50439125 TTTTTATTTTATTATTA
1 TTTTTATTTTATTTTTA
* * *
50439142 TTTTTCTTTTTCTTTTTC
1 TTTTT-ATTTTATTTTTA
* *
50439160 TTTTTCTTTTATTTTCA
1 TTTTTATTTTATTTTTA
50439177 TTT
1 TTT
50439180 CAATTTTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 32 0.71
18 13 0.29
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:50443916 original size:13 final size:14
Alignment explanation
Indices: 50443893--50443924 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50443883 ATTATTGCGT
50443893 GAAAGTTTCATGAA
1 GAAAGTTTCATGAA
50443907 GAAA-TTTCATGAA
1 GAAAGTTTCATGAA
50443920 -AAAGT
1 GAAAGT
50443925 GTCCAATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (14 bp):
GAAAGTTTCATGAA
Found at i:50445062 original size:48 final size:48
Alignment explanation
Indices: 50444992--50445224 Score: 230
Period size: 48 Copynumber: 4.9 Consensus size: 48
50444982 TCAGGATATG
* * *
50444992 TGTGATCCCATGTAAAACCATGTTTGGGACATGGAATTGGCATCGAAA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAA
50445040 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-AATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA-A
* * * * * *
50445088 TGAGA-CATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGAAA
**
50445131 TGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTA
1 TG--TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAA
* ** *
50445181 TGTGATCCCATGTAAGACCATATCCAGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
50445225 CTACTATGTG
Statistics
Matches: 153, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 19 0.12
46 3 0.02
47 5 0.03
48 101 0.66
49 1 0.01
50 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAA
Found at i:50447144 original size:16 final size:17
Alignment explanation
Indices: 50447114--50447146 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50447104 TCACACCATG
*
50447114 AATTTCACAAGTGAATT
1 AATTTCACAAATGAATT
50447131 AATTT-ACAAATGAATT
1 AATTTCACAAATGAATT
50447147 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTTCACAAATGAATT
Found at i:50449649 original size:26 final size:25
Alignment explanation
Indices: 50449616--50449674 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
50449606 TTACCCCAAC
50449616 AAAATTTTCAC-AATTTTACCTCTGGT
1 AAAATTTTCACGAATTTTA-C-CTGGT
* *
50449642 AAAATTTTGACGATTTTTACCTGGT
1 AAAATTTTCACGAATTTTACCTGGT
50449667 AAAATTTT
1 AAAATTTT
50449675 GAGAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 13 0.43
26 11 0.37
27 6 0.20
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (25 bp):
AAAATTTTCACGAATTTTACCTGGT
Found at i:50452050 original size:30 final size:30
Alignment explanation
Indices: 50452016--50452073 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
50452006 ATTTTCGTGC
* *
50452016 CTAGGGGTAAAATGGTCATTTTATCAAAAT
1 CTAGGGGCAAAATGGTCATTTTACCAAAAT
50452046 CTAGGGGCAAAATGGTCATTTTACCAAA
1 CTAGGGGCAAAATGGTCATTTTACCAAA
50452074 GATATGAATT
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:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAAT
Found at i:50452485 original size:46 final size:44
Alignment explanation
Indices: 50452418--50452532 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 44
50452408 TGTGTGAGCT
* * *
50452418 AGTGTAAGAAATGTCTAGGACATGCATCGGCCCTGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAG--ATAAGCC
* ** *
50452464 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATAAGCC
50452508 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
50452533 GAATCAGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 13 0.21
45 15 0.25
46 33 0.54
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATAAGCC
Found at i:50453784 original size:20 final size:21
Alignment explanation
Indices: 50453745--50453784 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50453735 GTTGAAATGG
*
50453745 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
50453766 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
50453785 ATTTCAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:50458155 original size:40 final size:40
Alignment explanation
Indices: 50458034--50458220 Score: 143
Period size: 40 Copynumber: 4.7 Consensus size: 40
50458024 GCTACTCGTT
* *
50458034 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAA-C-CC-GCA
1 CAAATGCCTTCGGGACTTAGCCCGG--AT-GTAATCACCAGCA
* * *
50458074 CAAAGGCCTTCGGGACTTAACCCGGAT-T--TCACAATTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATGTAATCACCA---GCA
* * *
50458114 CAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATGTAATCACCAGCA
* * * *
50458154 CAATTGCCTTCGGGCCTTAACCCGGATGTAATTACCAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATGTAATCACCAGCA
* * *
50458194 TAAATGTCTTTGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
50458221 ATCATTCAAT
Statistics
Matches: 118, Mismatches: 20, Indels: 18
0.76 0.13 0.12
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
38 2 0.02
40 107 0.91
41 1 0.01
43 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATGTAATCACCAGCA
Found at i:50468192 original size:31 final size:30
Alignment explanation
Indices: 50468156--50468239 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
50468146 TTCTACCCAA
50468156 TTATAATTTTTATAATTTTTTCTACAATTTG
1 TTATAATTTTTATAATTTTTT-TACAATTTG
* * *
50468187 TTATAAGTTTATATAA-TATTTTACAATTTT
1 TTATAA-TTTTTATAATTTTTTTACAATTTG
50468217 TTAATAATTTTTAATAATTTTTT
1 TT-ATAATTTTT-ATAATTTTTT
50468240 ATTTACATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 14 0.32
31 18 0.41
32 12 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATAATTTTTATAATTTTTTTACAATTTG
Found at i:50468218 original size:10 final size:10
Alignment explanation
Indices: 50468156--50468241 Score: 75
Period size: 10 Copynumber: 8.4 Consensus size: 10
50468146 TTCTACCCAA
50468156 TTATAA-TTT
1 TTATAATTTT
50468165 TTATAATTTTT
1 TTATAA-TTTT
* *
50468176 TCTACAATTTG
1 T-TATAATTTT
*
50468187 TTATAAGTTT
1 TTATAATTTT
* *
50468197 ATATAATATT
1 TTATAATTTT
*
50468207 TTACAATTTT
1 TTATAATTTT
50468217 TTAATAATTTT
1 TT-ATAATTTT
*
50468228 TAATAATTTT
1 TTATAATTTT
50468238 TTAT
1 TTAT
50468242 TTACATCTGG
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
9 6 0.10
10 33 0.56
11 16 0.27
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (10 bp):
TTATAATTTT
Found at i:50476236 original size:26 final size:26
Alignment explanation
Indices: 50476206--50476339 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
50476196 TGATATTCCC
50476206 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50476232 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50476258 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
50476284 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50476310 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50476336 ATCA
1 ATCA
50476340 ATTTTTACCA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:50479333 original size:17 final size:18
Alignment explanation
Indices: 50479296--50479336 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
50479286 GTATGCCATG
*
50479296 AAATTTATTTTAATTCAA
1 AAATTTATTTTAATGCAA
*
50479314 AAATTTA-TTTCATGCAA
1 AAATTTATTTTAATGCAA
50479331 AAATTT
1 AAATTT
50479337 TGTAGTCCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (18 bp):
AAATTTATTTTAATGCAA
Found at i:50482941 original size:17 final size:17
Alignment explanation
Indices: 50482916--50483003 Score: 62
Period size: 17 Copynumber: 5.4 Consensus size: 17
50482906 ATAGGGACTA
50482916 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
50482933 ATATGTAAT-AAA-AT-
1 ATATATAATAAAATATG
*
50482947 ATATA-AATAAAATATAA
1 ATATATAATAAAATAT-G
* **
50482964 ATAATATGATAAAATAAC
1 AT-ATATAATAAAATATG
*
50482982 ATATA-AATAAAA-ATA
1 ATATATAATAAAATATG
50482997 ATATATA
1 ATATATA
50483004 CTATTTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.05
14 7 0.12
15 10 0.18
16 10 0.18
17 13 0.23
18 5 0.09
19 8 0.14
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:50482963 original size:11 final size:11
Alignment explanation
Indices: 50482947--50482997 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
50482937 GTAATAAAAT
50482947 ATATAAATAAA
1 ATATAAATAAA
*
50482958 ATATAAATAAT
1 ATATAAATAAA
*
50482969 ATGATAAAATAAC
1 AT-AT-AAATAAA
50482982 ATATAAATAAA
1 ATATAAATAAA
50482993 A-ATAA
1 ATATAA
50482998 TATATACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 4 0.11
11 19 0.54
12 4 0.11
13 8 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (11 bp):
ATATAAATAAA
Found at i:50482978 original size:24 final size:22
Alignment explanation
Indices: 50482944--50482991 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
50482934 TATGTAATAA
50482944 AATATATAAATAAAATATAAAT
1 AATATATAAATAAAATATAAAT
*
50482966 AATATGATAAAATAACATATAAAT
1 AATAT-AT-AAATAAAATATAAAT
50482990 AA
1 AA
50482992 AAATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 2 0.09
24 16 0.70
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATATAAATAAAATATAAAT
Found at i:50483266 original size:30 final size:30
Alignment explanation
Indices: 50483232--50483289 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
50483222 ATAATGGCCA
*
50483232 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACAAAATTGAAACAAAAATAAAAGG
* ** *
50483262 TTAGGGCAAAATTTTAATAAAAATAAAA
1 TTAGGACAAAATTGAAACAAAAATAAAA
50483290 TGAAATGGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (30 bp):
TTAGGACAAAATTGAAACAAAAATAAAAGG
Found at i:50485075 original size:45 final size:45
Alignment explanation
Indices: 50485021--50485212 Score: 205
Period size: 45 Copynumber: 4.3 Consensus size: 45
50485011 CTCGGATGCT
* *
50485021 TCACTTATATCACGAACTTGGACCAACTCAACAAGTTCAGATTTC
1 TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
* ** *
50485066 TCACATATATCACAAACTCGGACCAACTCAATGAGCTCAGATGTTC
1 TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGAT-TTC
* * *
50485112 TCATCCATA-AT---GAACTCGGACCAACTCAACGAGTTCGGA-TAC
1 TCA--CATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
* **
50485154 TTCACATATATCACGAACTTGGACCAACTCAACAAGTTCAGATGCC
1 -TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
50485200 TCACATATATCAC
1 TCACATATATCAC
50485213 ATAATATCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.03
42 4 0.03
43 3 0.02
44 24 0.20
45 74 0.61
46 7 0.06
47 2 0.02
48 4 0.03
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (45 bp):
TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
Found at i:50485186 original size:134 final size:134
Alignment explanation
Indices: 50484972--50485213 Score: 396
Period size: 134 Copynumber: 1.8 Consensus size: 134
50484962 TGGATGTCAC
* * * *
50484972 ATGTATCTATCCATTATGAACTCGAACCAACTTAACGAGCTCGGATGCTTCACTTATATCACGAA
1 ATGTATCTATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATACTTCACATATATCACGAA
**
50485037 CTTGGACCAACTCAACAAGTTCAGATTTCTCACATATATCACAAACTCGGACCAACTCAATGAGC
66 CTTGGACCAACTCAACAAGTTCAGATGCCTCACATATATCACAAACTCGGACCAACTCAATGAGC
50485102 TCAG
131 TCAG
* *
50485106 ATGT-TCTCATCCATAATGAACTCGGACCAACTCAACGAGTTCGGATACTTCACATATATCACGA
1 ATGTATCT-ATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATACTTCACATATATCACGA
50485170 ACTTGGACCAACTCAACAAGTTCAGATGCCTCACATATATCACA
65 ACTTGGACCAACTCAACAAGTTCAGATGCCTCACATATATCACA
50485214 TAATATCAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
133 3 0.03
134 96 0.97
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (134 bp):
ATGTATCTATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATACTTCACATATATCACGAA
CTTGGACCAACTCAACAAGTTCAGATGCCTCACATATATCACAAACTCGGACCAACTCAATGAGC
TCAG
Found at i:50485195 original size:89 final size:89
Alignment explanation
Indices: 50485034--50485197 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
50485024 CTTATATCAC
* * **
50485034 GAACTTGGACCAACTCAACAAGTTCAGATTTCTCACATATATCACAAACTCGGACCAACTCAATG
1 GAACTCGGACCAACTCAACAAGTTCAGATCTCTCACATATATCACAAACTCGGACCAACTCAACA
50485099 AGCTCAGATGTTCTCATCCATAAT
66 AGCTCAGATGTTCTCATCCATAAT
* * * *
50485123 GAACTCGGACCAACTCAACGAGTTCGGATACT-TCACATATATCACGAACTTGGACCAACTCAAC
1 GAACTCGGACCAACTCAACAAGTTCAGAT-CTCTCACATATATCACAAACTCGGACCAACTCAAC
*
50485187 AAGTTCAGATG
65 AAGCTCAGATG
50485198 CCTCACATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
89 64 0.98
90 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (89 bp):
GAACTCGGACCAACTCAACAAGTTCAGATCTCTCACATATATCACAAACTCGGACCAACTCAACA
AGCTCAGATGTTCTCATCCATAAT
Found at i:50490280 original size:46 final size:46
Alignment explanation
Indices: 50490227--50490402 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50490217 TATTTGGGCA
50490227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50490273 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
50490320 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50490366 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50490403 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50490382 original size:93 final size:93
Alignment explanation
Indices: 50490223--50490394 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50490213 GGGATATTTG
* *
50490223 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50490288 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
50490316 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50490381 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50490395 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50493375 original size:15 final size:15
Alignment explanation
Indices: 50493355--50493423 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
50493345 GTATCTTGGG
50493355 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
50493370 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
50493385 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
50493400 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
50493415 TTTCTTTAT
1 TTTCTTTAT
50493424 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:50493424 original size:30 final size:30
Alignment explanation
Indices: 50493346--50493433 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
50493336 CATAGTATCG
* * * *
50493346 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
50493376 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
50493406 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
50493434 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:50495868 original size:46 final size:46
Alignment explanation
Indices: 50495815--50495990 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50495805 TATTTGGGCA
50495815 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50495861 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
50495908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50495954 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50495991 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50495970 original size:93 final size:93
Alignment explanation
Indices: 50495811--50495982 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50495801 GGGATATTTG
* *
50495811 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50495876 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
50495904 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50495969 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50495983 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50500555 original size:96 final size:96
Alignment explanation
Indices: 50500378--50500556 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
50500368 TCTTTTCTTG
** * * *
50500378 TTGGATATTTAATTGGACATTGGAAACCTTTATGATATTTTGAACTATACCAATAACATTACACA
1 TTGGATATTTAATTGGACATCAGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
*
50500443 AAAGGTGATAACTCAATCTTATTCTCTCTAT
66 AAAGGTGAGAACTCAATCTTATTCTCTCTAT
* * *
50500474 TTGGATATTTAATTGGACATCAGAAACCCTTATGATCTTTTGAACTACACCAAAAACATTTCGCA
1 TTGGATATTTAATTGGACATCAGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
*
50500539 ACAGGTGAGAGA-TCAATC
66 AAAGGTGAGA-ACTCAATC
50500557 GTACTCCTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 71 0.99
97 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATCAGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
AAAGGTGAGAACTCAATCTTATTCTCTCTAT
Found at i:50508525 original size:4 final size:4
Alignment explanation
Indices: 50508518--50508544 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
50508508 TTTTTTATTG
50508518 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
50508545 CTTTTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:50517406 original size:43 final size:42
Alignment explanation
Indices: 50517339--50517490 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
50517329 TTTCACAGGA
* **
50517339 TATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGC
1 TATGGTCTTACACGAAATCACATATCGATGCC-ATAGCCCAGC
* *
50517382 TATGGTCTTACACGATATCTCATATCGATGCCAT-GTCCCAGAC
1 TATGGTCTTACACGAAATCACATATCGATGCCATAG-CCCAG-C
* ** * * * *
50517425 -ATGGTCTTGCACGAAATCACATATTTATGTCATATCCTAGA
1 TATGGTCTTACACGAAATCACATATCGATGCCATAGCCCAGC
*
50517466 TATGGTCTTACACGAAATTACATAT
1 TATGGTCTTACACGAAATCACATAT
50517491 AACCCTAATG
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 60 0.67
43 29 0.32
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCACATATCGATGCCATAGCCCAGC
Found at i:50520538 original size:19 final size:20
Alignment explanation
Indices: 50520493--50520538 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
50520483 TATTGCAATC
* *
50520493 TATGAAATTGTGTTGTTATG
1 TATGAAATTCTGTTATTATG
*
50520513 TAT-AAATTCTGTTATT-TT
1 TATGAAATTCTGTTATTATG
50520531 TATGAAAT
1 TATGAAAT
50520539 GTATGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (20 bp):
TATGAAATTCTGTTATTATG
Found at i:50527267 original size:13 final size:15
Alignment explanation
Indices: 50527242--50527282 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
50527232 AGTTAAGGGT
*
50527242 CAAAATGATAAAAA-
1 CAAAATAATAAAAAC
*
50527256 TAAAA-AATAAAAAC
1 CAAAATAATAAAAAC
50527270 CAAAATAATAAAA
1 CAAAATAATAAAA
50527283 TAAGTAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 7 0.32
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAAATAATAAAAAC
Found at i:50527711 original size:52 final size:53
Alignment explanation
Indices: 50527637--50527737 Score: 177
Period size: 52 Copynumber: 1.9 Consensus size: 53
50527627 AATATTTTTT
*
50527637 AAAAATATTTAACTAATTATATTAATGTTATTTAATTTTAAAAACATTTTTAA
1 AAAAATATTTAACTAATCATATTAATGTTATTTAATTTTAAAAACATTTTTAA
*
50527690 AAAAATATTTAACTAA-CATATTAATGTTATTTAATTTTAAAAATATTT
1 AAAAATATTTAACTAATCATATTAATGTTATTTAATTTTAAAAACATTT
50527738 AATATTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 30 0.65
53 16 0.35
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.47
Consensus pattern (53 bp):
AAAAATATTTAACTAATCATATTAATGTTATTTAATTTTAAAAACATTTTTAA
Found at i:50527736 original size:16 final size:16
Alignment explanation
Indices: 50527717--50527747 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50527707 ATATTAATGT
*
50527717 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
50527733 TATTTAATATTAAAA
1 TATTTAATATTAAAA
50527748 CAACGCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:50544339 original size:24 final size:24
Alignment explanation
Indices: 50544304--50544353 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
50544294 GACACGACCG
50544304 TGTGTCCTAGCCGTGTGATGGACA
1 TGTGTCCTAGCCGTGTGATGGACA
50544328 TGTGT-CTCAGCCGTGTGATGGACA
1 TGTGTCCT-AGCCGTGTGATGGACA
50544352 TG
1 TG
50544354 GCCTAGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (24 bp):
TGTGTCCTAGCCGTGTGATGGACA
Found at i:50548713 original size:24 final size:24
Alignment explanation
Indices: 50548686--50548772 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
50548676 CTTATTATGT
50548686 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
50548710 TCGCACATATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
50548734 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
50548758 TCGCACACATAGTGC
1 TCGCACACATAGTGC
50548773 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:50554267 original size:17 final size:17
Alignment explanation
Indices: 50554225--50554288 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
50554215 ATTCTAAAAA
*
50554225 TTATATTATTTTAATAC
1 TTATATTAATTTAATAC
*
50554242 -TAAATTTAATTTAATAC
1 TTATA-TTAATTTAATAC
*
50554259 TTATATTAA--TAGTA-
1 TTATATTAATTTAATAC
*
50554273 TTTTATTAATTTAATA
1 TTATATTAATTTAATA
50554289 TTAAAGTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
14 8 0.22
15 4 0.11
16 7 0.19
17 15 0.41
18 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATATTAATTTAATAC
Found at i:50555759 original size:41 final size:41
Alignment explanation
Indices: 50555705--50555803 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
50555695 TAAGTGCTAA
*
50555705 TACATAGCCGAAGCTATTATAATTTCACACACTAAATGCCT
1 TACATAGCCGAAGCTATTATAATCTCACACACTAAATGCCT
* * * * * *
50555746 TATATAGCTGAAGCTATTATAATCTCGCATAGTAAGTGCCT
1 TACATAGCCGAAGCTATTATAATCTCACACACTAAATGCCT
50555787 TACATAGCCGAAGCTAT
1 TACATAGCCGAAGCTAT
50555804 CTCTGGCTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (41 bp):
TACATAGCCGAAGCTATTATAATCTCACACACTAAATGCCT
Found at i:50558391 original size:47 final size:48
Alignment explanation
Indices: 50558336--50558562 Score: 231
Period size: 47 Copynumber: 4.9 Consensus size: 48
50558326 GGTAAGGTGC
50558336 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* * *
50558383 TGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-AGT
* * *
50558431 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGT
* * * * *
50558477 CGATG-CATGTCCCAAATAT-GTCTTACACTAGCAC-TCGTCTCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* *
50558521 ACCGATGCCATGTCCCGGACATGGTCTTATACTGGCTC-TCAT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
50558563 AATGTGGCTG
Statistics
Matches: 148, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 60 0.41
47 66 0.45
48 20 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
Found at i:50558533 original size:93 final size:94
Alignment explanation
Indices: 50558334--50558558 Score: 273
Period size: 93 Copynumber: 2.4 Consensus size: 94
50558324 TGGGTAAGGT
* * *
50558334 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAA
50558399 ACATGGTCTTACACTGACTATCATCTCATA
66 ACATGGTCTTACACTGAC-ATCATCTCATA
* * *
50558429 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGATGTCGATG-CATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGATGCCATGTCCCA
* *
50558491 AATAT-GTCTTACACT-AGCACTCGTCTCAATA
65 AACATGGTCTTACACTGA-CA-TCATCTC-ATA
* *
50558522 -CCGATGCCATGTCCCGGACATGGTCTTATACTGGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
50558559 TCATAATGTG
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
91 2 0.02
92 22 0.20
93 48 0.43
94 34 0.30
95 6 0.05
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAA
ACATGGTCTTACACTGACATCATCTCATA
Found at i:50564574 original size:17 final size:17
Alignment explanation
Indices: 50564554--50564588 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50564544 TGTACTCTTG
50564554 CTAGGTTAATCCTAGAA
1 CTAGGTTAATCCTAGAA
*
50564571 CTAGGTTAGTCCTAGAA
1 CTAGGTTAATCCTAGAA
50564588 C
1 C
50564589 CGACTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (17 bp):
CTAGGTTAATCCTAGAA
Found at i:50567927 original size:15 final size:13
Alignment explanation
Indices: 50567898--50567924 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50567888 GCTCGTCAGG
50567898 GACACGCCCGTGT
1 GACACGCCCGTGT
50567911 GACACGCCCGTGT
1 GACACGCCCGTGT
50567924 G
1 G
50567925 TGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:50568291 original size:13 final size:13
Alignment explanation
Indices: 50568273--50568305 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
50568263 CGTTTGCTTT
50568273 TCCTCAAGCAAAA
1 TCCTCAAGCAAAA
50568286 TCCTCAAGCAAAA
1 TCCTCAAGCAAAA
50568299 TCCTCAA
1 TCCTCAA
50568306 CTCATAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (13 bp):
TCCTCAAGCAAAA
Found at i:50568423 original size:34 final size:34
Alignment explanation
Indices: 50568382--50568451 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
50568372 AGTATTCATA
50568382 CATTGAAAATTCAACTAAAAGTACATCAAAGTTT
1 CATTGAAAATTCAACTAAAAGTACATCAAAGTTT
50568416 CATTGAAAATTCAACTAAAAGTACATCAAAGTTT
1 CATTGAAAATTCAACTAAAAGTACATCAAAGTTT
50568450 CA
1 CA
50568452 AACATTCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (34 bp):
CATTGAAAATTCAACTAAAAGTACATCAAAGTTT
Found at i:50579932 original size:32 final size:32
Alignment explanation
Indices: 50579896--50579973 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
50579886 ATTGAATATT
*
50579896 TGTACATGCATGTACCATATTGTACCAATTTC
1 TGTACATACATGTACCATATTGTACCAATTTC
*
50579928 TGTACATACCTGTACCATATTGTACCAATTTC
1 TGTACATACATGTACCATATTGTACCAATTTC
* * *
50579960 CGTAGATACCTGTA
1 TGTACATACATGTA
50579974 TCATCCCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTACATACATGTACCATATTGTACCAATTTC
Found at i:50579985 original size:32 final size:32
Alignment explanation
Indices: 50579897--50579988 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
50579887 TTGAATATTT
* * ** *
50579897 GTACATGCATGTACCATATTGTACCAATTTCT
1 GTACATACCTGTACCATACCGTACCAATTTCC
**
50579929 GTACATACCTGTACCATATTGTACCAATTTCC
1 GTACATACCTGTACCATACCGTACCAATTTCC
* * *
50579961 GTAGATACCTGTATCATCCCGTACCAAT
1 GTACATACCTGTACCATACCGTACCAAT
50579989 CTCATACTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (32 bp):
GTACATACCTGTACCATACCGTACCAATTTCC
Found at i:50584155 original size:39 final size:39
Alignment explanation
Indices: 50584072--50584288 Score: 294
Period size: 39 Copynumber: 5.6 Consensus size: 39
50584062 AGGATTTTAA
* * * *
50584072 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATAT
* * *
50584110 CTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* * *
50584149 CCGGGCTAAGTCCTGAAGGCATTTGTGCTGGTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
50584188 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
*
50584227 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
50584266 CTGGGCTAAGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
50584289 TGGGTTGGAA
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.12
39 139 0.87
40 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
Found at i:50589839 original size:40 final size:40
Alignment explanation
Indices: 50589789--50589971 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
50589779 ACTACTTGCT
* * *
50589789 CAAATGCCTTCGCGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
50589829 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
50589869 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
50589909 CAAATGCCTTTGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
50589949 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
50589972 AGTTATCATC
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:50592058 original size:30 final size:30
Alignment explanation
Indices: 50592003--50592163 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
50591993 ATAGTGAATC
50592003 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50592032 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50592062 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
50592092 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50592120 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50592150 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50592164 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 19 0.16
30 78 0.64
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50592154 original size:58 final size:57
Alignment explanation
Indices: 50592003--50592163 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
50591993 ATAGTGAATC
* *
50592003 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
50592062 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * *
50592120 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGC
50592164 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 18 0.19
60 31 0.33
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:50599222 original size:29 final size:29
Alignment explanation
Indices: 50599190--50599290 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
50599180 ATAGTGAATC
*
50599190 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
50599219 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
50599247 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
50599277 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50599291 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:50599283 original size:30 final size:29
Alignment explanation
Indices: 50599189--50599290 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
50599179 TATAGTGAAT
* * *
50599189 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
50599218 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
50599246 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
50599276 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50599291 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:50606686 original size:40 final size:39
Alignment explanation
Indices: 50606642--50606767 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
50606632 GGGACTCAAC
*
50606642 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
50606682 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
50606722 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
50606762 CCGGAT
1 CCGGAT
50606768 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:50606726 original size:80 final size:80
Alignment explanation
Indices: 50606581--50606767 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
50606571 GCTACACATT
* * *
50606581 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
50606645 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
50606661 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
50606724 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
50606742 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
50606768 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:50610687 original size:40 final size:40
Alignment explanation
Indices: 50610634--50610782 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
50610624 ACTACTTGCT
*
50610634 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
50610674 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
50610714 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
50610754 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
50610783 CATCCGAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:50613321 original size:2 final size:2
Alignment explanation
Indices: 50613281--50613313 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50613271 TATATATATA
50613281 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
50613314 TTTGTGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:50623184 original size:43 final size:43
Alignment explanation
Indices: 50623022--50623184 Score: 113
Period size: 43 Copynumber: 3.8 Consensus size: 43
50623012 ATAGGATTCT
* * * *
50623022 GATATGTGATTTCATGTAAGACCACGCCTGGGAC-GTTGGCATC
1 GATATTTGATTACATGTAAGACCTCGTCTGGGACAG-TGGCATC
* **
50623065 -A-ATTTGAGATTTACATGTAAGACCAT-GTCTGGGACATTCTCATC
1 GATATTT--GA-TTACATGTAAGACC-TCGTCTGGGACAGTGGCATC
* * * * **
50623109 G-TATATGATTTCGTGTTAGACC-CTGTGAGGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCTC-GTCTGGGACAGTGGCATC
50623151 GATATTTGATTACATGTAAGACCTCGTCTGGGAC
1 GATATTTGATTACATGTAAGACCTCGTCTGGGAC
50623185 GTTGACATTG
Statistics
Matches: 87, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
41 3 0.03
42 26 0.30
43 28 0.32
44 27 0.31
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCTCGTCTGGGACAGTGGCATC
Found at i:50623765 original size:24 final size:24
Alignment explanation
Indices: 50623737--50623790 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
50623727 AACATGATTG
50623737 AGATTATGGAATTGGTTTTAGTAT
1 AGATTATGGAATTGGTTTTAGTAT
*
50623761 AGATTATGGAATTGGTTTTGGTAT
1 AGATTATGGAATTGGTTTTAGTAT
*
50623785 ATATTA
1 AGATTA
50623791 AATGTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (24 bp):
AGATTATGGAATTGGTTTTAGTAT
Found at i:50623810 original size:2 final size:2
Alignment explanation
Indices: 50623803--50623834 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50623793 TGTTAAATAG
50623803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50623835 GTGATTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50628838 original size:40 final size:40
Alignment explanation
Indices: 50628793--50628960 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
50628783 CGGAATACAA
*
50628793 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
50628833 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
50628873 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
50628913 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
50628953 CCGGATAT
1 CCGGATAT
50628961 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:50628933 original size:80 final size:80
Alignment explanation
Indices: 50628793--50628960 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
50628783 CGGAATACAA
* * *
50628793 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
50628858 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
50628873 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
50628936 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
50628953 CCGGATAT
1 CCGGATAT
50628961 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:50636832 original size:39 final size:38
Alignment explanation
Indices: 50636789--50636912 Score: 108
Period size: 39 Copynumber: 3.2 Consensus size: 38
50636779 ACCCAAGCTT
* *
50636789 CTTCGGAATACAACCGGATATAACCACACGCACGAATGC
1 CTTCGGAATAC-ACCGGATATAACAACTCGCACGAATGC
** * *
50636828 CTTCGGGTCTTAGC-CCGGATATAACGACTCGCACAAATGC
1 CTTC-GG-AATA-CACCGGATATAACAACTCGCACGAATGC
* *
50636868 CTTCGGTATTAGC-CCGGATATAACAACTTGCACGAATGC
1 CTTCGG-AATA-CACCGGATATAACAACTCGCACGAATGC
50636907 CTTCGG
1 CTTCGG
50636913 GTATTAGCCC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 41 0.56
40 29 0.40
41 2 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (38 bp):
CTTCGGAATACACCGGATATAACAACTCGCACGAATGC
Found at i:50636847 original size:40 final size:40
Alignment explanation
Indices: 50636802--50636968 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
50636792 CGGAATACAA
*
50636802 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
50636842 CCGGATATAACGACTCGCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
50636881 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
50636921 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
50636961 CCGGATAT
1 CCGGATAT
50636969 CATTCAATTG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 39 0.35
40 71 0.65
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:50636920 original size:79 final size:79
Alignment explanation
Indices: 50636802--50636968 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
50636792 CGGAATACAA
* * *
50636802 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-CGACTCGCACAAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATA-AAGC-ACTAGCACAAAT
*
50636866 GCCTTC-GGTATTAGC
64 GCCTTCGGGTATTAAC
** *
50636881 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAAAGTCACTAGCACAATTG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATAAAG-CACTAGCACAAATG
*
50636946 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
50636961 CCGGATAT
1 CCGGATAT
50636969 CATTCAATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
78 2 0.03
79 59 0.77
80 16 0.21
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATAAAGCACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:50639533 original size:39 final size:39
Alignment explanation
Indices: 50639449--50639601 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
50639439 TATGGTAACC
** * *
50639449 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
50639489 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50639528 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50639567 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
50639602 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50639574 original size:78 final size:79
Alignment explanation
Indices: 50639418--50639600 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
50639408 TCGTTCAAAC
* * **
50639418 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
50639483 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
50639498 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
50639562 CAATTTGCACAATT
66 CAATTTGCACAATT
50639576 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
50639601 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:50647589 original size:38 final size:39
Alignment explanation
Indices: 50647476--50647618 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
50647466 CCGCACAAAG
*
50647476 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
50647516 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
50647555 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
50647593 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
50647619 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:50647597 original size:77 final size:79
Alignment explanation
Indices: 50647436--50647617 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
50647426 TCGTTCAAAC
* * **
50647436 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
50647501 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
50647516 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
50647579 CAATTTGCACAATT
66 CAATTTGCACAATT
50647593 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
50647618 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:50662583 original size:21 final size:22
Alignment explanation
Indices: 50662559--50662607 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
50662549 CTATATTGCA
*
50662559 ACATAGTAGC-CCTGTGTTAAG
1 ACATAGTAGCTCCTGTATTAAG
* * *
50662580 ACATTGTAGCTCTTGTATTGAG
1 ACATAGTAGCTCCTGTATTAAG
50662602 ACATAG
1 ACATAG
50662608 CTTGAACGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (22 bp):
ACATAGTAGCTCCTGTATTAAG
Found at i:50662848 original size:19 final size:19
Alignment explanation
Indices: 50662819--50662862 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
50662809 TTCTTTCTTC
50662819 AATTCTTTAGTTTTAGTTTT
1 AATTCTTTAGTTTT-GTTTT
50662839 AATT-TTTAGTTTTGTTTT
1 AATTCTTTAGTTTTGTTTT
50662857 -ATTCTT
1 AATTCTT
50662863 CCATGGTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 9 0.39
20 4 0.17
ACGTcount: A:0.18, C:0.05, G:0.09, T:0.68
Consensus pattern (19 bp):
AATTCTTTAGTTTTGTTTT
Found at i:50664580 original size:15 final size:15
Alignment explanation
Indices: 50664560--50664589 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50664550 TCCTCAACTC
50664560 ACAATCAAAATAAAT
1 ACAATCAAAATAAAT
*
50664575 ACAATCAGAATAAAT
1 ACAATCAAAATAAAT
50664590 TCTTCTCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (15 bp):
ACAATCAAAATAAAT
Found at i:50675763 original size:29 final size:29
Alignment explanation
Indices: 50675565--50675756 Score: 183
Period size: 29 Copynumber: 6.7 Consensus size: 29
50675555 TGAGCCACTT
*
50675565 TGGCTATCTCTG--AAAA-GATGCCTTTG
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
* * * *
50675591 TGGCTATATTTGTTTAAAGGAAGCCTTTT
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
** * *
50675620 TGGCTATCTCAATTAAAAGGAAACCTTTA
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
* * *
50675649 TGGCTATCTCCGTTAAAAGGAAGTCTTCG
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
* ** *
50675678 TGGCTATTTCTACTAAAAGAAAGCCTTTG
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
* * *
50675707 TGGCAATCTTTATTAAAAGGAAGCCTTTG
1 TGGCTATCTCTGTTAAAAGGAAGCCTTTG
*
50675736 TGGCCATCTCTGTTAAAAGGA
1 TGGCTATCTCTGTTAAAAGGA
50675757 TGGCTTTATG
Statistics
Matches: 130, Mismatches: 33, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
26 10 0.08
28 3 0.02
29 117 0.90
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (29 bp):
TGGCTATCTCTGTTAAAAGGAAGCCTTTG
Done.