Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 105 of 335
Found at i:32875079 original size:3 final size:3
Alignment explanation
Indices: 32875066--32875132 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
32875056 ATATAGATAT
* * *
32875066 TTA TTA TTTA TTA TTA TT- CTA TTA -AA TTA TAA TT- TATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
32875110 -AA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
32875133 AAAATAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 4 0.08
3 42 0.84
4 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:32875094 original size:23 final size:21
Alignment explanation
Indices: 32875068--32875129 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
32875058 ATAGATATTT
32875068 ATTATTTATTATTATTCTATTAA
1 ATTA-TTATTATTATT-TATTAA
*
32875091 ATTA-TAAT-TTATATTATTAA
1 ATTATTATTATTAT-TTATTAA
32875111 ATTATTATTATTA-TTATTA
1 ATTATTATTATTATTTATTA
32875130 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 20 0.59
21 7 0.21
22 3 0.09
23 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTTATTAA
Found at i:32875130 original size:23 final size:23
Alignment explanation
Indices: 32875066--32875134 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
32875056 ATATAGATAT
32875066 TTATTATTTATTATTATTCTATTAAA
1 TTATTA-TTATTATTA-T-TATTAAA
*
32875092 TTA-TAAT-TTA-TATTATTAAA
1 TTATTATTATTATTATTATTAAA
32875112 TTATTATTATTATTATTATTAAA
1 TTATTATTATTATTATTATTAAA
32875135 AATAAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 10 0.26
21 4 0.11
22 5 0.13
23 13 0.34
24 1 0.03
25 2 0.05
26 3 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATTATTATTAAA
Found at i:32875392 original size:3 final size:3
Alignment explanation
Indices: 32875379--32875427 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
32875369 AATAAGATAT
*
32875379 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32875427 T
1 T
32875428 AAAGTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32875452 original size:13 final size:14
Alignment explanation
Indices: 32875434--32875471 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
32875424 TTATAAAGTT
32875434 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
32875447 AATAAAAGAAATGA
1 AATAAAATAAAAGA
32875461 AATAAAATAAA
1 AATAAAATAAA
32875472 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:32876578 original size:45 final size:45
Alignment explanation
Indices: 32876527--32876639 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
32876517 CGACTACTGT
32876527 TACTGTTACCGTTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACTGATTCAG-CACTTTGTGTGTCGAA
* *
32876572 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
* * * *
32876617 TATTGTTACTGTTATTGCTACTG
1 TACTGTTACCGTTACTGTTACTG
32876640 CTACCGTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
Found at i:32884747 original size:27 final size:27
Alignment explanation
Indices: 32884716--32884777 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
32884706 TTCCTACTGA
*
32884716 CATACAACATATTAAACCCACCTAATG
1 CATACAACATATTAAACCCACCGAATG
*
32884743 CATACAACTTATTAAACCCACCGAATG
1 CATACAACATATTAAACCCACCGAATG
32884770 CAT-CAACA
1 CATACAACA
32884778 ACTTTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.21
Consensus pattern (27 bp):
CATACAACATATTAAACCCACCGAATG
Found at i:32885704 original size:12 final size:12
Alignment explanation
Indices: 32885687--32885711 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32885677 ATTTTTTTAT
32885687 AAAATCATAAAA
1 AAAATCATAAAA
32885699 AAAATCATAAAA
1 AAAATCATAAAA
32885711 A
1 A
32885712 TTATAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATCATAAAA
Found at i:32887870 original size:3 final size:3
Alignment explanation
Indices: 32887549--32887854 Score: 224
Period size: 3 Copynumber: 102.7 Consensus size: 3
32887539 TGTCTAATAA
* *
32887549 TAT TAT TTT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
32887594 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TGC TAG TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
32887642 TAT TAA TAT TAGT GTAT GTTT TAT TAT ACAT GAAT GTA- TAT ATAT T-T
1 TAT TAT TAT TA-T -TAT -TAT TAT TAT -TAT -TAT -TAT TAT -TAT TAT
* * *
32887689 TA- TAT ATAG TAT TAT T-T TAAT TAC T-T TAT T-T TAA TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
32887732 TA- TAT TA- TAT T-T GCT TTT TGCAT T-T CAA CAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT
*
32887775 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32887823 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
32887855 GTACATGTTT
Statistics
Matches: 244, Mismatches: 39, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
2 23 0.09
3 199 0.82
4 18 0.07
5 4 0.02
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:32887881 original size:2 final size:2
Alignment explanation
Indices: 32887868--32887919 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
32887858 CATGTTTTAT
* * *
32887868 TA TA TA TG TA TA TA TC TT TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
32887909 TA TA TG TA TA T
1 TA TA TA TA TA T
32887920 GTTTATGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32887995 original size:11 final size:11
Alignment explanation
Indices: 32887975--32888014 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
32887965 TTCTAATATT
*
32887975 TATATGTTATG
1 TATATATTATG
*
32887986 TATATATTATA
1 TATATATTATG
32887997 TATATATTATG
1 TATATATTATG
32888008 TATATAT
1 TATATAT
32888015 ATTTTTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:32888015 original size:13 final size:13
Alignment explanation
Indices: 32887986--32888052 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 13
32887976 ATATGTTATG
32887986 TATATATTA--TA
1 TATATATTATGTA
32887997 TATATATTATGTA
1 TATATATTATGTA
*
32888010 TATATATT-TTTA
1 TATATATTATGTA
* * *
32888022 -ACATTATTTTTTA
1 TATA-TATTATGTA
*
32888035 TATATAATATGTA
1 TATATATTATGTA
32888048 TATAT
1 TATAT
32888053 TTTTAATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
11 11 0.24
12 7 0.16
13 25 0.56
14 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:32888228 original size:28 final size:28
Alignment explanation
Indices: 32888196--32888273 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 28
32888186 TATATGTATG
32888196 TATATATATATATTTTTTCTTTTA-TTAA
1 TATATATATATATTTTTT-TTTTACTTAA
*
32888224 TATAT-TATTATCATTATTTTTTTTACTTTA
1 TATATATA-TAT-ATT-TTTTTTTTACTTAA
*
32888254 TAT-TATAT-TATTTTATTTTT
1 TATATATATATATTTTTTTTTT
32888274 GTACATACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
26 7 0.16
27 5 0.12
28 9 0.21
29 10 0.23
30 12 0.28
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (28 bp):
TATATATATATATTTTTTTTTTACTTAA
Found at i:32888267 original size:20 final size:20
Alignment explanation
Indices: 32888231--32888268 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32888221 TAATATATTA
*
32888231 TTATCATTATTTTTTTTACT
1 TTATCATTATTTATTTTACT
32888251 TTAT-ATTATATTATTTTA
1 TTATCATTAT-TTATTTTA
32888269 TTTTTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATCATTATTTATTTTACT
Found at i:32892130 original size:11 final size:11
Alignment explanation
Indices: 32892111--32892163 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
32892101 TCATGACTAA
32892111 CATTCATTCGT
1 CATTCATTCGT
* **
32892122 CATTTATTCAA
1 CATTCATTCGT
*
32892133 CATTCATTTGT
1 CATTCATTCGT
32892144 CATTCATTCGTT
1 CATTCATTCG-T
32892156 CATTCATT
1 CATTCATT
32892164 GCATGTACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (11 bp):
CATTCATTCGT
Found at i:32892134 original size:22 final size:22
Alignment explanation
Indices: 32892109--32892152 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32892099 ATTCATGACT
*
32892109 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
32892131 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
32892153 GTTCATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:32893681 original size:40 final size:40
Alignment explanation
Indices: 32893636--32893802 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
32893626 CGGAATATAA
32893636 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32893676 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
32893716 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32893756 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32893795 CCGGATAT
1 CCGGATAT
32893803 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32893786 original size:80 final size:79
Alignment explanation
Indices: 32893652--32893802 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
32893642 ATAATCACGT
*
32893652 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
32893717 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
32893732 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
32893795 CCGGATAT
64 CCGGATAT
32893803 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:32900721 original size:232 final size:232
Alignment explanation
Indices: 32900308--32900774 Score: 909
Period size: 232 Copynumber: 2.0 Consensus size: 232
32900298 AGGCTTCATC
*
32900308 ATTAACGAGAGAGGCATTGAAGTCGATCCAGATAAGATAAAAGCCATACAAGAATTACTGCCTCC
1 ATTAACAAGAGAGGCATTGAAGTCGATCCAGATAAGATAAAAGCCATACAAGAATTACTGCCTCC
32900373 GTGCATGCAAAAAGAAGTCAGAGGATTTTTAGAAAGGTTGAATTACATCGCTCGATTCATTGCTC
66 GTGCATGCAAAAAGAAGTCAGAGGATTTTTAGAAAGGTTGAATTACATCGCTCGATTCATTGCTC
32900438 AACTCACCAACCAGTGTGACCCAATTTTTCGACTCCTTCGGAAACATAATCTGGGAGAATGGAAC
131 AACTCACCAACCAGTGTGACCCAATTTTTCGACTCCTTCGGAAACATAATCTGGGAGAATGGAAC
32900503 GAGGAGTGCCAAGTGGCTTTTGACAAGATAAAACAGT
196 GAGGAGTGCCAAGTGGCTTTTGACAAGATAAAACAGT
32900540 ATTAACAAGAGAGGCATTGAAGTCGATCCAGATAAGATAAAAGCCATACAAGAATTAGC-GCCTC
1 ATTAACAAGAGAGGCATTGAAGTCGATCCAGATAAGATAAAAGCCATACAAGAATTA-CTGCCTC
32900604 CGTGCATGCAAAAAGAAGTCAGAGGATTTTTAGAAAGGTTGAATTACATCGCTCGATTCATTGCT
65 CGTGCATGCAAAAAGAAGTCAGAGGATTTTTAGAAAGGTTGAATTACATCGCTCGATTCATTGCT
32900669 CAACTCACCAACCAGTGTGACCCAATTTTTCGACTCCTTCGGAAACATAATCTGGGAGAATGGAA
130 CAACTCACCAACCAGTGTGACCCAATTTTTCGACTCCTTCGGAAACATAATCTGGGAGAATGGAA
32900734 CGAGGAGTGCCAAGTGGCTTTTGACAAGATAAAACAGT
195 CGAGGAGTGCCAAGTGGCTTTTGACAAGATAAAACAGT
32900772 ATT
1 ATT
32900775 TGTCTAGTCC
Statistics
Matches: 233, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
232 232 1.00
233 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (232 bp):
ATTAACAAGAGAGGCATTGAAGTCGATCCAGATAAGATAAAAGCCATACAAGAATTACTGCCTCC
GTGCATGCAAAAAGAAGTCAGAGGATTTTTAGAAAGGTTGAATTACATCGCTCGATTCATTGCTC
AACTCACCAACCAGTGTGACCCAATTTTTCGACTCCTTCGGAAACATAATCTGGGAGAATGGAAC
GAGGAGTGCCAAGTGGCTTTTGACAAGATAAAACAGT
Found at i:32903970 original size:75 final size:73
Alignment explanation
Indices: 32903849--32904136 Score: 344
Period size: 75 Copynumber: 3.7 Consensus size: 73
32903839 ATTCTGATGT
* *
32903849 TTTTCAATTTATGTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAGACG
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
32903914 TTGAGGTA
66 TTGAGGTA
*
32903922 TTTTCAATTTATGACTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTATG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
32903987 CGCTGAGGTAA
64 CGTTGAGGT-A
* *
32903998 TTTT-AATTTCCGTTTTTCAATTTATTTTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTT--ATGTTTC-A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
32904062 CCTCAAGACACGTTGAGGTA
54 CCTCAAGACACGTTGAGGTA
* *
32904082 TTTTCAATTTTTGTTCGTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
1 TTTTCAATTTATGTT--TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
32904137 TCTCGGGCCA
Statistics
Matches: 186, Mismatches: 11, Indels: 34
0.81 0.05 0.15
Matches are distributed among these distances:
73 13 0.07
75 97 0.52
76 6 0.03
77 1 0.01
79 1 0.01
81 1 0.01
83 3 0.02
84 6 0.03
85 58 0.31
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:32904132 original size:160 final size:162
Alignment explanation
Indices: 32903845--32904409 Score: 613
Period size: 160 Copynumber: 3.4 Consensus size: 162
32903835 TGGTATTCTG
* *
32903845 ATGTTTTTCAATTTATGTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
1 ATGTTTTTCAATTTATGTTT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* *
32903910 GACGTTGAGGTATTTTCAATTTATGACTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
65 CACGTTGAGGTATTTTCAATTTTTG--TTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
32903974 GAGCCTCAGG-ACACGCTGAGGTAATTTT-AATTT
128 GAGCCTCAGGCACACGCTGAGGTAATTTTCAATTT
** *
32904007 CCGTTTTTCAATTTAT-TTTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 ATGTTTTTCAATTTATGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
32904071 ACGTTGAGGTATTTTCAATTTTTGTTCGTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGA
66 ACGTTGAGGTATTTTCAATTTTTGTTC-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
32904136 GTCTCGGGCCATATGCCGAGGTCTCTTTAAATTCTGATTTCAATTT
130 GCCTCAGG-CACACGCTGAGG------T-AA---T--TTTCAATTT
* * **
32904182 TTGCTTTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 ATGTTTTTCAATTTATGT-TTT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* **
32904247 GTCACATGCCGAGGTATTTTCAATTTCAATT-TTC-CAAAAAAAAAATCAACTCATATTGCGAGA
63 G--ACACGTTGAGGTATTTTCAATTT---TTGTTCTC---AAAAAAATCAACTCATATTGCGAGA
32904310 GGTGAGTTGAGCCTCAGGTCACACGCTGAGGT-ATTTTCAATTT
120 GGTGAGTTGAGCCTCAGG-CACACGCTGAGGTAATTTTCAATTT
** *
32904353 ATGTTTTTCAATTTATGTTCCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGC
1 ATGTTTTTCAATTTATGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
32904410 TTCAGGTCAT
Statistics
Matches: 340, Mismatches: 34, Indels: 52
0.80 0.08 0.12
Matches are distributed among these distances:
158 2 0.01
160 106 0.31
161 3 0.01
162 22 0.06
168 36 0.11
169 2 0.01
170 1 0.00
171 25 0.07
172 1 0.00
173 1 0.00
174 3 0.01
175 18 0.05
176 2 0.01
177 3 0.01
178 1 0.00
179 39 0.11
181 21 0.06
183 3 0.01
184 51 0.15
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (162 bp):
ATGTTTTTCAATTTATGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACGTTGAGGTATTTTCAATTTTTGTTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGGCACACGCTGAGGTAATTTTCAATTT
Found at i:32904302 original size:80 final size:80
Alignment explanation
Indices: 32904205--32904429 Score: 272
Period size: 80 Copynumber: 2.7 Consensus size: 80
32904195 TATGTGTTTC
* *
32904205 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
32904270 TTTCAATTTTCCAAA
66 TTTCAATTTTCCAAA
*
32904285 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
* *
32904350 TTT-ATGTTTTTCAATTTA
66 TTTCA-ATTTTCCAA---A
* * * * *
32904368 TGTTCCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGGTCATACGCTGAGGT
1 -----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
32904430 GAGTTGAGCC
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 1 0.01
80 72 0.57
83 1 0.01
88 53 0.42
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (80 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
TTTCAATTTTCCAAA
Found at i:32904362 original size:14 final size:14
Alignment explanation
Indices: 32904343--32904371 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32904333 CGCTGAGGTA
32904343 TTTTCAATTTATGT
1 TTTTCAATTTATGT
32904357 TTTTCAATTTATGT
1 TTTTCAATTTATGT
32904371 T
1 T
32904372 CCAAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:32906246 original size:136 final size:135
Alignment explanation
Indices: 32906003--32906290 Score: 388
Period size: 136 Copynumber: 2.1 Consensus size: 135
32905993 GCAAGTATTG
* * *
32906003 TTATTATTATTA-ATATTAGTGTATGTTTTATTATACATGTATGTATATATATTTTTATATATAG
1 TTATTATTATTATATATTAGTGTATGTTTTATTATACATATATGTATATATATGTATATATATAG
* *
32906067 TATTATTTTAATTACTTTATTTTAATATTATTATATTATATTTGCTTTTTGCATTTCAACATTAT
66 CATTATTTTAATTAATTTATTTTAATATTATTATATTATATTTGCTTTTTGCATTTCAACATTAT
32906132 TATCA
131 TATCA
* * *
32906137 TTATTATTATTATATATTAGTGTAT-ATTTATTATATACGTATATGTATATATGTGTATATATAT
1 TTATTATTATTATATATTAGTGTATGTTTTA-T-TATACATATATGTATATATATGTATATATAT
* * * *
32906201 AGCAGTGTTTTTTTATTAATTTATTTTAATATT-TT-TATTATATTTGCTTTTTGTATTTCAATA
64 AGCA-T-TATTTTAATTAATTTATTTTAATATTATTATATTATATTTGCTTTTTGCATTTCAACA
*
32906264 TTATTATTA
127 TTATTATCA
32906273 TTATTATTATTAT-TATTA
1 TTATTATTATTATATATTA
32906291 TTATTATTAT
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
134 16 0.12
135 18 0.13
136 76 0.56
137 3 0.02
138 23 0.17
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.59
Consensus pattern (135 bp):
TTATTATTATTATATATTAGTGTATGTTTTATTATACATATATGTATATATATGTATATATATAG
CATTATTTTAATTAATTTATTTTAATATTATTATATTATATTTGCTTTTTGCATTTCAACATTAT
TATCA
Found at i:32906342 original size:15 final size:14
Alignment explanation
Indices: 32906264--32906351 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 14
32906254 TATTTCAATA
*
32906264 TTATTAT-TAT-TA
1 TTATTATATATGTT
*
32906276 TTATTAT-TAT-TA
1 TTATTATATATGTT
*
32906288 TTATTAT-TAT-TA
1 TTATTATATATGTT
*
32906300 TTATTAT-TAT-TA
1 TTATTATATATGTT
*
32906312 TTATTAT-TAT-TA
1 TTATTATATATGTT
32906324 TTATTAGTATATGTT
1 TTATTA-TATATGTT
32906339 TTATTATATATGT
1 TTATTATATATGT
32906352 ATATATCTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
12 54 0.75
13 1 0.01
14 10 0.14
15 7 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TTATTATATATGTT
Found at i:32906345 original size:3 final size:3
Alignment explanation
Indices: 32905885--32906329 Score: 158
Period size: 3 Copynumber: 146.7 Consensus size: 3
32905875 TGTCTAATAC
* * *
32905885 TAT TAT TTT TAT TTT TAT TTT TAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
32905932 TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAAT GTAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TA-T
* * ** * * * *
32905980 AAT TAT TTT TAT TGC AAG TAT TGT TAT TAT TAT TAA TAT TAGT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT
* * * *
32906027 GTTT TAT TAT ACAT GTAT GTA- TAT ATAT TTT TA- TAT ATAG TAT TAT
1 -TAT TAT TAT -TAT -TAT -TAT TAT -TAT TAT TAT TAT -TAT TAT TAT
* * **
32906073 T-T TAAT TAC T-T TAT T-T TAA TAT TAT TA- TAT TA- TAT T-T GCT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
32906113 TTT TGCAT T-T CAA CAT TAT TAT CAT TAT TAT TAT TAT ATAT TAGT GTA-
1 TAT T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT
* * * * * *
32906161 TATT TAT TAT ATACG TA- TAT GTAT ATAT GT-G TAT ATAT ATAG CAG TGT
1 TA-T TAT TAT -TA-T TAT TAT -TAT -TAT -TAT TAT -TAT -TAT TAT TAT
* * * * **
32906209 T-T TTT TAT TAA T-T TAT T-T TAA TAT TTT TAT TA- TAT T-T GCT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
32906251 T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32906295 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
32906330 GTATATGTTT
Statistics
Matches: 333, Mismatches: 69, Indels: 80
0.69 0.14 0.17
Matches are distributed among these distances:
2 34 0.10
3 244 0.73
4 48 0.14
5 7 0.02
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:32906362 original size:21 final size:20
Alignment explanation
Indices: 32906261--32906378 Score: 87
Period size: 18 Copynumber: 6.1 Consensus size: 20
32906251 TTGTATTTCA
32906261 ATATTATTATTAT-TAT-TAT
1 ATATT-TTATTATATATGTAT
32906280 -TATTATTATTAT-TAT-TAT
1 ATATT-TTATTATATATGTAT
32906298 -TATTATTATTAT-TAT-TAT
1 ATATT-TTATTATATATGTAT
32906316 -TATTATTATTAT-TA-GTAT
1 ATATT-TTATTATATATGTAT
*
32906334 ATGTTTTATTATATATGTAT
1 ATATTTTATTATATATGTAT
32906354 ATATCTTTAATATATATATGTAT
1 ATAT-TTT-AT-TATATATGTAT
32906377 AT
1 AT
32906379 GTTTATGTAG
Statistics
Matches: 90, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
18 60 0.67
19 5 0.06
20 7 0.08
21 3 0.03
22 2 0.02
23 13 0.14
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (20 bp):
ATATTTTATTATATATGTAT
Found at i:32906383 original size:21 final size:20
Alignment explanation
Indices: 32906330--32906383 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
32906320 ATTATTATTA
*
32906330 GTATATGTTTTATTATATAT
1 GTATATGTTTAATTATATAT
*
32906350 GTATATATCTTTAATATATATAT
1 G--TATATGTTTAAT-TATATAT
32906373 GTATATGTTTA
1 GTATATGTTTA
32906384 TGTAGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 10 0.36
23 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (20 bp):
GTATATGTTTAATTATATAT
Found at i:32906802 original size:14 final size:14
Alignment explanation
Indices: 32906763--32906796 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32906753 ATCATTATTA
*
32906763 ACATATATATATGT
1 ACATATATTTATGT
*
32906777 ATATATATTTATGT
1 ACATATATTTATGT
32906791 ACATAT
1 ACATAT
32906797 TGTTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
ACATATATTTATGT
Found at i:32909268 original size:11 final size:11
Alignment explanation
Indices: 32909253--32909291 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
32909243 GTTTTCTCTT
32909253 TATTTTGCTAC
1 TATTTTGCTAC
* *
32909264 CATTTTACTAC
1 TATTTTGCTAC
*
32909275 TATGTTGCTAC
1 TATTTTGCTAC
32909286 TATTTT
1 TATTTT
32909292 ATTGTAACTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.54
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:32909364 original size:30 final size:30
Alignment explanation
Indices: 32909330--32909390 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
32909320 CTTATTTTAC
* *
32909330 TGTTAATTTTGTTATTATTTTAAAGGCATT
1 TGTTAATTTTCTTATTATTTCAAAGGCATT
*
32909360 TGTTAATTTTCTTATTATTTCAGAGGCATT
1 TGTTAATTTTCTTATTATTTCAAAGGCATT
32909390 T
1 T
32909391 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.56
Consensus pattern (30 bp):
TGTTAATTTTCTTATTATTTCAAAGGCATT
Found at i:32909526 original size:11 final size:11
Alignment explanation
Indices: 32909512--32909542 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32909502 TATATATATT
32909512 TAAAAATTATA
1 TAAAAATTATA
*
32909523 TAAAAATAATA
1 TAAAAATTATA
32909534 TAAAAATTA
1 TAAAAATTA
32909543 ATACGGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:32917798 original size:17 final size:17
Alignment explanation
Indices: 32917772--32917810 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
32917762 TTTTTCTTGG
32917772 ATTTTAAT-TTTT-TAA
1 ATTTTAATATTTTATAA
*
32917787 TTTTTAATATTTTATAA
1 ATTTTAATATTTTATAA
32917804 ATTTTAA
1 ATTTTAA
32917811 ATTATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 4 0.20
17 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTAATATTTTATAA
Found at i:32918290 original size:2 final size:2
Alignment explanation
Indices: 32918283--32918316 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32918273 TACAAATTTA
32918283 AT 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 AT
32918317 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32920662 original size:17 final size:17
Alignment explanation
Indices: 32920639--32920694 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
32920629 AACAGACTAA
32920639 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
* *
32920656 TTAACTGCTAACTATTG
1 CTAACTGCTAACTGTTG
32920673 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
32920690 CTAAC
1 CTAAC
32920695 AACCACAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (17 bp):
CTAACTGCTAACTGTTG
Found at i:32927904 original size:17 final size:17
Alignment explanation
Indices: 32927877--32927932 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
32927867 AATAGACTAA
32927877 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
* *
32927894 TTAACTACTAACTGTTG
1 CTAACTGCTAACTGTTG
*
32927911 CTAACTGCTAATTGTTG
1 CTAACTGCTAACTGTTG
32927928 CTAAC
1 CTAAC
32927933 AACCATAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
CTAACTGCTAACTGTTG
Found at i:32930345 original size:15 final size:16
Alignment explanation
Indices: 32930316--32930348 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32930306 TAGTAAATTG
32930316 ATTTTTTTTAAAAGTTT
1 ATTTTTTTT-AAAGTTT
32930333 ATTTTTTTT-AAGTTT
1 ATTTTTTTTAAAGTTT
32930348 A
1 A
32930349 CTTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
ATTTTTTTTAAAGTTT
Found at i:32931267 original size:18 final size:19
Alignment explanation
Indices: 32931246--32931289 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
32931236 TTGATCATTC
32931246 ATTTTATAATTTT-AATTT
1 ATTTTATAATTTTAAATTT
**
32931264 ATTTTATTTTTTTAAAATTT
1 ATTTTATAATTTT-AAATTT
32931284 ATTTTA
1 ATTTTA
32931290 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTATAATTTTAAATTT
Found at i:32931284 original size:20 final size:21
Alignment explanation
Indices: 32931259--32931297 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
32931249 TTATAATTTT
32931259 AATTTATTTTA-TTTTTTTAA
1 AATTTATTTTAGTTTTTTTAA
32931279 AATTTATTTTAGTTTTTTT
1 AATTTATTTTAGTTTTTTT
32931298 TTTCAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
AATTTATTTTAGTTTTTTTAA
Found at i:32931284 original size:25 final size:25
Alignment explanation
Indices: 32931247--32931300 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
32931237 TGATCATTCA
* *
32931247 TTTTATAATTTTAATTTATTTTATTT
1 TTTTATAAATTTAATTTAGTTT-TTT
*
32931273 TTTTA-AAATTTATTTTAGTTTTTT
1 TTTTATAAATTTAATTTAGTTTTTT
32931297 TTTT
1 TTTT
32931301 CAATAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 13 0.52
26 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTATAAATTTAATTTAGTTTTTT
Found at i:32941171 original size:4 final size:4
Alignment explanation
Indices: 32941162--32941195 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
32941152 TTCTTTTGTC
32941162 TTAT TTAT TTAT TTAT TTATT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT T
32941196 ATTATTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:32941234 original size:22 final size:22
Alignment explanation
Indices: 32941209--32941282 Score: 87
Period size: 22 Copynumber: 3.2 Consensus size: 22
32941199 ATTAACTTTA
32941209 AAATTTTTGAAATATATA-TTTG
1 AAATTTTT-AAATATATATTTTG
*
32941231 AAATATTTTATTAATATATATTTTT
1 AAAT-TTTTA--AATATATATTTTG
*
32941256 AAAATTTTAAATATATATTTTG
1 AAATTTTTAAATATATATTTTG
32941278 AAATT
1 AAATT
32941283 ACTTTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 21 0.48
23 4 0.09
24 13 0.30
25 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAATTTTTAAATATATATTTTG
Found at i:32941310 original size:22 final size:21
Alignment explanation
Indices: 32941272--32941326 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
32941262 TTAAATATAT
*
32941272 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
32941293 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
32941314 ATATTTAAATATT
1 AT-TTTAAATATT
32941327 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:32941756 original size:24 final size:25
Alignment explanation
Indices: 32941689--32941756 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 25
32941679 TTTTCTTTAA
* *
32941689 ATTTTTTTTTAAGTTTTATATTTTTT
1 ATTTTTTATTAA-TTTTATATTATTT
* *
32941715 CTTGTTTTATT-TTGTTTAT-TTATTT
1 ATT-TTTTATTAAT-TTTATATTATTT
32941740 ATTTTTTATTAATTTTA
1 ATTTTTTATTAATTTTA
32941757 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
24 11 0.33
25 9 0.27
26 7 0.21
27 6 0.18
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTTTTTATTAATTTTATATTATTT
Found at i:32941839 original size:12 final size:13
Alignment explanation
Indices: 32941806--32941839 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
32941796 TATTTTTTAA
32941806 ATTTTAAA-TATT
1 ATTTTAAATTATT
32941818 ATTTTAAATTATT
1 ATTTTAAATTATT
32941831 -TTTTAAATT
1 ATTTTAAATT
32941840 TTGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:32941869 original size:23 final size:23
Alignment explanation
Indices: 32941825--32941894 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
32941815 ATTATTTTAA
**
32941825 ATTATTTTTT-AAAT-TTTGAAT
1 ATTATTTTTTAAAATATTAAAAT
32941846 ATTATTTTTTAAAATATTAAAAT
1 ATTATTTTTTAAAATATTAAAAT
32941869 A-TATATTTTTAATAATA-TAAAAT
1 ATTAT-TTTTTAA-AATATTAAAAT
32941892 ATT
1 ATT
32941895 TAAATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 10 0.24
22 7 0.17
23 20 0.48
24 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATTATTTTTTAAAATATTAAAAT
Found at i:32941975 original size:31 final size:29
Alignment explanation
Indices: 32941917--32941987 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 29
32941907 AGATATGAGC
*
32941917 TTTTAAAT-TTATTATTAGTTTTTTAATA
1 TTTTAAATATTATTATTAGTTTTATAATA
*
32941945 TTTTAAATATTATTTAATTTGTTTTATAATA
1 TTTTAAATATTA-TT-ATTAGTTTTATAATA
32941976 TTTTAAATATTA
1 TTTTAAATATTA
32941988 ATTTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 8 0.21
29 3 0.08
30 2 0.05
31 25 0.66
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTAAATATTATTATTAGTTTTATAATA
Found at i:32942213 original size:19 final size:19
Alignment explanation
Indices: 32942200--32942238 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
32942190 TTATTTAATG
32942200 TTTAAAAAAATATTTAAAA
1 TTTAAAAAAATATTTAAAA
32942219 TTT-AAAAAATAATTTAAAA
1 TTTAAAAAAAT-ATTTAAAA
32942238 T
1 T
32942239 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAAAAAATATTTAAAA
Found at i:32942235 original size:31 final size:31
Alignment explanation
Indices: 32942200--32942260 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
32942190 TTATTTAATG
32942200 TTTAAAAAAATATTTAAAATTTAAAAAATAA
1 TTTAAAAAAATATTTAAAATTTAAAAAATAA
* *
32942231 TTTAAAATAATATTTAAAATTTACAAAATA
1 TTTAAAAAAATATTTAAAATTTAAAAAATA
32942261 TATATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTAAAAAAATATTTAAAATTTAAAAAATAA
Found at i:32942250 original size:12 final size:13
Alignment explanation
Indices: 32942217--32942250 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
32942207 AAATATTTAA
32942217 AATTTAAAA-AAT
1 AATTTAAAATAAT
32942229 AATTTAAAATAAT
1 AATTTAAAATAAT
32942242 -ATTTAAAAT
1 AATTTAAAAT
32942251 TTACAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTTAAAATAAT
Found at i:32942334 original size:22 final size:21
Alignment explanation
Indices: 32942304--32942442 Score: 57
Period size: 20 Copynumber: 6.8 Consensus size: 21
32942294 AAATTTTTTA
*
32942304 AAATTAATAAGAAAAAATAATT
1 AAATAAATAA-AAAAAATAATT
*
32942326 AAATAAATAAACAAAAT-A--
1 AAATAAATAAAAAAAATAATT
* *
32942344 AAAT-AAGAAAAAATATAA--
1 AAATAAATAAAAAAAATAATT
*
32942362 AACTTAAA-AAAAGAAAATAATTT
1 AA-ATAAATAAAA-AAAATAA-TT
*
32942385 AAAGAAA-AAGACAAAAGATAA-T
1 AAATAAATAA-A-AAAA-ATAATT
*
32942407 AAAAAAACT-AAAAAAATAA-T
1 AAATAAA-TAAAAAAAATAATT
*
32942427 AAATAAGTAAAAAAAA
1 AAATAAATAAAAAAAA
32942443 GAGTGAAAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
17 9 0.10
18 7 0.08
19 6 0.07
20 26 0.28
21 10 0.11
22 22 0.24
23 7 0.08
24 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAATT
Found at i:32942762 original size:17 final size:17
Alignment explanation
Indices: 32942736--32942788 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
32942726 ATAAAACTAA
32942736 TAAAAAATTTGAAAT-TT
1 TAAAAAATTT-AAATATT
*
32942753 TAAAATATTTAAATATT
1 TAAAAAATTTAAATATT
32942770 TAAAAAA--T-AATATT
1 TAAAAAATTTAAATATT
32942784 TAAAA
1 TAAAA
32942789 TTTAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 4 0.12
17 17 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAAAATTTAAATATT
Found at i:32942793 original size:21 final size:22
Alignment explanation
Indices: 32942756--32942810 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
32942746 GAAATTTTAA
32942756 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTTAAAAAAGT
32942778 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
32942800 AAT-TTCAAAAT
1 AATATTTAAAAT
32942811 ATATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:32942909 original size:19 final size:19
Alignment explanation
Indices: 32942881--32942930 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
32942871 TTTTAAAGTT
32942881 AATAATAATAAATAAAATAA
1 AATAA-AATAAATAAAATAA
32942901 AATAAAATAAATAAAATAA
1 AATAAAATAAATAAAATAA
32942920 AATAAAATAAA
1 AATAAAATAAA
32942931 ACAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AATAAAATAAATAAAATAA
Found at i:32942942 original size:5 final size:5
Alignment explanation
Indices: 32942881--32942941 Score: 81
Period size: 5 Copynumber: 12.4 Consensus size: 5
32942871 TTTTAAAGTT
32942881 AATAA TAAT-A AATAA AATAA AATAA AAT-A AATAA AATAA AATAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
32942930 AACAA AAGAA AA
1 AATAA AATAA AA
32942942 GTCAAAAAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
4 7 0.14
5 41 0.80
6 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:32945875 original size:18 final size:16
Alignment explanation
Indices: 32945844--32945890 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
32945834 GTCATCTCAA
* *
32945844 TAAATAATTTAAAATT
1 TAAAAAATTAAAAATT
32945860 TATAAAATATTAAAAATT
1 TA-AAAA-ATTAAAAATT
32945878 TAAAAAATTAAAA
1 TAAAAAATTAAAA
32945891 TCCAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAAATTAAAAATT
Found at i:32945880 original size:8 final size:8
Alignment explanation
Indices: 32945844--32945890 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
32945834 GTCATCTCAA
32945844 TAAATAATT
1 TAAA-AATT
32945853 T-AAAATT
1 TAAAAATT
32945860 TATAAAATAT
1 TA-AAAAT-T
32945870 TAAAAATT
1 TAAAAATT
*
32945878 TAAAAAAT
1 TAAAAATT
32945886 TAAAA
1 TAAAA
32945891 TCCAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 15 0.44
9 11 0.32
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAAATT
Found at i:32948266 original size:93 final size:93
Alignment explanation
Indices: 32948154--32948325 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32948144 GCCCATAAGT
* *
32948154 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32948219 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
32948247 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32948312 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
32948326 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32948321 original size:46 final size:46
Alignment explanation
Indices: 32948146--32948321 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
32948136 TGTAACCCGC
* * *
32948146 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
32948192 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
32948242 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
32948285 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32948322 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:32952358 original size:72 final size:72
Alignment explanation
Indices: 32952263--32952501 Score: 338
Period size: 72 Copynumber: 3.3 Consensus size: 72
32952253 AAATGCTAAA
* * *
32952263 CTAGTTTTATCAATTGTTATTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
32952328 GTGTAAT
66 GTGTAAT
* *
32952335 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
32952400 GTGTAAT
66 GTGTAAT
* * * *
32952407 CTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
32952472 ACT-AAAT
66 -GTGTAAT
* *
32952479 -TAGTTTTACCAATACTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
32952502 ATATGATTTT
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
71 19 0.13
72 130 0.87
73 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:32954534 original size:12 final size:13
Alignment explanation
Indices: 32954508--32954567 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
32954498 CTTAAATTTT
32954508 TCAAAAACACTTC
1 TCAAAAACACTTC
32954521 TCAAAAACAC-TC
1 TCAAAAACACTTC
** *
32954533 TCAAAAGTACTTT
1 TCAAAAACACTTC
* * *
32954546 TCCATATCACTTC
1 TCAAAAACACTTC
32954559 TCAAAAACA
1 TCAAAAACA
32954568 TTGCCAAACT
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (13 bp):
TCAAAAACACTTC
Found at i:32958010 original size:18 final size:16
Alignment explanation
Indices: 32957979--32958025 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
32957969 GTCATCTCAA
* *
32957979 TAAATAATTTAAAATT
1 TAAAAAATTAAAAATT
32957995 TATAAAATATTAAAAATT
1 TA-AAAA-ATTAAAAATT
32958013 TAAAAAATTAAAA
1 TAAAAAATTAAAA
32958026 TCCAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAAATTAAAAATT
Found at i:32958015 original size:8 final size:8
Alignment explanation
Indices: 32957979--32958025 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
32957969 GTCATCTCAA
32957979 TAAATAATT
1 TAAA-AATT
32957988 T-AAAATT
1 TAAAAATT
32957995 TATAAAATAT
1 TA-AAAAT-T
32958005 TAAAAATT
1 TAAAAATT
*
32958013 TAAAAAAT
1 TAAAAATT
32958021 TAAAA
1 TAAAA
32958026 TCCAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 15 0.44
9 11 0.32
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAAATT
Found at i:32960395 original size:93 final size:93
Alignment explanation
Indices: 32960283--32960454 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32960273 GCCCATAAGT
* *
32960283 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32960348 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
32960376 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32960441 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
32960455 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32960450 original size:46 final size:46
Alignment explanation
Indices: 32960275--32960450 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
32960265 TGTAACCCGC
* * *
32960275 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
32960321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
32960371 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
32960414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32960451 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:32962004 original size:27 final size:27
Alignment explanation
Indices: 32961938--32962239 Score: 464
Period size: 27 Copynumber: 11.3 Consensus size: 27
32961928 TACCCCATAA
* * **
32961938 GGTATCTCGGTAATTCCATTCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
32961964 GGTATTTTAGTAATTCTACCCTACAGA
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32961991 GGTATTTCGATAATTTTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32962017 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
32962044 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32962071 GGTATTGCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32962098 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
32962125 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32962152 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32962179 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
32962206 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
32962233 GGTATTT
1 GGTATTT
32962240 TGATATTTTA
Statistics
Matches: 254, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
26 43 0.17
27 211 0.83
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:32962290 original size:27 final size:27
Alignment explanation
Indices: 32962260--32962678 Score: 543
Period size: 27 Copynumber: 15.6 Consensus size: 27
32962250 CAAATCGATA
* * * *
32962260 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
32962287 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
32962314 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* ** *
32962341 ATATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
32962368 GTATTTTAGTAATTTTACAAACCA-GG
1 GTATTTTGGTAATTTTACAAACCAGGG
* * *
32962394 GTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
32962421 GTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** * *
32962448 GTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
32962475 GTATTTTGGTAATTTTACAAACCCGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
32962502 GTATTTTGGTAATTTTATAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
32962529 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** *
32962556 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
32962583 GTATTTTAGTAATTTTACAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** *
32962610 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
32962637 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
32962664 GTATTTTGGTAATTT
1 GTATTTTGGTAATTT
32962679 GGTAAACTAA
Statistics
Matches: 341, Mismatches: 50, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 23 0.07
27 318 0.93
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:32962327 original size:54 final size:54
Alignment explanation
Indices: 32962269--32962685 Score: 656
Period size: 54 Copynumber: 7.7 Consensus size: 54
32962259 AGTATTTCGA
* * ** * * *
32962269 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
*
32962323 TAATTTTACAAACCAGGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
* *
32962377 TAATTTTACAAACCA-GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
* * *
32962430 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
* *
32962484 TAATTTTACAAACCCGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
32962538 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
* *
32962592 TAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
* *
32962646 TAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAAC
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
32962686 TAAAATATTC
Statistics
Matches: 335, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
53 49 0.15
54 286 0.85
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
Found at i:32965131 original size:14 final size:14
Alignment explanation
Indices: 32965112--32965138 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32965102 TCTCCTCTGG
32965112 TTTTATTTTCCTTA
1 TTTTATTTTCCTTA
32965126 TTTTATTTTCCTT
1 TTTTATTTTCCTT
32965139 CTTATTTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTCCTTA
Found at i:32965737 original size:21 final size:21
Alignment explanation
Indices: 32965712--32965767 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
32965702 TTAAGGATCC
**
32965712 CACACGGGCGTGTGTTTTGGA
1 CACACGGGCGTGTGTGGTGGA
* * *
32965733 CACACGGCCGTGTCTGGTGGG
1 CACACGGGCGTGTGTGGTGGA
32965754 CACACGGGCGTGTG
1 CACACGGGCGTGTG
32965768 AGACCCTCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTGTGGTGGA
Found at i:32965885 original size:21 final size:21
Alignment explanation
Indices: 32965861--32965927 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
32965851 GTCTCTGGTC
32965861 CACACGGGCGTGTGCCTTAGT
1 CACACGGGCGTGTGCCTTAGT
* **
32965882 CACACGGCCGTGTGCCTTTCTT
1 CACACGGGCGTGTGCC-TTAGT
* *
32965904 CGCACAGGCGTGTGCCTTAGT
1 CACACGGGCGTGTGCCTTAGT
32965925 CAC
1 CAC
32965928 GGCCGTGTGC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTTAGT
Found at i:32978627 original size:43 final size:43
Alignment explanation
Indices: 32978570--32978731 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
32978560 ATCAAGATGT
*
32978570 GATTACATGT-AGACCATGTCTGGGACATTGGCATTG-TATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATT-A
* * * *
32978612 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTA
* * * *
32978655 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATATA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATAT-TA
* * *
32978699 -ATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
32978732 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 15 0.15
43 82 0.81
44 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTA
Found at i:32982743 original size:2 final size:2
Alignment explanation
Indices: 32982738--32982774 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
32982728 ACATATCAAC
*
32982738 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32982775 CACGTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32982974 original size:22 final size:22
Alignment explanation
Indices: 32982949--32982990 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32982939 TAAGATAATT
32982949 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
32982971 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
32982991 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:32982997 original size:22 final size:21
Alignment explanation
Indices: 32982958--32983000 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
32982948 TTTAAAAAAC
* *
32982958 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
32982979 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
32983001 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:32990260 original size:43 final size:43
Alignment explanation
Indices: 32990155--32990260 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
32990145 AGATGTGATT
* * * * *
32990155 ACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATCGATT
1 ACATGTAAGACCATGTCTGGAACAGTGGCATCGATAATCAATA
* *
32990198 TCGTGTAAGA-CATTGTCTGGAACAGTGGCATCGATATAT-AATA
1 ACATGTAAGACCA-TGTCTGGAACAGTGGCATCGATA-ATCAATA
*
32990241 ACATGTAAGACCATATCTGG
1 ACATGTAAGACCATGTCTGG
32990261 GATATGGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.04
43 44 0.88
44 4 0.08
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGGAACAGTGGCATCGATAATCAATA
Found at i:32998969 original size:16 final size:16
Alignment explanation
Indices: 32998941--32998974 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
32998931 CATGCTTCAT
32998941 TATTTATTTTTAATTA
1 TATTTATTTTTAATTA
32998957 TATTT-TTTATTAATTA
1 TATTTATTT-TTAATTA
32998973 TA
1 TA
32998975 GCGAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTTTAATTA
Found at i:33000445 original size:33 final size:33
Alignment explanation
Indices: 33000408--33000497 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 33
33000398 ACAAAATAAG
33000408 AATGTAATCATTTTAATAGATACACATAATACA
1 AATGTAATCATTTTAATAGATACACATAATACA
33000441 AATGTAATCATATTAACATATTAATAGATACACATAATACA
1 AATGTAATC--A-T----T-TTAATAGATACACATAATACA
*
33000482 AATGTAATCATATTAA
1 AATGTAATCATTTTAA
33000498 CATATATACA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
33 13 0.27
35 1 0.02
36 1 0.02
38 1 0.02
39 1 0.02
40 1 0.02
41 30 0.62
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (33 bp):
AATGTAATCATTTTAATAGATACACATAATACA
Found at i:33000448 original size:24 final size:24
Alignment explanation
Indices: 33000421--33000489 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 24
33000411 GTAATCATTT
33000421 TAATAGATACACATAATACAAATG
1 TAATAGATACACATAATACAAATG
* * *
33000445 ---TA-AT-CATATTA-ACATAT-
1 TAATAGATACACATAATACAAATG
33000462 TAATAGATACACATAATACAAATG
1 TAATAGATACACATAATACAAATG
33000486 TAAT
1 TAAT
33000490 CATATTAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 4 0.12
21 4 0.12
22 5 0.16
23 5 0.16
24 4 0.12
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (24 bp):
TAATAGATACACATAATACAAATG
Found at i:33000467 original size:41 final size:41
Alignment explanation
Indices: 33000420--33000502 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
33000410 TGTAATCATT
33000420 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
1 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
33000461 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
1 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
33000502 T
1 T
33000503 ATACAGAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (41 bp):
TTAATAGATACACATAATACAAATGTAATCATATTAACATA
Found at i:33000580 original size:2 final size:2
Alignment explanation
Indices: 33000568--33000600 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
33000558 TATTAAACAA
33000568 AT AT CAT 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
33000601 GTAATGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33011010 original size:10 final size:10
Alignment explanation
Indices: 33010997--33011044 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
33010987 TTATTTTCAT
33010997 TTATCTTTAA
1 TTATCTTTAA
33011007 TTATCTTTAA
1 TTATCTTTAA
* *
33011017 TTATCTATAT
1 TTATCTTTAA
* *
33011027 TTATCTGTAT
1 TTATCTTTAA
33011037 TTATCTTT
1 TTATCTTT
33011045 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:33011809 original size:39 final size:36
Alignment explanation
Indices: 33011761--33011835 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 36
33011751 ATTTTTGAAA
* *
33011761 TTCCAATCAAAAATTTTAATTCTGTTTTTATTTTATTT
1 TTCCAATCAAAAATATTAATTCT-ATTTT-TTTTATTT
*
33011799 TTCCAGATCAAAACTATTAATTCTATTTTTTTTATTT
1 TTCCA-ATCAAAAATATTAATTCTATTTTTTTTATTT
33011836 CTTTTCCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 8 0.24
38 9 0.27
39 16 0.48
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (36 bp):
TTCCAATCAAAAATATTAATTCTATTTTTTTTATTT
Found at i:33017284 original size:10 final size:10
Alignment explanation
Indices: 33017269--33017329 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
33017259 TAATTTTAGG
33017269 ATTTAT-TTT
1 ATTTATCTTT
33017278 CATTTATCTTT
1 -ATTTATCTTT
33017289 ATTTATCTTT
1 ATTTATCTTT
*
33017299 AATTATCTTT
1 ATTTATCTTT
*
33017309 ATTTATTTATT
1 ATTTATCT-TT
33017320 ATTTATCTTT
1 ATTTATCTTT
33017330 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 33 0.73
11 12 0.27
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:33023063 original size:28 final size:28
Alignment explanation
Indices: 33023023--33023082 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
33023013 TGTAACATAA
*
33023023 CTCAAAGACATACTCACCAATGGCTTAT
1 CTCAAAAACATACTCACCAATGGCTTAT
33023051 CTCAAAAACATACTCACCAATGGCTTAT
1 CTCAAAAACATACTCACCAATGGCTTAT
33023079 CTCA
1 CTCA
33023083 TTGAGATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.30, G:0.08, T:0.25
Consensus pattern (28 bp):
CTCAAAAACATACTCACCAATGGCTTAT
Found at i:33026971 original size:7 final size:7
Alignment explanation
Indices: 33026959--33026997 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
33026949 GAGGCAATCC
33026959 AATTTTT
1 AATTTTT
33026966 AATTTTT
1 AATTTTT
33026973 AA-TTTT
1 AATTTTT
*
33026979 ATTTTTT
1 AATTTTT
33026986 AATTTTT
1 AATTTTT
33026993 AATTT
1 AATTT
33026998 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
AATTTTT
Found at i:33026984 original size:13 final size:13
Alignment explanation
Indices: 33026962--33027037 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
33026952 GCAATCCAAT
*
33026962 TTTTAATTTTTAA
1 TTTTATTTTTTAA
33026975 TTTTATTTTTTAA
1 TTTTATTTTTTAA
**
33026988 TTTT-TAATTT-A
1 TTTTATTTTTTAA
*
33026999 TTTTATTTTATTTA
1 TTTTATTTT-TTAA
*
33027013 TTTTATCTTATT-A
1 TTTTAT-TTTTTAA
*
33027026 TTTTATTATTTA
1 TTTTATTTTTTA
33027038 TTATTTCCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
11 5 0.10
12 9 0.18
13 25 0.50
14 9 0.18
15 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:33026986 original size:20 final size:19
Alignment explanation
Indices: 33026961--33027002 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
33026951 GGCAATCCAA
33026961 TTTTTAATTTTTAATTTTAT
1 TTTTTAATTTTTAA-TTTAT
33026981 TTTTTAATTTTTAATTTAT
1 TTTTTAATTTTTAATTTAT
33027000 TTT
1 TTT
33027003 ATTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTAATTTTTAATTTAT
Found at i:33027011 original size:14 final size:14
Alignment explanation
Indices: 33026969--33027032 Score: 69
Period size: 14 Copynumber: 4.5 Consensus size: 14
33026959 AATTTTTAAT
33026969 TTTTAATTTTATTT-
1 TTTT-ATTTTATTTA
*
33026983 TTTAATTTTTAATTTA
1 TTTTA-TTTT-ATTTA
33026999 TTTTATTTTATTTA
1 TTTTATTTTATTTA
*
33027013 TTTTATCTTA-TTA
1 TTTTATTTTATTTA
33027026 TTTTATT
1 TTTTATT
33027033 ATTTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.23
14 21 0.49
15 8 0.19
16 4 0.09
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:33027017 original size:24 final size:24
Alignment explanation
Indices: 33026974--33027039 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
33026964 TTAATTTTTA
*
33026974 ATTTTATTTT-TTAATTTTTAAT-TT
1 ATTTTATTTTATTTA-TTTT-ATCTT
33026998 ATTTTATTTTATTTATTTTATCTT
1 ATTTTATTTTATTTATTTTATCTT
33027022 ATTATT-TTATTATTTATT
1 ATT-TTATT-TTATTTATT
33027040 ATTTCCAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 2 0.05
24 21 0.57
25 14 0.38
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTATTTATTTTATCTT
Found at i:33028588 original size:101 final size:99
Alignment explanation
Indices: 33028433--33028663 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 99
33028423 CTGGTACGCA
* *
33028433 TAGTAGCCTGCACTTAG-ACTACACATGTGA-CCAATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCCAATTATCCGGTACACATAGTAGCCTGCACTT
* *
33028496 AGTACTACACACGTGACCTAACCATCTGACACACG
66 AGTACTACACACGCGACC-AACCATCCGACACACG
* * *
33028531 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCCAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** **
33028596 TAGTACTACACATGCGACCAATTATCCGGTACACG
65 TAGTACTACACACGCGACCAACCATCCGACACACG
33028631 TAGTAGCCTGCACTTAGTACTACACACGTGATC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC
33028664 TCACAATAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
98 17 0.14
99 12 0.10
100 47 0.40
101 42 0.36
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCCAATTATCCGGTACACATAGTAGCCTGCACTT
AGTACTACACACGCGACCAACCATCCGACACACG
Found at i:33028640 original size:49 final size:49
Alignment explanation
Indices: 33028433--33028661 Score: 316
Period size: 49 Copynumber: 4.6 Consensus size: 49
33028423 CTGGTACGCA
*
33028433 TAGTAGCCTGCACTTAG-ACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * **
33028481 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGACACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
33028531 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
33028582 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
33028631 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
33028662 TCTCACAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
48 17 0.11
49 54 0.35
50 47 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:33028922 original size:27 final size:27
Alignment explanation
Indices: 33028882--33028935 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33028872 AGGTACAACC
* *
33028882 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
33028909 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
33028936 TCCCATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:33032053 original size:26 final size:24
Alignment explanation
Indices: 33032023--33032072 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
33032013 TAAATAAAAA
*
33032023 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
33032049 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
33032073 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:33032092 original size:21 final size:20
Alignment explanation
Indices: 33032051--33032098 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33032041 TCAAATATAT
* *
33032051 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
33032072 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
33032093 CTAAAA
1 TTAAAA
33032099 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:33032136 original size:35 final size:33
Alignment explanation
Indices: 33032072--33032136 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
33032062 AAAACAAATA
*
33032072 TTAAAACAAATAAAAATAATACTAAAATAATTC
1 TTAAAACAAATAAAAATAATAATAAAATAATTC
*
33032105 TTAAAAC-AATACACAAATTAATAATATAATAA
1 TTAAAACAAATA-A-AAA-TAATAATAAAATAA
33032137 AAAATAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 8 0.30
34 3 0.11
35 12 0.44
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (33 bp):
TTAAAACAAATAAAAATAATAATAAAATAATTC
Found at i:33032424 original size:10 final size:10
Alignment explanation
Indices: 33032409--33032461 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
33032399 TAATTTTAGG
33032409 ATTTATTTTT
1 ATTTATTTTT
*
33032419 ATTTATCTTT
1 ATTTATTTTT
*
33032429 ATTTATCTTT
1 ATTTATTTTT
*
33032439 AATTATTTATT
1 ATTTATTT-TT
33032450 ATTTATCTTTT
1 ATTTAT-TTTT
33032461 A
1 A
33032462 GAATTTCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 25 0.68
11 10 0.27
12 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:33032467 original size:21 final size:22
Alignment explanation
Indices: 33032427--33032472 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
33032417 TTATTTATCT
**
33032427 TTATTTATCTTTAATTATTT-A
1 TTATTTATCTTTAAGAATTTCA
*
33032448 TTATTTATCTTTTAGAATTTCA
1 TTATTTATCTTTAAGAATTTCA
33032470 TTA
1 TTA
33032473 GGAATAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTATCTTTAAGAATTTCA
Found at i:33033775 original size:6 final size:6
Alignment explanation
Indices: 33033764--33033853 Score: 80
Period size: 6 Copynumber: 15.0 Consensus size: 6
33033754 TTGCAACTCA
* *
33033764 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATCTTT ATTAATT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT
* *
33033812 -GTTTT ATTCTT A-TTTT A-TTTT ATTATTT ACTATTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT A-T-TTTT ATTTTT
33033854 GAATGTTAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 15 0.21
6 42 0.60
7 7 0.10
8 5 0.07
9 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:33033818 original size:29 final size:27
Alignment explanation
Indices: 33033776--33033830 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
33033766 TTTTATTTTT
*
33033776 ATTTTTATTTTTATTTTTATCTTTATTA
1 ATTTTTATTTTTATTCTTAT-TTTATTA
*
33033804 ATTTTTTTGTTTTATTCTTATTTTATT
1 ATTTTTAT-TTTTATTCTTATTTTATT
33033831 TTATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (27 bp):
ATTTTTATTTTTATTCTTATTTTATTA
Found at i:33033831 original size:24 final size:23
Alignment explanation
Indices: 33033764--33033853 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 23
33033754 TTGCAACTCA
*
33033764 ATTTTTATTTTTATTTTTATTTTT
1 ATTTTTATTCTTA-TTTTATTTTT
*
33033788 ATTTTTA-TCTT-TATTAATTTTT
1 ATTTTTATTCTTAT-TTTATTTTT
*
33033810 TTGTTTTATTCTTATTTTA-TTTT
1 AT-TTTTATTCTTATTTTATTTTT
33033833 ATTATTTA--C-TATTTTATTTTT
1 ATT-TTTATTCTTATTTTATTTTT
33033854 GAATGTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.13
21 6 0.11
22 10 0.18
23 17 0.31
24 14 0.25
25 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (23 bp):
ATTTTTATTCTTATTTTATTTTT
Found at i:33046163 original size:96 final size:95
Alignment explanation
Indices: 33045999--33046193 Score: 255
Period size: 96 Copynumber: 2.0 Consensus size: 95
33045989 GAATTAATTT
* * * *
33045999 TTAAGAATGTGTTGGGCTAAGTAATCGGGGTGAGGTGCTTGGCAGTAATCTTTTTTCACGTCAAA
1 TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCAGTAATCTCTCTTCACGTCAAA
* *
33046064 AGGTTCGATATGTTCTTAAGAAAAATAAAAA
66 AGGTTCCATATATTCTTAA-AAAAATAAAAA
* * * ** * *
33046095 TTAAGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCGCGTCAAA
1 TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCAGTAATCTCTCTTCACGTCAAA
*
33046160 AGGTTCCATATATTCTTAAAAAAATAATAA
66 AGGTTCCATATATTCTTAAAAAAATAAAAA
33046190 TTAA
1 TTAA
33046194 TTAATTAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 14 0.16
96 71 0.84
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (95 bp):
TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCAGTAATCTCTCTTCACGTCAAA
AGGTTCCATATATTCTTAAAAAAATAAAAA
Found at i:33046853 original size:10 final size:10
Alignment explanation
Indices: 33046838--33046885 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
33046828 ATTTTAGGAT
33046838 TTATCTTTAA
1 TTATCTTTAA
33046848 TTATCTTTAA
1 TTATCTTTAA
*
33046858 TTATCTTTAT
1 TTATCTTTAA
* *
33046868 TTATCTGTAT
1 TTATCTTTAA
33046878 TTATCTTT
1 TTATCTTT
33046886 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:33047659 original size:39 final size:37
Alignment explanation
Indices: 33047611--33047691 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 37
33047601 ATTTTTCAAA
*
33047611 TTCCA-ATCAAAACTTTTAATTCTATTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTCTATTTTT-TTTT-CTT
*
33047649 TTCCAGATCAAAACTTTTAATTCTGTTTTTTTTTCTT
1 TTCCAGATCAAAACTTTTAATTCTATTTTTTTTTCTT
33047686 TTCCAG
1 TTCCAG
33047692 GTACGCAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
37 8 0.20
38 9 0.22
39 23 0.57
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.56
Consensus pattern (37 bp):
TTCCAGATCAAAACTTTTAATTCTATTTTTTTTTCTT
Found at i:33052188 original size:14 final size:14
Alignment explanation
Indices: 33052169--33052199 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33052159 ACTTATTTTG
33052169 AAAAATAAAATAAT
1 AAAAATAAAATAAT
33052183 AAAAATAAAATAAT
1 AAAAATAAAATAAT
33052197 AAA
1 AAA
33052200 TAAGAAGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:33052737 original size:20 final size:20
Alignment explanation
Indices: 33052706--33052752 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
33052696 ATTAATAAAT
33052706 TTAATGTTTGAATTGATAATA
1 TTAAT-TTTGAATTGATAATA
33052727 TTAATTTTGAATTGATAATA
1 TTAATTTTGAATTGATAATA
33052747 TTAATT
1 TTAATT
33052753 AACTTTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAATTTTGAATTGATAATA
Found at i:33054087 original size:7 final size:7
Alignment explanation
Indices: 33054063--33054098 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
33054053 GTCCGGATTT
33054063 ATTTT-A
1 ATTTTCA
33054069 ATTTTCA
1 ATTTTCA
33054076 A--TTCA
1 ATTTTCA
33054081 ATTTTCA
1 ATTTTCA
33054088 ATTTTCA
1 ATTTTCA
33054095 ATTT
1 ATTT
33054099 ATTACTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
6 5 0.19
7 17 0.63
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTCA
Found at i:33065342 original size:3 final size:3
Alignment explanation
Indices: 33065334--33065411 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
33065324 ATCTCCATTT
33065334 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33065382 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33065412 ACTTTACTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:33066734 original size:19 final size:19
Alignment explanation
Indices: 33066707--33066749 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
33066697 TATATAACAC
33066707 TTTTTATAAA-TA-ATATTT
1 TTTTTATAAATTAGA-ATTT
33066725 TTTTTCATAAATTAGAATTT
1 TTTTT-ATAAATTAGAATTT
33066745 TTTTT
1 TTTTT
33066750 TTTTTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 11 0.50
21 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAAATTAGAATTT
Found at i:33068829 original size:24 final size:24
Alignment explanation
Indices: 33068802--33068852 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
33068792 TAATGACAAA
*
33068802 TTTAGTCATTAGTA-TTTTTATTTT
1 TTTAGTAATT-GTACTTTTTATTTT
* *
33068826 TTTATTAATTTTACTTTTTATTTT
1 TTTAGTAATTGTACTTTTTATTTT
33068850 TTT
1 TTT
33068853 TATAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTAGTAATTGTACTTTTTATTTT
Found at i:33069095 original size:1 final size:1
Alignment explanation
Indices: 33069089--33069113 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
33069079 CCCTTTGTGG
33069089 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
33069114 ATCGTAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:33070178 original size:29 final size:31
Alignment explanation
Indices: 33070124--33070197 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
33070114 AATTTGATAT
* *
33070124 ATGAACTTTAATTTAGTA-T-AATTATATAC
1 ATGAAATTTAAATTAGTATTAAATTATATAC
*
33070153 ATGAAATTTAAATT-GTATTATATATATATAC
1 ATGAAATTTAAATTAGTATTAAAT-TATATAC
*
33070184 ATGAAATTTTAATT
1 ATGAAATTTAAATT
33070198 TTGATTCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 13 0.34
30 2 0.05
31 20 0.53
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (31 bp):
ATGAAATTTAAATTAGTATTAAATTATATAC
Found at i:33070416 original size:18 final size:18
Alignment explanation
Indices: 33070390--33070433 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
33070380 AAATTTATAT
*
33070390 TTAACATTATATATTAAA
1 TTAAAATTATATATTAAA
33070408 TTAAAATTATATATTAAA
1 TTAAAATTATATATTAAA
33070426 TTAAAATT
1 TTAAAATT
33070434 TTATGTATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATTATATATTAAA
Found at i:33071593 original size:19 final size:19
Alignment explanation
Indices: 33071571--33071611 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33071561 TGTATTATTA
* *
33071571 ATGTAAATATGATTCTAGC
1 ATGTAAATATAATTCGAGC
*
33071590 ATGTAAATTTAATTCGAGC
1 ATGTAAATATAATTCGAGC
33071609 ATG
1 ATG
33071612 ATTCTAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGTAAATATAATTCGAGC
Found at i:33075334 original size:46 final size:46
Alignment explanation
Indices: 33075269--33075532 Score: 352
Period size: 46 Copynumber: 5.7 Consensus size: 46
33075259 TTATCTTTGA
* * * * **
33075269 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
33075315 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
33075361 CACGCTGCCGTGGTATCTTTCAACCATGGTCTTATTCATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATGT
* *
33075407 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
33075453 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGT
*
33075499 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
33075533 AATATTTCAT
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 193 0.98
47 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:33075943 original size:26 final size:26
Alignment explanation
Indices: 33075914--33075979 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
33075904 TGTTCCATCA
*
33075914 ATTTTCATACAATGAATATTCAAATT
1 ATTTTCACACAATGAATATTCAAATT
33075940 ATTTTCACACAATGAATATTCAAATT
1 ATTTTCACACAATGAATATTCAAATT
33075966 ATTTTCACATCAAT
1 ATTTTCACA-CAAT
33075980 AACATACATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (26 bp):
ATTTTCACACAATGAATATTCAAATT
Found at i:33079390 original size:5 final size:5
Alignment explanation
Indices: 33079380--33079458 Score: 58
Period size: 5 Copynumber: 15.4 Consensus size: 5
33079370 AGTAATAAAT
*
33079380 AATAA AATAA AATAA AGTAA TGAAT-A AATAAA TAATAA AATAA AAT-A
1 AATAA AATAA AATAA AATAA --AATAA AAT-AA -AATAA AATAA AATAA
*
33079427 AA-AA AATAT AATAAA AATAA AGA-AA AATAA AA
1 AATAA AATAA AAT-AA AATAA A-ATAA AATAA AA
33079459 ATTGGGTTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
4 10 0.17
5 36 0.60
6 9 0.15
7 5 0.08
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:33079391 original size:25 final size:24
Alignment explanation
Indices: 33079363--33079456 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 24
33079353 TCACCCAAAC
33079363 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAA-AAATAATAAAAT
*
33079388 AAAATAAAGTAATGAATAAATAAATAAT
1 AAAATAAAGTAA-AAAT-AAT-AA-AAT
* *
33079416 AAAATAAAATAAAAA-AATATAAT
1 AAAATAAAGTAAAAATAATAAAAT
33079439 AAAAATAAAG-AAAAATAA
1 -AAAATAAAGTAAAAATAA
33079457 AAATTGGGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
23 8 0.14
24 11 0.19
25 19 0.32
26 3 0.05
27 4 0.07
28 14 0.24
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (24 bp):
AAAATAAAGTAAAAATAATAAAAT
Found at i:33079434 original size:29 final size:31
Alignment explanation
Indices: 33079372--33079459 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 31
33079362 CAAAATAAAG
33079372 TAATAAATAATAAAATAAAATAAAGTAATGAATA
1 TAATAAATAATAAAATAAAATAAA--AA-GAATA
33079406 -AATAAATAATAAAATAAAATAAAAA-AATA
1 TAATAAATAATAAAATAAAATAAAAAGAATA
33079435 TAATAAA-AATAAAGA-AAAATAAAAA
1 TAATAAATAATAAA-ATAAAATAAAAA
33079460 TTGGGTTACC
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
29 20 0.38
30 7 0.13
31 2 0.04
33 23 0.44
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (31 bp):
TAATAAATAATAAAATAAAATAAAAAGAATA
Found at i:33079441 original size:13 final size:12
Alignment explanation
Indices: 33079363--33079443 Score: 56
Period size: 13 Copynumber: 6.2 Consensus size: 12
33079353 TCACCCAAAC
33079363 AAAATAAAGTAATA
1 AAAATAAA-TAA-A
33079377 AATAATAAAATAAA
1 AA-AAT-AAATAAA
*
33079391 ATAAAGT-AATGAA
1 A-AAA-TAAATAAA
* *
33079404 TAAATAAATAAT
1 AAAATAAATAAA
33079416 AAAATAAAATAAA
1 AAAAT-AAATAAA
33079429 AAAATATAATAAA
1 AAAATA-AATAAA
33079442 AA
1 AA
33079444 TAAAGAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
11 1 0.02
12 12 0.22
13 24 0.44
14 6 0.11
15 8 0.15
16 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (12 bp):
AAAATAAATAAA
Done.