Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 122 of 207
Found at i:36994096 original size:33 final size:33
Alignment explanation
Indices: 36994051--36994239 Score: 147
Period size: 33 Copynumber: 5.6 Consensus size: 33
36994041 CAGATGCAGT
36994051 GGAATCAGCACTTAGCAACCACTAATGAATAGG
1 GGAATCAGCACTTAGCAACCACTAATGAATAGG
* * * *
36994084 TGAATCAACACTTAGCAACCCCT--CG----GG
1 GGAATCAGCACTTAGCAACCACTAATGAATAGG
*
36994111 GGAATCAGCACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACTAATGAATAGG
* *
36994144 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--T-A-A--T-GAATA-GG
* * **
36994186 TGGGATCAGCACTTAGAAACCACCGATGAATAGG
1 -GGAATCAGCACTTAGCAACCACTAATGAATAGG
36994220 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
36994240 CCTCTATATT
Statistics
Matches: 120, Mismatches: 20, Indels: 32
0.70 0.12 0.19
Matches are distributed among these distances:
27 21 0.17
29 1 0.01
31 1 0.01
33 58 0.48
34 5 0.04
35 4 0.03
36 1 0.01
37 1 0.01
38 2 0.02
40 1 0.01
41 4 0.03
42 5 0.04
43 16 0.13
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACTAATGAATAGG
Found at i:36994121 original size:102 final size:102
Alignment explanation
Indices: 36993945--36994130 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
36993935 TAACCGTTAT
* * * *
36993945 CAGTGGATTCCGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCTTGGGG
1 CAGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAACACACAGCAACCCCTCGGGG
36994010 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* **
36994047 CAGTGGAATCAGCACTTAGCAACCACTAATGAAT-AGGTGAATCAACACTTAGCAACCCCTCGGG
1 CAGTGGAATCAGCACTTAGCAACCACCAATGAATCAGG-GAATCAACACACAGCAACCCCTCGGG
36994111 GGAATCAGCACTTAGCAACC
65 GGAATCAGCACTTAGCAACC
36994131 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 3 0.04
102 73 0.96
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (102 bp):
CAGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAACACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
Found at i:36994149 original size:60 final size:60
Alignment explanation
Indices: 36994051--36994165 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
36994041 CAGATGCAGT
* *
36994051 GGAATCAGCACTTAGCAACCACTAATGAATAGGTGAATCAACACTTAGCAACCCCTCGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCCTCGGG
*
36994111 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCC
36994166 CTTTCACATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (60 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCCTCGGG
Found at i:37003321 original size:35 final size:35
Alignment explanation
Indices: 37003279--37003367 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
37003269 GGTATCTACT
37003279 GGTCCTTCAAGGCGACACCATGTAAATGATATATA
1 GGTCCTTCAAGGCGACACCATGTAAATGATATATA
** *
37003314 GGTCCTTCGGGGCGACACCGTGTAAATGATATATA
1 GGTCCTTCAAGGCGACACCATGTAAATGATATATA
*
37003349 GGTCCTTCAAGGTGACACC
1 GGTCCTTCAAGGCGACACC
37003368 TCAAATAGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (35 bp):
GGTCCTTCAAGGCGACACCATGTAAATGATATATA
Found at i:37006480 original size:28 final size:27
Alignment explanation
Indices: 37006435--37006488 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
37006425 GGTAAAATAC
37006435 ATATTTTAAAATTGTTTATAATTTTTTA
1 ATATTTTAAAATTGTTTA-AATTTTTTA
* *
37006463 ATATTTTACTAATT-TTTAATTTTTTT
1 ATATTTTA-AAATTGTTTAAATTTTTT
37006489 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 12 0.52
29 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
ATATTTTAAAATTGTTTAAATTTTTTA
Found at i:37006488 original size:19 final size:19
Alignment explanation
Indices: 37006457--37006510 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
37006447 TGTTTATAAT
*
37006457 TTTTTAA-TATTTTACTAA
1 TTTTTAATTTTTTTACTAA
37006475 TTTTTAATTTTTTTTA-TAA
1 TTTTTAA-TTTTTTTACTAA
* *
37006494 ATTTTAATATTTTTACT
1 TTTTTAATTTTTTTACT
37006511 TTTTTTAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 14 0.47
19 10 0.33
20 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAATTTTTTTACTAA
Found at i:37006489 original size:20 final size:20
Alignment explanation
Indices: 37006466--37006507 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
37006456 TTTTTTAATA
*
37006466 TTTTACTAATTTTTAAT-TTT
1 TTTTA-TAAATTTTAATATTT
37006486 TTTTATAAATTTTAATATTT
1 TTTTATAAATTTTAATATTT
37006506 TT
1 TT
37006508 ACTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATAAATTTTAATATTT
Found at i:37006489 original size:28 final size:28
Alignment explanation
Indices: 37006456--37006516 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
37006446 TTGTTTATAA
* *
37006456 TTTTTTA-ATATTTTACTAATTTTTAATT
1 TTTTTTATAAATTTTAAT-ATTTTTAATT
*
37006484 TTTTTTATAAATTTTAATATTTTTACTT
1 TTTTTTATAAATTTTAATATTTTTAATT
37006512 TTTTT
1 TTTTT
37006517 AGGTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTTTATAAATTTTAATATTTTTAATT
Found at i:37007734 original size:41 final size:41
Alignment explanation
Indices: 37007679--37007781 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
37007669 AAATATATTT
* *
37007679 ATTTTTTT-AATTTTAAAATATTTTTTACATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
37007719 TTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
**
37007760 ATTTTTAAAAATTTTTAAAATA
1 ATTTTTTTAAA-TTTTAAAATA
37007782 AAAATGGGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 7 0.13
41 38 0.69
42 10 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (41 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:37007744 original size:11 final size:11
Alignment explanation
Indices: 37007730--37007781 Score: 65
Period size: 10 Copynumber: 4.9 Consensus size: 11
37007720 TTTTTTTAAA
37007730 TTTTAAAATAT
1 TTTTAAAATAT
37007741 TTTTAAAATACT
1 TTTTAAAATA-T
*
37007753 TTTT-TAA-AT
1 TTTTAAAATAT
37007762 TTTTAAAA-AT
1 TTTTAAAATAT
37007772 TTTTAAAATA
1 TTTTAAAATA
37007782 AAAATGGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 5 0.14
10 13 0.36
11 13 0.36
12 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:37007756 original size:31 final size:31
Alignment explanation
Indices: 37007721--37007781 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
37007711 TTTTTTAATT
37007721 TTTTTTAAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTAAAA-ATTTTTAAAATAC
37007752 TTTTTTAAATTTTTAAAAATTTTTAAAATA
1 TTTTTTAAATTTTTAAAAATTTTTAAAATA
37007782 AAAATGGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTTTTAAATTTTTAAAAATTTTTAAAATAC
Found at i:37014250 original size:15 final size:17
Alignment explanation
Indices: 37014219--37014261 Score: 72
Period size: 15 Copynumber: 2.6 Consensus size: 17
37014209 ATAGGCTTAA
37014219 GTAAAATGTTAAGACTT
1 GTAAAATGTTAAGACTT
37014236 GTAAAAT-TT-AGACTT
1 GTAAAATGTTAAGACTT
37014251 GTAAAATGTTA
1 GTAAAATGTTA
37014262 TACCTTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.54
16 4 0.17
17 7 0.29
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (17 bp):
GTAAAATGTTAAGACTT
Found at i:37017378 original size:24 final size:25
Alignment explanation
Indices: 37017342--37017391 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
37017332 AGTTTTCTGT
37017342 TGTTATTGTTTTTTTTTTGTAAGTA
1 TGTTATTGTTTTTTTTTTGTAAGTA
37017367 TGTTATTG-TTTTTTTTTGTAAGTA
1 TGTTATTGTTTTTTTTTTGTAAGTA
37017391 T
1 T
37017392 TGGCTTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (25 bp):
TGTTATTGTTTTTTTTTTGTAAGTA
Found at i:37021365 original size:9 final size:9
Alignment explanation
Indices: 37021351--37021408 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
37021341 GTAGTGATTC
37021351 AATTCGGTT
1 AATTCGGTT
*
37021360 AATTCGGGT
1 AATTCGGTT
*
37021369 AATCCGGTT
1 AATTCGGTT
37021378 AATTCGGTT
1 AATTCGGTT
*
37021387 AATTCGGGT
1 AATTCGGTT
*
37021396 AATTCGATT
1 AATTCGGTT
37021405 AATT
1 AATT
37021409 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:37021383 original size:27 final size:27
Alignment explanation
Indices: 37021346--37021408 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
37021336 ATTATGTAGT
37021346 GATTCAATTCGGTTAATTCGGGTAATCC
1 GATT-AATTCGGTTAATTCGGGTAATCC
* *
37021374 GGTTAATTCGGTTAATTCGGGTAATTC
1 GATTAATTCGGTTAATTCGGGTAATCC
37021401 GATTAATT
1 GATTAATT
37021409 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (27 bp):
GATTAATTCGGTTAATTCGGGTAATCC
Found at i:37030810 original size:914 final size:914
Alignment explanation
Indices: 37029042--37030874 Score: 3666
Period size: 914 Copynumber: 2.0 Consensus size: 914
37029032 ACTCATCTTC
37029042 ATCTGTAAAATAAAAGAAGAAAAAAACCTGTATTAATATATATATATTCAATGCTTTGAATTTTT
1 ATCTGTAAAATAAAAGAAGAAAAAAACCTGTATTAATATATATATATTCAATGCTTTGAATTTTT
37029107 GAATTTTTAAAAAATCTTTTGGGGGGCCAATTGTTATCTATATTTTGAGTTTTTGTTTTGAATTT
66 GAATTTTTAAAAAATCTTTTGGGGGGCCAATTGTTATCTATATTTTGAGTTTTTGTTTTGAATTT
37029172 TTAAGAATTGTATTTTTTTTTTATTTTTTGCCAATTTTTAGAATTTATACATATTATATATATTA
131 TTAAGAATTGTATTTTTTTTTTATTTTTTGCCAATTTTTAGAATTTATACATATTATATATATTA
37029237 AGGTTTTTTAATAAATATGTGTATATATATTAAGTTTTAAATATATGCAAACATGACATATAAGA
196 AGGTTTTTTAATAAATATGTGTATATATATTAAGTTTTAAATATATGCAAACATGACATATAAGA
37029302 CAAAATAGTTTATGACATAAAAAAGTCATAACATGTACACATCACCCATTTAACAACAAAATCTA
261 CAAAATAGTTTATGACATAAAAAAGTCATAACATGTACACATCACCCATTTAACAACAAAATCTA
37029367 TAAGGGCATTATAAAATTTCTTCATTTGCGTGGTTTTTAGTAGAGGAATTAAAATAAGTTTTTGC
326 TAAGGGCATTATAAAATTTCTTCATTTGCGTGGTTTTTAGTAGAGGAATTAAAATAAGTTTTTGC
37029432 TATAATATTTAGAAGTATACTGTTACCAGGAATTTTGTTACTACTTAGGTTCCCTAGGTAGATTA
391 TATAATATTTAGAAGTATACTGTTACCAGGAATTTTGTTACTACTTAGGTTCCCTAGGTAGATTA
37029497 ATGTTTAGAGTGCTACAAACTGCTTTGCTCTTCCTCATGTGATGTGTCTCATGTGCTTCACAACA
456 ATGTTTAGAGTGCTACAAACTGCTTTGCTCTTCCTCATGTGATGTGTCTCATGTGCTTCACAACA
37029562 AAATGTTTGACTTCATGATGTTTATGTTAAATTTTTTTTAACTCTCTTTTGCAATGCATCGAATA
521 AAATGTTTGACTTCATGATGTTTATGTTAAATTTTTTTTAACTCTCTTTTGCAATGCATCGAATA
37029627 AGCCATTTTGTGCTGTAGAGAAACTTGATTACTTTTTAAATTCATAATAGATGGTTTCTCAGTAT
586 AGCCATTTTGTGCTGTAGAGAAACTTGATTACTTTTTAAATTCATAATAGATGGTTTCTCAGTAT
37029692 AGAGGACTAAGTTTGTGTACACTGCAATTTTTGTTTTCCTTTCTTTTTGGTCTGGATGGAATTTA
651 AGAGGACTAAGTTTGTGTACACTGCAATTTTTGTTTTCCTTTCTTTTTGGTCTGGATGGAATTTA
37029757 AAAGTCAAGAAACTAGTATTCTGGAAAGTAATTTGCATATCAAATTATTATGCTGCAATATTGAA
716 AAAGTCAAGAAACTAGTATTCTGGAAAGTAATTTGCATATCAAATTATTATGCTGCAATATTGAA
37029822 ATACAGTTTCCTACCAAACTTCTAAATGCAGGCAGTTCAGTTCCTTCTGTCTTGTCATGAACGCC
781 ATACAGTTTCCTACCAAACTTCTAAATGCAGGCAGTTCAGTTCCTTCTGTCTTGTCATGAACGCC
37029887 TGAATATGGAAAGATCAACTGGGCCTGATCCCATGGCTGAAAGCAGTAAAATGGAAACAGAACCA
846 TGAATATGGAAAGATCAACTGGGCCTGATCCCATGGCTGAAAGCAGTAAAATGGAAACAGAACCA
37029952 CAGA
911 CAGA
37029956 ATCTGTAAAATAAAAGAAGAAAAAAACCTGTATTAATATATATATATTCAATGCTTTGAATTTTT
1 ATCTGTAAAATAAAAGAAGAAAAAAACCTGTATTAATATATATATATTCAATGCTTTGAATTTTT
37030021 GAATTTTTAAAAAATCTTTTGGGGGGCCAATTGTTATCTATATTTTGAGTTTTTGTTTTGAATTT
66 GAATTTTTAAAAAATCTTTTGGGGGGCCAATTGTTATCTATATTTTGAGTTTTTGTTTTGAATTT
37030086 TTAAGAATTGTATTTTTTTTTTATTTTTTGCCAATTTTTAGAATTTATACATATTATATATATTA
131 TTAAGAATTGTATTTTTTTTTTATTTTTTGCCAATTTTTAGAATTTATACATATTATATATATTA
37030151 AGGTTTTTTAATAAATATGTGTATATATATTAAGTTTTAAATATATGCAAACATGACATATAAGA
196 AGGTTTTTTAATAAATATGTGTATATATATTAAGTTTTAAATATATGCAAACATGACATATAAGA
37030216 CAAAATAGTTTATGACATAAAAAAGTCATAACATGTACACATCACCCATTTAACAACAAAATCTA
261 CAAAATAGTTTATGACATAAAAAAGTCATAACATGTACACATCACCCATTTAACAACAAAATCTA
37030281 TAAGGGCATTATAAAATTTCTTCATTTGCGTGGTTTTTAGTAGAGGAATTAAAATAAGTTTTTGC
326 TAAGGGCATTATAAAATTTCTTCATTTGCGTGGTTTTTAGTAGAGGAATTAAAATAAGTTTTTGC
37030346 TATAATATTTAGAAGTATACTGTTACCAGGAATTTTGTTACTACTTAGGTTCCCTAGGTAGATTA
391 TATAATATTTAGAAGTATACTGTTACCAGGAATTTTGTTACTACTTAGGTTCCCTAGGTAGATTA
37030411 ATGTTTAGAGTGCTACAAACTGCTTTGCTCTTCCTCATGTGATGTGTCTCATGTGCTTCACAACA
456 ATGTTTAGAGTGCTACAAACTGCTTTGCTCTTCCTCATGTGATGTGTCTCATGTGCTTCACAACA
37030476 AAATGTTTGACTTCATGATGTTTATGTTAAATTTTTTTTAACTCTCTTTTGCAATGCATCGAATA
521 AAATGTTTGACTTCATGATGTTTATGTTAAATTTTTTTTAACTCTCTTTTGCAATGCATCGAATA
37030541 AGCCATTTTGTGCTGTAGAGAAACTTGATTACTTTTTAAATTCATAATAGATGGTTTCTCAGTAT
586 AGCCATTTTGTGCTGTAGAGAAACTTGATTACTTTTTAAATTCATAATAGATGGTTTCTCAGTAT
37030606 AGAGGACTAAGTTTGTGTACACTGCAATTTTTGTTTTCCTTTCTTTTTGGTCTGGATGGAATTTA
651 AGAGGACTAAGTTTGTGTACACTGCAATTTTTGTTTTCCTTTCTTTTTGGTCTGGATGGAATTTA
37030671 AAAGTCAAGAAACTAGTATTCTGGAAAGTAATTTGCATATCAAATTATTATGCTGCAATATTGAA
716 AAAGTCAAGAAACTAGTATTCTGGAAAGTAATTTGCATATCAAATTATTATGCTGCAATATTGAA
37030736 ATACAGTTTCCTACCAAACTTCTAAATGCAGGCAGTTCAGTTCCTTCTGTCTTGTCATGAACGCC
781 ATACAGTTTCCTACCAAACTTCTAAATGCAGGCAGTTCAGTTCCTTCTGTCTTGTCATGAACGCC
37030801 TGAATATGGAAAGATCAACTGGGCCTGATCCCATGGCTGAAAGCAGTAAAATGGAAACAGAACCA
846 TGAATATGGAAAGATCAACTGGGCCTGATCCCATGGCTGAAAGCAGTAAAATGGAAACAGAACCA
37030866 CAGA
911 CAGA
37030870 ATCTG
1 ATCTG
37030875 GATCGTATTC
Statistics
Matches: 919, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
914 919 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (914 bp):
ATCTGTAAAATAAAAGAAGAAAAAAACCTGTATTAATATATATATATTCAATGCTTTGAATTTTT
GAATTTTTAAAAAATCTTTTGGGGGGCCAATTGTTATCTATATTTTGAGTTTTTGTTTTGAATTT
TTAAGAATTGTATTTTTTTTTTATTTTTTGCCAATTTTTAGAATTTATACATATTATATATATTA
AGGTTTTTTAATAAATATGTGTATATATATTAAGTTTTAAATATATGCAAACATGACATATAAGA
CAAAATAGTTTATGACATAAAAAAGTCATAACATGTACACATCACCCATTTAACAACAAAATCTA
TAAGGGCATTATAAAATTTCTTCATTTGCGTGGTTTTTAGTAGAGGAATTAAAATAAGTTTTTGC
TATAATATTTAGAAGTATACTGTTACCAGGAATTTTGTTACTACTTAGGTTCCCTAGGTAGATTA
ATGTTTAGAGTGCTACAAACTGCTTTGCTCTTCCTCATGTGATGTGTCTCATGTGCTTCACAACA
AAATGTTTGACTTCATGATGTTTATGTTAAATTTTTTTTAACTCTCTTTTGCAATGCATCGAATA
AGCCATTTTGTGCTGTAGAGAAACTTGATTACTTTTTAAATTCATAATAGATGGTTTCTCAGTAT
AGAGGACTAAGTTTGTGTACACTGCAATTTTTGTTTTCCTTTCTTTTTGGTCTGGATGGAATTTA
AAAGTCAAGAAACTAGTATTCTGGAAAGTAATTTGCATATCAAATTATTATGCTGCAATATTGAA
ATACAGTTTCCTACCAAACTTCTAAATGCAGGCAGTTCAGTTCCTTCTGTCTTGTCATGAACGCC
TGAATATGGAAAGATCAACTGGGCCTGATCCCATGGCTGAAAGCAGTAAAATGGAAACAGAACCA
CAGA
Found at i:37039103 original size:14 final size:14
Alignment explanation
Indices: 37039084--37039135 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
37039074 ATCTAATACC
37039084 TAAAATAAATATTA
1 TAAAATAAATATTA
37039098 TAAAATAAA-ATTGA
1 TAAAATAAATATT-A
*
37039112 -AGTAATGAAATATTA
1 TA-AAAT-AAATATTA
37039127 TAAAATAAA
1 TAAAATAAA
37039136 CAAAGCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 7 0.23
16 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
TAAAATAAATATTA
Found at i:37045650 original size:16 final size:16
Alignment explanation
Indices: 37045638--37045690 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
37045628 AGGTTTTTTC
37045638 GAACTCGAATTTTCTT
1 GAACTCGAATTTTCTT
*
37045654 GAACTCGAATCTGTTATT
1 GAACTCGAAT-T-TTCTT
* *
37045672 G-GCTCGAGTTTTCTT
1 GAACTCGAATTTTCTT
37045687 GAAC
1 GAAC
37045691 ATGAATCGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 7 0.24
18 5 0.17
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (16 bp):
GAACTCGAATTTTCTT
Found at i:37045678 original size:33 final size:32
Alignment explanation
Indices: 37045641--37045702 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
37045631 TTTTTTCGAA
37045641 CTCGAATTTTCTTGAAC-TCGAATCTGTTATTGG
1 CTCGAATTTTCTTGAACAT-GAATC-GTTATTGG
*
37045674 CTCGAGTTTTCTTGAACATGAATCGTTAT
1 CTCGAATTTTCTTGAACATGAATCGTTAT
37045703 GAACTCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.19
33 21 0.78
34 1 0.04
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (32 bp):
CTCGAATTTTCTTGAACATGAATCGTTATTGG
Found at i:37049284 original size:17 final size:15
Alignment explanation
Indices: 37049241--37049277 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
37049231 TGTATGCTAG
*
37049241 ATATGTTTTAATCAA
1 ATATATTTTAATCAA
37049256 ATATATTTTAATCAA
1 ATATATTTTAATCAA
37049271 ATATATT
1 ATATATT
37049278 ATGTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATTTTAATCAA
Found at i:37051095 original size:22 final size:25
Alignment explanation
Indices: 37051069--37051122 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
37051059 TTTATAAATT
37051069 TAATTTAAAAG-ATA-TAAT-ACAA
1 TAATTTAAAAGCATATTAATAACAA
*
37051091 TAATTT-CAAGCATATTTAATAACAA
1 TAATTTAAAAGCATA-TTAATAACAA
37051116 TAATTTA
1 TAATTTA
37051123 GTCATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
24 4 0.15
25 10 0.38
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (25 bp):
TAATTTAAAAGCATATTAATAACAA
Found at i:37055342 original size:18 final size:18
Alignment explanation
Indices: 37055316--37055358 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
37055306 TAACAACAAC
*
37055316 ACATGTTAGCATACTTGA
1 ACATATTAGCATACTTGA
37055334 ACATATTAGCATACTTGA
1 ACATATTAGCATACTTGA
37055352 ACATATT
1 ACATATT
37055359 TCATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
ACATATTAGCATACTTGA
Found at i:37062715 original size:26 final size:26
Alignment explanation
Indices: 37062686--37062739 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
37062676 ATTCAATTAT
*
37062686 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
*
37062711 AAAAATTAAATGATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
37062737 AAA
1 AAA
37062740 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:37074299 original size:5 final size:5
Alignment explanation
Indices: 37074289--37074542 Score: 418
Period size: 5 Copynumber: 50.8 Consensus size: 5
37074279 ACATTCTAAC
* *
37074289 CATAT CATAT CATAT AATAT AATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
37074339 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
37074389 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
37074439 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* * * * * ** *
37074489 CATAT CATAT CGTAT CGTAT CGTAC CGTAT CATAT TGTAT CATAT CGTAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
37074539 CATA
1 CATA
37074543 CCAAATTGCA
Statistics
Matches: 237, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 237 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:37079167 original size:19 final size:19
Alignment explanation
Indices: 37079143--37079183 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37079133 ATCTCATTTC
*
37079143 ATTCA-TTGTATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
37079162 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
37079181 ATT
1 ATT
37079184 TAATTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:37081546 original size:21 final size:21
Alignment explanation
Indices: 37081508--37081547 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37081498 TAGTCTTCTG
* *
37081508 TAGTCTTTTTCATGAAAATTT
1 TAGTCTTTTCCATCAAAATTT
*
37081529 TAGTCTTTTCCTTCAAAAT
1 TAGTCTTTTCCATCAAAAT
37081548 AGACATGCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (21 bp):
TAGTCTTTTCCATCAAAATTT
Found at i:37092681 original size:17 final size:17
Alignment explanation
Indices: 37092639--37092685 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
37092629 AATTCAATTT
37092639 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
37092655 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
37092673 TAATATAAATAAT
1 TAATATAAATAAT
37092686 ATAATATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.11
16 1 0.04
17 13 0.48
18 7 0.26
19 3 0.11
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:37092691 original size:17 final size:16
Alignment explanation
Indices: 37092639--37092719 Score: 51
Period size: 17 Copynumber: 4.7 Consensus size: 16
37092629 AATTCAATTT
37092639 TAATATAAAT-ATTCAA
1 TAATATAAATAATT-AA
37092655 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATT-AA
37092673 TAATATAAATAATATAA
1 TAATATAAATAAT-TAA
*
37092690 T-ATGTGAAATTTAATTTAA
1 TAATAT-AAA--TAA-TTAA
37092709 TAATATAAATA
1 TAATATAAATA
37092720 GTAGATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
15 3 0.06
16 4 0.08
17 21 0.40
18 8 0.15
19 13 0.25
20 4 0.08
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (16 bp):
TAATATAAATAATTAA
Found at i:37095994 original size:23 final size:24
Alignment explanation
Indices: 37095968--37096024 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
37095958 ACTAGTGTTC
37095968 AACAAGGAGGCA-A-AAGTGGTGGT
1 AACAAGGAGGCAGATAA-TGGTGGT
37095991 AACAAGGAGG-AGATAATGGTGGT
1 AACAAGGAGGCAGATAATGGTGGT
37096014 AACAAGGAGGC
1 AACAAGGAGGC
37096025 TGATTCATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.39, T:0.12
Consensus pattern (24 bp):
AACAAGGAGGCAGATAATGGTGGT
Found at i:37097856 original size:23 final size:23
Alignment explanation
Indices: 37097813--37097856 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
37097803 TGATTATGCC
*
37097813 AATGCAATGTTTTTGAAAAAAAT
1 AATGCAATGTTTTTCAAAAAAAT
*
37097836 AATGCAA-GATTTTTCAGAAAA
1 AATGCAATG-TTTTTCAAAAAA
37097857 GTTCCTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (23 bp):
AATGCAATGTTTTTCAAAAAAAT
Found at i:37101228 original size:18 final size:18
Alignment explanation
Indices: 37101205--37101241 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37101195 ACTTAAAATA
37101205 TGATATTATCAAATTTTC
1 TGATATTATCAAATTTTC
37101223 TGATATTATCAAATTTTC
1 TGATATTATCAAATTTTC
37101241 T
1 T
37101242 TTCTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TGATATTATCAAATTTTC
Found at i:37103067 original size:31 final size:32
Alignment explanation
Indices: 37103031--37103095 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
37103021 CTTAGATAAT
37103031 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
37103062 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
37103094 TT
1 TT
37103096 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:37103652 original size:12 final size:12
Alignment explanation
Indices: 37103635--37103685 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
37103625 AAAAAAAAGC
37103635 AAAAAGAGCAAA
1 AAAAAGAGCAAA
37103647 AAAAAGAAGC---
1 AAAAAG-AGCAAA
37103657 AAAAAGAGCAAA
1 AAAAAGAGCAAA
*
37103669 AAAAAGCGCAAA
1 AAAAAGAGCAAA
37103681 AAAAA
1 AAAAA
37103686 AAGTTGCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 3 0.09
10 6 0.18
12 22 0.65
13 3 0.09
ACGTcount: A:0.75, C:0.10, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAGCAAA
Found at i:37103683 original size:22 final size:22
Alignment explanation
Indices: 37103625--37103682 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
37103615 CTTATTCTTT
37103625 AAAAAA-AAGCAAAAAGAGCAA
1 AAAAAAGAAGCAAAAAGAGCAA
37103646 AAAAAAGAAGCAAAAAGAGCAA
1 AAAAAAGAAGCAAAAAGAGCAA
*
37103668 AAAAAAG-CGCAAAAA
1 AAAAAAGAAGCAAAAA
37103683 AAAAAGTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAGCAAAAAGAGCAA
Found at i:37105452 original size:34 final size:34
Alignment explanation
Indices: 37105414--37105481 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
37105404 GTATATTTGG
37105414 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
1 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
* *
37105448 ATGTTGTCTAGGTCCCTTTTTAAGTGTGTACAAA
1 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
37105482 TGAATTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (34 bp):
ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
Found at i:37117735 original size:28 final size:28
Alignment explanation
Indices: 37117689--37117745 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
37117679 GGATTGATAG
* * *
37117689 TTCAGCTCATCAAAGGAGACTGAAACCT
1 TTCAGCTCATAAAAAGAGACTAAAACCT
37117717 TTCAGCTCATAAAAAGAGACTAAAACCT
1 TTCAGCTCATAAAAAGAGACTAAAACCT
37117745 T
1 T
37117746 AGGACTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (28 bp):
TTCAGCTCATAAAAAGAGACTAAAACCT
Found at i:37124720 original size:112 final size:112
Alignment explanation
Indices: 37124536--37124738 Score: 316
Period size: 112 Copynumber: 1.8 Consensus size: 112
37124526 TAGTACTGAG
37124536 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
1 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
37124601 GGAACAAAATCAAATTCATCATTTATTTTTGTTTTATTAGTATTTAA
66 GGAACAAAATCAAATTCATCATTTATTTTTGTTTTATTAGTATTTAA
* * * * * * *
37124648 AAACTTGCTCGTGTTGCCGTTAAACATGGTCTTTTTCAATTTGTAAGACACGATGTTGTCGGTCT
1 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
* **
37124713 TGAACAAAATGTAATTCATCATTTAT
66 GGAACAAAATCAAATTCATCATTTAT
37124739 GTTCTGTTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 81 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (112 bp):
AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
GGAACAAAATCAAATTCATCATTTATTTTTGTTTTATTAGTATTTAA
Found at i:37126136 original size:43 final size:43
Alignment explanation
Indices: 37126088--37126296 Score: 244
Period size: 43 Copynumber: 4.9 Consensus size: 43
37126078 TTTCTGATAA
*
37126088 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCACCGACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
** * *
37126131 GTGTTTTCATGTAAGACCATATTTGGGACGTTGGCATCGACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
* * * *
37126174 GTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
* * *
37126217 GTGTTTTCGTGTAAGACC-CTGTCTGGGATAG-CGGCATCGA-TCC
1 GTGTTTTCATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT-T
* *
37126260 GTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCAT
37126297 TGTACGAATC
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
42 3 0.02
43 138 0.97
44 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
Found at i:37128966 original size:17 final size:17
Alignment explanation
Indices: 37128945--37128994 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
37128935 GAAGGATGAG
*
37128945 AAAAAAATGAAAGTGGT
1 AAAAAAATGAAAGTGGA
* *
37128962 GAAAAAATGAAAGAGGA
1 AAAAAAATGAAAGTGGA
*
37128979 AAAAAAAAGAAAGTGG
1 AAAAAAATGAAAGTGG
37128995 GAGAGGGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (17 bp):
AAAAAAATGAAAGTGGA
Found at i:37128968 original size:35 final size:34
Alignment explanation
Indices: 37128929--37128994 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
37128919 TAAATAGAGT
* * *
37128929 AAAAAGGAAGGATGAGAAAAAAATGAAAGTGGTGA
1 AAAAAGGAAAGAGGA-AAAAAAAAGAAAGTGGTGA
*
37128964 AAAAATGAAAGAGGAAAAAAAAAGAAAGTGG
1 AAAAAGGAAAGAGGAAAAAAAAAGAAAGTGG
37128995 GAGAGGGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 15 0.56
35 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.09
Consensus pattern (34 bp):
AAAAAGGAAAGAGGAAAAAAAAAGAAAGTGGTGA
Found at i:37135922 original size:27 final size:26
Alignment explanation
Indices: 37135884--37135939 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
37135874 GTGAGCTGGT
37135884 GTTTGCTAGTAGGCTTGACGAGTTGGG
1 GTTTGCTAGTAGGCTTGA-GAGTTGGG
*
37135911 GTTTGCTAGTAGGCTTGATAGTTGGG
1 GTTTGCTAGTAGGCTTGAGAGTTGGG
37135937 GTT
1 GTT
37135940 CTCCAGTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.14, C:0.09, G:0.39, T:0.38
Consensus pattern (26 bp):
GTTTGCTAGTAGGCTTGAGAGTTGGG
Found at i:37135947 original size:26 final size:27
Alignment explanation
Indices: 37135884--37135949 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
37135874 GTGAGCTGGT
*
37135884 GTTTGCTAGTAGGCTTGACGAGTTGGG
1 GTTTGCCAGTAGGCTTGACGAGTTGGG
* *
37135911 GTTTGCTAGTAGGCTTGA-TAGTTGGG
1 GTTTGCCAGTAGGCTTGACGAGTTGGG
37135937 GTTCT-CCAGTAGG
1 GTT-TGCCAGTAGG
37135950 ATTGGTGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.15, C:0.12, G:0.38, T:0.35
Consensus pattern (27 bp):
GTTTGCCAGTAGGCTTGACGAGTTGGG
Found at i:37138623 original size:52 final size:50
Alignment explanation
Indices: 37138503--37138625 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
37138493 GCATTTATTA
* *
37138503 AAGTCATGCATTATGTAACTCTCAAGTTAGTTAAGTTTTCATAATAAATT
1 AAGTCATGCATTATGTAACTCCCAAGTTAGTTAAGTTTGCATAATAAATT
* * * * *
37138553 ATGACATGCATTGTGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCAAGTTAGTT-AAGTTTGCAT-AATAAATT
* *
37138605 AAGTTATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
37138626 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 27 0.46
51 9 0.15
52 23 0.39
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCAAGTTAGTTAAGTTTGCATAATAAATT
Found at i:37140782 original size:16 final size:16
Alignment explanation
Indices: 37140761--37140820 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
37140751 AGAGAGAAGT
*
37140761 AAAAAGTAAA-TGAGAG
1 AAAAAG-AAATTGAAAG
37140777 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
*
37140793 AAAAAGAGAGCTTGAAAG
1 AAAAAGA-A-ATTGAAAG
37140811 AAAAGAGAAA
1 AAAA-AGAAA
37140821 GAAAAAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.08
16 18 0.49
17 1 0.03
18 12 0.32
19 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:37140797 original size:17 final size:17
Alignment explanation
Indices: 37140777--37140820 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37140767 TAAATGAGAG
37140777 AAAAAGAAATTGAAAGA
1 AAAAAGAAATTGAAAGA
**
37140794 AAAAGAGAGCTTGAAAGA
1 AAAA-AGAAATTGAAAGA
*
37140812 AAAGAGAAA
1 AAAAAGAAA
37140821 GAAAAAGAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.66, C:0.02, G:0.23, T:0.09
Consensus pattern (17 bp):
AAAAAGAAATTGAAAGA
Found at i:37142670 original size:15 final size:17
Alignment explanation
Indices: 37142630--37142664 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
37142620 GTTGTTAGTT
37142630 TAGTTTAATTAATTCTA
1 TAGTTTAATTAATTCTA
37142647 TAGCTTTTAATTAATTCT
1 TAG--TTTAATTAATTCT
37142665 TGTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
19 13 0.81
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (17 bp):
TAGTTTAATTAATTCTA
Found at i:37142874 original size:52 final size:50
Alignment explanation
Indices: 37142754--37142876 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
37142744 GCATTTATTA
*
37142754 AAGTCATGCATTATGTAACTCTCAAGTTAGTTAAGTGTTCATAATAAATT
1 AAGTCATGCATTATGTAACTCCCAAGTTAGTTAAGTGTTCATAATAAATT
* * * * *
37142804 ATGACATGCATTGTGTAACTCCCATGTTAGTTAAAGT-TTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCAAGTTAGTT-AAGTGTT-CAT-AATAAATT
* *
37142856 AAGTTATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
37142877 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 29 0.49
51 7 0.12
52 23 0.39
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCAAGTTAGTTAAGTGTTCATAATAAATT
Found at i:37145088 original size:27 final size:25
Alignment explanation
Indices: 37145041--37145115 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 25
37145031 GAATTCTCTC
*
37145041 AAAATTTTATCGGGGTAAAATCGTT
1 AAAATTTTATTGGGGTAAAATCGTT
**
37145066 AAAATTTTATTTGGGGGTAAAATTATT
1 AAAATTTTA-TT-GGGGTAAAATCGTT
*
37145093 AAAATTTTATTGGAGTAAAATCG
1 AAAATTTTATTGGGGTAAAATCG
37145116 AGATGAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 18 0.43
26 3 0.07
27 21 0.50
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (25 bp):
AAAATTTTATTGGGGTAAAATCGTT
Found at i:37151582 original size:14 final size:15
Alignment explanation
Indices: 37151563--37151592 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
37151553 ATATCATGTT
37151563 GCATGTTTTG-AATG
1 GCATGTTTTGTAATG
37151577 GCATGTTTTGTAATG
1 GCATGTTTTGTAATG
37151592 G
1 G
37151593 AATAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (15 bp):
GCATGTTTTGTAATG
Found at i:37168886 original size:15 final size:15
Alignment explanation
Indices: 37168866--37168921 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
37168856 AGTGAGAATG
37168866 AGTGTAAAAGAAATA
1 AGTGTAAAAGAAATA
*
37168881 AGTGT-AAAGAAAAA
1 AGTGTAAAAGAAATA
*
37168895 GAGATTGAAAAAGAAATA
1 -AG--TGTAAAAGAAATA
37168913 AGTG-AAAAG
1 AGTGTAAAAG
37168922 GAAAGAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
14 13 0.38
15 9 0.26
17 4 0.12
18 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (15 bp):
AGTGTAAAAGAAATA
Found at i:37168909 original size:18 final size:17
Alignment explanation
Indices: 37168886--37168943 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
37168876 AAATAAGTGT
37168886 AAAGAAAAAGAGATTGAA
1 AAAGAAAAAGAGA-TGAA
*
37168904 AAAGAAATA-AG-TGAA
1 AAAGAAAAAGAGATGAA
* *
37168919 AAGGAAAGAGAGACTGAA
1 AAAGAAAAAGAGA-TGAA
37168937 AAAGAAA
1 AAAGAAA
37168944 CGAGTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.33
16 2 0.06
17 2 0.06
18 18 0.55
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.09
Consensus pattern (17 bp):
AAAGAAAAAGAGATGAA
Found at i:37168910 original size:32 final size:33
Alignment explanation
Indices: 37168871--37168953 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
37168861 GAATGAGTGT
*
37168871 AAAAGAAATAAGTGTAAA-GAAAAAGAGATTGA
1 AAAAGAAATAAGTGTAAAGGAAAAAGAGACTGA
* *
37168903 AAAAGAAATAAGTGAAAAGGAAAGAGAGACTGA
1 AAAAGAAATAAGTGTAAAGGAAAAAGAGACTGA
**
37168936 AAAAGAAACGAGTGTAAA
1 AAAAGAAATAAGTGTAAA
37168954 AGAAGATAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 17 0.39
33 27 0.61
ACGTcount: A:0.61, C:0.02, G:0.24, T:0.12
Consensus pattern (33 bp):
AAAAGAAATAAGTGTAAAGGAAAAAGAGACTGA
Found at i:37175462 original size:20 final size:21
Alignment explanation
Indices: 37175432--37175476 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
37175422 TATGTATGTT
37175432 TAGAGTTAGTAAAATGACTCA
1 TAGAGTTAGTAAAATGACTCA
37175453 TAGA-TTAGTAAAATGACTCA
1 TAGAGTTAGTAAAATGACTCA
37175473 TAGA
1 TAGA
37175477 AGAGTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (21 bp):
TAGAGTTAGTAAAATGACTCA
Found at i:37175482 original size:20 final size:20
Alignment explanation
Indices: 37175439--37175484 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
37175429 GTTTAGAGTT
**
37175439 AGTAAAATGACTCATAGATT
1 AGTAAAATGACTCATAGAAG
37175459 AGTAAAATGACTCATAGAAG
1 AGTAAAATGACTCATAGAAG
37175479 AGTAAA
1 AGTAAA
37175485 TGCTAAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.24
Consensus pattern (20 bp):
AGTAAAATGACTCATAGAAG
Found at i:37177625 original size:42 final size:43
Alignment explanation
Indices: 37177568--37177686 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
37177558 TGAGATTTAT
*
37177568 GTGTAAGACCATGTCTGAGACATTGGCATCGTATA-TGATTTC
1 GTGTAAGACCATGTCTGAGACATTGGCATCGTATAGTGATTAC
* *
37177610 GTGTAAGACCCTGTCT-AGTACAGTGGCATCG-ATAGTTGATTAC
1 GTGTAAGACCATGTCTGAG-ACATTGGCATCGTATAG-TGATTAC
* *
37177653 ATGTAAGACCATGTCTGAGACGTTGGCATCGTAT
1 GTGTAAGACCATGTCTGAGACATTGGCATCGTAT
37177687 GTGCTTTTCG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 5 0.08
42 26 0.40
43 30 0.46
44 4 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGAGACATTGGCATCGTATAGTGATTAC
Found at i:37185193 original size:14 final size:15
Alignment explanation
Indices: 37185174--37185203 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37185164 TCTTTTTTGA
37185174 TCTCTT-TTTCTTTT
1 TCTCTTATTTCTTTT
37185188 TCTCTTATTTCTTTT
1 TCTCTTATTTCTTTT
37185203 T
1 T
37185204 TTATTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTCTTATTTCTTTT
Found at i:37190742 original size:50 final size:50
Alignment explanation
Indices: 37190558--37190795 Score: 203
Period size: 50 Copynumber: 4.8 Consensus size: 50
37190548 GATAATAACA
* * ** * ***
37190558 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGA--T-TTTTTTTAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
37190605 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
37190655 TGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
37190705 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTTATCTCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
37190755 TGCCAACGCCATGTCCTAAACATAGTCTTACATGAGACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC
37190796 CTTACCCAAA
Statistics
Matches: 156, Mismatches: 32, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
47 33 0.21
49 1 0.01
50 122 0.78
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37197955 original size:43 final size:41
Alignment explanation
Indices: 37197822--37197981 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 41
37197812 TGTGATTTCG
* * * **
37197822 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATCTGAGATTTATG
1 TGTAAGACC-TGTCTGGGACATTGGCATCGTATAT--GA-TTACA
* * *
37197866 TGTAAGACCCTGTCT-AGACATTGGCATCGTATATGATTTCG
1 TGTAAGA-CCTGTCTGGGACATTGGCATCGTATATGATTACA
*
37197907 TGTAAGACACTGTCTGGGACAGTGGCATCG-ATAGTTGATTACA
1 TGTAAGAC-CTGTCTGGGACATTGGCATCGTATA--TGATTACA
*
37197950 TGTAAGACCAGATCTGGGACATTGGCATCGTA
1 TGTAAGACCTG-TCTGGGACATTGGCATCGTA
37197982 CGGGCTTTTC
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
40 1 0.01
41 19 0.20
42 16 0.17
43 43 0.45
44 15 0.16
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCTGTCTGGGACATTGGCATCGTATATGATTACA
Found at i:37197971 original size:85 final size:85
Alignment explanation
Indices: 37197814--37197981 Score: 202
Period size: 85 Copynumber: 2.0 Consensus size: 85
37197804 CTCTGATATG
** *
37197814 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCTGAGATTTATGTGTAAGACCCTGT
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCTGAGATTTACATGTAAGACCCAGT
37197879 CTAGACATTGGCATCGTATA
66 CTAGACATTGGCATCGTATA
* *
37197899 TGATTTCGTGTAAGA-CACTGTCTGGGACAG-TGGCATCGAT-AGTTGA-TTACATGTAAGA-CC
1 TGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATCTG-AGATTTACATGTAAGACCC
*
37197959 AGATCTGGGACATTGGCATCGTA
63 AG-TCT-AGACATTGGCATCGTA
37197982 CGGGCTTTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
83 3 0.04
84 17 0.24
85 51 0.71
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCTGAGATTTACATGTAAGACCCAGT
CTAGACATTGGCATCGTATA
Found at i:37198082 original size:17 final size:17
Alignment explanation
Indices: 37198060--37198092 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37198050 CACATTGAAG
37198060 TGTTTTCATTAAAAACA
1 TGTTTTCATTAAAAACA
37198077 TGTTTTCATTAAAAAC
1 TGTTTTCATTAAAAAC
37198093 CCTTCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
TGTTTTCATTAAAAACA
Found at i:37199024 original size:16 final size:16
Alignment explanation
Indices: 37199003--37199033 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37198993 TCCCAACCCC
37199003 ATGCAGTATGTCATGT
1 ATGCAGTATGTCATGT
37199019 ATGCAGTATGTCATG
1 ATGCAGTATGTCATG
37199034 CTCAGAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (16 bp):
ATGCAGTATGTCATGT
Found at i:37199120 original size:26 final size:27
Alignment explanation
Indices: 37199083--37199133 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
37199073 ACCATAGCAC
37199083 AAATCAGTCATTTACCTTCGAAGGGTA
1 AAATCAGTCATTTACCTTCGAAGGGTA
*
37199110 AAAT-AGTCATTTACCTTCTAAGGG
1 AAATCAGTCATTTACCTTCGAAGGG
37199134 CATTACGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (27 bp):
AAATCAGTCATTTACCTTCGAAGGGTA
Found at i:37205079 original size:54 final size:54
Alignment explanation
Indices: 37204974--37205089 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
37204964 GCAACACAGA
* * * * * *
37204974 CGTGTGACCCAAGTAAGTGAGTTACACGGGCAGAGACACGGGTGGGGACACGAC
1 CGTGTGTCTCAAGTAAGTAAGTTACACAGGCAGAGACACGGATGGCGACACGAC
* * * * * *
37205028 TGTGTGTCTCAAGTTAGTAAGTTACACAGGCAGAGACATGGATTGCTACACGGC
1 CGTGTGTCTCAAGTAAGTAAGTTACACAGGCAGAGACACGGATGGCGACACGAC
37205082 CGTGTGTC
1 CGTGTGTC
37205090 CCAACTTTGA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (54 bp):
CGTGTGTCTCAAGTAAGTAAGTTACACAGGCAGAGACACGGATGGCGACACGAC
Found at i:37217061 original size:16 final size:17
Alignment explanation
Indices: 37217034--37217066 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37217024 GAATTGTAAT
37217034 AATTATAATGTTAATTA
1 AATTATAATGTTAATTA
*
37217051 AATTA-AATGTTTATTA
1 AATTATAATGTTAATTA
37217067 TGTTGTTTTT
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:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AATTATAATGTTAATTA
Found at i:37220132 original size:19 final size:19
Alignment explanation
Indices: 37220108--37220165 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
37220098 TTAATTTAGT
37220108 AAATAAATATGTTAAAGTA
1 AAATAAATATGTTAAAGTA
*
37220127 AAAT-AA-A-G--AAA-CA
1 AAATAAATATGTTAAAGTA
37220140 AAATAAATATGTTAAAGTA
1 AAATAAATATGTTAAAGTA
37220159 AAATAAA
1 AAATAAA
37220166 GAAACAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 1 0.03
16 2 0.06
17 1 0.03
18 5 0.16
19 12 0.39
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AAATAAATATGTTAAAGTA
Found at i:37220144 original size:32 final size:32
Alignment explanation
Indices: 37220108--37220173 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
37220098 TTAATTTAGT
37220108 AAATAAATATGTTAAAGTAAAATAAAGAAACA
1 AAATAAATATGTTAAAGTAAAATAAAGAAACA
37220140 AAATAAATATGTTAAAGTAAAATAAAGAAACA
1 AAATAAATATGTTAAAGTAAAATAAAGAAACA
37220172 AA
1 AA
37220174 GGATATCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (32 bp):
AAATAAATATGTTAAAGTAAAATAAAGAAACA
Found at i:37227532 original size:50 final size:50
Alignment explanation
Indices: 37227455--37227580 Score: 225
Period size: 50 Copynumber: 2.5 Consensus size: 50
37227445 AGAATCCTCA
* *
37227455 GATACTCTATGCTTTATCTTAAGCTCCAAAGTTCCTATGGATATCACTCG
1 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
*
37227505 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGTATATCACTCG
1 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
37227555 GATACTCCATGCTTTATCTTAAACTC
1 GATACTCCATGCTTTATCTTAAACTC
37227581 GATGGAAGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (50 bp):
GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
Found at i:37236114 original size:11 final size:12
Alignment explanation
Indices: 37236090--37236119 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
37236080 ATATTTGATT
37236090 ATAATATCAATA
1 ATAATATCAATA
37236102 ATAATAT-AATA
1 ATAATATCAATA
37236113 ATAATAT
1 ATAATAT
37236120 TATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCAATA
Found at i:37236126 original size:23 final size:23
Alignment explanation
Indices: 37236090--37236139 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
37236080 ATATTTGATT
*
37236090 ATAATATCAATAA-TAATATAATA
1 ATAATATCAATAATTAAT-TAAAA
* *
37236113 ATAATATTATTAATTAATTAAAA
1 ATAATATCAATAATTAATTAAAA
37236136 ATAA
1 ATAA
37236140 AATAGCAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATCAATAATTAATTAAAA
Found at i:37237170 original size:24 final size:25
Alignment explanation
Indices: 37237143--37237193 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
37237133 CTAGGGTTTG
37237143 TGTTTAGTTTTAGGCTG-TTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
*
37237167 TGTTTAGTTTTGGGCTGTTTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
37237192 TG
1 TG
37237194 GGCCTGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.06, C:0.04, G:0.35, T:0.55
Consensus pattern (25 bp):
TGTTTAGTTTTAGGCTGTTTGGGTT
Found at i:37237736 original size:44 final size:43
Alignment explanation
Indices: 37237665--37237871 Score: 132
Period size: 44 Copynumber: 4.8 Consensus size: 43
37237655 ACTTGATGCG
* * * *
37237665 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGAT-TGTGGTTTTA
* * * *
37237709 ATCTGCTCCACTACAACTGCAGGGAGATAGGATTGAT-TTCTTTC
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTG-TGGT-TTTA
* * * * * *
37237753 GTCTACTCCACTACAACTTCAAGGAGATAAGA-T-TGGATGTG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTGTGGTTTTA
* * * * * * ***
37237794 ATATGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGAT-TGTGGTTTTA
* *
37237838 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATT
37237872 ATCAGTTTCA
Statistics
Matches: 120, Mismatches: 37, Indels: 13
0.71 0.22 0.08
Matches are distributed among these distances:
41 27 0.22
43 6 0.05
44 87 0.73
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTACAACTTCAGGGAGATAAGATTGTGGTTTTA
Found at i:37237811 original size:85 final size:85
Alignment explanation
Indices: 37237712--37237871 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
37237702 GGTTTTAATC
* * ** *
37237712 TGCTCCACTACAACTGCAGGGAGAT-AGGAT-TGATTTCTTTCGTCTACTCCACTACAACTTCAA
1 TGCTCCACTACAACTGCAGAGAGATAAGG-TCT-ATTACTTTAATCCACTCCACTACAACTTCAA
37237775 GGAGATAAGATTGGATGTGATA
64 GGAGATAAGATTGGATGTGATA
* * * * *
37237797 TGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTAATCCGCTCCACTACAACTTCAGGG
1 TGCTCCACTACAACTGCAGAGAGATAAGGTCTATTACTTTAATCCACTCCACTACAACTTCAAGG
*
37237862 AGATAGGATT
66 AGATAAGATT
37237872 ATCAGTTTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 58 0.94
86 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (85 bp):
TGCTCCACTACAACTGCAGAGAGATAAGGTCTATTACTTTAATCCACTCCACTACAACTTCAAGG
AGATAAGATTGGATGTGATA
Found at i:37237846 original size:129 final size:128
Alignment explanation
Indices: 37237581--37237871 Score: 386
Period size: 129 Copynumber: 2.3 Consensus size: 128
37237571 ATTGATTTTT
* ** * * ** * *
37237581 ATCCACTCCACTACAACTTTGGGGAGATAGGATTTATTTCTTTCGTCTGCTCCACTACTGTTTAG
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACACTTCAA
* * * **
37237646 GGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
66 GGAGATAAGACTTGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
* *
37237709 ATCTGCTCCACTACAACTGCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACAACTTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTAC-ACTTCA
* * *
37237774 AGGAGATAAGA-TTGGATGTGATATGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTA
65 AGGAGATAAGACTT-GATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
37237838 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
37237872 ATCAGTTTCA
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 53 0.38
129 87 0.62
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (128 bp):
ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACACTTCAA
GGAGATAAGACTTGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
Found at i:37238388 original size:44 final size:44
Alignment explanation
Indices: 37238316--37240220 Score: 630
Period size: 44 Copynumber: 43.7 Consensus size: 44
37238306 ATCTGACGTG
*
37238316 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * * *
37238360 ATCCACTCCACTGTAACTTCAGATAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTTA
* ** * * *
37238404 ATCTAATCTGCTGTAA-TCTCAGGGAGATAAGATCTTTGGCTTCAATCTGATGTG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC-----CTT-TAT-T--T-TA
*
37238458 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * ** *
37238502 ATCCACTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCGTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTTA
* *
37238546 ATCTACTCCACTGTAA-TCTCAGAGAGATAAGATCTTTGGCTTCAATCTGATGTG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC-----CTT-TAT-T--T-TA
* *
37238600 ATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
37238644 ATCCACTCCACTGTAACTTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * * ***
37238688 ATCTGCTCCGCTGTAA-TCTAAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
*
37238729 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * * * *
37238773 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37238817 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
** *
37238858 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
37238902 ATCCACTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37238946 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
** *
37238987 ATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * * * *
37239031 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37239075 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
* *
37239116 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
37239160 ATCTGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * ***
37239204 ATCTGCTCCGCTGTAATCTT-AG-GAAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAA-CTTCAGAG-AGATAAGATCCTTTATTTTA
*
37239245 ATCTACTCTACTGTAACTGT-AGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
** * * * *
37239289 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37239333 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
** *
37239374 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * *
37239418 ATCTGCTCCACTGTAA-TCTCAGAGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* ** * * ***
37239462 ATCTGCTCTGCTGTAA-TGTCAGGGAGATAAGAT-C-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
* *
37239503 ATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * * * *
37239547 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37239591 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
* * *
37239632 ATCTACTCTACTGTAACTTCAGAGAGATAATATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
37239676 ATCTGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37239720 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
* * *
37239761 ATCAACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
37239805 ATCTGCTCCACTGTAATCTT-AGGGAGATAGGAT--TACTATCTTAA
1 ATCTACTCCACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTA
* * * * ***
37239849 ATCTGCTCCGCTTTAA-TCTCAGAGAGATAAGAT-C-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
*
37239890 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * * * *
37239934 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTA
* * * ***
37239978 ATCTGCTCCGCTGTAA-TCTCA-AGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGA-GAGATAAGATCCTTTATTTTA
* *
37240019 ATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * * * * *
37240063 ATCCGCTCCACTGTAATTTCGGGGAGATAGGAT--TACTATCTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTAT-TTTA
* ** * * ***
37240107 ATCTGCTCTGCTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTA
* * *
37240148 ATCAACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* *
37240192 GTCCT-CTCCACTGTAA-TCTCAGGGAGATA
1 AT-CTACTCCACTGTAACT-TCAGAGAGATA
37240221 GGATTACTAT
Statistics
Matches: 1384, Mismatches: 329, Indels: 296
0.69 0.16 0.15
Matches are distributed among these distances:
40 2 0.00
41 332 0.24
42 44 0.03
43 93 0.07
44 825 0.60
45 7 0.01
46 1 0.00
47 2 0.00
48 4 0.00
49 6 0.00
51 5 0.00
53 2 0.00
54 59 0.04
55 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
Found at i:37238402 original size:98 final size:96
Alignment explanation
Indices: 37238280--37238693 Score: 249
Period size: 98 Copynumber: 4.3 Consensus size: 96
37238270 TGTTGTAATC
* *
37238280 TCAGGGAGATAAGATCTCTGGCTTCAATCTGACGTGATCTACTCTACTGTAACTTCAGAGAGATA
1 TCAGAGAGATAAGAT-TCTAGCTTCAATCTG-CGTGATCTACTCTACTGTAACTTCAGAGAGATA
37238345 AGATCCTTTATTTTAATCCACTCCACTGTAACT
64 AGATCCTTTATTTTAATCCACTCCACTGTAACT
* * * *
37238378 TCAGATAGATAGGATTACTAGCTTCAA--T-C-T-A---A-TCTGCTGTAA-TCTCAGGGAGATA
1 TCAGAGAGATAAGATT-CTAGCTTCAATCTGCGTGATCTACTCTACTGTAACT-TCAGAGAGATA
* * * *
37238433 AGATCTTTGGCTTCAATCTGATGTGATCTACTCTACTGTAACT
64 AGATC-----CTT-TAT-T--T-TAATCCACTCCACTGTAACT
* * * * * *
37238476 TCAGAGAGATAAGA-TC---CTT-TAT-T--TTAATCCACTCCACTGTAACTTCAGAGAGATAGG
1 TCAGAGAGATAAGATTCTAGCTTCAATCTGCGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
* ** * *
37238533 AT--TACTAGCGTCAATCTACTCCACTGTAA-T
66 ATCCT-TTA-TTTTAATCCACTCCACTGTAACT
* * * *
37238563 CTCAGAGAGATAAGATCTTTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCATAGAGAT
1 -TCAGAGAGATAAGAT-TCTAGCTTCAATCTG-CGTGATCTACTCTACTGTAACTTCAGAGAGAT
37238628 AAGATCCTTTATTTTAATCCACTCCACTGTAACT
63 AAGATCCTTTATTTTAATCCACTCCACTGTAACT
* * *
37238662 TCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCAGAGAGATAAGATT-CTAGCTTCAATCTGC
37238694 TCCGCTGTAA
Statistics
Matches: 236, Mismatches: 43, Indels: 75
0.67 0.12 0.21
Matches are distributed among these distances:
87 2 0.01
88 53 0.22
89 2 0.01
90 1 0.00
91 2 0.01
92 2 0.01
93 12 0.05
94 6 0.03
95 2 0.01
96 2 0.01
97 5 0.02
98 142 0.60
99 4 0.02
100 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (96 bp):
TCAGAGAGATAAGATTCTAGCTTCAATCTGCGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTTATTTTAATCCACTCCACTGTAACT
Found at i:37238822 original size:129 final size:129
Alignment explanation
Indices: 37238599--37240267 Score: 2928
Period size: 129 Copynumber: 12.9 Consensus size: 129
37238589 AATCTGATGT
* *
37238599 GATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA-CTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-T
*
37238663 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTAAGGGAGATAAGACCTGATAC
65 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
37238728 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
37238793 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* * *
37238857 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
37238922 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* *
37238986 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
37239051 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* *
37239115 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCTGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* *
37239180 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGAAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
37239244 GATCTACTCTACTGTAACTGT-AGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
1 GATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
37239308 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
65 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* * *
37239373 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCTGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * *
37239438 AGAGAGATAGGATTACTATCTTCAATCTGCTCTGCTGTAATGTCAGGGAGATAAGATCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
*
37239502 GATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
37239567 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* * *
37239631 GATCTACTCTACTGTAACTTCAGAGAGATAATATCTTTTATTTTAATCTGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
37239696 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* * * *
37239760 GATCAACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCTGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * *
37239825 AGGGAGATAGGATTACTATCTTAAATCTGCTCCGCTTTAATCTCAGAGAGATAAGATCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
37239889 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
*
37239954 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* *
37240018 GATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATTTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * *
37240083 GGGGAGATAGGATTACTATCTTTAATCTGCTCTGCTGTAATCTCAGGGAGATAAGACCTGATAC
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
* * * *
37240147 GATCAACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAGTCCTCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
*
37240212 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGA
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
37240268 TCTAAAATTC
Statistics
Matches: 1469, Mismatches: 68, Indels: 6
0.95 0.04 0.00
Matches are distributed among these distances:
128 1 0.00
129 1466 1.00
130 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (129 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
Found at i:37240891 original size:23 final size:23
Alignment explanation
Indices: 37240861--37240906 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37240851 TCCAAATAGA
37240861 AAGTCTAAATTTAGACTATTCCT
1 AAGTCTAAATTTAGACTATTCCT
37240884 AAGTCTAAATTTAGACTATTCCT
1 AAGTCTAAATTTAGACTATTCCT
37240907 TCTCAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
AAGTCTAAATTTAGACTATTCCT
Found at i:37241554 original size:6 final size:7
Alignment explanation
Indices: 37241535--37241566 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
37241525 TTAGCCTCTC
37241535 CATTTTT
1 CATTTTT
37241542 CATTTTT
1 CATTTTT
37241549 CA-TTTT
1 CATTTTT
37241555 CATTTTT
1 CATTTTT
37241562 CATTT
1 CATTT
37241567 ATTTTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:37241574 original size:13 final size:13
Alignment explanation
Indices: 37241538--37241566 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37241528 GCCTCTCCAT
37241538 TTTTCATTTTTCA
1 TTTTCATTTTTCA
37241551 TTTTCATTTTTCA
1 TTTTCATTTTTCA
37241564 TTT
1 TTT
37241567 ATTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:37242536 original size:40 final size:39
Alignment explanation
Indices: 37242491--37242611 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 39
37242481 TTCATTCTTC
*
37242491 TTTCTTTTTCTCATTTTCATTTTGATCTTGATTTTGATTT
1 TTTCTTTTTCTCATTTTCATTTT-ATTTTGATTTTGATTT
** * *
37242531 TTTCTTCTTTCTTC-TTTTTGTTTTTTTTTTATTTTGATTT
1 TTTCTT-TTTC-TCATTTTCATTTTATTTTGATTTTGATTT
** * *
37242571 TTGATTTTTTTCATTTTCATTTTCATTTTGACTTTGATTT
1 TTTCTTTTTCTCATTTTCATTTT-ATTTTGATTTTGATTT
37242611 T
1 T
37242612 GATTTTTCTT
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
38 2 0.03
39 11 0.17
40 37 0.58
41 12 0.19
42 2 0.03
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.72
Consensus pattern (39 bp):
TTTCTTTTTCTCATTTTCATTTTATTTTGATTTTGATTT
Found at i:37242543 original size:24 final size:23
Alignment explanation
Indices: 37242510--37242581 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
37242500 CTCATTTTCA
*
37242510 TTTTGATCTTGATTTTGATTTTT
1 TTTTTATCTTGATTTTGATTTTT
**
37242533 TCTTCTT-TCTTCTTTTTG-TTTTT
1 T-TT-TTATCTTGATTTTGATTTTT
*
37242556 TTTTTATTTTGATTTTTGATTTTT
1 TTTTTATCTTGA-TTTTGATTTTT
37242580 TT
1 TT
37242582 CATTTTCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 12 0.32
24 18 0.47
25 1 0.03
ACGTcount: A:0.08, C:0.07, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTATCTTGATTTTGATTTTT
Found at i:37242571 original size:12 final size:12
Alignment explanation
Indices: 37242556--37242623 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
37242546 TTTTGTTTTT
37242556 TTTTTATTTTGA
1 TTTTTATTTTGA
37242568 TTTTTGA-TTT--
1 TTTTT-ATTTTGA
* *
37242578 TTTTCATTTTCA
1 TTTTTATTTTGA
*
37242590 TTTTCATTTTGA
1 TTTTTATTTTGA
* *
37242602 CTTTGATTTTGA
1 TTTTTATTTTGA
*
37242614 TTTTTCTTTT
1 TTTTTATTTT
37242624 TCTTCCCTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
9 1 0.02
10 7 0.16
12 36 0.80
13 1 0.02
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:37242598 original size:21 final size:22
Alignment explanation
Indices: 37242553--37242599 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
37242543 TCTTTTTGTT
* * *
37242553 TTTTTTTTATTTTGATTTTTGA
1 TTTTTTTCATTTTCATTTTTCA
37242575 TTTTTTTCATTTTCA-TTTTCA
1 TTTTTTTCATTTTCATTTTTCA
37242596 TTTT
1 TTTT
37242600 GACTTTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTTTCATTTTCATTTTTCA
Found at i:37243183 original size:27 final size:23
Alignment explanation
Indices: 37243129--37243173 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
37243119 TGCTAAAACA
37243129 TGTAGGTTGTGGATAAACCACCT
1 TGTAGGTTGTGGATAAACCACCT
*
37243152 TGTAGGTTGTGGCTAAACCACC
1 TGTAGGTTGTGGATAAACCACC
37243174 AAATTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (23 bp):
TGTAGGTTGTGGATAAACCACCT
Found at i:37244119 original size:22 final size:24
Alignment explanation
Indices: 37244094--37244144 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
37244084 TTATTTATAA
37244094 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
37244114 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
37244140 ATAAA
1 ATAAA
37244145 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:37247887 original size:20 final size:22
Alignment explanation
Indices: 37247849--37247889 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
37247839 ATGTGAATAG
37247849 ATTTGAGAAAAAGATGTTACAA
1 ATTTGAGAAAAAGATGTTACAA
*
37247871 ATTTGA-AAAAGGA-GTTACA
1 ATTTGAGAAAAAGATGTTACA
37247890 TCCATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.27
Consensus pattern (22 bp):
ATTTGAGAAAAAGATGTTACAA
Found at i:37249162 original size:30 final size:30
Alignment explanation
Indices: 37249093--37249229 Score: 143
Period size: 30 Copynumber: 4.6 Consensus size: 30
37249083 CACTTGCTTG
*
37249093 ATCAATAGATAGCCACAAAGGCAT-C-CAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
* * * *
37249121 TTGACTTAGATAACCACAAAGGCATCCATAC
1 ATCA-TTAGATAGCCACAAAGGCATCCACAC
* *
37249152 ATCATTAGATAGCCATAAAGGCATACACAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
* * * *
37249182 ATTATTAAATAGCCATAAAGGCGTCCACAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
*
37249212 ATCATTAGGTAGCCACAA
1 ATCATTAGATAGCCACAA
37249230 TAGCATCTAT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
28 2 0.02
29 18 0.21
30 63 0.72
31 4 0.05
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (30 bp):
ATCATTAGATAGCCACAAAGGCATCCACAC
Found at i:37249173 original size:59 final size:60
Alignment explanation
Indices: 37249093--37249229 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
37249083 CACTTGCTTG
* * *
37249093 ATCAATAGATAGCCACAAAGGCAT-C-CAC-TTGACTTAGATAACCACAAAGGCATCCATAC
1 ATCATTAGATAGCCACAAAGGCATACACACATT-A-TTAAATAACCACAAAGGCATCCACAC
* * * *
37249152 ATCATTAGATAGCCATAAAGGCATACACACATTATTAAATAGCCATAAAGGCGTCCACAC
1 ATCATTAGATAGCCACAAAGGCATACACACATTATTAAATAACCACAAAGGCATCCACAC
*
37249212 ATCATTAGGTAGCCACAA
1 ATCATTAGATAGCCACAA
37249230 TAGCATCTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
59 22 0.33
60 38 0.58
61 4 0.06
62 2 0.03
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (60 bp):
ATCATTAGATAGCCACAAAGGCATACACACATTATTAAATAACCACAAAGGCATCCACAC
Found at i:37249274 original size:30 final size:30
Alignment explanation
Indices: 37249240--37249312 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
37249230 TAGCATCTAT
*
37249240 CCATAAAGGCATCCACACATTATTAAATAG
1 CCATAAAGGCATCCACACATCATTAAATAG
* **
37249270 CCATAAAGGCGTCCACACATCATTAGGTAG
1 CCATAAAGGCATCCACACATCATTAAATAG
* *
37249300 CCACAAAAGCATC
1 CCATAAAGGCATC
37249313 TAGATTCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (30 bp):
CCATAAAGGCATCCACACATCATTAAATAG
Found at i:37249290 original size:76 final size:76
Alignment explanation
Indices: 37249164--37249314 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
37249154 CATTAGATAG
37249164 CCATAAAGGCATACACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
1 CCATAAAGGCATACACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
*
37249229 ATAGCATCTAT
66 AAAGCATCTAT
*
37249240 CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
1 CCATAAAGGCATACACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
37249305 AAAGCATCTA
66 AAAGCATCTA
37249315 GATTCATACA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (76 bp):
CCATAAAGGCATACACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
AAAGCATCTAT
Found at i:37249427 original size:61 final size:61
Alignment explanation
Indices: 37249333--37249506 Score: 188
Period size: 61 Copynumber: 2.9 Consensus size: 61
37249323 CAATAGACTT
* * * * *
37249333 CACCACGAAGGCTCGCATGTATCAGAGAATAGCCACAAAGGCTTCCACATATAACAGGTTC
1 CACCACTAAGGCTCACATATAACAGAGAATAGCCACAAAGGCTTCCACATATAACAGATTC
** * *
37249394 TGCCACTAAGGCTCACATATAACAGA-AAGTAGCCGCAAAGGCTTCCACATATAATAGATTC
1 CACCACTAAGGCTCACATATAACAGAGAA-TAGCCACAAAGGCTTCCACATATAACAGATTC
* * * * * * *
37249455 CACCATTAAGGCTCACATATAATAAAGAACAACCAAAAAAGCTTCCACATAT
1 CACCACTAAGGCTCACATATAACAGAGAATAGCCACAAAGGCTTCCACATAT
37249507 CGAAGAATAC
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
60 2 0.02
61 88 0.96
62 2 0.02
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.20
Consensus pattern (61 bp):
CACCACTAAGGCTCACATATAACAGAGAATAGCCACAAAGGCTTCCACATATAACAGATTC
Found at i:37251358 original size:25 final size:25
Alignment explanation
Indices: 37251327--37251384 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
37251317 TGGATACTCC
*
37251327 ACAGCTCGTGAAAGCATACTGATTT
1 ACAGCTCGTGAAAGCATACTGATCT
* * *
37251352 ATAGCTCATGAGAGCATACTGATCT
1 ACAGCTCGTGAAAGCATACTGATCT
37251377 ACAGCTCG
1 ACAGCTCG
37251385 AGCGAGCATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGAAAGCATACTGATCT
Found at i:37259603 original size:39 final size:40
Alignment explanation
Indices: 37259558--37259781 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
37259548 GCTCCTCGTT
* * * * *
37259558 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
37259598 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
37259637 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
37259677 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
37259716 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
37259757 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37259782 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 64 0.41
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:37259714 original size:79 final size:78
Alignment explanation
Indices: 37259558--37259781 Score: 204
Period size: 79 Copynumber: 2.8 Consensus size: 78
37259548 GCTCCTCGTT
* * * *
37259558 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGA
37259623 TTTAATGACTCGCA
66 TTTAAT-ACTCGCA
* * * *
37259637 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
37259701 AACTTGT-AT-CTCGCA
65 -A-TT-TAATACTCGCA
* ** * * * * * *
37259716 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAATAACTCA-CACAAGGCCTTCGGGACTTAACCCG
37259780 GA
64 GA
37259782 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 87 0.73
80 24 0.20
81 4 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:37259790 original size:41 final size:41
Alignment explanation
Indices: 37259713--37259790 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37259703 CTTGTATCTC
* * *
37259713 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37259754 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37259791 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37267182 original size:39 final size:40
Alignment explanation
Indices: 37267137--37267361 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
37267127 GCTCCTCGTT
* * * * *
37267137 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
37267177 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
37267216 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
37267256 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
37267296 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
37267337 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37267362 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:37267370 original size:41 final size:41
Alignment explanation
Indices: 37267293--37267370 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37267283 CTTGTATCTC
* * *
37267293 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37267334 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37267371 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37271630 original size:54 final size:54
Alignment explanation
Indices: 37271548--37271651 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
37271538 CATGTTCACA
*
37271548 CATATGATGCCATAGTCGCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
1 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
37271602 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTG
1 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTG
37271652 CCATGCCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (54 bp):
CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
Found at i:37276860 original size:37 final size:37
Alignment explanation
Indices: 37276810--37276888 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
37276800 TTATTACGAA
* * * *
37276810 GTCTTACTCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
37276847 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37276884 GTCTT
1 GTCTT
37276889 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37277166 original size:47 final size:47
Alignment explanation
Indices: 37277006--37277371 Score: 633
Period size: 47 Copynumber: 7.7 Consensus size: 47
37276996 GCCCTTCGGG
*
37277006 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
37277056 ACTTTCACATTCATCACATCGACCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
37277105 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
37277152 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
37277199 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
37277246 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
37277293 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
37277340 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
37277372 ATACTATCAT
Statistics
Matches: 307, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 222 0.72
49 81 0.26
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:37277309 original size:25 final size:25
Alignment explanation
Indices: 37277233--37277311 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
37277223 ATTAGGCCTT
37277233 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
37277258 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
37277280 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37277305 ATCACAT
1 ATCACAT
37277312 CAGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37287342 original size:17 final size:16
Alignment explanation
Indices: 37287294--37287338 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
37287284 ATCGCAACAT
37287294 CATTTTTTTTAATTCA
1 CATTTTTTTTAATTCA
37287310 CGATTTTTTTTCAATTCA
1 C-ATTTTTTTT-AATTCA
37287328 C-TTTTTTTTAA
1 CATTTTTTTTAA
37287339 AATTTCGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.07
16 9 0.33
17 9 0.33
18 7 0.26
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.62
Consensus pattern (16 bp):
CATTTTTTTTAATTCA
Found at i:37292500 original size:29 final size:29
Alignment explanation
Indices: 37292466--37292538 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
37292456 ATGTATTAGT
* *
37292466 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
37292495 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
37292524 TTAGGACATATTTAA
1 TTAGGACATATTTAA
37292539 TAATATCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:37293646 original size:27 final size:28
Alignment explanation
Indices: 37293616--37293668 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
37293606 ATTCAGTGAG
37293616 AGTA-CAATGAGGGCCTTAGCCCAATTC
1 AGTAGCAATGAGGGCCTTAGCCCAATTC
* *
37293643 AGTAGCAGTGTGGGCCTTAGCCCAAT
1 AGTAGCAATGAGGGCCTTAGCCCAAT
37293669 ATAATAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (28 bp):
AGTAGCAATGAGGGCCTTAGCCCAATTC
Found at i:37293793 original size:26 final size:26
Alignment explanation
Indices: 37293763--37293813 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
37293753 ACACACCAAT
* *
37293763 ATCGCAGTAAAACTGCTAGTAATAGA
1 ATCGCAGCAAAACTGCCAGTAATAGA
*
37293789 ATCGCAGCAAAGCTGCCAGTAATAG
1 ATCGCAGCAAAACTGCCAGTAATAG
37293814 TAAACGTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAACTGCCAGTAATAGA
Found at i:37294322 original size:27 final size:27
Alignment explanation
Indices: 37293976--37294329 Score: 389
Period size: 27 Copynumber: 13.1 Consensus size: 27
37293966 ATAAAAATCG
*
37293976 TTTTACCCTATGGA-GGTATTTC-GATCA
1 TTTTACCCT-TCGAGGGTATTTCAG-TCA
* *
37294003 TTGTACCCTTCGGGGGTATTTC-GATCA
1 TTTTACCCTTCGAGGGTATTTCAG-TCA
* * *
37294030 TTTTACCCTTCGGGGGTATTTCGGTCG
1 TTTTACCCTTCGAGGGTATTTCAGTCA
*
37294057 TTTTACCATTC-AGGGGTATTTCAGTCA
1 TTTTACCCTTCGA-GGGTATTTCAGTCA
* * * *
37294084 TTTTAGCCTTTGGGGGTATTTTAGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
* *
37294111 TTTTAGCCTTTTG-GGGTATTTCAGTCA
1 TTTTA-CCCTTCGAGGGTATTTCAGTCA
**
37294138 TTTTACCCTTC-AGGGGTATTTTGGTCA
1 TTTTACCCTTCGA-GGGTATTTCAGTCA
* *
37294165 TTTTACCCTTTGAAGGTATTTCAGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
* *
37294192 TTTTATCCTTC-ATGGGTATTTTAGTCA
1 TTTTACCCTTCGA-GGGTATTTCAGTCA
**
37294219 TTTTACCCTTCGAGGGTATTTTGGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
*
37294246 TTTTACCCTTCTAGGGTATTTCAGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
*
37294273 TTTTACCCTTCAAGGGTATTTCAGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
37294300 TTTTACCCTTCGAGGGTATTTCAGTCA
1 TTTTACCCTTCGAGGGTATTTCAGTCA
37294327 TTT
1 TTT
37294330 GTCCATAACT
Statistics
Matches: 281, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.02
27 266 0.95
28 8 0.03
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
TTTTACCCTTCGAGGGTATTTCAGTCA
Found at i:37299747 original size:13 final size:13
Alignment explanation
Indices: 37299729--37299755 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37299719 TTTCCAGAAA
37299729 TTATGAATTTATT
1 TTATGAATTTATT
37299742 TTATGAATTTATT
1 TTATGAATTTATT
37299755 T
1 T
37299756 AATGTTGACT
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:37299960 original size:49 final size:49
Alignment explanation
Indices: 37299854--37300025 Score: 218
Period size: 50 Copynumber: 3.5 Consensus size: 49
37299844 ATTTGGGCAA
* * *
37299854 AGAGGTCCCATGTAAGGCCATGTCTAGGACATGGCGTTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATG
* *
37299904 AGAGGTCCCATGTAAGACCATGTCTGGGCATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATG
* * * *
37299953 AGAGGTCCCATGTAAGACCATGTTTGAGAAATGGCGTTGGTACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCACCGAGATG
** *
37300003 AGAGGTCCCCCGTAAGACTATGT
1 AGAGGTCCCATGTAAGACCATGT
37300026 GATACGAGTC
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 45 0.42
50 62 0.58
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATG
Found at i:37302570 original size:17 final size:18
Alignment explanation
Indices: 37302533--37302570 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37302523 GATTGAGAGT
* *
37302533 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
37302551 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
37302568 GAA
1 GAA
37302571 GTGAAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:37302582 original size:29 final size:29
Alignment explanation
Indices: 37302532--37302588 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37302522 AGATTGAGAG
* *
37302532 TGAAAAGGAATGTGAAACAGAAAAGAAAT
1 TGAAAAAGAATGTGAAAAAGAAAAGAAAT
*
37302561 TGAAAAAGAA-GTGAAGAAAGAAGAGAAA
1 TGAAAAAGAATGTGAA-AAAGAAAAGAAA
37302589 ATGAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.61, C:0.02, G:0.26, T:0.11
Consensus pattern (29 bp):
TGAAAAAGAATGTGAAAAAGAAAAGAAAT
Found at i:37308291 original size:19 final size:19
Alignment explanation
Indices: 37308267--37308313 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
37308257 GTTGAAGTTG
37308267 TTGTAAAAATCATTAAAAA
1 TTGTAAAAATCATTAAAAA
37308286 TTGTAAAAATCATTAAAAA
1 TTGTAAAAATCATTAAAAA
37308305 TTGTAAAAA
1 TTGTAAAAA
37308314 AATGGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (19 bp):
TTGTAAAAATCATTAAAAA
Found at i:37312020 original size:21 final size:21
Alignment explanation
Indices: 37311995--37312037 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
37311985 GTTGTTGAGA
*
37311995 AGGAAGTTGTTGCTGCAGAAG
1 AGGAAGTTGTTGCTGAAGAAG
*
37312016 AGGAAGTTGTTGTTGAAGAAG
1 AGGAAGTTGTTGCTGAAGAAG
37312037 A
1 A
37312038 ATAAGTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.37, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGTTGCTGAAGAAG
Found at i:37312033 original size:18 final size:18
Alignment explanation
Indices: 37311984--37312034 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
37311974 GTAGCTATAC
37311984 TGTTGTTG-AGAAGGAAGT
1 TGTTGTTGAAG-AGGAAGT
*
37312002 TGTTGCTGCAGAAGAGGAAGT
1 TGTTG-T--TGAAGAGGAAGT
37312023 TGTTGTTGAAGA
1 TGTTGTTGAAGA
37312035 AGAATAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 10 0.37
19 1 0.04
20 1 0.04
21 13 0.48
22 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.37, T:0.31
Consensus pattern (18 bp):
TGTTGTTGAAGAGGAAGT
Found at i:37312043 original size:21 final size:21
Alignment explanation
Indices: 37311992--37312044 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37311982 ACTGTTGTTG
*
37311992 AGAAGGAAGTTGTTGCTGCAGA
1 AGAA-GAAGTTGTTGCTGAAGA
* *
37312014 AGAGGAAGTTGTTGTTGAAGA
1 AGAAGAAGTTGTTGCTGAAGA
*
37312035 AGAATAAGTT
1 AGAAGAAGTT
37312045 ACTAAAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (21 bp):
AGAAGAAGTTGTTGCTGAAGA
Found at i:37317370 original size:29 final size:23
Alignment explanation
Indices: 37317276--37317364 Score: 160
Period size: 23 Copynumber: 3.9 Consensus size: 23
37317266 CTTTTTGAAC
* *
37317276 CATTTCCATTTCGAACCAAATTC
1 CATTTCCATTTCGTACCAAATTA
37317299 CATTTCCATTTCGTACCAAATTA
1 CATTTCCATTTCGTACCAAATTA
37317322 CATTTCCATTTCGTACCAAATTA
1 CATTTCCATTTCGTACCAAATTA
37317345 CATTTCCATTTCGTACCAAA
1 CATTTCCATTTCGTACCAAA
37317365 CCCAAACCAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (23 bp):
CATTTCCATTTCGTACCAAATTA
Found at i:37323727 original size:12 final size:12
Alignment explanation
Indices: 37323710--37323735 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37323700 ACAAAGATCC
37323710 AATTACACATTG
1 AATTACACATTG
37323722 AATTACACATTG
1 AATTACACATTG
37323734 AA
1 AA
37323736 ATTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AATTACACATTG
Found at i:37327738 original size:23 final size:23
Alignment explanation
Indices: 37327712--37327810 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
37327702 ATAAGTGCCA
37327712 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37327735 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37327758 CAATGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37327781 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37327804 CACTGAT
1 CACTGAT
37327811 CAATAACACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:37330536 original size:47 final size:49
Alignment explanation
Indices: 37330418--37330543 Score: 123
Period size: 49 Copynumber: 2.6 Consensus size: 49
37330408 GTTTTCACAT
* * * *
37330418 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGCCCAGA-TATAGTCTTACACGGAATCACATATCACATACCGA
* * * *
37330467 TGCCATAGCCCAGCTATGGTCTTTCACGGAATCACATATCACA-A-TGA
1 TGCCATAGCCCAGATATAGTCTTACACGGAATCACATATCACATACCGA
** *
37330514 TGCCATATTCTAGATATAGTCTTACACGGA
1 TGCCATAGCCCAGATATAGTCTTACACGGA
37330544 GATTTCATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 26 0.41
48 1 0.02
49 37 0.58
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (49 bp):
TGCCATAGCCCAGATATAGTCTTACACGGAATCACATATCACATACCGA
Found at i:37332578 original size:38 final size:37
Alignment explanation
Indices: 37332497--37332578 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 37
37332487 AATTCTACTT
* * *
37332497 TTTCATAATTTCACTTTTTCACTTTTAATCACTATTCA
1 TTTCA-AAATTCACTTTTCCACTTTTAATCAATATTCA
*
37332535 ATTCAAAATTCACTTTTCCA-TTTTCAAGTCAATATTCA
1 TTTCAAAATTCACTTTTCCACTTTT-AA-TCAATATTCA
37332573 TTTCAA
1 TTTCAA
37332579 TTCCACACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 4 0.11
37 15 0.41
38 18 0.49
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (37 bp):
TTTCAAAATTCACTTTTCCACTTTTAATCAATATTCA
Found at i:37332875 original size:23 final size:23
Alignment explanation
Indices: 37332708--37332875 Score: 255
Period size: 23 Copynumber: 7.3 Consensus size: 23
37332698 ATAAGTGCCA
* *
37332708 CACTAATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37332731 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37332754 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37332777 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37332800 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37332823 CACTGATATGTAGCTGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
37332846 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37332869 CACTGAT
1 CACTGAT
37332876 CAATAACACT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 135 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Done.