Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 376 of 438
Found at i:117572767 original size:24 final size:25
Alignment explanation
Indices: 117572727--117572800 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 25
117572717 TTAGCATATA
* *
117572727 AAAAAATGATAGT-AAAATAATAGT
1 AAAAAATAATAGTAAAAATAATAAT
117572751 -AAAAATAATAGTAAAAATAATAAT
1 AAAAAATAATAGTAAAAATAATAAT
* *
117572775 AACAGAAATAGTAATAAAAATAATAA
1 AA-A-AAATAATAGTAAAAATAATAA
117572801 CGAAAATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.26
24 10 0.24
25 1 0.02
26 1 0.02
27 19 0.45
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (25 bp):
AAAAAATAATAGTAAAAATAATAAT
Found at i:117572775 original size:15 final size:12
Alignment explanation
Indices: 117572728--117572772 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
117572718 TAGCATATAA
*
117572728 AAAAATGATAGT
1 AAAAATAATAGT
117572740 -AAAATAATAGT
1 AAAAATAATAGT
117572751 AAAAATAATAGT
1 AAAAATAATAGT
117572763 AAAAATAATA
1 AAAAATAATA
117572773 ATAACAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:117572783 original size:27 final size:24
Alignment explanation
Indices: 117572724--117572800 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
117572714 ACTTTAGCAT
*
117572724 ATAA-AAAAATGATAGT-AAAATA
1 ATAATAAAAATAATAGTAAAAATA
*
117572746 ATAGTAAAAATAATAGTAAAAATA
1 ATAATAAAAATAATAGTAAAAATA
*
117572770 ATAATAACAGA-AATAGTAATAAA-A
1 ATAATAA-AAATAATAGTAA-AAATA
117572794 ATAATAA
1 ATAATAA
117572801 CGAAAATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.06
23 11 0.23
24 28 0.60
25 5 0.11
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (24 bp):
ATAATAAAAATAATAGTAAAAATA
Found at i:117572801 original size:24 final size:25
Alignment explanation
Indices: 117572757--117572821 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 25
117572747 TAGTAAAAAT
117572757 AATAGTAA-AAATAATAATAAC-AGA
1 AATAGTAATAAATAATAATAACGA-A
117572781 AATAGTAATAAA-AATAATAACGAA
1 AATAGTAATAAATAATAATAACGAA
*
117572805 AATAGTAAT-GATAATAA
1 AATAGTAATAAATAATAA
117572822 CAATATCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 1 0.03
24 32 0.86
25 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (25 bp):
AATAGTAATAAATAATAATAACGAA
Found at i:117574537 original size:39 final size:39
Alignment explanation
Indices: 117574483--117574582 Score: 155
Period size: 39 Copynumber: 2.6 Consensus size: 39
117574473 TCGTGATCTG
* *
117574483 AAGCCCGAAGTCTAACTGCAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
* *
117574522 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGG
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
*
117574561 AAGCTCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
117574583 TCACCAGAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
Found at i:117574583 original size:18 final size:18
Alignment explanation
Indices: 117574522--117574584 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
117574512 TGCTAAACGA
*
117574522 AAGCCCGAAGGCTAACTG
1 AAGCTCGAAGGCTAACTG
* * *
117574540 AAGCACATAAGTGCTAAATGG
1 AAGCTC-GAAG-GCTAACT-G
117574561 AAGCTCGAAGGCTAACTG
1 AAGCTCGAAGGCTAACTG
117574579 AAGCTC
1 AAGCTC
117574585 ACCAGAGCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 9 0.25
21 6 0.17
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (18 bp):
AAGCTCGAAGGCTAACTG
Found at i:117574595 original size:39 final size:39
Alignment explanation
Indices: 117574483--117574595 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 39
117574473 TCGTGATCTG
* * * *
117574483 AAGCCCGAAGTCTAACTGCAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACACAAGAGCTAAACGA
* * * *
117574522 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGAGCTAAACGA
* * *
117574561 AAGCTCGAAGGCTAACTGAAGCTCACCAGAGCTAA
1 AAGCCCGAAGGCTAACTGAAGCACACAAGAGCTAA
117574596 TCTGAAACCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGAGCTAAACGA
Found at i:117576798 original size:17 final size:18
Alignment explanation
Indices: 117576776--117576809 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
117576766 GGATCTAAAT
117576776 GGAAAAAGAGAA-AAAAA
1 GGAAAAAGAGAACAAAAA
*
117576793 GGAAAAATAGAACAAAA
1 GGAAAAAGAGAACAAAA
117576810 TTGAAGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (18 bp):
GGAAAAAGAGAACAAAAA
Found at i:117582773 original size:48 final size:49
Alignment explanation
Indices: 117582721--117582821 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 49
117582711 TAAAGAATCT
117582721 CATTAAAACCCTTACAAACCAGCCATGGATTCAATTGCTCTCTTTCT-A
1 CATTAAAACCCTTACAAACCAGCCATGGATTCAATTGCTCTCTTTCTAA
117582769 CATTAAAACCCTTACAAACCAGCCATGGATTCAATTGCTCTCTTTCTAA
1 CATTAAAACCCTTACAAACCAGCCATGGATTCAATTGCTCTCTTTCTAA
117582818 CATT
1 CATT
117582822 CTTAAAAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 47 0.90
49 5 0.10
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CATTAAAACCCTTACAAACCAGCCATGGATTCAATTGCTCTCTTTCTAA
Found at i:117585330 original size:39 final size:39
Alignment explanation
Indices: 117585212--117585394 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
117585202 ACTCGTACAC
* * ** * **
117585212 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
117585252 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
117585292 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
117585331 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
117585370 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
117585395 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:117589374 original size:18 final size:18
Alignment explanation
Indices: 117589331--117589374 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
117589321 TAAAATATAA
*
117589331 ATTAAAAAATTAAAAAAT
1 ATTATAAAATTAAAAAAT
*
117589349 ATTTTAAAATTATAAAAAT
1 ATTATAAAATTA-AAAAAT
117589368 A-TATAAA
1 ATTATAAA
117589375 TTCTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTATAAAATTAAAAAAT
Found at i:117592352 original size:30 final size:30
Alignment explanation
Indices: 117592316--117592372 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
117592306 ATAATGTCTG
* *
117592316 TTTTCTAAATGAACTGGGCCTCGAGTACTA
1 TTTTCTAAACGAACTGAGCCTCGAGTACTA
117592346 TTTTCTAAACGAACTGAGCCTCGAGTA
1 TTTTCTAAACGAACTGAGCCTCGAGTA
117592373 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (30 bp):
TTTTCTAAACGAACTGAGCCTCGAGTACTA
Found at i:117592485 original size:11 final size:11
Alignment explanation
Indices: 117592450--117592485 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
117592440 TTTTGCTACC
117592450 ATTTTGTTATT
1 ATTTTGTTATT
*
117592461 ATATTGTTATT
1 ATTTTGTTATT
*
117592472 ATTTTGTTGTT
1 ATTTTGTTATT
117592483 ATT
1 ATT
117592486 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (11 bp):
ATTTTGTTATT
Found at i:117600719 original size:31 final size:29
Alignment explanation
Indices: 117600684--117600758 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
117600674 AATATCAAAA
*
117600684 TTATATATAAATTTTGATCTAATGTGCAATG
1 TTATACATAAATTTTGAT-T-ATGTGCAATG
** * * * *
117600715 TTATAGGTAAACTTTGATTTTGTGTAATT
1 TTATACATAAATTTTGATTATGTGCAATG
117600744 TTATACATAAATTTT
1 TTATACATAAATTTT
117600759 AATTTGATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 19 0.54
30 1 0.03
31 15 0.43
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATACATAAATTTTGATTATGTGCAATG
Found at i:117609376 original size:2 final size:2
Alignment explanation
Indices: 117609369--117609405 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
117609359 GGTCATCCAA
117609369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117609406 CTTTTTAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117610210 original size:16 final size:16
Alignment explanation
Indices: 117610189--117610222 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
117610179 CAATATTGAG
117610189 AAAAAAGAAATTTAGA
1 AAAAAAGAAATTTAGA
*
117610205 AAAAAAGAAATTTTGA
1 AAAAAAGAAATTTAGA
117610221 AA
1 AA
117610223 TTTCAGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAAAAGAAATTTAGA
Found at i:117611126 original size:21 final size:21
Alignment explanation
Indices: 117611102--117611141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
117611092 TAAAACAATG
*
117611102 TAATTTTGCCTTTTAACTTGA
1 TAATTTTGACTTTTAACTTGA
*
117611123 TAATTTTGATTTTTAACTT
1 TAATTTTGACTTTTAACTT
117611142 TAGAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATTTTGACTTTTAACTTGA
Found at i:117611246 original size:70 final size:70
Alignment explanation
Indices: 117611105--117611255 Score: 214
Period size: 70 Copynumber: 2.2 Consensus size: 70
117611095 AACAATGTAA
* *
117611105 TTTTGCCTTTTAACTTGATAATTTTGATTTTTAACTTTAGAAAAAGTAAACATTTATCTAAACGA
1 TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCTAAACAA
*
117611170 CGTAG
66 CATAG
* * * *
117611175 TTTTGCCTTTTAACTTGATAGTTTTGACTTTTAATTTTAGAAAAGGTAAACATTTATC-AAGATA
1 TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCTAA-ACA
117611239 ACATAG
65 ACATAG
*
117611245 TTTTGTCTTTT
1 TTTTGCCTTTT
117611256 TTTATTTGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
69 2 0.03
70 70 0.97
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (70 bp):
TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCTAAACAA
CATAG
Found at i:117611600 original size:18 final size:19
Alignment explanation
Indices: 117611577--117611612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117611567 TTTTTAAAAA
117611577 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
117611595 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
117611613 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:117611612 original size:19 final size:18
Alignment explanation
Indices: 117611577--117611625 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
117611567 TTTTTAAAAA
*
117611577 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
117611594 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
117611613 TAAAAATTATTTT
1 TATAAA-TATTTT
117611626 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:117613037 original size:18 final size:19
Alignment explanation
Indices: 117613015--117613084 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 19
117613005 AAACATAGTG
117613015 GATATTTGAAATATTATAT
1 GATATTTGAAATATTATAT
* * *
117613034 -ATATAT-AAACAATA-AT
1 GATATTTGAAATATTATAT
*
117613050 GATATTTGAAATAATTATTT
1 GATATTTGAAAT-ATTATAT
117613070 GAT-TTT-ATAATATTA
1 GATATTTGA-AATATTA
117613085 AAAATTACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 13 0.33
19 9 0.23
20 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (19 bp):
GATATTTGAAATATTATAT
Found at i:117613227 original size:19 final size:19
Alignment explanation
Indices: 117613213--117613258 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
117613203 CATATATATA
*
117613213 TATATATTTATTATATAAT
1 TATATAATTATTATATAAT
* *
117613232 TATATAATTATTAATTTATT
1 TATATAATTATT-ATATAAT
117613252 TATATAA
1 TATATAA
117613259 ATAAAGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATAATTATTATATAAT
Found at i:117613328 original size:19 final size:18
Alignment explanation
Indices: 117613306--117613363 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
117613296 AATATATAAC
117613306 ATATAATATATATTTTATT
1 ATATAAT-TATATTTTATT
*
117613325 ATATAATTACATATTTATT
1 ATATAATTATAT-TTTATT
* *
117613344 ATTTTATT-TATATTTATT
1 ATATAATTATAT-TTTATT
117613362 AT
1 AT
117613364 TTGTCTGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATAATTATATTTTATT
Found at i:117613731 original size:48 final size:46
Alignment explanation
Indices: 117613647--117613743 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 46
117613637 TCTACAAAAA
117613647 AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAAGAAAACTTG
1 AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAA-AAAA-TTG
* * ** *
117613695 AAAAAAATATTTATTAATTAAAAA-TGTTATTTAAAATAAAAAATTG
1 AAAAAAAGAGTTATTAATTAAAAACT-AAATTAAAAATAAAAAATTG
117613741 AAA
1 AAA
117613744 CAATATGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
46 6 0.14
47 5 0.12
48 32 0.74
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (46 bp):
AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAAAAAATTG
Found at i:117614486 original size:47 final size:47
Alignment explanation
Indices: 117614432--117614526 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
117614422 GAGGGCCTTC
117614432 AAGCTTGAACAAGTAGCTTGACCCTTGAAAAAGTCTAGAATAATTAT
1 AAGCTTGAACAAGTAGCTTGACCCTTGAAAAAGTCTAGAATAATTAT
117614479 AAGCTTGAACAAGTAGCTTGACCCTTGAAAAAGTCTAGAATAATTAT
1 AAGCTTGAACAAGTAGCTTGACCCTTGAAAAAGTCTAGAATAATTAT
117614526 A
1 A
117614527 CGCACAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (47 bp):
AAGCTTGAACAAGTAGCTTGACCCTTGAAAAAGTCTAGAATAATTAT
Found at i:117618676 original size:50 final size:48
Alignment explanation
Indices: 117618571--117618677 Score: 110
Period size: 50 Copynumber: 2.1 Consensus size: 48
117618561 TTATTTTCAA
* **
117618571 ATATAATGTTTTAAATAAATATAAATATTTATTTAATTTGTTTTGTTT
1 ATATATTGTTTTAAATAAATATAAATATTTATTTAATTTGTTCAGTTT
*
117618619 AGATATATTGTTTTACATAAATATAAATATTT-TTATATTATTTGTTCAGATTT
1 --ATATATTGTTTTAAATAAATATAAATATTTATT-TA--ATTTGTTCAG-TTT
117618672 -TATATT
1 ATATATT
117618678 TAATATAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
49 2 0.04
50 36 0.73
52 8 0.16
53 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (48 bp):
ATATATTGTTTTAAATAAATATAAATATTTATTTAATTTGTTCAGTTT
Found at i:117621636 original size:46 final size:46
Alignment explanation
Indices: 117621581--117621752 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
117621571 TCTCGTAGCT
* *
117621581 GATGCATGTCCCAGACATGTCTTATACTAGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTTATGTCTCGAGGCC
* * * *
117621627 AATGCATGTCCCAAACATGTCTTACACTAGCACT-TGTCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGC-TTATGTCTCGAGGCC
* ** *
117621673 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AAT-GTGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTAGCT-T-ATGTCTCGAGGCC
* *
117621721 GATGCATGTCCCAGATATGTCTTACACTAGCT
1 GATGCATGTCCCAAACATGTCTTACACTAGCT
117621753 CACAATAACC
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 54 0.52
47 27 0.26
48 20 0.19
49 1 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTTATGTCTCGAGGCC
Found at i:117623756 original size:12 final size:13
Alignment explanation
Indices: 117623739--117623776 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
117623729 ATCCTGGAAT
117623739 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
117623751 ATTAAGAACACATA
1 ATTAAGAACA-AGA
117623765 ATTAAGAACAAG
1 ATTAAGAACAAG
117623777 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:117639352 original size:30 final size:30
Alignment explanation
Indices: 117639316--117639375 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
117639306 AATTTTCTAA
117639316 TGATCCAAACTTAAAACAAACCCTTTCATT
1 TGATCCAAACTTAAAACAAACCCTTTCATT
117639346 TGATCCAAACTTAAAACAAACCCTTTCATT
1 TGATCCAAACTTAAAACAAACCCTTTCATT
117639376 CCTCCGGCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (30 bp):
TGATCCAAACTTAAAACAAACCCTTTCATT
Found at i:117650051 original size:459 final size:458
Alignment explanation
Indices: 117649189--117650109 Score: 1574
Period size: 459 Copynumber: 2.0 Consensus size: 458
117649179 ATATGTATAA
117649189 ATTACGGTTTATCAACTGCCTTGCTTTAACTCTAAAAATTCCTTCCTCTTTTGGTCTATAAATCT
1 ATTACGGTTTATCAACTGCCTTGCTTTAACTCTAAAAATTCCTTCCTCTTTTGGTCTATAAATCT
*
117649254 CTGGCTAATATACTTTTTCGGAATTCTTCCTAGAAGAATTCCCAAGTGATCCTCTCTCTCGGTAT
66 CTGGCTAATATACTTTTTCGGAATTCTTCCTAAAAGAATTCCCAAGTGATCCTCTCTCTCGGTAT
117649319 AACAGACACGAGAGTATTCCACCACTGATAAGCTGAATCCCATAGGAGTGACACTGCACACTTCA
131 AACAGACACGAGAGTATTCCACCACTGATAAGCTGAATCCCATAGGAGTGACACTGCACACTTCA
* * *
117649384 TGCACTCTTCAGACGTACACTACAATTCATGAAACACCTTGACGGTATTCTTTAACCAAAACTCT
196 CGCACTCTTCAGACGTACACTACAATTCATCAAACACCTTAACGGTATTCTTTAACCAAAACTCT
* * *
117649449 ACTTTCTCTGGGTCGTCATCTAAGTTAGCCCAAAACTTCTTAGCCCTTTACTTCCTAATCTTGTT
261 ACTTTCTCTGGGTCATCATCTAAGTTAGCCCAAAACTTCTCAGCCCTTTACTTCCTAATCTTGTC
* *
117649514 TACCGAAGGCTTCTCCCTACTAATTAAGTCTGCGCCTTACAGAGCTACTGGGGCATACTGAGGAA
326 TACCGAAGGCTTCTCCCTACTAATTAAGTCCGCGCCTTACAGAGCTACTGAGGCATACTGAGGAA
*
117649579 TCAGAAGAGGTGGGGGAGGTGGAGTGTTCGGATTCGCACGAACGAACTTCGTGTACGAAGCATCC
391 TCAGAAGAGGTGGGGGAGGTGGAGTGTTCGGATTCGCACGAACGAACTCCGTGTACGAAGCATCC
*
117649644 ATT
456 ATC
* * *
117649647 ATTAGGGTTTATCAACTGCCTTGCTTTAACTCTAAAAGTTCCTTCCTCTTTTGGTTTATAAATCT
1 ATTACGGTTTATCAACTGCCTTGCTTTAACTCTAAAAATTCCTTCCTCTTTTGGTCTATAAATCT
117649712 CTGGCTAATATACTTTTTCAGGAATTCTTCCTAAAAGAATTCCCAAGTGATCCTCTCTCTCGGTA
66 CTGGCTAATATACTTTTTC-GGAATTCTTCCTAAAAGAATTCCCAAGTGATCCTCTCTCTCGGTA
* * * *
117649777 TAACAGACATGTGAGTATTCCACCACTGATATGTTGAATCCCATAGGAGTGACACTGCACACTTC
130 TAACAGACACGAGAGTATTCCACCACTGATAAGCTGAATCCCATAGGAGTGACACTGCACACTTC
* *
117649842 ACGCACTCTTCAGGCGTGCACTACAATTCATCAAACACCTTAACGGTATTCTTTAACCAAAACTC
195 ACGCACTCTTCAGACGTACACTACAATTCATCAAACACCTTAACGGTATTCTTTAACCAAAACTC
* * *
117649907 TACTTTCTCTGGGTCATCATCTAAGTTAGCCCGAAACTTCTCGGCCCTTTGCTTCCTAATCTTGT
260 TACTTTCTCTGGGTCATCATCTAAGTTAGCCCAAAACTTCTCAGCCCTTTACTTCCTAATCTTGT
* *
117649972 CTACCGAAGGCTTCTCCCTACTAATTAAGTCCGTC-CCTTGCGGAGCTACTGAGGCATACTGAGG
325 CTACCGAAGGCTTCTCCCTACTAATTAAGTCCG-CGCCTTACAGAGCTACTGAGGCATACTGAGG
* *
117650036 AATCGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCGCACGAACGAACTCCGTGTACGAAGCAT
389 AATCAGAAGAGGTGGGGGAGGTGGAGTGTTCGGATTCGCACGAACGAACTCCGTGTACGAAGCAT
117650101 CCATC
454 CCATC
117650106 ATTA
1 ATTA
117650110 AGAGATAGGC
Statistics
Matches: 434, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
458 81 0.19
459 352 0.81
460 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (458 bp):
ATTACGGTTTATCAACTGCCTTGCTTTAACTCTAAAAATTCCTTCCTCTTTTGGTCTATAAATCT
CTGGCTAATATACTTTTTCGGAATTCTTCCTAAAAGAATTCCCAAGTGATCCTCTCTCTCGGTAT
AACAGACACGAGAGTATTCCACCACTGATAAGCTGAATCCCATAGGAGTGACACTGCACACTTCA
CGCACTCTTCAGACGTACACTACAATTCATCAAACACCTTAACGGTATTCTTTAACCAAAACTCT
ACTTTCTCTGGGTCATCATCTAAGTTAGCCCAAAACTTCTCAGCCCTTTACTTCCTAATCTTGTC
TACCGAAGGCTTCTCCCTACTAATTAAGTCCGCGCCTTACAGAGCTACTGAGGCATACTGAGGAA
TCAGAAGAGGTGGGGGAGGTGGAGTGTTCGGATTCGCACGAACGAACTCCGTGTACGAAGCATCC
ATC
Found at i:117651901 original size:46 final size:46
Alignment explanation
Indices: 117651771--117651938 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
117651761 TATATCTGCT
*
117651771 GATGCCATGTCCCAGACATGGTCTTACACTA--AC-AGATCTCGTAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCACTCG-TCTCG-AGCC
* *
117651817 GATGCATGTCCCAGACAT-GTCTTATACTAGC-TTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCACT-CGTCTCGA-GCC
* * *
117651863 TATGCATGTCCTAGACAT-GTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGA-GCC
* *
117651909 GATGCCATGTCCCAAAAATGGTCTTACACT
1 GATG-CATGTCCCAGACATGGTCTTACACT
117651939 GGCTCTAATA
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 53 0.52
47 13 0.13
48 10 0.10
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGCC
Found at i:117653224 original size:81 final size:81
Alignment explanation
Indices: 117653100--117653261 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
117653090 CATACAAATG
117653100 TAAGAGTGGGTAGATCTAGGGTCAATCAAAGCAACAATAATTATATCATAGATAGAAAAGGTACC
1 TAAGAGTGGGTAGATCTAGGGTCAATCAAAGCAACAATAATTATATCATAGATAGAAAAGGTACC
117653165 TGTGATCATATCAGGA
66 TGTGATCATATCAGGA
117653181 TAAGAGTGGGTAGATCTAGGGTCAATCAAAGCAACAATAATTATATCATAGATAGAAAAGGTACC
1 TAAGAGTGGGTAGATCTAGGGTCAATCAAAGCAACAATAATTATATCATAGATAGAAAAGGTACC
117653246 TGTGATCATATCAGGA
66 TGTGATCATATCAGGA
117653262 GACTCTGCCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (81 bp):
TAAGAGTGGGTAGATCTAGGGTCAATCAAAGCAACAATAATTATATCATAGATAGAAAAGGTACC
TGTGATCATATCAGGA
Found at i:117655951 original size:49 final size:49
Alignment explanation
Indices: 117655895--117656007 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 49
117655885 TGTCCTTGAC
* *
117655895 ATGGTCTTACACTGGCTAT-CATCATC-GAGGCTGATGCCATGACCCAGAT
1 ATGGTCTTACACTAGCTATCCAT-ATCTG-GGCTGATGCCATGACCCAGAA
* * * * *
117655944 ATGGTCTTATACTAGCTCTCGCATATCTGTGTTGATGCCATGTCCCAGAA
1 ATGGTCTTACACTAGCTATC-CATATCTGGGCTGATGCCATGACCCAGAA
117655994 ATGGTCTTACACTA
1 ATGGTCTTACACTA
117656008 ACACATCGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 16 0.30
50 33 0.62
51 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
ATGGTCTTACACTAGCTATCCATATCTGGGCTGATGCCATGACCCAGAA
Found at i:117656537 original size:21 final size:22
Alignment explanation
Indices: 117656513--117656567 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
117656503 AGGCAATCAT
117656513 AAATTCA-TATTTTATTTTGTA
1 AAATTCACTATTTTATTTTGTA
* *
117656534 AAA-TGACTATTTTGTTTTGTA
1 AAATTCACTATTTTATTTTGTA
*
117656555 AAA-TGACTATTTT
1 AAATTCACTATTTT
117656568 GCCCCTAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (22 bp):
AAATTCACTATTTTATTTTGTA
Found at i:117656568 original size:21 final size:21
Alignment explanation
Indices: 117656520--117656568 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
117656510 CATAAATTCA
*
117656520 TATTTTATTTTGTAAAATGAC
1 TATTTTGTTTTGTAAAATGAC
117656541 TATTTTGTTTTGTAAAATGAC
1 TATTTTGTTTTGTAAAATGAC
117656562 TATTTTG
1 TATTTTG
117656569 CCCCTAGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (21 bp):
TATTTTGTTTTGTAAAATGAC
Found at i:117669905 original size:22 final size:21
Alignment explanation
Indices: 117669880--117669928 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
117669870 TTTATACTTA
117669880 AATTATTAACATAATTAATTTT
1 AATTATT-ACATAATTAATTTT
**
117669902 AATTAATTTTATAATTAATTTT
1 AATT-ATTACATAATTAATTTT
*
117669924 TATTA
1 AATTA
117669929 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTATTACATAATTAATTTT
Found at i:117669906 original size:10 final size:10
Alignment explanation
Indices: 117669891--117669942 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
117669881 ATTATTAACA
117669891 TAATTAATTT
1 TAATTAATTT
117669901 TAATTAATTTT
1 TAATTAA-TTT
117669912 ATAATTAATTT
1 -TAATTAATTT
*
117669923 TTATTAATTT
1 TAATTAATTT
*
117669933 TGATT-ATTT
1 TAATTAATTT
117669942 T
1 T
117669943 TGATAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TAATTAATTT
Found at i:117669929 original size:22 final size:22
Alignment explanation
Indices: 117669890--117669933 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
117669880 AATTATTAAC
117669890 ATAATTAATTTTAATTAATTTT
1 ATAATTAATTTTAATTAATTTT
*
117669912 ATAATTAATTTTTATTAATTTT
1 ATAATTAATTTTAATTAATTTT
117669934 GATTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATAATTAATTTTAATTAATTTT
Found at i:117670561 original size:21 final size:21
Alignment explanation
Indices: 117670517--117670561 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
117670507 CTCAATTTTC
*
117670517 TTTCTTTATTTCTCGTCCATT
1 TTTCTTTATTTCTCGTCCAAT
*
117670538 TTTCTTTA-TTCTCTTGCCAAT
1 TTTCTTTATTTCTCGT-CCAAT
117670559 TTT
1 TTT
117670562 ACCTCTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTCTTTATTTCTCGTCCAAT
Found at i:117686742 original size:63 final size:63
Alignment explanation
Indices: 117686671--117686800 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
117686661 GTTTTAGGAC
117686671 CACAAATCCAAGCCAAAAAATAAAATTTATTTTATTTTATGGTTGGTATCATGATAGGAAGGT
1 CACAAATCCAAGCCAAAAAATAAAATTTATTTTATTTTATGGTTGGTATCATGATAGGAAGGT
117686734 CACAAATCCAAGCCAAAAAATAAAATTTATTTTATTTTATGGTTGGTATCATGATAGGAAGGT
1 CACAAATCCAAGCCAAAAAATAAAATTTATTTTATTTTATGGTTGGTATCATGATAGGAAGGT
117686797 CACA
1 CACA
117686801 TGAAAATTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (63 bp):
CACAAATCCAAGCCAAAAAATAAAATTTATTTTATTTTATGGTTGGTATCATGATAGGAAGGT
Found at i:117694488 original size:10 final size:10
Alignment explanation
Indices: 117694470--117694521 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
117694460 ATTATTAACA
*
117694470 TAATGAATTT
1 TAATTAATTT
117694480 TAATTAATTTT
1 TAATTAA-TTT
117694491 ATAATTAATTT
1 -TAATTAATTT
*
117694502 TGATTAATTT
1 TAATTAATTT
*
117694512 TGATT-ATTT
1 TAATTAATTT
117694521 T
1 T
117694522 CGACAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:117694494 original size:22 final size:22
Alignment explanation
Indices: 117694469--117694512 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
117694459 AATTATTAAC
117694469 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
117694491 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
117694513 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:117698712 original size:12 final size:12
Alignment explanation
Indices: 117698695--117698720 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117698685 GGTTTGGCAT
117698695 GGCCTAGCACAC
1 GGCCTAGCACAC
117698707 GGCCTAGCACAC
1 GGCCTAGCACAC
117698719 GG
1 GG
117698721 GCGTATGTGT
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:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:117701382 original size:42 final size:43
Alignment explanation
Indices: 117701292--117701409 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 43
117701282 TACCGTATCA
* * * *
117701292 ATGCCATATCCCGGATATGGTCTTACATGAAAT-ATCATATCG
1 ATGCCATATCCCTGATATGGTCTTATATGAAATCATCACACCG
* * *
117701334 ACGCCATGTCCCTGACATGGTCTTATATGAAATCA-CACACCG
1 ATGCCATATCCCTGATATGGTCTTATATGAAATCATCACACCG
* *
117701376 ATGCCATAT-CCTAGATATTGTCTTATACGAAATC
1 ATGCCATATCCCT-GATATGGTCTTATATGAAATC
117701410 TCAGTAGCTC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 3 0.05
42 58 0.94
43 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCATATCCCTGATATGGTCTTATATGAAATCATCACACCG
Found at i:117708331 original size:54 final size:54
Alignment explanation
Indices: 117708267--117708376 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
117708257 GATTGATAGC
117708267 AGGAATGAAGAGTATAAACTCCTCGAACCACCATGATCATTCAACAGAGAGGTA
1 AGGAATGAAGAGTATAAACTCCTCGAACCACCATGATCATTCAACAGAGAGGTA
117708321 AGGAATGAAGAGTATAAACTCCTCGAACCACCATGATCATTCAACAGAGAGGTA
1 AGGAATGAAGAGTATAAACTCCTCGAACCACCATGATCATTCAACAGAGAGGTA
117708375 AG
1 AG
117708377 TCAAGCTTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (54 bp):
AGGAATGAAGAGTATAAACTCCTCGAACCACCATGATCATTCAACAGAGAGGTA
Found at i:117726227 original size:40 final size:39
Alignment explanation
Indices: 117726154--117726361 Score: 164
Period size: 40 Copynumber: 5.2 Consensus size: 39
117726144 CAATTGAATG
* * * *
117726154 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTAATT
* * * **
117726194 ATATCCGGGTTAAGACCCGAAGGCCATTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTGTGCAAGTAATT
* * **
117726234 ACATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAATT
* * * **
117726274 AAATTCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTAATT
* * * **
117726314 CTATCCGGGCTAAGACCCAAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAATT
117726354 ATATCCGG
1 ATATCCGG
117726362 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 6 0.04
40 126 0.93
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAATT
Found at i:117726304 original size:80 final size:80
Alignment explanation
Indices: 117726199--117726346 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
117726189 TAATTATATC
* * * *
117726199 CGGGTTAAGACCCGAAGGCCATTGTGCTAGT-GACCACATCTGGGCTAAGACCCGAAGGCATTCG
1 CGGGCTAAGACCCGAAGGCCATTGTGCAAGTCGACC-CATCCGGGCTAAGACCCAAAGGCATTCG
117726263 TGCAAGTTGTTAAATT
65 TGCAAGTTGTTAAATT
* ** *
117726279 CGGGCTAATACCCGAAGG-CATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCAAAGGCATTCG
1 CGGGCTAAGACCCGAAGGCCA-TTGTGCAAGTCGACCCATCCGGGCTAAGACCCAAAGGCATTCG
117726343 TGCA
65 TGCA
117726347 TGTGGTTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.03
80 54 0.93
81 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCCATTGTGCAAGTCGACCCATCCGGGCTAAGACCCAAAGGCATTCGT
GCAAGTTGTTAAATT
Found at i:117728352 original size:40 final size:40
Alignment explanation
Indices: 117728293--117728479 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
117728283 CATTGGAATG
* * * *
117728293 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
117728333 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
117728373 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
117728413 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
117728453 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
117728480 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:117728395 original size:80 final size:80
Alignment explanation
Indices: 117728293--117728446 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
117728283 CATTGGAATG
* * ** *
117728293 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
117728358 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
117728373 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
117728438 ATCGTGCGA
66 ATCGTGCGA
117728447 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:117728461 original size:80 final size:80
Alignment explanation
Indices: 117728297--117728479 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
117728287 GGAATGATAT
* ** * *
117728297 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
117728362 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
117728377 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
117728442 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
117728457 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
117728480 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:117728499 original size:80 final size:80
Alignment explanation
Indices: 117728297--117728514 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
117728287 GGAATGATAT
* * * * * * * *
117728297 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
117728361 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
117728377 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
117728442 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
117728457 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
117728515 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:117736302 original size:40 final size:40
Alignment explanation
Indices: 117736243--117736429 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
117736233 CATTGGAATG
* * * *
117736243 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
117736283 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
117736323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
117736363 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
117736403 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
117736430 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:117736345 original size:80 final size:80
Alignment explanation
Indices: 117736243--117736396 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
117736233 CATTGGAATG
* * ** *
117736243 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
117736308 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
117736323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
117736388 ATCGTGCGA
66 ATCGTGCGA
117736397 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:117736411 original size:80 final size:80
Alignment explanation
Indices: 117736247--117736429 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
117736237 GGAATGATAT
* ** * *
117736247 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
117736312 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
117736327 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
117736392 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
117736407 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
117736430 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:117736449 original size:80 final size:80
Alignment explanation
Indices: 117736247--117736464 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
117736237 GGAATGATAT
* * * * * * * *
117736247 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
117736311 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
117736327 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
117736392 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
117736407 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
117736465 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:117739996 original size:39 final size:38
Alignment explanation
Indices: 117739944--117740020 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 38
117739934 CCTGGAAAAG
117739944 AAATAAAAGAAAAACAAAATTAAAAGTTTTGATCTGGAA
1 AAATAAAAGAAAAACAAAATTAAAAGTTTTGAT-TGGAA
* * *
117739983 AAATAAAATAAAAATAGAATTAAAAGTTTTGATTGGAA
1 AAATAAAAGAAAAACAAAATTAAAAGTTTTGATTGGAA
117740021 TTTCAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 5 0.14
39 30 0.86
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (38 bp):
AAATAAAAGAAAAACAAAATTAAAAGTTTTGATTGGAA
Found at i:117740774 original size:10 final size:10
Alignment explanation
Indices: 117740747--117740806 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
117740737 TTAAATTCTA
117740747 AAAGATAAAT
1 AAAGATAAAT
117740757 ACAA-ATAAAT
1 A-AAGATAAAT
*
117740767 AAAGATAATT
1 AAAGATAAAT
*
117740777 AAAGATAATT
1 AAAGATAAAT
117740787 AAAGATAAAT
1 AAAGATAAAT
117740797 GAAA-ATAAAT
1 -AAAGATAAAT
117740807 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:117744198 original size:75 final size:75
Alignment explanation
Indices: 117744068--117744297 Score: 361
Period size: 75 Copynumber: 3.1 Consensus size: 75
117744058 AGGGGGTGTC
* * * *
117744068 TGGCTACAGGTTTTGTGGAGTCTAAGGCAGGAACACACTATTCCAGGCTATAATAGGGATGGAAT
1 TGGCTACAGGTTTTGGGGAGTCTAAGGTAGGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
117744133 AAAGGCTATT
66 AAAGGCTATT
* * * *
117744143 TGGCTACAGGTTTTGGGGAGTTTAGGGTAAGAACGCACTATTCCATGCTAGAATAGGGATGGAAT
1 TGGCTACAGGTTTTGGGGAGTCTAAGGTAGGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
*
117744208 AAAGGCTGTT
66 AAAGGCTATT
* *
117744218 TGGTTGCAGGTTTTGGGGAGTCTAAGGTAGGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
1 TGGCTACAGGTTTTGGGGAGTCTAAGGTAGGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
117744283 AAAGGCTATT
66 AAAGGCTATT
117744293 TGGCT
1 TGGCT
117744298 GCAATTTTCT
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 138 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.27
Consensus pattern (75 bp):
TGGCTACAGGTTTTGGGGAGTCTAAGGTAGGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
AAAGGCTATT
Found at i:117744402 original size:13 final size:13
Alignment explanation
Indices: 117744384--117744408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117744374 TCAACATCCA
117744384 AAAATAAAATAAT
1 AAAATAAAATAAT
117744397 AAAATAAAATAA
1 AAAATAAAATAA
117744409 AAATTGGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:117751651 original size:47 final size:45
Alignment explanation
Indices: 117751591--117751749 Score: 133
Period size: 47 Copynumber: 3.4 Consensus size: 45
117751581 ATAGCCCTTA
*
117751591 TAAGACCACGTCTGAGACATGCCATCGGCATAGAGGTGAGTGCCAGTG
1 TAAGA-CATGTCTGAGACATG-CATCGGCATAGAGGTG-GTGCCAGTG
** * * *
117751639 TAAGACATGTCTGAGACATGCATCAACCTCGAGGATGTTAGCCAGTG
1 TAAGACATGTCTGAGACATGCATCGGCATAGAGG-TGGT-GCCAGTG
* * * * * *
117751686 TAAGACGTGTCTGGGACATGCATCGG-TTA-AGTTTCGTGCTAGTG
1 TAAGACATGTCTGAGACATGCATCGGCATAGAG-GTGGTGCCAGTG
*
117751730 TAAGACATGTCTGGGACATG
1 TAAGACATGTCTGAGACATG
117751750 TATCAGTATG
Statistics
Matches: 91, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
44 25 0.27
45 4 0.04
46 12 0.13
47 45 0.49
48 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
TAAGACATGTCTGAGACATGCATCGGCATAGAGGTGGTGCCAGTG
Found at i:117751663 original size:94 final size:93
Alignment explanation
Indices: 117751496--117751666 Score: 225
Period size: 94 Copynumber: 1.8 Consensus size: 93
117751486 TGAGAGCCAG
* * * * * * * * *
117751496 TATAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACAGGGCTAGTGTAATACATGTTTGGGA
1 TATAAGACCACGTCTGAGACATGCCATCGGCATAGAGACAGGGCCAGTGTAAGACATGTCTGAGA
117751561 CATGCATCAACCGCATCATGATAGCCCT
66 CATGCATCAACCGCATCATGATAGCCCT
** *
117751589 TATAAGACCACGTCTGAGACATGCCATCGGCATAGAGGTGAGTGCCAGTGTAAGACATGTCTGAG
1 TATAAGACCACGTCTGAGACATGCCATCGGCATAGA-GACAGGGCCAGTGTAAGACATGTCTGAG
117751654 ACATGCATCAACC
65 ACATGCATCAACC
117751667 TCGAGGATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
93 31 0.48
94 34 0.52
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (93 bp):
TATAAGACCACGTCTGAGACATGCCATCGGCATAGAGACAGGGCCAGTGTAAGACATGTCTGAGA
CATGCATCAACCGCATCATGATAGCCCT
Found at i:117753587 original size:2 final size:2
Alignment explanation
Indices: 117753580--117753612 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
117753570 GTGATATGGT
*
117753580 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117753613 TATTATCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117753869 original size:40 final size:38
Alignment explanation
Indices: 117753753--117753869 Score: 121
Period size: 39 Copynumber: 3.0 Consensus size: 38
117753743 AAAATTTATG
* *
117753753 TGGTATTATAT-CGGGTTAAATCCCGCAGGCTTAATGC
1 TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
* * * *
117753790 TGGTATTATATCCGGACTTATAGT-CCGCAGGCCTAGTGC
1 TGGTATGATATCCGG-GTTA-AATCCCGCAGGCTTAGTGC
*
117753829 TGGTAATAGATATCCGGGTTAAATCCCGCAGGCTTTGTGC
1 TGGT-AT-GATATCCGGGTTAAATCCCGCAGGCTTAGTGC
117753869 T
1 T
117753870 AGAAATTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
37 11 0.17
38 3 0.05
39 22 0.34
40 21 0.32
41 8 0.12
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
Found at i:117758435 original size:46 final size:46
Alignment explanation
Indices: 117758368--117758545 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
117758358 TATAACCCGC
* *
117758368 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* * * *
117758414 CCATAAGTGAACCCGGACTCAACTCAACGAGCTTGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * ** *
117758460 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
117758507 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
117758546 CCCAAATATC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:117758488 original size:93 final size:93
Alignment explanation
Indices: 117758376--117758547 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
117758366 GCCCATAAGT
*** *
117758376 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACCCGGACTCAACTCAA
117758441 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* * *
117758469 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACCCGGACTCAACTCAA
117758534 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
117758548 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACCCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:117764821 original size:38 final size:38
Alignment explanation
Indices: 117764778--117764888 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 38
117764768 AAAATTTATG
117764778 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
1 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
* * * *
117764816 TGGTATTATATCCGGACTTATAGT-CCGCA-GCCTAGTGC
1 TGGTATTATATCCGG-GTTA-AATCCCGCAGGCTTAATGC
* *
117764854 TAGTAATAGATATCCGGGTTAAATCCCGCAGGCTT
1 TGGT-AT-TATATCCGGGTTAAATCCCGCAGGCTT
117764889 TGTGCTAGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
38 27 0.47
39 18 0.31
40 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (38 bp):
TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
Found at i:117766787 original size:2 final size:2
Alignment explanation
Indices: 117766780--117766814 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
117766770 AAGTTGTTAT
*
117766780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117766815 GCAACTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:117773657 original size:22 final size:22
Alignment explanation
Indices: 117773629--117773672 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
117773619 ATATAGCATA
117773629 AATTTCTAGAATTGGAACTAAG
1 AATTTCTAGAATTGGAACTAAG
117773651 AATTTCTAGAATTGGAACTAAG
1 AATTTCTAGAATTGGAACTAAG
117773673 TATATGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
AATTTCTAGAATTGGAACTAAG
Found at i:117775808 original size:10 final size:10
Alignment explanation
Indices: 117775787--117775838 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
117775777 AATTAAATTC
117775787 TAAAAGATAAA
1 TAAAA-ATAAA
117775798 TAAAAATAAA
1 TAAAAATAAA
* *
117775808 TAAAGATAAT
1 TAAAAATAAA
*
117775818 TAAAGATAAA
1 TAAAAATAAA
*
117775828 TGAAAATAAA
1 TAAAAATAAA
117775838 T
1 T
117775839 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 31 0.86
11 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:117775812 original size:20 final size:21
Alignment explanation
Indices: 117775789--117775838 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
117775779 TTAAATTCTA
117775789 AAAGATAAATAAAAATAAAT-
1 AAAGATAAATAAAAATAAATG
* *
117775809 AAAGATAATTAAAGATAAATG
1 AAAGATAAATAAAAATAAATG
117775830 AAA-ATAAAT
1 AAAGATAAAT
117775839 CCTAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (21 bp):
AAAGATAAATAAAAATAAATG
Found at i:117785335 original size:10 final size:9
Alignment explanation
Indices: 117785324--117785386 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
117785314 TTTAAATTAC
117785324 AAATTTTTA
1 AAATTTTTA
* *
117785333 CAATTTCTA
1 AAATTTTTA
*
117785342 ATATTTTTTA
1 A-AATTTTTA
*
117785352 TAATTTTTA
1 AAATTTTTA
*
117785361 CAATATTTTA
1 AAAT-TTTTA
117785371 AAATTTTTA
1 AAATTTTTA
*
117785380 ATATTTT
1 AAATTTT
117785387 AATATTATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 28 0.67
10 14 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (9 bp):
AAATTTTTA
Found at i:117785349 original size:19 final size:19
Alignment explanation
Indices: 117785327--117785386 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
117785317 AAATTACAAA
* *
117785327 TTTTTACAATTTCTAATAT
1 TTTTTAAAATTTTTAATAT
*
117785346 TTTTTATAATTTTTACA-AT
1 TTTTTAAAATTTTTA-ATAT
*
117785365 ATTTTAAAATTTTTAATAT
1 TTTTTAAAATTTTTAATAT
117785384 TTT
1 TTT
117785387 AATATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAAATTTTTAATAT
Found at i:117785357 original size:28 final size:29
Alignment explanation
Indices: 117785325--117785386 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
117785315 TTAAATTACA
* *
117785325 AATTTTTACAAT-TTCTAATATTTTTTAT
1 AATTTTTACAATATTCTAAAATTTTTAAT
*
117785353 AATTTTTACAATATTTTAAAATTTTTAAT
1 AATTTTTACAATATTCTAAAATTTTTAAT
117785382 -ATTTT
1 AATTTT
117785387 AATATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
AATTTTTACAATATTCTAAAATTTTTAAT
Found at i:117785934 original size:19 final size:20
Alignment explanation
Indices: 117785910--117785957 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
117785900 AGATTTTCTG
117785910 AATTTAATTTCTTTTAT-A-A
1 AATTTAATTT-TTTTATAATA
*
117785929 AATTTATAATTTTTTATAATA
1 AATTTA-ATTTTTTTATAATA
117785950 AATTTAAT
1 AATTTAAT
117785958 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 12 0.50
20 5 0.21
21 7 0.29
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAATTTTTTTATAATA
Found at i:117785969 original size:21 final size:21
Alignment explanation
Indices: 117785921--117785969 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
117785911 ATTTAATTTC
*
117785921 TTTTAT-A-AAATTTATAATT
1 TTTTATAATAAATTTATAATA
117785940 TTTTATAATAAATTTAATAATA
1 TTTTATAATAAATTT-ATAATA
117785962 TTTT-TAAT
1 TTTTATAAT
117785970 TTAATTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 1 0.04
21 10 0.38
22 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAATAAATTTATAATA
Found at i:117785976 original size:22 final size:21
Alignment explanation
Indices: 117785921--117785967 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 21
117785911 ATTTAATTTC
117785921 TTTTAT-A-AAATTTATAATT
1 TTTTATAATAAATTTATAATT
117785940 TTTTATAATAAATTTAATAATAT
1 TTTTATAATAAATTT-ATAAT-T
117785963 TTTTA
1 TTTTA
117785968 ATTTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 6 0.25
22 5 0.21
23 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAATAAATTTATAATT
Found at i:117786439 original size:2 final size:2
Alignment explanation
Indices: 117786434--117786462 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117786424 GTTTTTTGTT
117786434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117786463 GATGATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117793917 original size:3 final size:3
Alignment explanation
Indices: 117793909--117793935 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
117793899 TTTTATTAGT
117793909 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
117793936 AAAACATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:117797291 original size:29 final size:29
Alignment explanation
Indices: 117797258--117797317 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
117797248 ATTTATCTAC
117797258 AAGATAAATATTAAATTAAATCCAATATT
1 AAGATAAATATTAAATTAAATCCAATATT
* **
117797287 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAATATTAAATTAAATCCAATATT
117797316 AA
1 AA
117797318 ATTTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (29 bp):
AAGATAAATATTAAATTAAATCCAATATT
Found at i:117800692 original size:27 final size:27
Alignment explanation
Indices: 117800650--117800713 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
117800640 GGGGTGCCAG
117800650 AGGCGGCACCGGTTGTGCCTCTAGCAA
1 AGGCGGCACCGGTTGTGCCTCTAGCAA
* *
117800677 AGGTGGCACCGGTTGTGCCTCTGGCAA
1 AGGCGGCACCGGTTGTGCCTCTAGCAA
117800704 AGGCGGCACC
1 AGGCGGCACC
117800714 TCGTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.36, T:0.17
Consensus pattern (27 bp):
AGGCGGCACCGGTTGTGCCTCTAGCAA
Found at i:117817762 original size:43 final size:44
Alignment explanation
Indices: 117817703--117817791 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
117817693 AAAACGCCAC
* * * *
117817703 AAAAGATCATGACTTTTAGTGGCGTTTGTGATAAAAGCGCTGCT
1 AAAAGATCATGACTTTTAGCGGCATTTGTGAGAAAAGCGCCGCT
* *
117817747 AAAAG-TCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
1 AAAAGATCATGACTTTTAGCGGCATTTGTGAGAAAAGCGCCGCT
117817790 AA
1 AA
117817792 TTTTGGTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 34 0.87
44 5 0.13
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
AAAAGATCATGACTTTTAGCGGCATTTGTGAGAAAAGCGCCGCT
Found at i:117824269 original size:26 final size:26
Alignment explanation
Indices: 117824238--117824345 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117824228 TGAAATTCCC
*
117824238 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
117824264 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
117824290 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
117824316 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
117824342 ATCA
1 ATCA
117824346 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:117830036 original size:26 final size:26
Alignment explanation
Indices: 117830005--117830112 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117829995 ATGAAATGCC
*
117830005 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
117830031 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
117830057 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
117830083 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
117830109 ATCA
1 ATCA
117830113 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:117830753 original size:12 final size:12
Alignment explanation
Indices: 117830736--117830761 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117830726 ATTATCCTCT
117830736 TCATCAGATTCA
1 TCATCAGATTCA
117830748 TCATCAGATTCA
1 TCATCAGATTCA
117830760 TC
1 TC
117830762 TCTCGATCTT
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:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:117832519 original size:7 final size:7
Alignment explanation
Indices: 117832509--117832540 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
117832499 AGATAATACA
117832509 TATCAAG
1 TATCAAG
117832516 TATCAAG
1 TATCAAG
117832523 TATCAAG
1 TATCAAG
117832530 TATCAAG
1 TATCAAG
117832537 TATC
1 TATC
117832541 TAATGGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (7 bp):
TATCAAG
Found at i:117832631 original size:9 final size:9
Alignment explanation
Indices: 117832598--117832906 Score: 205
Period size: 9 Copynumber: 35.6 Consensus size: 9
117832588 TATTTATGTA
117832598 TTATGTAAG
1 TTATGTAAG
*
117832607 TTAAGTAAG
1 TTATGTAAG
*
117832616 TTTTGTAAG
1 TTATGTAAG
117832625 TTATGT-A-
1 TTATGTAAG
* *
117832632 -TATAT-AT
1 TTATGTAAG
117832639 TTATGT-A-
1 TTATGTAAG
117832646 TTATGTAAG
1 TTATGTAAG
*
117832655 TTAAGTAAG
1 TTATGTAAG
*
117832664 TTTTGTAAG
1 TTATGTAAG
117832673 TTATGTAAG
1 TTATGTAAG
* *
117832682 ATATGATATG
1 TTATG-TAAG
* * *
117832692 ATATAT-AT
1 TTATGTAAG
117832700 TTATGTAAG
1 TTATGTAAG
117832709 TTATGTAAG
1 TTATGTAAG
* *
117832718 TTATAT-AT
1 TTATGTAAG
*
117832726 TTATCTAAG
1 TTATGTAAG
*
117832735 TTATATAAG
1 TTATGTAAG
117832744 TTATGTAAG
1 TTATGTAAG
117832753 TTATGTAAG
1 TTATGTAAG
*
117832762 TTATGATATG
1 TTATG-TAAG
* * *
117832772 ATATAT-AT
1 TTATGTAAG
117832780 TTATGT-A-
1 TTATGTAAG
117832787 TTATGTAAG
1 TTATGTAAG
*
117832796 TTATGATATG
1 TTATG-TAAG
* * *
117832806 ATATAT-AT
1 TTATGTAAG
*
117832814 TTGTGTAAG
1 TTATGTAAG
117832823 TTATGTAAG
1 TTATGTAAG
* *
117832832 TTATAT-AT
1 TTATGTAAG
*
117832840 TTATCTAAG
1 TTATGTAAG
117832849 TTATGTAAG
1 TTATGTAAG
* *
117832858 TTATAT-AT
1 TTATGTAAG
*
117832866 TTATCTAAG
1 TTATGTAAG
*
117832875 TTATATAAG
1 TTATGTAAG
*
117832884 TTATGTAAA
1 TTATGTAAG
117832893 TTATGTAAG
1 TTATGTAAG
117832902 TTATG
1 TTATG
117832907 ATATGATATA
Statistics
Matches: 232, Mismatches: 54, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.02
7 12 0.05
8 38 0.16
9 158 0.68
10 19 0.08
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:117832636 original size:48 final size:48
Alignment explanation
Indices: 117832584--117832798 Score: 205
Period size: 48 Copynumber: 4.5 Consensus size: 48
117832574 GATTTTCAAG
*
117832584 TATATATTTATGTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTA
1 TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
*
117832632 TATATATTTATGTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTA
1 TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
* * * * * *
117832680 -AGATATGATATG-A-TATAT-ATTTATGTAAGTTATGTAAGTTATATA
1 TATATAT-TTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
* * * *
117832725 TTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATG--A--TATG-A
1 --TATAT-ATTTATGT-A-TTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
117832773 TATATATTTATGTATTATGTAAGTTA
1 TATATATTTATGTATTATGTAAGTTA
117832799 TGATATGATA
Statistics
Matches: 139, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
43 12 0.09
44 1 0.01
45 29 0.21
46 8 0.06
47 6 0.04
48 58 0.42
49 4 0.03
50 1 0.01
51 1 0.01
52 4 0.03
53 15 0.11
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (48 bp):
TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
Found at i:117832663 original size:57 final size:63
Alignment explanation
Indices: 117832602--117832904 Score: 161
Period size: 61 Copynumber: 5.1 Consensus size: 63
117832592 TATGTATTAT
* *
117832602 GTAAGTTAAGTAAGTTTTGTAAG-T-T-ATGT-ATATATATTTATGT-A-TTATGTAAGTTAA
1 GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
**
117832659 GTAAGTTTTGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTT-A
1 GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
* ** * * * *
117832721 -TATATTTATCTAAGTTATATAAG---T--TATG---TA-AGTTATGTAAGTTATGATATGAT-A
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATG-TAAGTTAA
* * * *
117832775 -TATATTTATGT-A-TTATGTAAGTTATGATATGATATATATTTGTGTAAGTTATGTAAGTT-A
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
* ** * * * * * * *
117832835 -TATATTTATCTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTATATAAGTTATGTAAATTAT
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATAT-ATTTATGTAAGTTATGTAAGTTAA
117832897 GTAAGTTA
1 GTAAGTTA
117832905 TGATATGATA
Statistics
Matches: 198, Mismatches: 26, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
52 8 0.04
53 16 0.08
54 17 0.09
55 1 0.01
57 28 0.14
58 1 0.01
59 2 0.01
60 24 0.12
61 53 0.27
62 35 0.18
63 13 0.07
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (63 bp):
GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
Found at i:117832754 original size:80 final size:78
Alignment explanation
Indices: 117832639--117832835 Score: 256
Period size: 80 Copynumber: 2.5 Consensus size: 78
117832629 GTATATATAT
* *
117832639 TTATG-TATTATGTAAGTTA-AGTAAGTTTTGTAAGTTATGTAAGATATGATATGATATATATTT
1 TTATGATATTATATAAGTTATA-TAAGTTATGTAAGTTATGTAAGATATGATATGATATATATTT
117832702 ATGTAAGTTATGTAAG
65 ATGT-A-TTATGTAAG
* *
117832718 TTAT-ATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTT
1 TTATGATA-TTATATAAGTTATATAAGTTATGTAAGTTATGTAAGATATGATATGATATATATTT
117832782 ATGTATTATGTAAG
65 ATGTATTATGTAAG
* * * *
117832796 TTATGATATGATATATATTTGTGTAAGTTATGTAAGTTAT
1 TTATGATATTATATA-AGTTATATAAGTTATGTAAGTTAT
117832836 ATATTTATCT
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
78 18 0.17
79 31 0.30
80 55 0.52
81 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (78 bp):
TTATGATATTATATAAGTTATATAAGTTATGTAAGTTATGTAAGATATGATATGATATATATTTA
TGTATTATGTAAG
Found at i:117832829 original size:70 final size:71
Alignment explanation
Indices: 117832603--117832922 Score: 245
Period size: 70 Copynumber: 4.6 Consensus size: 71
117832593 ATGTATTATG
* * *
117832603 TAAGTTAAGTAAGTTTTGTAAGTTATG---T-ATATATATTTATGT-A-TTATGTAAGTTA-AGT
1 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATAT-AGTTATA-T
* * *
117832661 AAGTTTTG
64 AAGATATA
* * * * * * * *
117832669 TAAGTTATGTAAGATATGATATGATAT-ATAT-TTATGTAAGTTATGTAAGTTATATATTTATCT
1 TAAGTTATGTAAGTTATG-TAAGTTATGATATGATATAT-ATTTATGTAAGTTATATAGTTATAT
*
117832732 AAGTTATA
64 AAGATATA
*
117832740 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGT-A-TTATGTAAGTTATGAT
1 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATAT-AGTTAT-AT
*
117832803 ATGATATA
64 AAGATATA
* * * * * * *
117832811 T-ATTTGTGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTATGTAAGTTATATATTTATCTA
1 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATAGTTATATA
*
117832873 AGTTATA
65 AGATATA
*
117832880 TAAGTTATGTAAATTATGTAAGTTATGATATGATATATATTTA
1 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
117832923 ACATTAAGAT
Statistics
Matches: 196, Mismatches: 40, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
66 15 0.08
67 6 0.03
68 4 0.02
69 29 0.15
70 68 0.35
71 61 0.31
72 13 0.07
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (71 bp):
TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATATAGTTATATAA
GATATA
Found at i:117832837 original size:26 final size:26
Alignment explanation
Indices: 117832793--117832922 Score: 143
Period size: 26 Copynumber: 4.9 Consensus size: 26
117832783 TGTATTATGT
* * *
117832793 AAGTTATGATATGATATATATTTGTGT
1 AAGTTATG-TAAGTTATATATTTATGT
*
117832820 AAGTTATGTAAGTTATATATTTATCT
1 AAGTTATGTAAGTTATATATTTATGT
*
117832846 AAGTTATGTAAGTTATATATTTATCT
1 AAGTTATGTAAGTTATATATTTATGT
* * *
117832872 AAGTTATATAAGTTATGTAAATTATGT
1 AAGTTATGTAAGTTATAT-ATTTATGT
* *
117832899 AAGTTATGATATGATATATATTTA
1 AAGTTATG-TAAGTTATATATTTA
117832923 ACATTAAGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 56 0.64
27 25 0.28
28 7 0.08
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.48
Consensus pattern (26 bp):
AAGTTATGTAAGTTATATATTTATGT
Found at i:117832871 original size:140 final size:141
Alignment explanation
Indices: 117832584--117832922 Score: 469
Period size: 140 Copynumber: 2.5 Consensus size: 141
117832574 GATTTTCAAG
* * * *
117832584 TATATATTTATGT-A-TTATGTAAGTTAAGTAAGTTTTGTAAGTTATG---T-ATATATATTTAT
1 TATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTAT
* * * * *
117832643 GTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTAAGATATGATATGATATATATTTATGTAA
66 GTATTATGTAAGTTAAGTAAGATATATAAGTTATGTAAGATATGATAAGATATATATTTATCTAA
117832708 GTTATGTAAGT
131 GTTATGTAAGT
117832719 TATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTAT
1 TATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTAT
* * * * * *
117832784 GTATTATGTAAGTTATGATATGATATAT-ATTTGTGTAAGTTATG-TAAGTTATATATTTATCTA
66 GTATTATGTAAGTTAAG-TAAGATATATAAGTTATGTAAGATATGATAAGATATATATTTATCTA
117832847 AGTTATGTAAGT
130 AGTTATGTAAGT
*
117832859 TATATATTTATCTAAGTTATATAAGTTATGTAAATTATGTAAGTTATGATATGATATATATTTA
1 TATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
117832923 ACATTAAGAT
Statistics
Matches: 181, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
135 12 0.07
136 1 0.01
137 29 0.16
140 92 0.51
141 41 0.23
142 6 0.03
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (141 bp):
TATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTAT
GTATTATGTAAGTTAAGTAAGATATATAAGTTATGTAAGATATGATAAGATATATATTTATCTAA
GTTATGTAAGT
Found at i:117833639 original size:23 final size:23
Alignment explanation
Indices: 117833609--117833654 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
117833599 CTTTTTTATT
*
117833609 ATTATCAAATGAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
117833632 ATTATCAAATAAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
117833655 CAAATACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTATCAAATAAATTTTCTTAAC
Found at i:117834355 original size:25 final size:25
Alignment explanation
Indices: 117834327--117834385 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
117834317 CTAGAGAAGC
*
117834327 AGCAGAGGGATACT-GACGGAGATGT
1 AGCAGAGGGAT-CTCGACGGAAATGT
* *
117834352 AGCAGAGGGATGTCGATGGAAATGT
1 AGCAGAGGGATCTCGACGGAAATGT
117834377 AGCAGAGGG
1 AGCAGAGGG
117834386 CTGCCGACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.32, C:0.10, G:0.42, T:0.15
Consensus pattern (25 bp):
AGCAGAGGGATCTCGACGGAAATGT
Found at i:117834524 original size:14 final size:13
Alignment explanation
Indices: 117834505--117834549 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
117834495 AATAACCCAA
117834505 GATATATGCATACT
1 GATATATGCATA-T
117834519 GATATATG--TAT
1 GATATATGCATAT
117834530 -ATATATGCATATT
1 GATATATGCATA-T
117834543 GATATAT
1 GATATAT
117834550 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 1 0.04
12 4 0.15
13 1 0.04
14 14 0.52
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (13 bp):
GATATATGCATAT
Found at i:117834536 original size:24 final size:24
Alignment explanation
Indices: 117834506--117834559 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
117834496 ATAACCCAAG
*
117834506 ATATATGCATACTGATATATGTAT
1 ATATATGCATACTGATATATATAT
*
117834530 ATATATGCATATTGATATATATAT
1 ATATATGCATACTGATATATATAT
117834554 ATATAT
1 ATATAT
117834560 ACATTACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (24 bp):
ATATATGCATACTGATATATATAT
Found at i:117835497 original size:39 final size:39
Alignment explanation
Indices: 117835454--117835533 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
117835444 AACTCACACT
117835454 TTCAACATTAGATTTTGGTTAGAAGCAGTCTAAAAAATA
1 TTCAACATTAGATTTTGGTTAGAAGCAGTCTAAAAAATA
117835493 TTCAACATTAGATTTTGGTTAGAAGCAGTCTAAAAAATA
1 TTCAACATTAGATTTTGGTTAGAAGCAGTCTAAAAAATA
117835532 TT
1 TT
117835534 TTTGTACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (39 bp):
TTCAACATTAGATTTTGGTTAGAAGCAGTCTAAAAAATA
Found at i:117837696 original size:40 final size:40
Alignment explanation
Indices: 117837637--117837778 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
117837627 AAATTGAATG
* * *
117837637 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
117837677 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
117837717 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
117837757 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
117837779 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:117837779 original size:40 final size:39
Alignment explanation
Indices: 117837676--117837804 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
117837666 TGCTGGAAAT
* * *
117837676 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
117837716 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
117837756 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
117837796 TATATCCGG
1 TATATCCGG
117837805 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:117845705 original size:40 final size:40
Alignment explanation
Indices: 117845646--117845787 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
117845636 AAATTGAATG
* * *
117845646 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
117845686 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
117845726 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
117845766 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
117845788 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:117845788 original size:40 final size:39
Alignment explanation
Indices: 117845685--117845813 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
117845675 TGCTGGAAAT
* * *
117845685 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
117845725 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
117845765 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
117845805 TATATCCGG
1 TATATCCGG
117845814 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:117848765 original size:18 final size:17
Alignment explanation
Indices: 117848713--117848763 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
117848703 GACAAATGGG
117848713 TTTGATTTGGGGGAAAT
1 TTTGATTTGGGGGAAAT
* * *
117848730 TTAGGGTTTAGGGGAAAT
1 TT-TGATTTGGGGGAAAT
117848748 TTTGATTTGGGGGAAA
1 TTTGATTTGGGGGAAA
117848764 ATAAGGGGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.37
Consensus pattern (17 bp):
TTTGATTTGGGGGAAAT
Found at i:117850309 original size:136 final size:136
Alignment explanation
Indices: 117850049--117850322 Score: 487
Period size: 136 Copynumber: 2.0 Consensus size: 136
117850039 AGTCCATTCA
*
117850049 GGTAACAGTGGTACTGGACCAAAGCCCTTTTCAGATTACAATAAATTGGGCCTTGCCCCTTATTC
1 GGTAACAGTGGTACTGGACCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTGCCCCTTATTC
* *
117850114 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCT
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
117850179 CATTTG
131 CATTTG
* *
117850185 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGACCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT-GCCCCTTATT
117850250 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGC
65 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
117850314 CCATTTG
130 CCATTTG
117850321 GG
1 GG
117850323 GAGACTACTC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
136 72 0.55
137 60 0.45
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
GGTAACAGTGGTACTGGACCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
CATTTG
Found at i:117852145 original size:26 final size:26
Alignment explanation
Indices: 117852107--117852164 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
117852097 TATGAAATTC
117852107 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
117852133 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
117852159 TTATCA
1 TTATCA
117852165 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:117853095 original size:22 final size:21
Alignment explanation
Indices: 117853053--117853098 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
117853043 TTTAATCAAT
*
117853053 TAACCCTTAAACCCTATACAC
1 TAACCCTTAAACCATATACAC
117853074 TAACCCTTAAAACCATGA-ACAC
1 TAACCCTT-AAACCAT-ATACAC
117853096 TAA
1 TAA
117853099 GACCCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 13 0.59
23 1 0.05
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (21 bp):
TAACCCTTAAACCATATACAC
Found at i:117853235 original size:36 final size:38
Alignment explanation
Indices: 117853195--117853274 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
117853185 CCCGGCCCAT
*
117853195 ACCATAAACTTAACATA-A-TATACCATTGAACCCTAA
1 ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
*
117853231 ACCATAAACTTAAAATATATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
117853269 ACCATA
1 ACCATA
117853275 GGCCTTAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 16 0.40
37 1 0.03
38 23 0.57
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (38 bp):
ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
Found at i:117853458 original size:21 final size:21
Alignment explanation
Indices: 117853434--117853506 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
117853424 GGGTTTTAGA
117853434 GTTTATGGATTAATGTTTAAG
1 GTTTATGGATTAATGTTTAAG
** * *
117853455 GTTTATGTTTTAGA-ATTTAGG
1 GTTTATGGATTA-ATGTTTAAG
* * *
117853476 GTTTAGGGTTTAATGTTTAAT
1 GTTTATGGATTAATGTTTAAG
117853497 GTTTA-GGATT
1 GTTTATGGATT
117853507 TAACGGTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
20 5 0.12
21 34 0.85
22 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (21 bp):
GTTTATGGATTAATGTTTAAG
Found at i:117854118 original size:26 final size:26
Alignment explanation
Indices: 117854089--117854144 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
117854079 TGATACAAAT
117854089 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117854115 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117854141 TGAT
1 TGAT
117854145 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117856793 original size:42 final size:40
Alignment explanation
Indices: 117856745--117856964 Score: 124
Period size: 41 Copynumber: 5.4 Consensus size: 40
117856735 TGGGGTGTTA
* *
117856745 CAAAAACGCCGCTGTAGATAAACTTTTTTGG-GGCGTTTGGAC
1 CAAAAACGCCGCTATAGAT-AA--GTTTTGGTGGCGTTTGGAC
* *
117856787 CAAAAACACCGCTATTGATAAGTTTTGGTGGCGTTTGGAC
1 CAAAAACGCCGCTATAGATAAGTTTTGGTGGCGTTTGGAC
** * * * *
117856827 CAAAAACGCCATTACT-GCTCAGTTTTTAGTGGCGTTT-TAC
1 CAAAAACGCCGCTA-TAGATAAG-TTTTGGTGGCGTTTGGAC
* * ** * * *
117856867 ATAAAAACGCTGCTATTCATCAATTTTTAGTGGCGTTT-TAGC
1 -CAAAAACGCCGCTATAGAT-AAGTTTTGGTGGCGTTTGGA-C
* * * * *
117856909 TAAAAACGCCTCTATTGATCAGTTTTTGGTGGCGTTTGGGC
1 CAAAAACGCCGCTATAGATAAG-TTTTGGTGGCGTTTGGAC
*
117856950 CAAAAAAGCCGCTAT
1 CAAAAACGCCGCTAT
117856965 TGTTCAGTTT
Statistics
Matches: 139, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
39 6 0.04
40 30 0.22
41 85 0.61
42 18 0.13
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (40 bp):
CAAAAACGCCGCTATAGATAAGTTTTGGTGGCGTTTGGAC
Found at i:117856955 original size:41 final size:41
Alignment explanation
Indices: 117856769--117856976 Score: 185
Period size: 41 Copynumber: 5.1 Consensus size: 41
117856759 TAGATAAACT
* * *
117856769 TTTTTGG-GGCGTTTGGACCAAAAACACCGCTATTGATAAG
1 TTTTTGGTGGCGTTTGGACCAAAAACGCCTCTATTGATCAG
* *
117856809 -TTTTGGTGGCGTTTGGACCAAAAACGCCAT-TACTGCTCAG
1 TTTTTGGTGGCGTTTGGACCAAAAACGCC-TCTATTGATCAG
* * * * *
117856849 TTTTTAGTGGCGTTT-TACATAAAAACG-CTGCTATTCATCAA
1 TTTTTGGTGGCGTTTGGAC-CAAAAACGCCT-CTATTGATCAG
* * *
117856890 TTTTTAGTGGCGTTT-TAGCTAAAAACGCCTCTATTGATCAG
1 TTTTTGGTGGCGTTTGGA-CCAAAAACGCCTCTATTGATCAG
* * * *
117856931 TTTTTGGTGGCGTTTGGGCCAAAAAAGCCGCTATTGTTCAG
1 TTTTTGGTGGCGTTTGGACCAAAAACGCCTCTATTGATCAG
117856972 TTTTT
1 TTTTT
117856977 TGCGACGTTT
Statistics
Matches: 138, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
39 7 0.05
40 30 0.22
41 98 0.71
42 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTTGGTGGCGTTTGGACCAAAAACGCCTCTATTGATCAG
Found at i:117856976 original size:82 final size:82
Alignment explanation
Indices: 117856769--117856976 Score: 205
Period size: 82 Copynumber: 2.6 Consensus size: 82
117856759 TAGATAAACT
* * *
117856769 TTTTTGG-GGCGTTTGGACCAAAAACA-CCGCTATTGATAAG-TTTTGGTGGCGTTTGGACCAAA
1 TTTTTGGTGGCGTTTGGACCAAAAA-AGCCGCTATTGATCAGTTTTTAGTGGCGTTTAGACCAAA
*
117856831 AACGCCATTACTGCTCAG
65 AACGCCATTACTGATCAG
* * * * * *
117856849 TTTTTAGTGGCGTTT-TA-CATAAAAACGCTGCTATTCATCAATTTTTAGTGGCGTTTTAG-CTA
1 TTTTTGGTGGCGTTTGGACCA-AAAAA-GCCGCTATTGATCAGTTTTTAGTGGCG-TTTAGACCA
*
117856911 AAAACGCC-TCTATTGATCAG
63 AAAACGCCAT-TACTGATCAG
* *
117856931 TTTTTGGTGGCGTTTGGGCCAAAAAAGCCGCTATTGTTCAGTTTTT
1 TTTTTGGTGGCGTTTGGACCAAAAAAGCCGCTATTGATCAGTTTTT
117856977 TGCGACGTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
79 3 0.03
80 11 0.11
81 18 0.18
82 58 0.57
83 9 0.09
84 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (82 bp):
TTTTTGGTGGCGTTTGGACCAAAAAAGCCGCTATTGATCAGTTTTTAGTGGCGTTTAGACCAAAA
ACGCCATTACTGATCAG
Found at i:117858993 original size:2 final size:2
Alignment explanation
Indices: 117858988--117859024 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
117858978 AAATAATCTT
117858988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117859025 TTAAAAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117863063 original size:60 final size:59
Alignment explanation
Indices: 117862943--117863077 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
117862933 GTGTTAACTC
* * *
117862943 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACACTATCAGAGTTTATTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAC-ATCAGAGTATATTG
* *
117863004 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACACA-TCAGAG-TATATTG
* *
117863064 GGCCTTGGCCATAT
1 GGCCTAGCCCATAT
117863078 TAACACAGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.80
61 9 0.14
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACACATCAGAGTATATTG
Found at i:117867023 original size:33 final size:30
Alignment explanation
Indices: 117866954--117867022 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
117866944 CTAGCCTTTG
*
117866954 CCACCACCAACTCTACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
117866984 CCACCACCTACTCCGCTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
117867014 CCACCACCA
1 CCACCACCA
117867023 CTTGTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.51, G:0.07, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:117867640 original size:14 final size:14
Alignment explanation
Indices: 117867579--117867641 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
117867569 CTATATTACG
*
117867579 TATATATAT-TATA
1 TATATATTTATATA
*
117867592 T-TAT-TTTATGTA
1 TATATATTTATATA
*
117867604 TATATCTTTA-ATA
1 TATATATTTATATA
117867617 CTATATTATTTATATA
1 -TATA-TATTTATATA
117867633 TATATATTT
1 TATATATTT
117867642 TTTCTACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.05
12 7 0.17
13 6 0.15
14 13 0.32
15 9 0.22
16 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (14 bp):
TATATATTTATATA
Found at i:117867665 original size:29 final size:30
Alignment explanation
Indices: 117867588--117867690 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 30
117867578 GTATATATAT
*
117867588 TATATTATTTTATGTATATATCTTTAATAC
1 TATATTATTTTATGTATATATTTTTAATAC
* **
117867618 TATATTATTTATATATATATATTTTTTCTAC
1 TATATTATTT-TATGTATATATTTTTAATAC
* *
117867649 -ATGTTATCTTATGTATATA-TTTTAAT--
1 TATATTATTTTATGTATATATTTTTAATAC
*
117867675 TATATTA-TGTATGTAT
1 TATATTATTTTATGTAT
117867691 TTTTTACACT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 7 0.12
27 5 0.08
28 5 0.08
29 9 0.15
30 17 0.29
31 16 0.27
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATTATTTTATGTATATATTTTTAATAC
Found at i:117867682 original size:22 final size:23
Alignment explanation
Indices: 117867652--117867718 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
117867642 TTTCTACATG
*
117867652 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
117867674 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
117867699 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
117867719 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:117867729 original size:27 final size:25
Alignment explanation
Indices: 117867663--117867734 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
117867653 TATCTTATGT
* *
117867663 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
117867687 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
117867712 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
117867735 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:117867809 original size:25 final size:24
Alignment explanation
Indices: 117867781--117867836 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
117867771 GTTATATTTT
*
117867781 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
117867806 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
117867829 CACTATTA
1 CACTATTA
117867837 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:117880035 original size:13 final size:13
Alignment explanation
Indices: 117879991--117880035 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
117879981 CGCCGAGGTA
*
117879991 TTTTTAATTTATG
1 TTTTTAATTTCTG
117880004 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
117880018 CTTTTAATTTCTG
1 TTTTTAATTTCTG
117880031 TTTTT
1 TTTTT
117880036 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Done.