Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 120 of 228
Found at i:35451833 original size:174 final size:174
Alignment explanation
Indices: 35451543--35452041 Score: 935
Period size: 174 Copynumber: 2.9 Consensus size: 174
35451533 CAAACGCACC
* *
35451543 CTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGT
1 CTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
35451608 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTT
66 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTT
35451673 TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCA
131 TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCA
* *
35451717 CTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGT
1 CTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
*
35451782 GCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTT
66 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTT
35451847 TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCA
131 TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCA
35451891 CTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
1 CTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
* *
35451956 GCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTT
66 GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTT
35452021 TGGACAGCGGAAAAGGTAAGT
131 TGGACAGCGGAAAAGGTAAGT
35452042 ACCTTGAGTT
Statistics
Matches: 315, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 315 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
CTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGT
GCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTT
TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCA
Found at i:35453568 original size:56 final size:56
Alignment explanation
Indices: 35453501--35453620 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35453491 TATTAGTTTA
35453501 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
35453557 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
35453613 TTGCCCAT
1 TTGCCCAT
35453621 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:35462145 original size:39 final size:39
Alignment explanation
Indices: 35461972--35462154 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 39
35461962 TTGAATGCTG
* * * ** * *
35461972 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
35462012 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
**
35462052 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
35462092 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACT-AAA
* *
35462132 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35462155 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.28
40 78 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35467418 original size:27 final size:27
Alignment explanation
Indices: 35467380--35468147 Score: 446
Period size: 27 Copynumber: 28.3 Consensus size: 27
35467370 GATTCATGGG
* *
35467380 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35467407 AAAATGACCGAAATATCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
35467434 AAAATGACTGAAATACCCCCAAAGGAT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35467461 AAAATGACCGAAATACTCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35467488 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
35467515 AAAATGACTAAAATACCCTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35467542 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
35467569 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35467596 AAAATGACTGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
35467623 AAAATGATCGAAAGACCCTCTAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35467650 AAAATTACCGAAATAACCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * * *
35467677 AAAATTATCAAAATACCCCCGGAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35467704 AAAATGACTGAAATGCCCTC-ATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
** ** * * *
35467731 AAAATGATTGTTATACTCCTAGGA-GTT
1 AAAATGACCGAAATAC-CCTCGAAGGGT
* ** * ***
35467758 GAAATGAGTG-TATGA--C-CGATTTGT
1 AAAATGACCGAAAT-ACCCTCGAAGGGT
*** * ** * ** *
35467782 TCTATG-TC-ATTTA-CAT-GACTGTT
1 AAAATGACCGAAATACCCTCGAAGGGT
* ** * * ** *
35467805 ACTAAGTATGACATACTACGTACACGTATGATCGCT
1 A--AA--ATGAC---CGAAATAC-CCT-CGAAGGGT
* * * * **** *
35467841 CAAGTGGAAGCCCAACTTGTGATTC-ATGGG-
1 AAAAT-G-A-CCGAA-AT-ACCCTCGAAGGGT
* *
35467871 CAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* **
35467898 AAAATGATCGAAATACCCTCGAAGGAC
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35467925 AAAATGATCGAAATACCCTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** * *
35467952 AAAATGATTGAAATACTCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
35467979 CAAATAATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35468006 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35468033 AAAATGACCGAAAGACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
35468060 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
35468087 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
35468114 AAAATTACTGAAATACCCTC-ATAGTGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
35468141 AAAATGA
1 AAAATGA
35468148 TTGTTATACT
Statistics
Matches: 577, Mismatches: 135, Indels: 58
0.75 0.18 0.08
Matches are distributed among these distances:
22 1 0.00
23 7 0.01
24 5 0.01
25 2 0.00
26 9 0.02
27 520 0.90
28 5 0.01
29 1 0.00
30 4 0.01
31 4 0.01
32 6 0.01
33 3 0.01
34 5 0.01
35 1 0.00
36 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:35468229 original size:410 final size:410
Alignment explanation
Indices: 35467462--35468246 Score: 1284
Period size: 410 Copynumber: 1.9 Consensus size: 410
35467452 CCAAAGGATA
* * **
35467462 AAATGACCGAAATACTCTTGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTAAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACTAAA
* *
35467527 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAA
66 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
* * *
35467592 GGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAAGACCCTCTAAGGGTAAAATTA
131 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
* * *
35467657 CCGAAATAACCTCGAAGGGTAAAATTATCAAAATACCCCCGGAGGGTAAAATGACTGAAATGCCC
196 CCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
35467722 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
261 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
* *
35467787 GTCATTTACATGACTGTTACTAAGTATGACATACTACGTACACGTATGATCGCTCAAGTGGAAGC
326 GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
35467852 CCAACTTGTGATTCATGGGC
391 CCAACTTGTGATTCATGGGC
* *
35467872 AAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGA-TCGA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACT-AA
*** * * *
35467936 AATACCCTCGAATGGTAAAATGATTGAAATACTCTTGAAGGGTCAAATAATCGAAATACCCTCGA
65 AATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGA
35468001 AGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATT
130 AGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATT
* * * * *
35468066 ATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACC
195 ACCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACC
*
35468131 CTCATAGTGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTA
260 CTCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTA
* *
35468196 TGTTATTTACATGACTATTACTGAGTATGACATACTACATACACGTATGAT
325 TGTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGAT
35468247 TTATGACATG
Statistics
Matches: 344, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
409 1 0.00
410 343 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (410 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACTAAA
ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
CCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
CCAACTTGTGATTCATGGGC
Found at i:35468379 original size:26 final size:26
Alignment explanation
Indices: 35468297--35468396 Score: 89
Period size: 26 Copynumber: 3.8 Consensus size: 26
35468287 AGGGGAAGTA
** * *
35468297 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTACGT
* *
35468322 ATACTGTTACTGGAAGCTATGCTACGT
1 -TACTGTTACTGGCAGCTTTGCTACGT
35468349 TACTGTTACTGGCAGCTTTG-T-CGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
35468373 ATCACTGTTACTAGCAGCTTTGCT
1 -T-ACTGTTACTGGCAGCTTTGCT
35468397 GCGATATTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 41 0.66
27 16 0.26
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:35468545 original size:28 final size:28
Alignment explanation
Indices: 35468503--35468594 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
35468493 TTACTGCATT
*
35468503 ACACTGATTATTGTATTGGGCTAAGGCCC
1 ACACT-ATTACTGTATTGGGCTAAGGCCC
*
35468532 CCACTATTACTGTATTGGGCTAAGGCCTAC
1 ACACTATTACTGTATTGGGCTAAGGCC--C
* *
35468562 ACACTATCACTGTAATGGGCTAAGGCCC
1 ACACTATTACTGTATTGGGCTAAGGCCC
35468590 ACACT
1 ACACT
35468595 GTACTGATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 27 0.48
29 4 0.07
30 25 0.45
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (28 bp):
ACACTATTACTGTATTGGGCTAAGGCCC
Found at i:35468574 original size:30 final size:29
Alignment explanation
Indices: 35468514--35468594 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 29
35468504 CACTGATTAT
* *
35468514 TGTATTGGGCTAAGGCC-CCCACTATTAC
1 TGTATTGGGCTAAGGCCACACACTATCAC
35468542 TGTATTGGGCTAAGGCCTACACACTATCAC
1 TGTATTGGGCTAAGGCC-ACACACTATCAC
*
35468572 TGTAATGGGCTAAGGCC-CACACT
1 TGTATTGGGCTAAGGCCACACACT
35468595 GTACTGATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
28 23 0.48
30 25 0.52
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (29 bp):
TGTATTGGGCTAAGGCCACACACTATCAC
Found at i:35475559 original size:27 final size:27
Alignment explanation
Indices: 35475331--35475550 Score: 307
Period size: 27 Copynumber: 8.1 Consensus size: 27
35475321 ATTCATTAGC
* *
35475331 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
35475358 AAATGACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
35475385 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* **
35475412 AAATGACCGAAATACTCTTGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
35475439 AAATGATCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
35475466 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
35475493 AAATAACCAAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
35475520 AAATGACCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-AAAGGGTA
35475547 AAAT
1 AAAT
35475551 TATCAAAATC
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCAAAGGGTA
Found at i:35477548 original size:28 final size:27
Alignment explanation
Indices: 35477497--35477549 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
35477487 GTTTATTGAT
**
35477497 TTTAGTCATTTGTTATTTTCTTTCTTG
1 TTTAGTCATTTGTTATTTAATTTCTTG
*
35477524 TTTATTCATTTAGTTATTTAATTTCT
1 TTTAGTCATTT-GTTATTTAATTTCT
35477550 CTTAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.17, C:0.09, G:0.08, T:0.66
Consensus pattern (27 bp):
TTTAGTCATTTGTTATTTAATTTCTTG
Found at i:35487628 original size:2 final size:2
Alignment explanation
Indices: 35487621--35487661 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
35487611 TAGCATTAGC
35487621 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
35487662 GCTTTATGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:35488153 original size:19 final size:19
Alignment explanation
Indices: 35488129--35488165 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35488119 AATGTAACTT
*
35488129 TTTTATATTTTTTTAAAAG
1 TTTTATAATTTTTTAAAAG
35488148 TTTTATAATTTTTTAAAA
1 TTTTATAATTTTTTAAAA
35488166 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAG
Found at i:35489295 original size:43 final size:43
Alignment explanation
Indices: 35489189--35489414 Score: 226
Period size: 43 Copynumber: 5.3 Consensus size: 43
35489179 GGCGCTTTCC
* * * * **
35489189 CACAAGCGCTGCTATAGACCATGACCTTTAG-CGCGATTTTCC
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* *
35489231 CACAAACGCCGCTATAAACCATGACCTTTAGTGGCGCTTTTTT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* * *
35489274 CACTAATGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTAT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* *
35489317 CACAAACGCCACTATAGACCATGACCTTTATTGGCGCTTTTAT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
** * ** * *
35489360 TTCAAACG--GCTAAAGACCATGATATTTAGCGGCGCTTCTT-G
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTT-TTAT
*
35489401 CAAAAACGCCGCTA
1 CACAAACGCCGCTA
35489415 AAAACATAAC
Statistics
Matches: 151, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
41 28 0.19
42 30 0.20
43 93 0.62
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
Found at i:35489301 original size:85 final size:86
Alignment explanation
Indices: 35489199--35489357 Score: 257
Period size: 86 Copynumber: 1.9 Consensus size: 86
35489189 CACAAGCGCT
* *
35489199 GCTATAGACCATGACCTTTAGC-GCGATTTTCCCACAAACGCCGCTATAAACCATGACCTTTAGT
1 GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
35489263 GGCGCTTTTTTCACTAATGCC
66 GGCGCTTTTTTCACTAATGCC
* * * *
35489284 GCTATAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTATAGACCATGACCTTTATT
1 GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
35489349 GGCGCTTTT
66 GGCGCTTTT
35489358 ATTTCAAACG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 22 0.33
86 45 0.67
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (86 bp):
GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
GGCGCTTTTTTCACTAATGCC
Found at i:35490773 original size:22 final size:22
Alignment explanation
Indices: 35490748--35490796 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
35490738 GAAAACACAT
35490748 ACCTAGTTATTAAAATGGATTA
1 ACCTAGTTATTAAAATGGATTA
35490770 ACCTAGTTATTAAAATGGATTA
1 ACCTAGTTATTAAAATGGATTA
35490792 ACCTA
1 ACCTA
35490797 TTTGTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
ACCTAGTTATTAAAATGGATTA
Found at i:35491823 original size:106 final size:101
Alignment explanation
Indices: 35491704--35491912 Score: 312
Period size: 106 Copynumber: 2.0 Consensus size: 101
35491694 AGCAATTTTT
* *
35491704 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTATTTTTTATAAA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCT-AA-TTTTTTT-TTAT-TTTTTTATAAA
*
35491769 TTGATTTA-TTTTTGCGGCGTTTTTTTATAAAAACGCCGCTA
62 TTGATTTATTTTTTGCGGCG--CTTTTATAAAAACGCCGCTA
*
35491810 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
*
35491875 TTTATTTTTTGCGGCGCTTTTATAAAAGCGCCGCTA
66 TTTATTTTTTGCGGCGCTTTTATAAAAACGCCGCTA
35491911 TT
1 TT
35491913 GCTTACCTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
101 20 0.21
102 19 0.20
103 14 0.14
104 7 0.07
105 2 0.02
106 35 0.36
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (101 bp):
TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
TTTATTTTTTGCGGCGCTTTTATAAAAACGCCGCTA
Found at i:35492128 original size:75 final size:76
Alignment explanation
Indices: 35492049--35492196 Score: 244
Period size: 75 Copynumber: 2.0 Consensus size: 76
35492039 CGTTTTTATA
* * *
35492049 AAAAACGCCGCTATTTTATTTTGAACAAATTGACGCCGTTTTGCTATGCT-AAAATTTTTTATTT
1 AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
35492113 TATTTTTTGCT
66 TATTTTTTGCT
* *
35492124 AAAAACGCCGCTATTTCATTTTGAAAAAAATGATGCCGTTTTGCTATGTTAAAAATTTTTTATTT
1 AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
35492189 TATTTTTT
66 TATTTTTT
35492197 TTGTAAATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 45 0.67
76 22 0.33
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (76 bp):
AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
TATTTTTTGCT
Found at i:35493006 original size:14 final size:14
Alignment explanation
Indices: 35492988--35493029 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
35492978 AACCCTTAAA
35492988 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
35493002 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
35493017 CCATACTCCCTAA
1 CCATAATCCCTAA
35493030 ATCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:35493026 original size:15 final size:15
Alignment explanation
Indices: 35492984--35493032 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
35492974 TCTCAACCCT
35492984 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
35492998 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
35493012 TAAATCCATACTCCC
1 TAAATCCATAATCCC
35493027 TAAATC
1 TAAATC
35493033 TTAAAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 17 0.57
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:35493743 original size:113 final size:113
Alignment explanation
Indices: 35493541--35493755 Score: 369
Period size: 113 Copynumber: 1.9 Consensus size: 113
35493531 TAAAATATTT
** *
35493541 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTAACAAAACGGCGTCGTTGGGCT
35493606 TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
66 TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
*
35493654 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCAACAAAAGC-ACACAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTA-ACAAAACGGCGTCGTTGGGC
*
35493718 TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
65 TTAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAA
35493756 TGCTTATTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
112 1 0.01
113 95 0.99
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (113 bp):
TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTAACAAAACGGCGTCGTTGGGCT
TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
Found at i:35496736 original size:60 final size:59
Alignment explanation
Indices: 35496647--35496764 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 59
35496637 TGTTTTTTTA
*
35496647 TAATTATTTTAAAATAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
35496706 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAA-TAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
35496765 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 14 0.25
60 43 0.75
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (59 bp):
TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:35497050 original size:21 final size:21
Alignment explanation
Indices: 35497017--35497057 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35497007 GGGAACCAAT
*
35497017 AAAATAATATTTAA-AAAAAC
1 AAAAAAATATTTAATAAAAAC
35497037 AAAAAAATATTTTAATAAAAA
1 AAAAAAATA-TTTAATAAAAA
35497058 AAGTGGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAAATATTTAATAAAAAC
Found at i:35497990 original size:22 final size:22
Alignment explanation
Indices: 35497965--35498012 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
35497955 TTTATTCAGG
*
35497965 AATTTAGTCTTCATATATTTGA
1 AATTTAGTCTTCATACATTTGA
*
35497987 AATTTAGTCTTCGTACATTTGA
1 AATTTAGTCTTCATACATTTGA
35498009 AATT
1 AATT
35498013 ATAGAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
AATTTAGTCTTCATACATTTGA
Found at i:35503787 original size:60 final size:61
Alignment explanation
Indices: 35503715--35503868 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 61
35503705 CGAAAGTTTA
* * *
35503715 CCCTTCAAGAGTTTTACCACAAAGGCATT-TTTTACATCCAATACTCGCCACTAAGG-TTT
1 CCCTTCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
* * * * *
35503774 CCCTGTCTGGAGTTGTACCACAAAGGCATTCTTTAATATTCAATACTTGCCACCAAGGCTTT
1 CCCT-TCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
* * * *
35503836 CCCTTCTAGAGTTTTTCCATAGAGGCTTTCTTT
1 CCCTTCTAGAGTTTTACCACAAAGGCATTCTTT
35503869 TGACAGAGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.05
60 22 0.28
61 45 0.58
62 7 0.09
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (61 bp):
CCCTTCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
Found at i:35503848 original size:61 final size:59
Alignment explanation
Indices: 35503701--35503848 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 59
35503691 TAAAAGGTTT
* * * * *
35503701 GCCACGAAAGTTTACCCTTCAAGAGTTTTACCACAAAGGCATTTTTTACATCCAATACTC
1 GCCACCAAGGTTT-CCCTTCTAGAGTTGTACCACAAAGGCATTTTTAACATCCAATACTC
* * * * *
35503761 GCCACTAAGGTTTCCCTGTCTGGAGTTGTACCACAAAGGCATTCTTTAATATTCAATACTT
1 GCCACCAAGGTTTCCCT-TCTAGAGTTGTACCACAAAGGCATT-TTTAACATCCAATACTC
35503822 GCCACCAAGGCTTTCCCTTCTAGAGTT
1 GCCACCAAGG-TTTCCCTTCTAGAGTT
35503849 TTTCCATAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
59 4 0.05
60 33 0.45
61 30 0.41
62 7 0.09
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (59 bp):
GCCACCAAGGTTTCCCTTCTAGAGTTGTACCACAAAGGCATTTTTAACATCCAATACTC
Found at i:35507926 original size:31 final size:32
Alignment explanation
Indices: 35507890--35507954 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
35507880 CTTAGATAAT
35507890 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
35507921 TTTAAAGAGTTTTTGTTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
35507953 TT
1 TT
35507955 GTAATTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:35508309 original size:29 final size:27
Alignment explanation
Indices: 35508261--35508318 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
35508251 ATCCTTTTTA
35508261 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
35508290 TTTATTTATTCTCA-TT-TTATTTCTAAT
1 TTTATTTATT-T-ATTTATTATTTCTAAT
35508317 TT
1 TT
35508319 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 3 0.11
31 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:35508594 original size:46 final size:45
Alignment explanation
Indices: 35508474--35508594 Score: 215
Period size: 45 Copynumber: 2.7 Consensus size: 45
35508464 AATTAGTTAA
* *
35508474 TAAAAAAAAGCAAAAAGCGCAAAAAAAAAAAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
35508519 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
35508564 TAAAAAAAAAGCAAACAGCGCAAAAAAAAAG
1 T-AAAAAAAAGCAAACAGCGCAAAAAAAAAG
35508595 TTACCTACCT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 44 0.60
46 29 0.40
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (45 bp):
TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
Found at i:35514127 original size:31 final size:32
Alignment explanation
Indices: 35514091--35514155 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
35514081 ATTAGATAAT
35514091 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
35514122 TTTAAAGAGTTTTTATTAGGATTCAGTTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
35514154 TT
1 TT
35514156 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:35516908 original size:16 final size:18
Alignment explanation
Indices: 35516887--35516921 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
35516877 AGTTGACTAT
35516887 TTAAATTG-TAAA-AAAA
1 TTAAATTGATAAATAAAA
35516903 TTAAATTGATAAATAAAA
1 TTAAATTGATAAATAAAA
35516921 T
1 T
35516922 GCCAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAAATTGATAAATAAAA
Found at i:35520368 original size:7 final size:7
Alignment explanation
Indices: 35520358--35520383 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35520348 ACTAAACATA
35520358 AATAATT
1 AATAATT
35520365 AATAATT
1 AATAATT
35520372 AATAATT
1 AATAATT
35520379 AATAA
1 AATAA
35520384 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:35520827 original size:12 final size:11
Alignment explanation
Indices: 35520804--35520833 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
35520794 GACAAACGCG
35520804 ACCCGTTTTTT
1 ACCCGTTTTTT
35520815 ACCCGTATTTTT
1 ACCCGT-TTTTT
35520827 ACCCGTT
1 ACCCGTT
35520834 GACCGTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.13, C:0.30, G:0.10, T:0.47
Consensus pattern (11 bp):
ACCCGTTTTTT
Found at i:35528654 original size:23 final size:23
Alignment explanation
Indices: 35528606--35528647 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35528596 AACTTTTATA
35528606 TAAATTTTATTGTTGATTTTTTT
1 TAAATTTTATTGTTGATTTTTTT
35528629 TAAATTTTATT-TT-ATTTTT
1 TAAATTTTATTGTTGATTTTT
35528648 AGTTTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
TAAATTTTATTGTTGATTTTTTT
Found at i:35530847 original size:19 final size:19
Alignment explanation
Indices: 35530818--35530874 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
35530808 TGATAACGTT
35530818 TAACATAAAATTTAAAAGAA
1 TAAC-TAAAATTTAAAAGAA
35530838 TAACTAAAATTTTAAAAAGAA
1 TAACTAAAA-TTT-AAAAGAA
* * *
35530859 TGATTAAACTTTAAAA
1 TAACTAAAATTTAAAA
35530875 AGTTTAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 9 0.28
20 10 0.31
21 13 0.41
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
TAACTAAAATTTAAAAGAA
Found at i:35530857 original size:21 final size:20
Alignment explanation
Indices: 35530818--35530876 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
35530808 TGATAACGTT
35530818 TAACATAAAATTT-AAAAGAA
1 TAAC-TAAAATTTAAAAAGAA
35530838 TAACTAAAATTTTAAAAAGAA
1 TAACTAAAA-TTTAAAAAGAA
* * *
35530859 TGATTAAACTTTAAAAAG
1 TAACTAAAATTTAAAAAG
35530877 TTTAAATGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.15
20 16 0.47
21 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (20 bp):
TAACTAAAATTTAAAAAGAA
Found at i:35533863 original size:38 final size:38
Alignment explanation
Indices: 35533816--35533906 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
35533806 GCAAAAGTTG
* * * * *
35533816 AAAACCACAATTCACCCTAACGGTAGTGGGTCAGAACA
1 AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
** * *
35533854 AAAATCACAATTCACCCCAGTAGTAATGGGTTAAAACG
1 AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
35533892 AAAATCACAATTCAC
1 AAAATCACAATTCAC
35533907 TAGAAGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (38 bp):
AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
Found at i:35540932 original size:24 final size:24
Alignment explanation
Indices: 35540895--35540956 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
35540885 GGAAGCTCAT
*
35540895 AAAGAGC-CTATAACGAGTAGCTCT
1 AAAGAGCACT-TAACGAGTAGCTCC
* *
35540919 GAAGAGCACTTAACGGGTAGCTCC
1 AAAGAGCACTTAACGAGTAGCTCC
35540943 AAAGAGCACTTAAC
1 AAAGAGCACTTAAC
35540957 AGGAAGCACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (24 bp):
AAAGAGCACTTAACGAGTAGCTCC
Found at i:35547202 original size:24 final size:25
Alignment explanation
Indices: 35547175--35547222 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35547165 GGATGCTCCG
*
35547175 AAGAGCTAT-TAACAGGAAGCTCGC
1 AAGAACTATATAACAGGAAGCTCGC
*
35547199 AAGAACTATATAACGGGAAGCTCG
1 AAGAACTATATAACAGGAAGCTCG
35547223 AGAGGGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (25 bp):
AAGAACTATATAACAGGAAGCTCGC
Found at i:35548497 original size:29 final size:29
Alignment explanation
Indices: 35548448--35548522 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
35548438 AGGAAGAATG
*
35548448 TATATATGAAATATATA-AAAAAGGATAAA
1 TATATAT-ATATATATATAAAAAGGATAAA
* ** *
35548477 TATATATATATATATATAAAATGTTTCAA
1 TATATATATATATATATAAAAAGGATAAA
*
35548506 TATATAAATATATATAT
1 TATATATATATATATAT
35548523 GAGTATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (29 bp):
TATATATATATATATATAAAAAGGATAAA
Found at i:35548715 original size:3 final size:3
Alignment explanation
Indices: 35548707--35548786 Score: 79
Period size: 3 Copynumber: 26.7 Consensus size: 3
35548697 AAGCGAAAAC
* * * * * *
35548707 ATA ATA ATA ATA ACA ATA ATA TTA ATA CTA ATA CTA ATA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
35548755 AGG ATA ATA ATA ATA ATA GTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35548787 GAAGGTAATG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35548794 original size:18 final size:17
Alignment explanation
Indices: 35548741--35548795 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
35548731 ATACTAATAC
*
35548741 TAATAATAATAGTGAGG
1 TAATAATAATAATGAGG
35548758 ATAATAATAATAAT-A-G
1 -TAATAATAATAATGAGG
35548774 TAATAATAATAATGAAGG
1 TAATAATAATAATG-AGG
35548792 TAAT
1 TAAT
35548796 GTACGAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.39
16 1 0.03
17 2 0.06
18 17 0.52
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.31
Consensus pattern (17 bp):
TAATAATAATAATGAGG
Found at i:35549874 original size:18 final size:18
Alignment explanation
Indices: 35549851--35549887 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35549841 TTTGGGCTTC
35549851 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
35549869 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
35549887 G
1 G
35549888 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:35550728 original size:44 final size:44
Alignment explanation
Indices: 35550659--35550826 Score: 144
Period size: 44 Copynumber: 3.8 Consensus size: 44
35550649 GGAGGTGGAA
*
35550659 TTTG-TATCTTCAACTTGC-CTACTACAACTTCATGGGGATAAGG
1 TTTGATAT-TTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
* * * * *
35550702 TTTGCTATTTTAACCTGCTCTACTACAACTTCA-GAGAGACAAAG
1 TTTGATATTTCAACCTGCTCTACTACAACTTCATG-GGGATAAGG
* * * * *
35550746 TTTGAAATGATCTTCAACTTGCCCCATTGCAACTTCATGGGGATAAGG
1 TTTG--AT-AT-TTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
* *
35550794 CTTGTTATTTCAACCTGCTCTACTACAACTTCA
1 TTTGATATTTCAACCTGCTCTACTACAACTTCA
35550827 GAGAGACAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
43 13 0.14
44 47 0.49
45 2 0.02
46 2 0.02
47 2 0.02
48 28 0.29
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (44 bp):
TTTGATATTTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
Found at i:35550790 original size:92 final size:91
Alignment explanation
Indices: 35550664--35550850 Score: 311
Period size: 92 Copynumber: 2.0 Consensus size: 91
35550654 TGGAATTTGT
* * *
35550664 ATCTTCAACTTGCCTACTACAACTTCATGGGGATAAGGTTTGCTATTTTAACCTGCTCTACTACA
1 ATCTTCAACTTGCCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTACA
35550729 ACTTCAGAGAGACAAAGTTTGAAATG
66 ACTTCAGAGAGACAAAGTTTGAAATG
* * *
35550755 ATCTTCAACTTGCCCCATTGCAACTTCATGGGGATAAGGCTTGTTATTTCAACCTGCTCTACTAC
1 ATCTTCAACTTG-CCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTAC
35550820 AACTTCAGAGAGACAAAGTTTGAAATG
65 AACTTCAGAGAGACAAAGTTTGAAATG
35550847 ATCT
1 ATCT
35550851 GCTCTACTGC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 12 0.13
92 77 0.87
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (91 bp):
ATCTTCAACTTGCCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTACA
ACTTCAGAGAGACAAAGTTTGAAATG
Found at i:35551267 original size:46 final size:46
Alignment explanation
Indices: 35551193--35551527 Score: 530
Period size: 46 Copynumber: 7.3 Consensus size: 46
35551183 GGGTGACAGA
*
35551193 ATCTGCAATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
* * * *
35551239 ATCTACTATCTTTGATCTGCTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
* ** *
35551285 ATCTACTATCTTCGATCTACTTCATTGCCAAAGACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
35551331 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
35551377 ATCTGCTATCTTCGATCTAC-TCTGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-GCTGCCAAATACAGGAAGACAAG
* *
35551423 ATCTG-TAATCTTCGACCTACTTCGCTGCCAAATACAAGAAGACAAG
1 ATCTGCT-ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
*
35551469 ATCTGCAATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
35551515 ATCTGCTATCTTC
1 ATCTGCTATCTTC
35551528 AACCAGCTCT
Statistics
Matches: 264, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 3 0.01
46 259 0.98
47 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
Found at i:35551710 original size:176 final size:174
Alignment explanation
Indices: 35551477--35552213 Score: 814
Period size: 174 Copynumber: 4.2 Consensus size: 174
35551467 AGATCTGCAA
* * ** * * *
35551477 TCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * *
35551542 TAACCCAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCGAGATCT
65 CAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCT
*
35551607 GTTGTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAAG-TTTGT
130 GCTGTCTTCAACCAGCTCCACTACAACCG--AGAGGCAAAGATTTGT
* * *
35551653 ATCTTCAATCTGCTTCGCTGTCAAGGCAAGAAGACAAGATCTGTTGTCTTCAACCAGCTGCACTA
1 -TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * *
35551718 TAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTTGCTGTCAAGGCAGGAAGGCAAGATCT
65 CAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCT
*
35551783 GTTGTCTTCAACCAGCTCCACTACAACCGAGAGGC-AAGATTTGT
130 GCTGTCTTCAACCAGCTCCACTACAACCGAGAGGCAAAGATTTGT
* * * *
35551827 GTCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTG
1 -TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * * *
35551892 CAACCGATG-GAGGCAATGTTT-TGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATC
65 CAACC-AAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATC
* * * * * *
35551955 TGCT-TCTTTAACCAGCTCCACTGCAACCGGTGGAGGTAAGGCTTTGT
129 TGCTGTCTTCAACCAGCTCCACTACAACC-G-AGAGGCAAAGATTTGT
* * * *
35552002 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTT-T-TTTAACCAGCTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTG-TTGTCTTCAACCAGCTCCACTA
* *
35552064 CAACCAATAGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATC
65 CAACCAAGAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATC
* ** * * * *
35552127 TGCTATCTTTGACCTGCTCCACTACAACCGGTGGAGG-AAAGGCTCATG-
129 TGCTGTCTTCAACCAGCTCCACTACAACC-G-AGAGGCAAA-GAT-TTGT
* *
35552175 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGAT
35552214 GTGTAATCTT
Statistics
Matches: 491, Mismatches: 56, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
171 1 0.00
172 94 0.19
173 117 0.24
174 126 0.26
175 9 0.02
176 126 0.26
177 18 0.04
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (174 bp):
TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTAC
AACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTG
CTGTCTTCAACCAGCTCCACTACAACCGAGAGGCAAAGATTTGT
Found at i:35551858 original size:86 final size:87
Alignment explanation
Indices: 35551477--35552213 Score: 801
Period size: 88 Copynumber: 8.4 Consensus size: 87
35551467 AGATCTGCAA
* * ** * * * *
35551477 TCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTA
*
35551542 TAACCCAGAGAGGCAAGGTTTGTG
65 CAA-CCAGAGAGGCAAGGTTTGTG
*
35551566 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCGAGATCTGTTGTCTTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * *
35551631 AACCGAAAGAGGCAAAGTTTGTA
66 AACC-AGAGAGGCAAGGTTTGTG
* * * * *
35551654 TCTTCAATCTGCTTCGCTGTCAAGGCAAGAAGACAAGATCTGTTGTCTTCAACCAGCTGCACTAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
35551719 AACCAAGAGAGGCAAGGTTTGTG
66 AACC-AGAGAGGCAAGGTTTGTG
* *
35551742 TCTTCGATCTACTTTGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
*
35551807 AACC-GAGAGGCAAGATTTGTG
66 AACCAGAGAGGCAAGGTTTGTG
* * *
35551828 TCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
*
35551893 AACC-GATGGAGGCAATGTTT-TG
66 AACCAGA--GAGGCAAGGTTTGTG
* * * * * * *
35551915 TTTTCGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * *
35551979 AACCGGTGGAGGTAAGGCTTTGT-
66 AACCAG-AGAGGCAAGG-TTTGTG
* * * * *
35552002 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTT-T-TTTAACCAGCTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTG-TTGTCTTCAACCAGCTCCACTA
*
35552064 CAACCAATAGAGGCAAGGCTTTGT-
65 CAACC-AGAGAGGCAAGG-TTTGTG
* * * * ** *
35552088 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * * * **
35552152 AACCGGTGGAGGAAAGGCTCATG
66 AACCAG-AGAGGCAAGGTTTGTG
*
35552175 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGAT
35552214 GTGTAATCTT
Statistics
Matches: 564, Mismatches: 70, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
85 1 0.00
86 229 0.41
87 76 0.13
88 239 0.42
89 19 0.03
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
AACCAGAGAGGCAAGGTTTGTG
Found at i:35551906 original size:44 final size:43
Alignment explanation
Indices: 35551772--35551907 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 43
35551762 CAAGGCAGGA
*
35551772 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA--G
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTGCAACCGATGG
* * * * * * *
35551814 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTCAA--GGTAGG
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACTG-CAACCGAT-GG
35551857 AAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGT-GTCTTCAACCAGCTCCACTGCAACCGATGG
35551902 AGGCAA
1 AGGCAA
35551908 TGTTTTGTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 15 0.21
42 14 0.20
43 1 0.01
44 21 0.30
45 17 0.24
46 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (43 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTCCACTGCAACCGATGG
Found at i:35552122 original size:43 final size:43
Alignment explanation
Indices: 35551992--35552123 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
35551982 CGGTGGAGGT
*
35551992 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGAC
1 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * * * * * * **
35552035 AAGATCTGCTT-TTTT-AACCAGCTCCACTG-CAAC-CAATAGAGGC
1 AAG-GCT--TTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA-AGGC
35552078 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
35552121 AAG
1 AAG
35552124 ATCTGCTATC
Statistics
Matches: 62, Mismatches: 19, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
40 2 0.03
41 4 0.06
42 14 0.23
43 22 0.35
44 14 0.23
45 4 0.06
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (43 bp):
AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
Found at i:35553237 original size:102 final size:104
Alignment explanation
Indices: 35552993--35553312 Score: 482
Period size: 102 Copynumber: 3.0 Consensus size: 104
35552983 AAAATGCTTC
* * * *
35552993 AAAAAGATTATCAAAATGGACAAGATGAAATTTTATTGAGAACAATGCTCAAAATGAATAAATCA
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTC-AAA-GAATAAATTA
* * *
35553058 ATCAAGATAGCAAATCTTGCTAAGATACGAACTGGATAAGATG
64 ATCAAGATAGCAAATTTTGCTAAGATAAG-A-TGAATAAGATG
*
35553101 AAAAAGATTATCACAATGGATAAGATGAAGTTTTATTGAGAACAAGGCTC-AA-AATAAATTAAT
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAGAATAAATTAAT
35553164 CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
66 CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
*
35553203 AAAAAGATTATCACAATAGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAATGAATAAATTA
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTC-AAA-GAATAAATTA
*
35553268 ATCAAGATAGCAAATTTTGTTAAGATAAGATGAATAAGATG
64 ATCAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
35553309 AAAA
1 AAAA
35553313 TAGGTGCCCC
Statistics
Matches: 197, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
102 58 0.29
103 1 0.01
104 37 0.19
106 55 0.28
108 46 0.23
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (104 bp):
AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAGAATAAATTAAT
CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
Found at i:35553594 original size:5 final size:5
Alignment explanation
Indices: 35553584--35553676 Score: 99
Period size: 5 Copynumber: 19.0 Consensus size: 5
35553574 CTCCTTTTTC
*
35553584 TTCTT TTCTT TTCTT TT-TT CTTCTT TTCTT TTCTT TT-TT CTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
35553633 TT-TT CTT-TT TT-TT TTCTT TTCTT TT-TT TTCTTTT TTCTT TTCTT
1 TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTC--TT TTCTT TTCTT
35553677 CTTTTTGTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
4 17 0.22
5 54 0.69
6 2 0.03
7 5 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:35553601 original size:20 final size:20
Alignment explanation
Indices: 35553578--35553681 Score: 137
Period size: 20 Copynumber: 5.2 Consensus size: 20
35553568 TGGCCTCTCC
35553578 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTTCTTTTCT
35553598 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTTCTTTTCT
35553618 TTTTTC-TCTTTTCTTTT-T
1 TTTTTCTTCTTTTCTTTTCT
35553636 TCTTTT-TT-TTTTCTTTTCT
1 T-TTTTCTTCTTTTCTTTTCT
35553655 TTTTT-TTCTTTTTTCTTTTCT
1 TTTTTCTTC--TTTTCTTTTCT
35553676 TCTTTT
1 T-TTTT
35553682 TGTTTGTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
18 17 0.22
19 18 0.23
20 26 0.34
21 12 0.16
22 4 0.05
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTCTTTTCTTTTCT
Found at i:35553692 original size:46 final size:43
Alignment explanation
Indices: 35553592--35553693 Score: 102
Period size: 45 Copynumber: 2.3 Consensus size: 43
35553582 TCTTCTTTTC
35553592 TTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTCTCTTTTCTT-TTTT
1 TTTTCTTTTTTCTTCTTTTCTTTTC-TTTTT-T-TTTTCTTCTTTT
35553637 CTTTT-TTTTTTCTTTTCTTTT-TTTTCTTTTTTCTTTTCTTCTTTT
1 -TTTTCTTTTTTC--TTCTTTTCTTTTCTTTTTT-TTTTCTTCTTTT
*
35553682 TGTTTGTTTTTT
1 T-TTTCTTTTTT
35553694 TATTTGAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
44 10 0.20
45 19 0.37
46 15 0.29
47 7 0.14
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (43 bp):
TTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTTTTTCTTCTTTT
Found at i:35553694 original size:21 final size:19
Alignment explanation
Indices: 35553578--35553673 Score: 86
Period size: 21 Copynumber: 4.7 Consensus size: 19
35553568 TGGCCTCTCC
*
35553578 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTT-TTTTTT
35553598 TTTTTCTTCTTTTCTTTTCTT
1 TTTTTCTTCTTTT-TTTT-TT
35553619 TTTTCTCTT-TTCTTTTTTCTT
1 TTTT-TCTTCTT-TTTTTT-TT
*
35553640 TTTTTTTTCTTTTCTTTTTT
1 TTTTTCTTCTTTT-TTTTTT
*
35553660 TTCTTTTTTCTTTT
1 TT-TTTCTTCTTTT
35553674 CTTCTTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 11
0.84 0.02 0.14
Matches are distributed among these distances:
20 27 0.40
21 35 0.51
22 6 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTTT
Found at i:35553709 original size:1 final size:1
Alignment explanation
Indices: 35553587--35553694 Score: 54
Period size: 1 Copynumber: 108.0 Consensus size: 1
35553577 CTTTTTCTTC
* * * * * * * * * * *
35553587 TTTTCTTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTCTCTTTTCTTTTTTCTTTTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
35553652 TCTTTTTTTTCTTTTTTCTTTTCTTCTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35553695 ATTTGAACAT
Statistics
Matches: 71, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (1 bp):
T
Found at i:35553814 original size:18 final size:18
Alignment explanation
Indices: 35553791--35553827 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35553781 ATAAAGCCTC
35553791 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
35553809 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
35553827 G
1 G
35553828 TAGGGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:35555553 original size:4 final size:4
Alignment explanation
Indices: 35555544--35555568 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35555534 AATAAACTAA
35555544 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
35555569 TAAAATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:35556727 original size:12 final size:12
Alignment explanation
Indices: 35556710--35556734 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35556700 TTTCTATTCT
35556710 TTGTGGAAAACA
1 TTGTGGAAAACA
35556722 TTGTGGAAAACA
1 TTGTGGAAAACA
35556734 T
1 T
35556735 GAGACATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TTGTGGAAAACA
Found at i:35557131 original size:18 final size:18
Alignment explanation
Indices: 35557096--35557131 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35557086 TATGTTTTAC
*
35557096 TTATATATTATATTATTT
1 TTATATATTATATAATTT
*
35557114 TTATATATTATGTAATTT
1 TTATATATTATATAATTT
35557132 ATTTCACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATATATTATATAATTT
Found at i:35557945 original size:62 final size:62
Alignment explanation
Indices: 35557848--35557971 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
35557838 AACACACATG
35557848 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
* *
35557910 TTTTCCTCTATTGTTGGAATATAGTTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
35557972 GGACATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (62 bp):
TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
Found at i:35559310 original size:21 final size:19
Alignment explanation
Indices: 35559284--35559326 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35559274 ATTTTTTAAA
35559284 ATTTTAAAAAATTTAAAAAAT
1 ATTTT-AAAAA-TTAAAAAAT
* *
35559305 ATTTTATAAATTAAAAATT
1 ATTTTAAAAATTAAAAAAT
35559324 ATT
1 ATT
35559327 AAAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAAAAATTAAAAAAT
Found at i:35559336 original size:19 final size:18
Alignment explanation
Indices: 35559314--35559349 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
35559304 TATTTTATAA
*
35559314 ATTAAAAATTATTAAAATT
1 ATTAAAAAGTA-TAAAATT
35559333 ATTAAAAAGTATAAAAT
1 ATTAAAAAGTATAAAAT
35559350 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTAAAAAGTATAAAATT
Found at i:35560379 original size:27 final size:27
Alignment explanation
Indices: 35560344--35560407 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
35560334 GTCTTTAACA
*
35560344 TTTAT-TTTATAATTAA-TTATT-ATT
1 TTTATATTTATAATAAAGTTATTAATT
35560368 TAATTATATTTA-AATAAAGTTATTAATT
1 T--TTATATTTATAATAAAGTTATTAATT
35560396 TTT-TATTTATAA
1 TTTATATTTATAA
35560408 GTCGTCCACT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 1 0.03
25 6 0.18
26 13 0.39
27 9 0.27
28 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTATATTTATAATAAAGTTATTAATT
Found at i:35561951 original size:21 final size:22
Alignment explanation
Indices: 35561922--35561967 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
35561912 AAATTTAATT
35561922 TTTATA-TTTTTAATTTTAAGAA
1 TTTATATTTTTTAATTTTAA-AA
*
35561944 TTTA-ATTTTTTATTTTTAAAA
1 TTTATATTTTTTAATTTTAAAA
35561965 TTT
1 TTT
35561968 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATATTTTTTAATTTTAAAA
Found at i:35561960 original size:29 final size:29
Alignment explanation
Indices: 35561912--35561994 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
35561902 GAGAGATTGG
*
35561912 AAATTTAATTTTTATATTTT-TAATTTTA
1 AAATTTAATTTTTATATTTTAAAATTTTA
35561940 AGAATTTAATTTTT-TATTTTTAAAATTTTA
1 A-AATTTAATTTTTATA-TTTTAAAATTTTA
* * *
35561970 AAATTT-ATGTTAAAATTTTAAAATT
1 AAATTTAATTTTTATATTTTAAAATT
35561995 ATTTTATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 17 0.36
29 22 0.47
30 8 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
AAATTTAATTTTTATATTTTAAAATTTTA
Found at i:35569639 original size:18 final size:18
Alignment explanation
Indices: 35569616--35569652 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
35569606 ATCAAATAAC
35569616 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
35569634 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
35569652 T
1 T
35569653 GAAATATTTA
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:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (18 bp):
TCATTCTTGATATAATTT
Found at i:35573393 original size:22 final size:22
Alignment explanation
Indices: 35573367--35573420 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
35573357 AACAAGAAAC
* **
35573367 AAAAGACAGAAGAACGAAGAAG
1 AAAAGAAAGAAGAAAAAAGAAG
35573389 AAAAGAAAGAAGAAAAAAGAAG
1 AAAAGAAAGAAGAAAAAAGAAG
35573411 AAAAGCAAAG
1 AAAAG-AAAG
35573421 TGCCAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.70, C:0.06, G:0.24, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAGAAAAAAGAAG
Found at i:35573400 original size:15 final size:14
Alignment explanation
Indices: 35573376--35573409 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
35573366 CAAAAGACAG
*
35573376 AAGAACGAAGAAGAA
1 AAGAAAGAAGAA-AA
35573391 AAGAAAGAAGAAAA
1 AAGAAAGAAGAAAA
35573405 AAGAA
1 AAGAA
35573410 GAAAAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAGAAAA
Found at i:35581029 original size:40 final size:39
Alignment explanation
Indices: 35580931--35581153 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
35580921 TCCTCGTTCA
* * *** * *
35580931 AATGCCTTCGGGACATAGCCCGGATTTGGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
35580970 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
35581009 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
35581049 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
35581089 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
35581130 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35581154 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.25
40 108 0.70
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:35581032 original size:79 final size:80
Alignment explanation
Indices: 35580931--35581077 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
35580921 TCCTCGTTCA
* ***
35580931 AATGCCTTCGGGACATAGCCCGGATTTGGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
35580995 TTAACAATTCGCACG
66 TTAACAATTCGCACG
* * *
35581010 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
35581075 TTA
66 TTA
35581078 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAATTCGCACG
Found at i:35581087 original size:80 final size:79
Alignment explanation
Indices: 35580929--35581153 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
35580919 GCTCCTCGTT
* * *** * *
35580929 CAAATGCCTTCGGGACATAGCCCGGATTTGGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
35580994 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
35581008 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
35581073 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
35581088 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
35581151 GGA
63 GGA
35581154 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 40 0.33
80 77 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:35581153 original size:120 final size:119
Alignment explanation
Indices: 35580931--35581153 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 119
35580921 TCCTCGTTCA
* * * *
35580931 AATGCCTTCGGGACATAGCCCGGATTTGGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
35580996 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
35581050 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
35581114 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
35581154 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:35585114 original size:13 final size:13
Alignment explanation
Indices: 35585096--35585135 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
35585086 AGGGTTTTGA
35585096 AGAGAGAAACGTG
1 AGAGAGAAACGTG
35585109 AGAGAGAAACGTG
1 AGAGAGAAACGTG
35585122 AGAGAGAAACGTG
1 AGAGAGAAACGTG
35585135 A
1 A
35585136 AGAATGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.38, T:0.07
Consensus pattern (13 bp):
AGAGAGAAACGTG
Found at i:35592474 original size:32 final size:30
Alignment explanation
Indices: 35592433--35592527 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 30
35592423 CGGCCCGTTT
**
35592433 TTAAAATAAATACCAAAAATTTATTTTAAAAA
1 TTAAAATAAATA--AAAAAAGTATTTTAAAAA
* *
35592465 TTAAAATAAAAATTAAAAAAGTATTTTAAAAT
1 TTAAAAT--AAATAAAAAAAGTATTTTAAAAA
*
35592497 TTAAAA-AATTAAAAAAAGTATTTTAAAAA
1 TTAAAATAAATAAAAAAAGTATTTTAAAAA
35592526 TT
1 TT
35592528 TTAAAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 22 0.41
32 28 0.52
34 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
TTAAAATAAATAAAAAAAGTATTTTAAAAA
Found at i:35592483 original size:20 final size:20
Alignment explanation
Indices: 35592460--35592510 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35592450 AATTTATTTT
35592460 AAAAATTAAAATAAAAATTA
1 AAAAATTAAAATAAAAATTA
* *** *
35592480 AAAAAGTATTTTAAAATTTA
1 AAAAATTAAAATAAAAATTA
35592500 AAAAATTAAAA
1 AAAAATTAAAA
35592511 AAAGTATTTT
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAATAAAAATTA
Found at i:35592514 original size:29 final size:29
Alignment explanation
Indices: 35592471--35592542 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
35592461 AAAATTAAAA
35592471 TAAAAATT-AAAAAAGTATTTT-AAAATT
1 TAAAAATTAAAAAAAGTATTTTAAAAATT
35592498 TAAAAAATTAAAAAAAGTATTTTAAAAATT
1 T-AAAAATTAAAAAAAGTATTTTAAAAATT
*
35592528 TTAAAATTAAAAAAA
1 TAAAAATTAAAAAAA
35592543 ATTAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 1 0.02
28 7 0.17
29 26 0.63
30 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAAATTAAAAAAAGTATTTTAAAAATT
Found at i:35592594 original size:41 final size:41
Alignment explanation
Indices: 35592481--35592594 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 41
35592471 TAAAAATTAA
** *
35592481 AAAAGTATTTTAAAATTTAAAAAATTAAAAAA-AGTATTTT
1 AAAAGTATTTTAAAATAAAAAAAATAAAAAAATAGTATTTT
35592521 AAAA--ATTTTAAAATTAAAAAAAATTAAAAAAATAGTATTTT
1 AAAAGTATTTTAAAA-TAAAAAAAA-TAAAAAAATAGTATTTT
35592562 AAAAGTATTTTAAAATAAAAAAAATAAAAAAAT
1 AAAAGTATTTTAAAATAAAAAAAATAAAAAAAT
35592595 TTATTATTCG
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
38 9 0.14
39 7 0.11
40 11 0.17
41 21 0.32
42 9 0.14
43 9 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (41 bp):
AAAAGTATTTTAAAATAAAAAAAATAAAAAAATAGTATTTT
Found at i:35599643 original size:22 final size:22
Alignment explanation
Indices: 35599617--35599666 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
35599607 ACCGAAATTT
*
35599617 CATGAATTTGAGTTTAAAAGGG
1 CATGAATTTGAGTTAAAAAGGG
*
35599639 CATGAATTTGAGTTAAAAATGG
1 CATGAATTTGAGTTAAAAAGGG
35599661 CATGAA
1 CATGAA
35599667 AAAGTCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (22 bp):
CATGAATTTGAGTTAAAAAGGG
Found at i:35606020 original size:10 final size:10
Alignment explanation
Indices: 35605997--35606044 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
35605987 GAATCTATTG
* *
35605997 AAAATAAATA
1 AAAATTAATT
35606007 AAAATTAATT
1 AAAATTAATT
*
35606017 AAAATTTATTAT
1 AAAA-TTAAT-T
35606029 AAAATTAATT
1 AAAATTAATT
35606039 AAAATT
1 AAAATT
35606045 CAACATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 19 0.59
11 8 0.25
12 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:35614900 original size:18 final size:19
Alignment explanation
Indices: 35614874--35614910 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
35614864 AATTTTGGAA
35614874 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
35614892 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
35614911 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:35623866 original size:32 final size:32
Alignment explanation
Indices: 35623830--35623890 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
35623820 CGTTTTTGCA
* *
35623830 CACAAACGCTGCTAAAGAACATGATCTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTTAT
*
35623862 CACAAATGCCGCTAAAGAACATGACCTTT
1 CACAAACGCCGCTAAAGAACATGACCTTT
35623891 AGCAACGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
CACAAACGCCGCTAAAGAACATGACCTTTTAT
Found at i:35623962 original size:43 final size:43
Alignment explanation
Indices: 35623855--35624005 Score: 187
Period size: 43 Copynumber: 3.5 Consensus size: 43
35623845 AGAACATGAT
* * **
35623855 CTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAACG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
* * ** * *
35623898 CTTTT-TCACAAATGTCGCTAAAGGTCATGTTCTTTAGCGGTG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
* *
35623940 CTTTTAACACAAACGCCGCTAAAGAACATAATCTTTAGCGGCG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
35623983 CTTTTATCACAAACGCCGCTAAA
1 CTTTTATCACAAACGCCGCTAAA
35624006 AGTACCGTTC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 34 0.38
43 56 0.62
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
Found at i:35624018 original size:43 final size:43
Alignment explanation
Indices: 35623855--35624025 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
35623845 AGAACATGAT
* * * ** **
35623855 CTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAACG
1 CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
* * * *
35623898 CTTTT-TCACAAATGTCGCTAAAGGT-CATGTTCTTTAGCGGTG
1 CTTTTATCACAAACGCCGCTAAA-GTACACGTTCTTTAGCGGCG
* * ***
35623940 CTTTTAACACAAACGCCGCTAAAGAACATAATCTTTAGCGGCG
1 CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
*
35623983 CTTTTATCACAAACGCCGCTAAAAGTAC-CGTTCTTTGGCGGCG
1 CTTTTATCACAAACGCCGCT-AAAGTACACGTTCTTTAGCGGCG
35624026 TTTATGAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 34 0.33
43 64 0.62
44 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
Found at i:35624093 original size:16 final size:16
Alignment explanation
Indices: 35624074--35624107 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35624064 AAATATTAAA
*
35624074 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
35624090 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
35624106 TA
1 TA
35624108 ATATGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:35625384 original size:22 final size:22
Alignment explanation
Indices: 35625354--35625396 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35625344 ACACCAAAAC
*
35625354 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
35625376 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35625397 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:35625698 original size:87 final size:85
Alignment explanation
Indices: 35625578--35625847 Score: 260
Period size: 87 Copynumber: 3.1 Consensus size: 85
35625568 TTAGTGGAAG
* * * * * *
35625578 CGCCGCTAAAGACCCTGATCTTTAGCGGTGCTTTCTCCTAAAACGGCGCAATAGACCCTGATCTA
1 CGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCTAAAACGCCGCAA-AGACCCTAATCTT
*
35625643 TAGGGGCGCTTCGACCACAAAA
65 TAGCGGCGCTTCGACCA-AAAA
* ** * *
35625665 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTGACCATAAAACGCCACTAAAGAACCTAATCT
1 CGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTCTCC-TAAAACGCCGC-AAAGACCCTAATCT
*
35625730 TTAGCGGCGCTTTC-CCCAAAAA
64 TTAGCGGCGC-TTCGACCAAAAA
* * * *
35625752 CGCCGCTAAAG-ACCATGATCTTTAGTC-GCGCTTTTTCC-ACAAACGCCGTTAAAGACCCTTAT
1 CGCCACTAAAGAACC-TGATCTTTAG-CGGCGCTTTCTCCTA-AAACGCCG-CAAAGACCCTAAT
*
35625814 CTTTAGCGGCGCTTTGACCAAAAA
62 CTTTAGCGGCGCTTCGACCAAAAA
*
35625838 TGCCACTAAA
1 CGCCACTAAA
35625848 TTTGGCAGAT
Statistics
Matches: 150, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.02
86 47 0.31
87 64 0.43
88 31 0.21
89 5 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
CGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCTAAAACGCCGCAAAGACCCTAATCTTT
AGCGGCGCTTCGACCAAAAA
Found at i:35625773 original size:43 final size:43
Alignment explanation
Indices: 35625578--35625847 Score: 267
Period size: 43 Copynumber: 6.2 Consensus size: 43
35625568 TTAGTGGAAG
* * *
35625578 CGCCGCTAAAGACCCTGATCTTTAGCGGTGCTTTCTCCTAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* * *
35625621 CGGCGC-AATAGACCCTGATCTATAGGGGCGC-TTCGACCACAAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTC-ACCA-AAAA
* * * *
35625665 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTGACCATAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCA-AAAA
* * * *
35625709 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* ** *
35625752 CGCCGCTAAAGACCATGATCTTTAGTC-GCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAG-CGGCGCTTTCACCAAAAA
* * *
35625795 CGCCGTTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* *
35625838 TGCCACTAAA
1 CGCCGCTAAA
35625848 TTTGGCAGAT
Statistics
Matches: 188, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
42 6 0.03
43 106 0.56
44 72 0.38
45 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
Found at i:35626175 original size:21 final size:21
Alignment explanation
Indices: 35626149--35626227 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
35626139 TTTTGACCTG
35626149 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
35626170 CTCTGCTTTCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
35626191 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
35626212 CTCTGCTTCCCTCGCT
1 CTCTGCTTCCCTCGCT
35626228 ACAACCTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:35626241 original size:21 final size:21
Alignment explanation
Indices: 35626149--35626241 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 21
35626139 TTTTGACCTG
* ** *
35626149 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTACAAC
* * ** *
35626170 CTCTGCTTTCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTACAAC
* * *
35626191 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTACAAC
*
35626212 CTCTGCTTCCCTCGCTACAAC
1 CTCTACTTCCCTCGCTACAAC
*
35626233 CTGTACTTC
1 CTCTACTTC
35626242 TCTAGCTGCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTACAAC
Found at i:35626250 original size:42 final size:42
Alignment explanation
Indices: 35626149--35626262 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
35626139 TTTTGACCTG
* * * * ** *
35626149 CTCTGCTTCCCTCGCTGTAGCCTCTGCTTTCCTCGCTGTAGC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
* *
35626191 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGCTACAAC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
* * * *
35626233 CTGTACTTCTCTAGCTGCCGCCTCTACTTC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTC
35626263 TCTTACTACC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.33
Consensus pattern (42 bp):
CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
Found at i:35626349 original size:66 final size:66
Alignment explanation
Indices: 35626274--35626399 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
35626264 CTTACTACCG
35626274 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTG
1 CATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGCTG
35626337 CTA
64 CTA
* * *
35626340 CATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCG
1 CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCG
35626400 ATGTTGCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.91
67 4 0.07
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGCTGCT
A
Found at i:35626415 original size:66 final size:66
Alignment explanation
Indices: 35626274--35626422 Score: 185
Period size: 66 Copynumber: 2.3 Consensus size: 66
35626264 CTTACTACCG
* * *
35626274 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGC
35626338 TA
65 TA
* * * *
35626340 CATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGC
*
35626404 TG
65 TA
*
35626406 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
35626423 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
A
Found at i:35627139 original size:74 final size:74
Alignment explanation
Indices: 35627018--35627166 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
35627008 CTGCCAATAT
35627018 TAAAAAATTGAAAATACCTCTGCATGAGCTACACACGCAAAACTTTTCGACCCAGCTATGTGAGT
1 TAAAAAATTGAAAATACCTCTGCATGAGCTACACACGCAAAACTTTTCGACCCAGCTATGTGAGT
35627083 GAACTTTTG
66 GAACTTTTG
*
35627092 TAAAAAATTGAAAATACCTCTGCATGAGCTACACACGCAAAACTTTTCGACCCAGCTGTGTGAGT
1 TAAAAAATTGAAAATACCTCTGCATGAGCTACACACGCAAAACTTTTCGACCCAGCTATGTGAGT
*
35627157 GAATTTTTG
66 GAACTTTTG
35627166 T
1 T
35627167 TGCTGCCTAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
TAAAAAATTGAAAATACCTCTGCATGAGCTACACACGCAAAACTTTTCGACCCAGCTATGTGAGT
GAACTTTTG
Found at i:35631921 original size:9 final size:9
Alignment explanation
Indices: 35631907--35632018 Score: 105
Period size: 9 Copynumber: 13.3 Consensus size: 9
35631897 TAAGGGATAT
35631907 TTATGTAAG
1 TTATGTAAG
35631916 TTATGT-A-
1 TTATGTAAG
* *
35631923 TTAAGTAAA
1 TTATGTAAG
35631932 TTATGTAAG
1 TTATGTAAG
35631941 TTATGT-A-
1 TTATGTAAG
*
35631948 TTATCTAAG
1 TTATGTAAG
35631957 TTATGTAAG
1 TTATGTAAG
35631966 TTATGT-A-
1 TTATGTAAG
* *
35631973 TTAAGTAGG
1 TTATGTAAG
*
35631982 TTATGTAAT
1 TTATGTAAG
*
35631991 TTATGT--C
1 TTATGTAAG
35631998 TTATGTAAG
1 TTATGTAAG
35632007 TTATGTAAG
1 TTATGTAAG
35632016 TTA
1 TTA
35632019 CTATTTAGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
7 21 0.25
8 5 0.06
9 57 0.69
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35631935 original size:25 final size:25
Alignment explanation
Indices: 35631907--35632018 Score: 161
Period size: 25 Copynumber: 4.5 Consensus size: 25
35631897 TAAGGGATAT
*
35631907 TTATGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTAAGTAAG
**
35631932 TTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
*
35631957 TTATGTAAGTTATGTATTAAGTAGG
1 TTATGTAAGTTATGTATTAAGTAAG
* * *
35631982 TTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
35632007 TTATGTAAGTTA
1 TTATGTAAGTTA
35632019 CTATTTAGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTAAGTAAG
Found at i:35631950 original size:16 final size:16
Alignment explanation
Indices: 35631931--35632013 Score: 80
Period size: 16 Copynumber: 5.1 Consensus size: 16
35631921 TATTAAGTAA
35631931 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
35631947 ATTATCTAAGTTATGT
1 ATTATGTAAGTTATGT
*
35631963 AAGTTATGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
*
35631979 AGGTTATGTAATTTATGT
1 A--TTATGTAAGTTATGT
*
35631997 CTTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
35632013 A
1 A
35632014 AGTTACTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.02
16 41 0.75
17 3 0.05
18 10 0.18
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:35631962 original size:50 final size:50
Alignment explanation
Indices: 35631907--35632018 Score: 179
Period size: 50 Copynumber: 2.2 Consensus size: 50
35631897 TAAGGGATAT
35631907 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
** * * *
35631957 TTATGTAAGTTATGTATTAAGTAGGTTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
35632007 TTATGTAAGTTA
1 TTATGTAAGTTA
35632019 CTATTTAGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (50 bp):
TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
Found at i:35632047 original size:34 final size:34
Alignment explanation
Indices: 35632007--35632071 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
35631997 CTTATGTAAG
35632007 TTATGTAAGTTACTATTTAGGTTATTATGTATTA
1 TTATGTAAGTTACTATTTAGGTTATTATGTATTA
35632041 TTATGTAAGTTACTATTTAGGTTATTATGTA
1 TTATGTAAGTTACTATTTAGGTTATTATGTA
35632072 AGTCATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.52
Consensus pattern (34 bp):
TTATGTAAGTTACTATTTAGGTTATTATGTATTA
Found at i:35632079 original size:12 final size:12
Alignment explanation
Indices: 35631907--35632100 Score: 87
Period size: 12 Copynumber: 15.9 Consensus size: 12
35631897 TAAGGGATAT
35631907 TTATGTAAGTTA
1 TTATGTAAGTTA
*
35631919 TGTAT-TAAGTAAA
1 T-TATGTAAGT-TA
35631932 TTATGTAAGTTA
1 TTATGTAAGTTA
** *
35631944 TGTAT-TATCTAA
1 T-TATGTAAGTTA
35631956 GTTATGTAAGTTA
1 -TTATGTAAGTTA
35631969 TGTAT-TAAG-TA
1 T-TATGTAAGTTA
*
35631980 GGTTATGTAATTTA
1 --TTATGTAAGTTA
* * *
35631994 TGTCT-TATGTAA
1 T-TATGTAAGTTA
35632006 GTTATGTAAGTTA
1 -TTATGTAAGTTA
* * *
35632019 CTATTTAGGTTA
1 TTATGTAAGTTA
35632031 TTATGT-A-TTA
1 TTATGTAAGTTA
35632041 TTATGTAAGTTA
1 TTATGTAAGTTA
* * *
35632053 CTATTTAGGTTA
1 TTATGTAAGTTA
*
35632065 TTATGTAAGTCA
1 TTATGTAAGTTA
* * *
35632077 TTATATATGTTGG
1 TTATGTAAGTT-A
35632090 TTATGTAAGTT
1 TTATGTAAGTT
35632101 GTGATATGAT
Statistics
Matches: 130, Mismatches: 35, Indels: 33
0.66 0.18 0.17
Matches are distributed among these distances:
10 9 0.07
11 3 0.02
12 74 0.57
13 42 0.32
14 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.49
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:35632302 original size:29 final size:29
Alignment explanation
Indices: 35632269--35632343 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
35632259 ACGTAGGCTA
35632269 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
35632298 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
*
35632327 TGTATTATGTAAGTTAT
1 TGTATTATGCAAGTTAT
35632344 GTACGCTATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.47
Consensus pattern (29 bp):
TGTATTATGCAAGTTATTTATGTAAGTGG
Found at i:35632346 original size:16 final size:16
Alignment explanation
Indices: 35632235--35632346 Score: 74
Period size: 16 Copynumber: 7.2 Consensus size: 16
35632225 ACGTAAGTGG
35632235 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
* * * *
35632251 AGTAAGTTACGTAGGCTA
1 TGT-A-TTATGTAAGTTA
*
35632269 TGTATTATGCAAGTTA
1 TGTATTATGTAAGTTA
**
35632285 --T-TTATGTAAGTGG
1 TGTATTATGTAAGTTA
*
35632298 TGTATTATGCAAGTTA
1 TGTATTATGTAAGTTA
**
35632314 --T-TTATGTAAGTGG
1 TGTATTATGTAAGTTA
35632327 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
35632343 TGTA
1 TGTA
35632347 CGCTATGTAT
Statistics
Matches: 68, Mismatches: 20, Indels: 16
0.65 0.19 0.15
Matches are distributed among these distances:
13 18 0.26
14 2 0.03
15 2 0.03
16 33 0.49
17 2 0.03
18 11 0.16
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (16 bp):
TGTATTATGTAAGTTA
Found at i:35633151 original size:23 final size:20
Alignment explanation
Indices: 35633106--35633146 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
35633096 ATGTTATTCG
35633106 AATTTTAAATATATATA-TA
1 AATTTTAAATATATATATTA
35633125 AATTTTAAATATATATATTA
1 AATTTTAAATATATATATTA
35633145 AA
1 AA
35633147 AAATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTAAATATATATATTA
Found at i:35633796 original size:29 final size:29
Alignment explanation
Indices: 35633763--35633824 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
35633753 GCAAATAAAT
*
35633763 CCTCACCGACAAAAA-ATTAAAAATTGAAA
1 CCTCACC-AAAAAAACATTAAAAATTGAAA
35633792 CCTCACCAAAAAAACATTAAAAATTGAAA
1 CCTCACCAAAAAAACATTAAAAATTGAAA
35633821 CCTC
1 CCTC
35633825 TGTGAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.53, C:0.24, G:0.05, T:0.18
Consensus pattern (29 bp):
CCTCACCAAAAAAACATTAAAAATTGAAA
Found at i:35635238 original size:19 final size:19
Alignment explanation
Indices: 35635194--35635240 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
35635184 TTAGAAAAAT
* *
35635194 TTTTA-TTTCATTTTTTTA
1 TTTTATTTTTATTTTTGTA
**
35635212 TTCCATTTTTATTTTTGTA
1 TTTTATTTTTATTTTTGTA
35635231 TTTTATTTTT
1 TTTTATTTTT
35635241 TCTTATAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTATTTTTGTA
Found at i:35635623 original size:23 final size:23
Alignment explanation
Indices: 35635579--35635632 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
35635569 ACCCTTGAAA
* * *
35635579 CCCTAAA-TCCCTAGCTCTTAAC
1 CCCTAAACCCCCTAACTCCTAAC
35635601 CCCTAAACCCCCTAACTCCTAAC
1 CCCTAAACCCCCTAACTCCTAAC
35635624 CCCTAAACC
1 CCCTAAACC
35635633 TTAAACCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (23 bp):
CCCTAAACCCCCTAACTCCTAAC
Found at i:35636105 original size:15 final size:16
Alignment explanation
Indices: 35636079--35636112 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
35636069 ATATACCTCT
35636079 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
35636095 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
35636110 AAC
1 AAC
35636113 ACCATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:35636468 original size:41 final size:41
Alignment explanation
Indices: 35636400--35636594 Score: 189
Period size: 41 Copynumber: 4.8 Consensus size: 41
35636390 TAAAAAAAAT
* * * **
35636400 ATTAGCGGCG-TTTTTGAAAAAGCGCCGCTAAAGATCTTAGC
1 ATTAGCGGCGCTTCTTCAAAAA-CGCCGCTAAAGACCAGAGC
* *
35636441 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGC
* * *
35636482 ATTACCGGCGCTTCTTCAAAAACGTCGCTAAAGGA-TAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAA-GACCAGAGC
* * * * * *
35636523 ATTAGCGGCG-TTTTTGAGTAAGCGCCGTTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCA-AAAACGCCGCTAAAGACCAGAGC
*
35636564 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAA
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
35636595 GGGCCCCAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
40 6 0.05
41 102 0.83
42 15 0.12
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGC
Found at i:35636702 original size:39 final size:40
Alignment explanation
Indices: 35636636--35636769 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
35636626 TGGCTTAGGC
*
35636636 TTTTT-GCGGCGATTTTCAG-AAAACGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTCTGTAAAACGCCGCTAATGCTCAA
* *
35636674 TTTTTAGCGGCGTTTTCTGTAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
** * * *
35636714 CCTTTAGCGGCGTTTT-TATAAAATTGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCTGTAAAA-CGCCGCTAATGCTCAA
* *
35636754 TTTATAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
35636770 TTGTCCAAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.14
39 27 0.34
40 41 0.52
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
Found at i:35640208 original size:4 final size:4
Alignment explanation
Indices: 35640199--35640223 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35640189 ATCTGTTACT
35640199 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
35640224 CAATGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:35640484 original size:14 final size:14
Alignment explanation
Indices: 35640465--35640601 Score: 53
Period size: 15 Copynumber: 9.5 Consensus size: 14
35640455 AATCTAAACT
35640465 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
35640479 CTAAACCCCTAACC
1 CTAAACCCTTAACC
*
35640493 TCTAAA-ACTTGAACC
1 -CTAAACCCTT-AACC
*
35640508 C-CAACCCTTAAACC
1 CTAAACCCTT-AACC
* * *
35640522 GTAAACCATAAACC
1 CTAAACCCTTAACC
* * * * *
35640536 ATAAATCATAAACA
1 CTAAACCCTTAACC
*
35640550 CTAAACCCATAATCC
1 CTAAACCCTTAA-CC
* *
35640565 TTAAACCCATAATCC
1 CTAAACCCTTAA-CC
* *
35640580 ATAAACCCATAATCC
1 CTAAACCCTTAA-CC
*
35640595 ATAAACC
1 CTAAACC
35640602 TTGAAATAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
13 2 0.02
14 45 0.46
15 50 0.52
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:35640490 original size:8 final size:7
Alignment explanation
Indices: 35640458--35640601 Score: 58
Period size: 7 Copynumber: 20.0 Consensus size: 7
35640448 ACTAATTAAT
*
35640458 CTAAACT
1 CTAAACC
35640465 CTAAACC
1 CTAAACC
*
35640472 CTTAACC
1 CTAAACC
35640479 CTAAACCC
1 CTAAA-CC
35640487 CT-AACC
1 CTAAACC
*
35640493 TCTAAAAC
1 -CTAAACC
* *
35640501 TTGAACC
1 CTAAACC
*
35640508 C-CAACC
1 CTAAACC
35640514 CTTAAACC
1 C-TAAACC
*
35640522 GTAAACC
1 CTAAACC
*
35640529 ATAAACC
1 CTAAACC
* *
35640536 ATAAATC
1 CTAAACC
* *
35640543 ATAAACA
1 CTAAACC
35640550 CTAAACC
1 CTAAACC
*
35640557 CATAATCC
1 C-TAAACC
*
35640565 TTAAACC
1 CTAAACC
*
35640572 CATAATCC
1 C-TAAACC
*
35640580 ATAAACC
1 CTAAACC
*
35640587 CATAATCC
1 C-TAAACC
*
35640595 ATAAACC
1 CTAAACC
35640602 TTGAAATAGT
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
6 7 0.07
7 68 0.67
8 26 0.26
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:35640569 original size:15 final size:15
Alignment explanation
Indices: 35640551--35640601 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
35640541 TCATAAACAC
*
35640551 TAAACCCATAATCCT
1 TAAACCCATAATCCA
35640566 TAAACCCATAATCCA
1 TAAACCCATAATCCA
35640581 TAAACCCATAATCCA
1 TAAACCCATAATCCA
35640596 TAAACC
1 TAAACC
35640602 TTGAAATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:35640650 original size:14 final size:14
Alignment explanation
Indices: 35640625--35640669 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
35640615 TTTTAAACCT
35640625 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
35640639 TATACCAC-AAACCA
1 TAAACC-CTAAACTA
35640653 TAAACCCTAAACTA
1 TAAACCCTAAACTA
35640667 TAA
1 TAA
35640670 TGATAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:35640799 original size:15 final size:15
Alignment explanation
Indices: 35640779--35640811 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35640769 ATTCAACCCT
35640779 TAAATCCCTAAATCC
1 TAAATCCCTAAATCC
*
35640794 TAAATCCCTAACTCC
1 TAAATCCCTAAATCC
35640809 TAA
1 TAA
35640812 CCCCTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCCTAAATCC
Found at i:35640810 original size:22 final size:22
Alignment explanation
Indices: 35640773--35640847 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
35640763 ACCCTAATTC
* *
35640773 AACCCTTAAATCCCTAAATCCTA
1 AACCCTTAACT-CCTAAACCCTA
*
35640796 AATCCC-TAACTCCTAACCCCTA
1 AA-CCCTTAACTCCTAAACCCTA
35640818 AACCCTTAACTCCT-AACCCTTA
1 AACCCTTAACTCCTAAACCC-TA
35640840 AA-CCTTAA
1 AACCCTTAA
35640848 ATCCCAACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.29
22 23 0.51
23 6 0.13
24 3 0.07
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTCCTAAACCCTA
Found at i:35640835 original size:14 final size:14
Alignment explanation
Indices: 35640799--35640840 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
35640789 AATCCTAAAT
35640799 CCCTAACTCC-TAAC
1 CCCTAAC-CCTTAAC
35640813 CCCTAAACCCTTAAC
1 CCCT-AACCCTTAAC
*
35640828 TCCTAACCCTTAA
1 CCCTAACCCTTAA
35640841 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:35640861 original size:21 final size:21
Alignment explanation
Indices: 35640816--35640872 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
35640806 TCCTAACCCC
* * *
35640816 TAAACCCTTAACTCCTAACCCT
1 TAAA-CCTTAAATCCCAACCAT
35640838 TAAACCTTAAATCCCAACCAT
1 TAAACCTTAAATCCCAACCAT
*
35640859 TAAACCAT-AATCCC
1 TAAACCTTAAATCCC
35640873 TAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCTTAAATCCCAACCAT
Found at i:35641284 original size:41 final size:41
Alignment explanation
Indices: 35641239--35641353 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
35641229 TAAAATATTT
*
35641239 TTAGCGGCGCTTTTTCAAAAATACCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* * * *
35641280 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* *
35641321 TTAGCGACGCTTTCTCAAAAAACACCGCTAAAG
1 TTAGCGGCGCTTTTTC-AAAAACACCGCTAAAG
35641354 AACGAAAAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 49 0.77
42 15 0.23
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
Found at i:35645334 original size:27 final size:27
Alignment explanation
Indices: 35645296--35645544 Score: 239
Period size: 27 Copynumber: 9.2 Consensus size: 27
35645286 ATTCAGGGGC
*
35645296 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * *
35645323 AAATGACTGAAATACCTTCGATCGATA
1 AAATGACTGAAATACCCTCGATGGGTA
* * * *
35645350 AATTTACCGAAATACCCTCTATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * * **
35645377 AAATTAATGAAATAACCTTAATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * *
35645404 AAATAACTGAAATACCTTCGATGGATA
1 AAATGACTGAAATACCCTCGATGGGTA
** ** * *
35645431 AAAAAACCAAAATACCGTTGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* ** *
35645458 AAATAACCCAAATACCCTCGATAGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
35645485 AAATGA-TCGAAATACCCTCGATGGGTA
1 AAATGACT-GAAATACCCTCGATGGGTA
*
35645512 AAATGACTGAAATACCCTCTATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
35645539 AAATGA
1 AAATGA
35645545 TTGTTATACC
Statistics
Matches: 180, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 179 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGATGGGTA
Found at i:35645555 original size:81 final size:81
Alignment explanation
Indices: 35645304--35645542 Score: 275
Period size: 81 Copynumber: 3.0 Consensus size: 81
35645294 GCAAATGACC
* * *
35645304 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATCGATAAATTTACCGAAATACCCTC
1 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
*
35645369 TATGGGTAAAATTAAT
66 TATGGGTAAAATAAAT
* ** * * * *
35645385 GAAATAACCTTAATGGGTAAAATAACTGAAATACCTTCGATGGATAAAAAAACCAAAATACCGT-
1 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
**
35645449 TGATGGGTAAAATAACC
66 T-ATGGGTAAAATAAAT
* * * * * *
35645466 CAAATACCCTCGATAGGTAAAATGA-TCGAAATACCCTCGATGGGTAAAATGACTGAAATACCCT
1 GAAATACCCTCGATGGGTAAAATGACT-GAAATACCTTCGATGGATAAAATAACCGAAATACCCT
35645530 CTATGGGTAAAAT
65 CTATGGGTAAAAT
35645543 GATTGTTATA
Statistics
Matches: 129, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 2 0.02
81 126 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (81 bp):
GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
TATGGGTAAAATAAAT
Done.