Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 78 of 345
Found at i:25330965 original size:30 final size:30
Alignment explanation
Indices: 25330929--25330995 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
25330919 CACACGGTTA
*
25330929 GACACACGAGCATGTGTCTTGGCCGTGTGG
1 GACACACGAGCATATGTCTTGGCCGTGTGG
* *
25330959 GACACACGGGCATATGTCTTGGTCGTGTGG
1 GACACACGAGCATATGTCTTGGCCGTGTGG
25330989 GACACAC
1 GACACAC
25330996 CGTCTGCTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.22
Consensus pattern (30 bp):
GACACACGAGCATATGTCTTGGCCGTGTGG
Found at i:25345028 original size:18 final size:18
Alignment explanation
Indices: 25345005--25345045 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
25344995 CATTCTGGAT
25345005 CTATTTGGGTAAATTTAA
1 CTATTTGGGTAAATTTAA
25345023 CTATTTGGGTAAATTTAA
1 CTATTTGGGTAAATTTAA
25345041 CTATT
1 CTATT
25345046 AATCTATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (18 bp):
CTATTTGGGTAAATTTAA
Found at i:25348067 original size:577 final size:575
Alignment explanation
Indices: 25346976--25348103 Score: 1916
Period size: 577 Copynumber: 2.0 Consensus size: 575
25346966 GTCAATCCTG
* * *
25346976 TAGGATATACTGACTTAATTCGTAGGGTACCCCAAGGGACACATGGCCGTGTAACATGACCGTGT
1 TAGGATATACTGACTTAATTCGTAGGGTACCCCAAGGGACACACGACCGTGTAACATGACCATGT
* * *
25347041 GTCACACACGACTGAGACACACGCTCGTGTCTCTACCTATATGGACAAAAATAGGCCATTTGAAA
66 GTCACACACGACTGAGACACACGCTCGTGTCTCTACCCATATGGACAAAAATAGGCCACTTAAAA
* *
25347106 GGCCAATTTGTCACCCTTTCCACAAGCACACAAAATAACCAAAATATTTCCATTTCAATATATCT
131 GGCCAATTTGTCACCCTTTCCACAAGCACACAAAACAACCAAAATATTTCCATTTCAATACATCT
*
25347171 TTAAGCAACCAAAAATATATCAAATCATTAAGCCAAACATCACAATTTACCTAATTCCAAATACA
196 TTAAGCAACCAAAAATATACCAAATCATTAAGCCAAACATCACAATTTACCTAATTCCAAATACA
* *
25347236 TTAACTCATAAACTTATCATCTATTTTAAGTCACTTATTATACTATATTATCATCTCAAATCAAA
261 TTAACTCATAAACTTATCATCTATTTTAAGTCACTTATTATACCATATCATCATCTCAAATCAAA
25347301 CCACAATATGCTAGCTTCCAAGCATTAGCACATCAATTAAAAACTAATCAAAATAACCAACACAT
326 CCACAATATGCTAGCTTCCAAGCATTAGCACATCAATTAAAAACTAATCAAAATAACCAACACAT
* *
25347366 AGTCACACCAAATAAGCCAACATATAAGGTATTATATACTTCACATATATAACACTTACTAAACA
391 AATCACACCAAATAAGCCAACATATAAGGTATTATATACTTCACATATATAACACTTACCAAACA
25347431 CACACAAACATGTACATCATTTACAAACCAAATCTCATGGCTAAAGTCATGGTTCAAAACTTATC
456 CACACAAACATGTACATCATTTACAAACCAAATCTCATGGCTAAAGTCATGGTTCAAAACTTATC
25347496 AACATTTCACTAGCCTATACATGCCATATACGGCCATTAGACACGCCCGTATGTC
521 AACATTTCACTAGCCTATACATGCCATATACGGCCATTAGACACGCCCGTATGTC
* * *
25347551 TAGGATATACTGCCTTAATTCGTAGTGTA-CCCTAGGGAACACACGACCGTGTAACATGACCATG
1 TAGGATATACTGACTTAATTCGTAGGGTACCCCAAGGG-ACACACGACCGTGTAACATGACCATG
* * * * * *
25347615 TGTCACACATGGCTGAGACACACGCTTGTGTCTCTGCCCATGTGGATAAAAATAGGCCACTTAAA
65 TGTCACACACGACTGAGACACACGCTCGTGTCTCTACCCATATGGACAAAAATAGGCCACTTAAA
*
25347680 AGGCCAATTTGTCACCCTTTCCACATGCACACAAAACAACCAAAATATTTCCATTTCAATACATC
130 AGGCCAATTTGTCACCCTTTCCACAAGCACACAAAACAACCAAAATATTTCCATTTCAATACATC
25347745 TTTAAGCAACCAAAAATATACCAAATCATTAAGCCAAAACTATCACAATTTACCTAATTCCAAAT
195 TTTAAGCAACCAAAAATATACCAAATCATTAAGCC-AAAC-ATCACAATTTACCTAATTCCAAAT
* * *
25347810 ATATTAACTCATCAACTTATCATCTATTTTAAGTCACTTATTATACCATATCATCATTTCAAATC
258 ACATTAACTCATAAACTTATCATCTATTTTAAGTCACTTATTATACCATATCATCATCTCAAATC
** *
25347875 AAACCACAATATGCTAGCTTCCAAGCATTAGCACATCAATTAACGACTAATGAAAATAACCAACA
323 AAACCACAATATGCTAGCTTCCAAGCATTAGCACATCAATTAAAAACTAATCAAAATAACCAACA
25347940 CATAATCACACCAAATAAGCCAACATATAAGGTATTATATACTTCACATATATAACACTTACCAA
388 CATAATCACACCAAATAAGCCAACATATAAGGTATTATATACTTCACATATATAACACTTACCAA
* * *
25348005 ACACACATAAATATGTACATCATTTGCAAACCAAATCTCATGGCTAAAGTCATGGTTCAAAACTT
453 ACACACACAAACATGTACATCATTTACAAACCAAATCTCATGGCTAAAGTCATGGTTCAAAACTT
* *
25348070 ATCAACATTTCAGTAGCCTATACATGCTATATAC
518 ATCAACATTTCACTAGCCTATACATGCCATATAC
25348104 CATAATTACA
Statistics
Matches: 516, Mismatches: 34, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
574 7 0.01
575 202 0.39
576 4 0.01
577 303 0.59
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (575 bp):
TAGGATATACTGACTTAATTCGTAGGGTACCCCAAGGGACACACGACCGTGTAACATGACCATGT
GTCACACACGACTGAGACACACGCTCGTGTCTCTACCCATATGGACAAAAATAGGCCACTTAAAA
GGCCAATTTGTCACCCTTTCCACAAGCACACAAAACAACCAAAATATTTCCATTTCAATACATCT
TTAAGCAACCAAAAATATACCAAATCATTAAGCCAAACATCACAATTTACCTAATTCCAAATACA
TTAACTCATAAACTTATCATCTATTTTAAGTCACTTATTATACCATATCATCATCTCAAATCAAA
CCACAATATGCTAGCTTCCAAGCATTAGCACATCAATTAAAAACTAATCAAAATAACCAACACAT
AATCACACCAAATAAGCCAACATATAAGGTATTATATACTTCACATATATAACACTTACCAAACA
CACACAAACATGTACATCATTTACAAACCAAATCTCATGGCTAAAGTCATGGTTCAAAACTTATC
AACATTTCACTAGCCTATACATGCCATATACGGCCATTAGACACGCCCGTATGTC
Found at i:25348616 original size:43 final size:43
Alignment explanation
Indices: 25348534--25348630 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
25348524 TATCCAAGAT
* **
25348534 ATGGTCTTACATGTCATCATATATCGATGCCAACATCCCAAAC
1 ATGGTCTTACACGAAATCATATATCGATGCCAACATCCCAAAC
* * ** *
25348577 GTGGTTTTACACGAAATCATATAAT-GATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCATAT-ATCGATGCCAACATCCCAAAC
25348620 ATGGTCTTACA
1 ATGGTCTTACA
25348631 TGTAAACACA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCATATATCGATGCCAACATCCCAAAC
Found at i:25349226 original size:28 final size:29
Alignment explanation
Indices: 25349170--25349226 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
25349160 TATTTCACAT
* *
25349170 TTTAACCCCTCAATTTACACTTTTCTCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
* *
25349199 TTTAATCCCT-AATTGACATTTTTATCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
25349227 AAATCACTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTAACCCCTCAATTGACACTTTTATCAA
Found at i:25364745 original size:23 final size:24
Alignment explanation
Indices: 25364715--25364760 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
25364705 AAAACTTTTA
25364715 ATCAGGAA-GCTCACAAAGAGCCT
1 ATCAGGAATGCTCACAAAGAGCCT
25364738 ATCAGGAATGCTCACAAAGAGCC
1 ATCAGGAATGCTCACAAAGAGCC
25364761 ATGTAACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (24 bp):
ATCAGGAATGCTCACAAAGAGCCT
Found at i:25371279 original size:24 final size:24
Alignment explanation
Indices: 25371247--25371317 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
25371237 CTGTCAGGAG
25371247 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
25371271 AGGAATTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
25371295 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
25371318 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.38, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:25371329 original size:48 final size:48
Alignment explanation
Indices: 25371247--25371340 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 48
25371237 CTGTCAGGAG
** *
25371247 AGGATTTAGGAGTTGATAAGGGATAGGAATTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGAATTAGGAGCTGATCAAGGGAT
25371295 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG-AAT-TAGGAGCTGATCAAGG
25371341 AACAAGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 3 0.08
47 3 0.08
48 30 0.75
49 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.37, T:0.22
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGAATTAGGAGCTGATCAAGGGAT
Found at i:25372783 original size:27 final size:26
Alignment explanation
Indices: 25372725--25372836 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
25372715 AGGAAGCGTC
* *
25372725 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
25372753 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
25372780 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
25372808 CT-GTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
25372833 CTGG
1 CTGG
25372837 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.04
26 12 0.16
27 39 0.53
28 20 0.27
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:25372810 original size:55 final size:53
Alignment explanation
Indices: 25372725--25372836 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
25372715 AGGAAGCGTC
*
25372725 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCT-GTGACTCTGCCACAT-TATCTGTT
* * * *
25372780 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGTGACTCTGCCACATTATCTGTT
25372833 CTGG
1 CTGG
25372837 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 12 0.24
54 21 0.41
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGTGACTCTGCCACATTATCTGTT
Found at i:25385702 original size:126 final size:126
Alignment explanation
Indices: 25385477--25385709 Score: 315
Period size: 126 Copynumber: 1.8 Consensus size: 126
25385467 TTTTAGCCTT
* * * *
25385477 AAGAGGATATTCGAATATTCAAAATAAACAAAGAAAGCAGAGCCCAGTACGTTAGGGCACGATTC
1 AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAGAACCCAGTACGTTAGGGCACAATCC
** * * * *
25385542 TTCGAATTCTTTAAATACCGAACATTGTCTTTATTTTGAAATCTTTTGAGAGTGCACTAGG
66 TTCGAATTCCATAAATACCGAAAATTGCCATTATTTTAAAATCTTTTGAGAGTGCACTAGG
* * *
25385603 AAGAGGTTATTCGAATATTCAAGACCAACAAAGAAAGC-GAAACCCAGTACGTTAGGGCACAATC
1 AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAG-AACCCAGTACGTTAGGGCACAATC
* *
25385667 CTTTGAGTTCCATAAATACCGAAAATTGCCATTATTTTAAAAT
65 CTTCGAATTCCATAAATACCGAAAATTGCCATTATTTTAAAAT
25385710 TGATTGAAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
125 1 0.01
126 90 0.99
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (126 bp):
AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAGAACCCAGTACGTTAGGGCACAATCC
TTCGAATTCCATAAATACCGAAAATTGCCATTATTTTAAAATCTTTTGAGAGTGCACTAGG
Found at i:25386293 original size:21 final size:23
Alignment explanation
Indices: 25386249--25386311 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
25386239 ATAGTTAACT
25386249 TTTAATAA-AATATATAAAAAGA
1 TTTAATAATAATATATAAAAAGA
* *
25386271 -TTAATAATAATA-ATATAATGA
1 TTTAATAATAATATATAAAAAGA
25386292 TTTAA-AATAA-ATAGTAAAAA
1 TTTAATAATAATATA-TAAAAA
25386312 AAATAGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 1 0.03
21 20 0.61
22 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TTTAATAATAATATATAAAAAGA
Found at i:25392440 original size:36 final size:35
Alignment explanation
Indices: 25392377--25392470 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 35
25392367 TATGACCGTT
* * *
25392377 TACGGTACCATTCACGTATACGACACTATTTACGTA
1 TACGATACTATTCACGTATAC-ACACTATTCACGTA
*
25392413 TACGATACTATTTACGTATACATCACTATTCACGTA
1 TACGATACTATTCACGTATACA-CACTATTCACGTA
* *
25392449 TACGGTACTGTTCACGTATACA
1 TACGATACTATTCACGTATACA
25392471 GTAGTTGGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 1 0.02
36 49 0.98
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (35 bp):
TACGATACTATTCACGTATACACACTATTCACGTA
Found at i:25392462 original size:18 final size:18
Alignment explanation
Indices: 25392386--25392469 Score: 107
Period size: 18 Copynumber: 4.7 Consensus size: 18
25392376 TTACGGTACC
*
25392386 ATTCACGTATACGACACT
1 ATTCACGTATACGATACT
*
25392404 ATTTACGTATACGATACT
1 ATTCACGTATACGATACT
*
25392422 ATTTACGTATAC-ATCACT
1 ATTCACGTATACGAT-ACT
*
25392440 ATTCACGTATACGGTACT
1 ATTCACGTATACGATACT
*
25392458 GTTCACGTATAC
1 ATTCACGTATAC
25392470 AGTAGTTGGG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
17 2 0.03
18 56 0.95
19 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (18 bp):
ATTCACGTATACGATACT
Found at i:25399071 original size:2 final size:2
Alignment explanation
Indices: 25399064--25399089 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25399054 TCCATAGCTC
25399064 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
25399090 GGCGGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25404105 original size:14 final size:14
Alignment explanation
Indices: 25404086--25404115 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25404076 TTATCAAATC
*
25404086 AACATAAACTTCCA
1 AACATAAACATCCA
25404100 AACATAAACATCCA
1 AACATAAACATCCA
25404114 AA
1 AA
25404116 TCCCTATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AACATAAACATCCA
Found at i:25404452 original size:40 final size:40
Alignment explanation
Indices: 25404384--25404531 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
25404374 GAGTTACTGG
* * * *
25404384 AGTATAAACAA-GGCATGTAAGTGCATTCAGGGGTACCGA
1 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
25404423 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
* *
25404463 AGTACAAATAAGGGCACGTATGTGCATTGAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
25404503 AGTACAAAC-AGTGGCACGTATGTGCATTC
1 AGTACAAACAAG-GGCACGTATGTGCATTC
25404532 GTTCAATAGT
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 12 0.12
40 87 0.88
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
Found at i:25416653 original size:31 final size:31
Alignment explanation
Indices: 25416618--25416687 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
25416608 TTAGGGAAAT
25416618 GGGCGTGTGTGTCCACACAGCCTACCTACAC
1 GGGCGTGTGTGTCCACACAGCCTACCTACAC
* *
25416649 GGGCGTGTGTGTCTACACGGCCTACCTACAC
1 GGGCGTGTGTGTCCACACAGCCTACCTACAC
*
25416680 GGACGTGT
1 GGGCGTGT
25416688 CCCAAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.21
Consensus pattern (31 bp):
GGGCGTGTGTGTCCACACAGCCTACCTACAC
Found at i:25425890 original size:19 final size:19
Alignment explanation
Indices: 25425866--25425904 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25425856 ACACCTTTGA
*
25425866 AAAACTCCTTCATAACGAC
1 AAAACTCCTTCAGAACGAC
25425885 AAAACTCCTTCAGAACGAC
1 AAAACTCCTTCAGAACGAC
25425904 A
1 A
25425905 TTCTTCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAACTCCTTCAGAACGAC
Found at i:25425935 original size:13 final size:13
Alignment explanation
Indices: 25425917--25425942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25425907 CTTCCCAACA
25425917 ATCATGAATTTGG
1 ATCATGAATTTGG
25425930 ATCATGAATTTGG
1 ATCATGAATTTGG
25425943 TATACTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
ATCATGAATTTGG
Found at i:25428003 original size:3 final size:3
Alignment explanation
Indices: 25427995--25428026 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25427985 AGTTCGTGTG
25427995 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25428027 GTAATGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25428562 original size:48 final size:48
Alignment explanation
Indices: 25428451--25428673 Score: 279
Period size: 48 Copynumber: 4.6 Consensus size: 48
25428441 ATGAGATCCC
* * * * * *
25428451 GTGTAAGACCATGTTTGGGACATGGCATCGGAATCCGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTAT-TGATATGTGTGCCA
* **
25428500 GTGTAAGATCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCCA
* * *
25428548 GTGTAAGACCATGTCTGGGACATGGCATTGGTATTGATATTTGTCCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCCA
*
25428596 GTGTAAGACCATGTCTGGGACATGGCATCGGTGA-TGATATGTGTGCAA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGT-ATTGATATGTGTGCCA
*
25428644 GTGTAAGACCATGT-TGGGGGCATGGCATCG
1 GTGTAAGACCATGTCT-GGGACATGGCATCG
25428674 TCACCGATAT
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 121 0.79
49 31 0.20
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCCA
Found at i:25428717 original size:144 final size:143
Alignment explanation
Indices: 25428447--25428717 Score: 307
Period size: 144 Copynumber: 1.9 Consensus size: 143
25428437 GTTAATGAGA
* * *
25428447 TCCCGTGTAAGACCATGTTTGGGACATGGCATCGGAATCCGAGATGAGAGCCAGTGTAAGATCAT
1 TCCCGTGTAAGACCATGTCTGGGACATGGCATCGGAAT-CGAGATGAGAGCAAGTGTAAGACCAT
*** * * *
25428512 GTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATT
65 GTCTGGGACATGGCATCGGCACCGATATGAGTGCCAGTATAAGACCATATCTGGGACATGGCATT
25428577 GGTATTGATATTTG
130 GGTATTGATATTTG
* * * *
25428591 TCCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGAT-GATATGTGTGCAAGTGTAAGACCA
1 TCCC-GTGTAAGACCATGTCTGGGACATGGCATCGG-AATCGAGATGAGAGCAAGTGTAAGACCA
* * * *
25428655 TGT-TGGGGGCATGGCATCGTCACCGATATGAG-GCTTC-GTATAAGACCATATTTGGGATATGG
64 TGTCT-GGGACATGGCATCGGCACCGATATGAGTGC--CAGTATAAGACCATATCTGGGACATGG
25428717 C
126 C
25428718 GTCAAAATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
143 3 0.03
144 69 0.66
145 31 0.30
146 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (143 bp):
TCCCGTGTAAGACCATGTCTGGGACATGGCATCGGAATCGAGATGAGAGCAAGTGTAAGACCATG
TCTGGGACATGGCATCGGCACCGATATGAGTGCCAGTATAAGACCATATCTGGGACATGGCATTG
GTATTGATATTTG
Found at i:25435191 original size:48 final size:48
Alignment explanation
Indices: 25435079--25435350 Score: 323
Period size: 48 Copynumber: 5.6 Consensus size: 48
25435069 TGAGATCCCA
* * * * *
25435079 TGTAAGACCATGTCTGGGACATGGCATC-AGCATCCGAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CGT-TGATATGTGTGCCAG
*
25435128 TGTAAGACCACGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
** *
25435176 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTCCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* * **
25435224 TGTAGGACCATGTCTGAGACATGGCATCGGTGTTGATATGTGT-CACAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGC-CAG
* * *
25435272 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* * * *
25435320 TGCAAGACCATGTCGGGGGCATGTCATCGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGAC
25435351 ACCGATATGA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 166 0.84
49 30 0.15
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
Found at i:25435392 original size:144 final size:144
Alignment explanation
Indices: 25435125--25435395 Score: 319
Period size: 144 Copynumber: 1.9 Consensus size: 144
25435115 AGATGAGAGC
* *
25435125 CAGTGTAAGACCACGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACCACGTCTGGGACATGGCATCGACGATGATATGTGTGCCAGTGCAAGACCATGTC
* ***** * * * * *
25435190 TGGGACATGGCATCGGTGTTGATATGTGTCCCAGTGTAGGACCATGTCTGAGACATGGCATCGGT
66 GGGGACATGGCATCGACACCGATATGAGGCCCAGTATAAGACCATATCTGAGACATGGCATCGGT
25435255 GTTGATATGTGTCA
131 GTTGATATGTGTCA
* * *
25435269 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTGCAAGACCATGTC
1 CAGTGTAAGACCACGTCTGGGACATGGCATCGACGATGATATGTGTGCCAGTGCAAGACCATGTC
* * * * * * *
25435334 GGGGGCATGTCATCGACACCGATATGAGGCTTC-GTATAAGACCTTATTTGGGATATGGCATC
66 GGGGACATGGCATCGACACCGATATGAGGC-CCAGTATAAGACCATATCTGAGACATGGCATC
25435396 CTTAGTTGGG
Statistics
Matches: 103, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
144 102 0.99
145 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (144 bp):
CAGTGTAAGACCACGTCTGGGACATGGCATCGACGATGATATGTGTGCCAGTGCAAGACCATGTC
GGGGACATGGCATCGACACCGATATGAGGCCCAGTATAAGACCATATCTGAGACATGGCATCGGT
GTTGATATGTGTCA
Found at i:25435404 original size:20 final size:20
Alignment explanation
Indices: 25435375--25435412 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25435365 TCGTATAAGA
*
25435375 CCTTATTTGGGATATGGCAT
1 CCTTAGTTGGGATATGGCAT
25435395 CCTTAGTTGGGATATGGC
1 CCTTAGTTGGGATATGGC
25435413 GTCGACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (20 bp):
CCTTAGTTGGGATATGGCAT
Found at i:25443169 original size:34 final size:34
Alignment explanation
Indices: 25443126--25443196 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
25443116 TATAACTAGA
*
25443126 AGAAACCCGTCAGGATCATTACTTTTTGATAGTG
1 AGAAACCCGTCAAGATCATTACTTTTTGATAGTG
25443160 AGAAACCCGTCAAGATCATTACTTTTTGATAGTG
1 AGAAACCCGTCAAGATCATTACTTTTTGATAGTG
25443194 AGA
1 AGA
25443197 TTGAACACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (34 bp):
AGAAACCCGTCAAGATCATTACTTTTTGATAGTG
Found at i:25463762 original size:12 final size:13
Alignment explanation
Indices: 25463745--25463781 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
25463735 AGTTTAATAG
25463745 ATTTAATCTTAA-
1 ATTTAATCTTAAT
25463757 ATTTAATC-TAAT
1 ATTTAATCTTAAT
25463769 ATTT-ATCTTAAT
1 ATTTAATCTTAAT
25463781 A
1 A
25463782 AGTAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAATCTTAAT
Found at i:25470201 original size:40 final size:40
Alignment explanation
Indices: 25470025--25470247 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
25470015 TCCTCGTTCA
* * * * *
25470025 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25470064 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25470104 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25470144 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25470184 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25470224 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25470248 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25478093 original size:40 final size:40
Alignment explanation
Indices: 25477917--25478139 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
25477907 TCCTCGTTCA
* * * * *
25477917 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25477956 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25477996 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25478036 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25478076 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25478116 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25478140 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25487989 original size:26 final size:26
Alignment explanation
Indices: 25487960--25488067 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
25487950 TGATACAAAT
25487960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25487986 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* **
25488012 TGATAATGGGTTAGGTAAACGTTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25488038 TGATAATGGTTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25488064 TGAT
1 TGAT
25488068 GGCCATTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25489496 original size:28 final size:26
Alignment explanation
Indices: 25489465--25489539 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
25489455 AAAAGCAGCT
*
25489465 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTA-G-ATGCA
* *
25489493 AAATTACTGTTATACCCCTAGATGCA
1 AAATTACTATAATACCCCTAGATGCA
** *
25489519 AAATTACCGTTATACCCCTAG
1 AAATTACTATAATACCCCTAG
25489540 GGTTAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGATGCA
Found at i:25489530 original size:26 final size:27
Alignment explanation
Indices: 25489476--25489539 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
25489466 AATTACTATA
* *
25489476 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-GTATGCAAAATTACCGTT
25489504 ATACCCCTAG-ATGCAAAATTACCGTT
1 ATACCCCTAGTATGCAAAATTACCGTT
25489530 ATACCCCTAG
1 ATACCCCTAG
25489540 GGTTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 24 0.71
27 1 0.03
28 9 0.26
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (27 bp):
ATACCCCTAGTATGCAAAATTACCGTT
Found at i:25489723 original size:54 final size:54
Alignment explanation
Indices: 25489641--25489784 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
25489631 TGGAGGAAGC
25489641 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
25489695 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
25489749 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25489785 ACTTCGTCAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:25489795 original size:27 final size:27
Alignment explanation
Indices: 25489644--25489802 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
25489634 AGGAAGCGTC
*
25489644 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
25489671 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
25489698 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
25489725 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
25489752 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
25489779 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
25489803 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:25489796 original size:81 final size:80
Alignment explanation
Indices: 25489644--25489802 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
25489634 AGGAAGCGTC
*
25489644 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
25489709 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
25489725 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
25489788 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
25489803 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:25496780 original size:38 final size:38
Alignment explanation
Indices: 25496714--25496805 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
25496704 ACCAATTTGG
*
25496714 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTGA
* * * *
25496752 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAG-TGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGTTGA
* *
25496789 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
25496806 AATCTATCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
37 16 0.36
38 26 0.58
39 3 0.07
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTGA
Found at i:25496844 original size:41 final size:38
Alignment explanation
Indices: 25496738--25496847 Score: 96
Period size: 41 Copynumber: 2.8 Consensus size: 38
25496728 TCGGATAGTT
* *
25496738 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
25496776 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
*
25496814 TGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
25496848 CTAGAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 16 0.29
38 18 0.33
40 2 0.04
41 19 0.35
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:25497294 original size:15 final size:15
Alignment explanation
Indices: 25497252--25497294 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25497242 TATTTACTAT
* *
25497252 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
25497267 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
25497281 AAAATAAATAACTT
1 AAAATAAATAACTT
25497295 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:25498102 original size:31 final size:32
Alignment explanation
Indices: 25498067--25498127 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
25498057 AACATCTTAT
*
25498067 AAATATCTTTT-ACTAATTAATA-ATAAATATA
1 AAATATATTTTCACTAATT-ATACATAAATATA
25498098 AAATATATTTTCACTAATTATACATAAATA
1 AAATATATTTTCACTAATTATACATAAATA
25498128 ATACAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATATATTTTCACTAATTATACATAAATATA
Found at i:25505185 original size:14 final size:14
Alignment explanation
Indices: 25505152--25505191 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
25505142 ACTATAAAAT
25505152 AAATAAAT--TTAA
1 AAATAAATACTTAA
*
25505164 AACT-AATACTTAA
1 AAATAAATACTTAA
25505177 AAATAAATACTTAA
1 AAATAAATACTTAA
25505191 A
1 A
25505192 TTATAGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 3 0.13
13 7 0.30
14 10 0.43
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATACTTAA
Found at i:25506058 original size:31 final size:32
Alignment explanation
Indices: 25506023--25506083 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
25506013 AACATCTAAT
*
25506023 AAATATCTTTT-ATTAATTAATA-ATAAATATA
1 AAATATCTTTTCACTAATT-ATACATAAATATA
25506054 AAATATCTTTTCACTAATTATACATAAATA
1 AAATATCTTTTCACTAATTATACATAAATA
25506084 ATACAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATATCTTTTCACTAATTATACATAAATATA
Found at i:25509433 original size:13 final size:13
Alignment explanation
Indices: 25509415--25509449 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25509405 TTACAAATGT
25509415 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
25509428 TTTTGAAATGTGC
1 TTTTGAAAAGTGC
25509441 TTTTGAAAA
1 TTTTGAAAA
25509450 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:25515095 original size:13 final size:13
Alignment explanation
Indices: 25515062--25515095 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
25515052 GATGTGTGAG
*
25515062 CCACACGACTTAC
1 CCACACGGCTTAC
25515075 CCACACGGCTTAC
1 CCACACGGCTTAC
25515088 CCACACGG
1 CCACACGG
25515096 GCGTGTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.47, G:0.15, T:0.12
Consensus pattern (13 bp):
CCACACGGCTTAC
Found at i:25518812 original size:15 final size:16
Alignment explanation
Indices: 25518792--25518828 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
25518782 CCACTATCAA
25518792 TAATAAAATGA-GACT
1 TAATAAAATGACGACT
*
25518807 TAAT-AATTGACGACT
1 TAATAAAATGACGACT
25518822 TAATAAA
1 TAATAAA
25518829 TGTATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (16 bp):
TAATAAAATGACGACT
Found at i:25520731 original size:327 final size:315
Alignment explanation
Indices: 25520051--25520928 Score: 1050
Period size: 327 Copynumber: 2.7 Consensus size: 315
25520041 AATCCCTCTG
* * *
25520051 TTATGCTTACATTTAAGATTTAAG--ATTTATATTTTAATTTCACATAATTTGATTTTCTACTTT
1 TTATGCTCACATTTGAGATTT-AGTCA-TTATATTTTAATTTGACATAATTTGATTTTCTACTTT
* * *
25520114 TACAATCACATTAGGTACTCCAAATAATTAACATCTTTAGCTATTCTGATTAAATTTGTTATTCT
64 TACAATGACATTAGGTAGTCCAAATAATTAACATCTTTAGCTATTCTGATTAAATTT-TT-TACT
* * * * *
25520179 ATTTTTAAAAAAAATGCTATTCTATAAAAAAAATTATTTTGGTATGATGATTTGTAATAAGTATT
127 ATTTTT--AAAAAATGCTATTATATAAAAAAAATTATATTGGCATAATGATTTGGAATAAGTATT
* * * * *
25520244 AATAAAAAAAATCACATAATCAACTAAAAATATTAAGGGTGTTGTTAATTATTTAGATCAATAAT
190 ATTAAAAAAATTCACATCATCTACTAAAAATATTAAGGGTGTTGCTAATTATTTAGATCAATAAT
* *
25520309 GACATGACTTTTTTTTTAGCCATTATAAGATAATAATAAAATAGTAGTTTTGACCTTTCTA
255 GACATGACTTTTTTTTTAACCATTATAAGATAATAATAAAATAGTAATTTTGACCTTTCTA
* *
25520370 TTATGCTGACATTTGAGATTTAGTCTTTATATTTTAATTTGACATAATTTGATTTTCTACTTTTA
1 TTATGCTCACATTTGAGATTTAGTCATTATATTTTAATTTGACATAATTTGATTTTCTACTTTTA
* * *
25520435 CAATGACATTAGGTAGTCCAAATAATTAACATATTTAAC-AGTTCTGATTAAATTTTTTAGTATT
66 CAATGACATTAGGTAGTCCAAATAATTAACATCTTTAGCTA-TTCTGATTAAATTTTTTACTATT
* * *
25520499 TTTAAAAAACGCTATTATATCAAAAAAATTATATTGGCATAATGATTTGGAATAAGCATTATTAA
130 TTTAAAAAATGCTATTATATAAAAAAAATTATATTGGCATAATGATTTGGAATAAGTATTATTAA
* *
25520564 AAAAATTCACATCATTTACTAAAAATAGTTAA-GG-GTT-CTAATTATTTAGATCAATGATGACA
195 AAAAATTCACATCATCTACTAAAAATA-TTAAGGGTGTTGCTAATTATTTAGATCAATAATGACA
* * * * *
25520626 TTACTTCTTTTCTTTTTCTATTTTTTTAATCATTATAAGATAATGATAAAATGGTAATTTTGATC
259 TGA--------C----T-T-TTTTTTTAACCATTATAAGATAATAATAAAATAGTAATTTTGACC
25520691 TTTCTA
310 TTTCTA
* * *
25520697 TTATGCTCACATTTGATATTTAGTCATTATATTTTAATTTGACATAATTTGGTTTTTTACTTTTA
1 TTATGCTCACATTTGAGATTTAGTCATTATATTTTAATTTGACATAATTTGATTTTCTACTTTTA
* * * * *
25520762 CGATGACATTAGGTAGTCCAAATAATTAACAGCTTTAGCTATTTTGATTAAATTTTTTATTCAAT
66 CAATGACATTAGGTAGTCCAAATAATTAACATCTTTAGCTATTCTGATTAAATTTTTTACT-ATT
* ** * * *
25520827 TTTATTAAAATGCTATTATATAAAAAAAATTATATTCACAAAATGATTTGGCATAAGTATTGTTA
130 TTTA-AAAAATGCTATTATATAAAAAAAATTATATTGGCATAATGATTTGGAATAAGTATTATTA
*
25520892 AAAATAATTCACATCATCTACT-AAAATATTAAAGGTG
194 AAAA-AATTCACATCATCTACTAAAAATATTAAGGGTG
25520929 CTAGTTGTAA
Statistics
Matches: 481, Mismatches: 54, Indels: 37
0.84 0.09 0.06
Matches are distributed among these distances:
313 25 0.05
314 3 0.01
315 78 0.16
316 4 0.01
317 8 0.02
318 5 0.01
319 106 0.22
321 1 0.00
325 1 0.00
326 1 0.00
327 158 0.33
328 11 0.02
329 63 0.13
330 17 0.04
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (315 bp):
TTATGCTCACATTTGAGATTTAGTCATTATATTTTAATTTGACATAATTTGATTTTCTACTTTTA
CAATGACATTAGGTAGTCCAAATAATTAACATCTTTAGCTATTCTGATTAAATTTTTTACTATTT
TTAAAAAATGCTATTATATAAAAAAAATTATATTGGCATAATGATTTGGAATAAGTATTATTAAA
AAAATTCACATCATCTACTAAAAATATTAAGGGTGTTGCTAATTATTTAGATCAATAATGACATG
ACTTTTTTTTTAACCATTATAAGATAATAATAAAATAGTAATTTTGACCTTTCTA
Found at i:25529649 original size:11 final size:11
Alignment explanation
Indices: 25529629--25529666 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25529619 TTGATTTCTT
25529629 AAAAAA-AAAA
1 AAAAAACAAAA
25529639 AAAAAACAAAA
1 AAAAAACAAAA
*
25529650 ACAAAACAAAA
1 AAAAAACAAAA
25529661 CAAAAA
1 -AAAAA
25529667 TGTTGATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 6 0.25
11 14 0.58
12 4 0.17
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:25529655 original size:16 final size:16
Alignment explanation
Indices: 25529630--25529666 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25529620 TGATTTCTTA
25529630 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
* *
25529646 AAAAACAAAACAAAAC
1 AAAAAAAAAAAAAAAC
25529662 AAAAA
1 AAAAA
25529667 TGTTGATCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:25529826 original size:16 final size:15
Alignment explanation
Indices: 25529805--25529842 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25529795 AATGTGTTTG
25529805 ATATAAAAAAATTT-
1 ATATAAAAAAATTTA
25529819 ATATATAAAAAATTTA
1 ATATA-AAAAAATTTA
25529835 ATA-AAAAA
1 ATATAAAAA
25529843 TTATTGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATAAAAAAATTTA
Found at i:25530165 original size:30 final size:30
Alignment explanation
Indices: 25530131--25530223 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
25530121 TAAATTTAGC
25530131 ACTTATAAAATTTAGCAGTAAAAATTCAAT
1 ACTTATAAAATTTAGCAGTAAAAATTCAAT
*** * ** *
25530161 ACTTA-ATTTTTTAGCATTTAAATCTTCAGT
1 ACTTATAAAATTTAGCA-GTAAAAATTCAAT
*
25530191 --TTATCAAATTTAGCAGTAAAAATTCAAT
1 ACTTATAAAATTTAGCAGTAAAAATTCAAT
25530219 ACTTA
1 ACTTA
25530224 ATTTTTCAGC
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
28 12 0.27
29 15 0.34
30 17 0.39
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (30 bp):
ACTTATAAAATTTAGCAGTAAAAATTCAAT
Found at i:25530202 original size:29 final size:29
Alignment explanation
Indices: 25530170--25530257 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
25530160 TACTTAATTT
25530170 TTTAGCATTTAAATCTTCAGTTTATCAAA
1 TTTAGCATTTAAATCTTCAGTTTATCAAA
* ** * **
25530199 TTTAGCA-GTAAAAATTCAATACTTA--ATT
1 TTTAGCATTTAAATCTTCAGT--TTATCAAA
25530227 TTTCAGCATTTAAATCTTCAGTTTATCAAA
1 TTT-AGCATTTAAATCTTCAGTTTATCAAA
25530257 T
1 T
25530258 ACACTCTAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 11
0.64 0.19 0.17
Matches are distributed among these distances:
28 16 0.39
29 11 0.27
30 14 0.34
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTAGCATTTAAATCTTCAGTTTATCAAA
Found at i:25530211 original size:58 final size:58
Alignment explanation
Indices: 25530133--25530257 Score: 232
Period size: 58 Copynumber: 2.2 Consensus size: 58
25530123 AATTTAGCAC
* *
25530133 TTATAAAATTTAGCAGTAAAAATTCAATACTTAATTTTTTAGCATTTAAATCTTCAGT
1 TTATCAAATTTAGCAGTAAAAATTCAATACTTAATTTTTCAGCATTTAAATCTTCAGT
25530191 TTATCAAATTTAGCAGTAAAAATTCAATACTTAATTTTTCAGCATTTAAATCTTCAGT
1 TTATCAAATTTAGCAGTAAAAATTCAATACTTAATTTTTCAGCATTTAAATCTTCAGT
25530249 TTATCAAAT
1 TTATCAAAT
25530258 ACACTCTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (58 bp):
TTATCAAATTTAGCAGTAAAAATTCAATACTTAATTTTTCAGCATTTAAATCTTCAGT
Found at i:25532171 original size:13 final size:13
Alignment explanation
Indices: 25532155--25532179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25532145 AATAAACATC
25532155 TTAAATTAATTTG
1 TTAAATTAATTTG
25532168 TTAAATTAATTT
1 TTAAATTAATTT
25532180 CTCAATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTAAATTAATTTG
Found at i:25534546 original size:47 final size:47
Alignment explanation
Indices: 25534475--25534645 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 47
25534465 AATGCTGACA
* *
25534475 CCATGTCCCAGACAT-GGTCTTACACTGGCTAGCACATCGAAGTCGATG
1 CCATGTCCCA-A-ATAGGTCTTACACTGGCTATCACATCGATGTCGATG
* * * *
25534523 CCATGTCCCAAATAGGTCTTACACTGACTTTCATACATCGATGCCAATG
1 CCATGTCCCAAATAGGTCTTACACTGGCTATC--ACATCGATGTCGATG
* * * * * * *
25534572 CCGTGTCACAGACAGGTTTTACACTGGCTCTCATCTATTGATGTCGATG
1 CCATGTCCCAAATAGGTCTTACACTGGCTATCA-C-ATCGATGTCGATG
*
25534621 CCATGTCCCAGATAGGTCTTACACT
1 CCATGTCCCAAATAGGTCTTACACT
25534646 AACACTCAAC
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
46 2 0.02
47 17 0.17
48 11 0.11
49 68 0.69
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAAATAGGTCTTACACTGGCTATCACATCGATGTCGATG
Found at i:25542832 original size:11 final size:10
Alignment explanation
Indices: 25542816--25542850 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
25542806 GATGATGAAA
25542816 AAAGAAAAGAG
1 AAAGAAAA-AG
25542827 AAAGAAAAAG
1 AAAGAAAAAG
*
25542837 AAAAAAAAAG
1 AAAGAAAAAG
25542847 AAAG
1 AAAG
25542851 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:25544166 original size:40 final size:40
Alignment explanation
Indices: 25544108--25544285 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
25544098 TGGATGATAA
*
25544108 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25544148 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25544188 CCGGGCTAAGTCACGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
25544228 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
25544268 -CAGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25544286 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 16 0.13
40 106 0.87
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25552189 original size:40 final size:40
Alignment explanation
Indices: 25552134--25552374 Score: 394
Period size: 40 Copynumber: 6.0 Consensus size: 40
25552124 GATGATAACC
25552134 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
25552174 GGCTAAGTCCTGAAGGCATTTGTGTGAGTTACTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
25552214 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
25552254 GGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
25552294 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
25552334 GGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
25552374 G
1 G
25552375 TTAAATCCTG
Statistics
Matches: 188, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 186 0.99
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:25558306 original size:66 final size:66
Alignment explanation
Indices: 25558200--25558328 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
25558190 TAACATAACA
* * *
25558200 TACATGAGACTTCTTATAGCCAAAGCATACAAAACCTTTCTCATGTTTTCTTTTTCTTTCACTTT
1 TACATGAGACTTCCTATAGCCAAAGCATACAAAACCTTTCTCATGTTCTCTCTTTCTTTCACTTT
25558265 C
66 C
* * * *
25558266 TACATGAGTCTTCCTACT-GCCAAAGTATACAGAATCTTTCTCATGTTCTCTCTTTCTTTCACT
1 TACATGAGACTTCCTA-TAGCCAAAGCATACAAAACCTTTCTCATGTTCTCTCTTTCTTTCACT
25558329 GTATTAGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 54 0.98
67 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.42
Consensus pattern (66 bp):
TACATGAGACTTCCTATAGCCAAAGCATACAAAACCTTTCTCATGTTCTCTCTTTCTTTCACTTT
C
Found at i:25576623 original size:17 final size:17
Alignment explanation
Indices: 25576601--25576650 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
25576591 ACTCGTTAAA
25576601 GCCCGATAAATGA-AAGT
1 GCCCGATAAATGATAA-T
* *
25576618 GCCCGATCAATTATAAT
1 GCCCGATAAATGATAAT
*
25576635 GCCCGACAAATGATAA
1 GCCCGATAAATGATAA
25576651 ATGATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:25577872 original size:124 final size:124
Alignment explanation
Indices: 25577652--25577900 Score: 428
Period size: 124 Copynumber: 2.0 Consensus size: 124
25577642 TTTTATGCTT
* *
25577652 AGTTTTATTTCCCTGTTTTATAGTAAATCAGAAGCTCGTTGGTTTGGAAGCTTGGCGGAGATCAC
1 AGTTTTATTTCCCTGTTTTATAGTAAATCAGAAGCTCATTGGATTGGAAGCTTGGCGGAGATCAC
* *
25577717 TCACACTATCCGTCGGCCTATATTGGTCTATATGGTAAATCAATTATGGTTGTAATGGC
66 TCACACTATCCATCGGCCTATATTGGTCTATATGGTAAATCAATTATGGTTGTAAGGGC
25577776 AGTTTTATTTCCCTGTTTTATAGTAAATC-GAAAGCTCATTGGATTGGAAGCTTGGCGGAGATCA
1 AGTTTTATTTCCCTGTTTTATAGTAAATCAG-AAGCTCATTGGATTGGAAGCTTGGCGGAGATCA
* *
25577840 CTCACACTATCCATTGGCCTATGTTGGTCTATATGGTAAATCAATTATGGTTGTAAGGGC
65 CTCACACTATCCATCGGCCTATATTGGTCTATATGGTAAATCAATTATGGTTGTAAGGGC
25577900 A
1 A
25577901 TGTATAGGAT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
123 1 0.01
124 117 0.99
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (124 bp):
AGTTTTATTTCCCTGTTTTATAGTAAATCAGAAGCTCATTGGATTGGAAGCTTGGCGGAGATCAC
TCACACTATCCATCGGCCTATATTGGTCTATATGGTAAATCAATTATGGTTGTAAGGGC
Found at i:25578604 original size:22 final size:21
Alignment explanation
Indices: 25578557--25578604 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25578547 CGGCCTATAG
*
25578557 CACGGGCGTGTCCCTAGGTCA
1 CACGGGCGTGTCCCTAGGCCA
* *
25578578 CACGGGCGTGTCTCTTGGACCA
1 CACGGGCGTGTCCCTAGG-CCA
25578600 CACGG
1 CACGG
25578605 ATGTGTCAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCTAGGCCA
Found at i:25583774 original size:48 final size:48
Alignment explanation
Indices: 25583655--25584029 Score: 385
Period size: 48 Copynumber: 7.7 Consensus size: 48
25583645 GGGTAAAATA
* * * **
25583655 CCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATATATCGGTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGG--CACATATAACAATG
* * *
25583705 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTATAACAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATAACAATG
* * * *** *
25583753 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGTATATTGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATAACAATG
* * * * *
25583801 CCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATAACAATG
* * * *
25583849 CCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATATATCAAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGG--CACATATAACAATG
* * * *
25583899 CCGATGCCATCTCCCAGACATGGTCTTACACTGGCTCACATATACCGATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGG--CACATATAACAATG
* * *
25583949 CCGATTCCATGTCCCAAACATGGTCTTACACTGACACATAT--CAAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATAACAATG
* *
25583995 CCGATGCCATGTCCCAAATAAGGTCTTACACTGGC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGC
25584030 TCTCATATCG
Statistics
Matches: 273, Mismatches: 50, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
46 34 0.12
48 125 0.46
50 114 0.42
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATAACAATG
Found at i:25583844 original size:96 final size:95
Alignment explanation
Indices: 25583655--25584036 Score: 464
Period size: 96 Copynumber: 3.9 Consensus size: 95
25583645 GGGTAAAATA
*
25583655 CCGATGCCATG-TCTCAAACATGGTCTTACACTGGCTCTCATAT-ATCGGTGCCGATGCCATGTC
1 CCGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCT-ATATCA--AG-GCCGATGCCATGTC
* * **
25583718 CCAGACATGGTCTTACACTGACACGTATAACAATG
61 CCAGACATGGTCTTACACTGGCTCACATAACAATG
** * *
25583753 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGTATATTGAGGCCAATGCCATGTCCTAG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-TATATCAAGGCCGATGCCATGTCCCAG
25583818 ACATGGTCTTACACTGGCTCACATAACAATG
65 ACATGGTCTTACACTGGCTCACATAACAATG
* *
25583849 CCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATATATCAAGGCCGATGCCATCTCCC
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCT--C-TATATCAAGGCCGATGCCATGTCCC
*
25583914 AGACATGGTCTTACACTGGCTCACATATACCGATG
63 AGACATGGTCTTACACTGGCTCACATA-A-CAATG
* * * * *
25583949 CCGATTCCATGTCCCAAACATGGTCTTACACTGACAC-ATATCAAGGCCGATGCCATGTCCCAAA
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTATATCAAGGCCGATGCCATGTCCCAGA
* * *
25584013 TAAGGTCTTACACTGGCTCTCATA
66 CATGGTCTTACACTGGCTCACATA
25584037 TCGCCATGGT
Statistics
Matches: 251, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
96 124 0.49
97 1 0.00
98 87 0.35
99 4 0.02
100 35 0.14
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (95 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTATATCAAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCACATAACAATG
Found at i:25583922 original size:146 final size:147
Alignment explanation
Indices: 25583658--25584037 Score: 439
Period size: 146 Copynumber: 2.6 Consensus size: 147
25583648 TAAAATACCG
* ** *
25583658 ATGCCATGT-CTCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTCCCAG
1 ATGCCATGTCCT-AAACATGGTCTTACACTGGCTCACATA-A-CAATGCCGATGCCATGTCCCAA
* * * * *
25583722 ACATGGTCTTACACT-G-ACACGTATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACT
63 ACATGGTCTTACACTGGCTCACATATAACAAGGCCGATGCCATCTCCCAAACATGGTCTTACACT
* **
25583785 GGCT-CGTATATTGAGGCCA
128 GGCTACATATACCGAGGCCA
* * *
25583804 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCTAAACA
1 ATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTCCCAAACA
* *
25583869 TGGTCTTACACTGGCTCACATATATCAAGGCCGATGCCATCTCCCAGACATGGTCTTACACTGGC
66 TGGTCTTACACTGGCTCACATATAACAAGGCCGATGCCATCTCCCAAACATGGTCTTACACTGGC
* *
25583934 TCACATATACCGATGCCG
131 T-ACATATACCGAGGCCA
* * * * * *
25583952 ATTCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCAAGGCCGATGCCATGTCCCAAATA
1 ATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTCCCAAACA
* *
25584015 AGGTCTTACACTGGCTCTCATAT
66 TGGTCTTACACTGGCTCACATAT
25584038 CGCCATGGTC
Statistics
Matches: 199, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
144 32 0.16
145 2 0.01
146 126 0.63
147 3 0.02
148 36 0.18
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (147 bp):
ATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGGCTCACATATAACAAGGCCGATGCCATCTCCCAAACATGGTCTTACACTGGC
TACATATACCGAGGCCA
Found at i:25597757 original size:45 final size:45
Alignment explanation
Indices: 25597693--25597779 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
25597683 CCAAAACATG
* *
25597693 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACACAAGGAGTTCGGA
* *
25597738 TGTCACATATATCATGAACTCAGACCCCAACACAAGGAGTTC
1 TGTCACATATATCACGAACTCAGACCACAACACAAGGAGTTC
25597780 AGATCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.22
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACACAAGGAGTTCGGA
Found at i:25600932 original size:46 final size:46
Alignment explanation
Indices: 25600785--25600955 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
25600775 AACCCGCCCC
* *
25600785 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25600830 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25600877 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25600922 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25600956 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 21 0.20
45 13 0.12
46 35 0.33
47 25 0.24
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25608300 original size:93 final size:93
Alignment explanation
Indices: 25608193--25608363 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25608183 GCCCCTAAGT
* *
25608193 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25608258 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
25608286 GAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25608351 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25608364 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25608360 original size:46 final size:46
Alignment explanation
Indices: 25608188--25608360 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
25608178 AACCCGCCCC
* * * *
25608188 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
* *
25608234 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
25608282 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
25608327 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25608361 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:25608816 original size:30 final size:30
Alignment explanation
Indices: 25608782--25608841 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25608772 ATTTAATACG
25608782 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
25608812 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
25608842 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:25610157 original size:28 final size:28
Alignment explanation
Indices: 25610126--25610222 Score: 149
Period size: 28 Copynumber: 3.5 Consensus size: 28
25610116 TCGATATTTA
** *
25610126 GCACACTAAGTGCCATACCCAATATCTC
1 GCACACTAAGTGCCATATTCAATGTCTC
*
25610154 GCACACTAAGTGTCATATTCAATGTCTC
1 GCACACTAAGTGCCATATTCAATGTCTC
*
25610182 GCACACTAAGTGCCATATTCAATGTCTT
1 GCACACTAAGTGCCATATTCAATGTCTC
25610210 GCACACTAAGTGC
1 GCACACTAAGTGC
25610223 TAAACTTAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
GCACACTAAGTGCCATATTCAATGTCTC
Found at i:25623601 original size:26 final size:26
Alignment explanation
Indices: 25623572--25623625 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
25623562 CGCTAAAAGT
* *
25623572 CATGACCTTTAGCGGCGCTTTTCCCA
1 CATGACCTTTAGCAGCGCTTATCCCA
25623598 CATGACCTTTAGCAGCGCTTATCCCA
1 CATGACCTTTAGCAGCGCTTATCCCA
25623624 CA
1 CA
25623626 AACGCCGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.17, T:0.28
Consensus pattern (26 bp):
CATGACCTTTAGCAGCGCTTATCCCA
Found at i:25623732 original size:43 final size:43
Alignment explanation
Indices: 25623598--25623723 Score: 207
Period size: 43 Copynumber: 2.9 Consensus size: 43
25623588 GCTTTTCCCA
*
25623598 CATGACCTTTAGCAGCGCTTATCCCACAAACGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGGT
*
25623641 CATGACCGTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGGT
* * *
25623684 CATGACTTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAA
1 CATGACCTTTAGCGGCGCTTATCCCACAAACGCCGCTAAA
25623724 AATTATGACC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGGT
Found at i:25630051 original size:26 final size:26
Alignment explanation
Indices: 25630028--25630094 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
25630018 ATGTTAAAAA
25630028 TTATTAGTTAAATAATTTTATAAAATAT
1 TTATTA-TT-AATAATTTTATAAAATAT
* * *
25630056 TTATTATTACTATTTTTATAAATTAGT
1 TTATTATTAATAATTTTATAAAATA-T
*
25630083 TT-TTATAAATAA
1 TTATTATTAATAA
25630095 AAAATTAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 21 0.66
27 5 0.16
28 6 0.19
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (26 bp):
TTATTATTAATAATTTTATAAAATAT
Found at i:25630797 original size:14 final size:14
Alignment explanation
Indices: 25630774--25630821 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
25630764 CAATAAAACA
*
25630774 TAAACACTTAACCC
1 TAAACCCTTAACCC
* * *
25630788 TTAACCCTTAAACA
1 TAAACCCTTAACCC
25630802 TAAACCCTTAACCCC
1 TAAACCCTTAA-CCC
25630817 TAAAC
1 TAAAC
25630822 TTTAAACCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTTAACCC
Found at i:25630835 original size:28 final size:28
Alignment explanation
Indices: 25630769--25630838 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
25630759 TTGAACAATA
* * *
25630769 AAACATAAACACTTAACCCTTAACCCTT
1 AAACATAAACCCTTAACCCCTAAACCTT
*
25630797 AAACATAAACCCTTAACCCCTAAACTTT
1 AAACATAAACCCTTAACCCCTAAACCTT
*
25630825 AAACCATAACCCCT
1 AAA-CATAAACCCT
25630839 AAAACTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 27 0.75
29 9 0.25
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACATAAACCCTTAACCCCTAAACCTT
Found at i:25630855 original size:21 final size:22
Alignment explanation
Indices: 25630774--25630852 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
25630764 CAATAAAACA
25630774 TAAACACTT-AACCCTTAA-CCC
1 TAAA-ACTTAAACCCTTAACCCC
* *
25630795 TTAAACATAAACCCTTAACCCC
1 TAAAACTTAAACCCTTAACCCC
*
25630817 T-AAACTTTAAA-CCATAACCCC
1 TAAAAC-TTAAACCCTTAACCCC
25630838 TAAAACTTAAACCCT
1 TAAAACTTAAACCCT
25630853 AACTTTTAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.06
21 31 0.65
22 14 0.29
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAAACTTAAACCCTTAACCCC
Found at i:25630995 original size:49 final size:49
Alignment explanation
Indices: 25630942--25631039 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
25630932 TATCGTAAAC
25630942 CCTAAAATATAATGATAATTAATTAAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTAAATATTTTAAAATTAATACTATCT
*
25630991 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTAAATATTTTAAAATTAATACTATCT
25631040 TATTTACAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (49 bp):
CCTAAAATATAATGATAATTAATTAAATATTTTAAAATTAATACTATCT
Found at i:25631336 original size:40 final size:40
Alignment explanation
Indices: 25631268--25631375 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
25631258 AAATTATTTT
*
25631268 GCGGCGTTTTTTATTAAAA-CGCCACTAAAGATCAAGCAT-TA
1 GCGGCGTTTTTTA--AAAAGCGCCGCTAAAGATCAA-CATATA
* **
25631309 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACATATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAACATATA
*
25631349 GCGGCGTTTTTAAAAAAGCGCCGCTAA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAA
25631376 TACTAGATCT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 7 0.12
40 40 0.67
41 13 0.22
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAACATATA
Found at i:25631391 original size:40 final size:40
Alignment explanation
Indices: 25631306--25631417 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
25631296 AGATCAAGCA
* *
25631306 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACAT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTGTACAT
*
25631346 ATAGCGGCGTTTTTAAAAAAGCGCCGCTAATA-CTAG-ATC-T
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAA-AGCT-GTA-CAT
* * *
25631386 TTAGCGGCGTTTTT-AGAAAGTGTCGCTAAAGC
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGC
25631418 AACCAAAGGC
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 1 0.02
39 13 0.21
40 44 0.72
41 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTGTACAT
Found at i:25631590 original size:39 final size:40
Alignment explanation
Indices: 25631501--25631592 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
25631491 GGTGTACATA
* *
25631501 TAGCGGCGTTTTTATAAAAGCGCCGCTAATACTCAATCTT
1 TAGCGGCGTTTTTAGAAAAGCACCGCTAATACTCAATCTT
** * **
25631541 TAGCAACGTTTTT-GAAAAGCACCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAGAAAAGCACCGCTAATACTCAATCTT
*
25631580 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
25631593 CATTCAAACG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
39 31 0.74
40 11 0.26
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (40 bp):
TAGCGGCGTTTTTAGAAAAGCACCGCTAATACTCAATCTT
Found at i:25638621 original size:7 final size:7
Alignment explanation
Indices: 25638609--25638635 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25638599 TTTGCATTAT
25638609 AATATTG
1 AATATTG
25638616 AATATTG
1 AATATTG
25638623 AATATTG
1 AATATTG
25638630 AATATT
1 AATATT
25638636 TTCATGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (7 bp):
AATATTG
Found at i:25639562 original size:27 final size:26
Alignment explanation
Indices: 25639510--25639562 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
25639500 TAATTTAAAA
* **
25639510 TTTAATTTTATACTTATTTTTCTGTT
1 TTTAATTTTATACTTATTCTAATGTT
25639536 TTTAATTTTATACTTTATTCTAATGTT
1 TTTAATTTTATAC-TTATTCTAATGTT
25639563 ATGAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTAATTTTATACTTATTCTAATGTT
Found at i:25641373 original size:24 final size:24
Alignment explanation
Indices: 25641338--25641385 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
25641328 AAGACTCAAG
* *
25641338 AGACACATTGCTTCTGTTCCACAT
1 AGACACACTGCTCCTGTTCCACAT
25641362 AGACACACTGCTCCTGTTCCACAT
1 AGACACACTGCTCCTGTTCCACAT
25641386 CTATGGATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (24 bp):
AGACACACTGCTCCTGTTCCACAT
Found at i:25641674 original size:77 final size:77
Alignment explanation
Indices: 25641547--25641701 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
25641537 AGAGTGCATT
25641547 CATGTGTGTTATGGCATGAGATCAAATTTCTCAAAATGTATCTTTGGGTGACAAAACCTGATTGA
1 CATGTGTGTTATGGCATGAGATCAAATTTCTCAAAATGTATCTTTGGGTGACAAAACCTGATTGA
*
25641612 GACTTGTGATGG
66 GACATGTGATGG
* *
25641624 CATGTGTGTTATGGCCTGAGATCAAATTTCTCAAAATGTATCTTTGGGTGACAAAACTTGATTGA
1 CATGTGTGTTATGGCATGAGATCAAATTTCTCAAAATGTATCTTTGGGTGACAAAACCTGATTGA
25641689 GACATGTGATGG
66 GACATGTGATGG
25641701 C
1 C
25641702 CCAAATAGAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (77 bp):
CATGTGTGTTATGGCATGAGATCAAATTTCTCAAAATGTATCTTTGGGTGACAAAACCTGATTGA
GACATGTGATGG
Found at i:25646684 original size:15 final size:15
Alignment explanation
Indices: 25646664--25646694 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25646654 TTGTTATGGG
*
25646664 TATGAGTGAAATCTA
1 TATGAGAGAAATCTA
25646679 TATGAGAGAAATCTA
1 TATGAGAGAAATCTA
25646694 T
1 T
25646695 GTAAATGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
TATGAGAGAAATCTA
Found at i:25651490 original size:28 final size:28
Alignment explanation
Indices: 25651459--25651544 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
25651449 TTTTCAGTGA
25651459 TCACCACAGAGGTTGTTCTTTTCATACT
1 TCACCACAGAGGTTGTTCTTTTCATACT
* * * *
25651487 TCACTATAGATGTTGTTCTTTTCACACT
1 TCACCACAGAGGTTGTTCTTTTCATACT
* * * *
25651515 TCGCCACAAAGGCTATTCTTTTCATACT
1 TCACCACAGAGGTTGTTCTTTTCATACT
25651543 TC
1 TC
25651545 GCTACAAAGG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (28 bp):
TCACCACAGAGGTTGTTCTTTTCATACT
Found at i:25651578 original size:27 final size:27
Alignment explanation
Indices: 25651514--25651618 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
25651504 CTTTTCACAC
*
25651514 TTCGCCACAAAGGCTATTCTTTTCAT-A
1 TTCGCCACAAAGGCT-TTCATTTCATGA
*
25651541 CTTCGCTACAAAGGCTTTCATTTCATGA
1 -TTCGCCACAAAGGCTTTCATTTCATGA
* *
25651569 TTTGCCACAAAGGCATTCATTTCATGA
1 TTCGCCACAAAGGCTTTCATTTCATGA
* *
25651596 TTCACCACAAAGGATTTCATTTC
1 TTCGCCACAAAGGCTTTCATTTC
25651619 CTGACGTGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (27 bp):
TTCGCCACAAAGGCTTTCATTTCATGA
Found at i:25656685 original size:26 final size:25
Alignment explanation
Indices: 25656656--25656707 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
25656646 ACTTTTGTTA
25656656 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-T-AAAATGTGAAAT
25656682 AGGGACTAATTTGTAAAATGTGAAAT
1 AGGGACT-ATTTGTAAAATGTGAAAT
25656708 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 19 0.79
27 1 0.04
28 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTAAAATGTGAAAT
Found at i:25657319 original size:42 final size:42
Alignment explanation
Indices: 25657204--25657321 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
25657194 GGACTACCGA
* * *
25657204 GATTTCGTATAAGACC-CTATCTA-GAATATGGCATCGGTATAT
1 GATTTCATATAAGACCAC-ATC-AGGGATATGGCATCGATATAT
* * *
25657246 GATTTCATATAAGACCACGTTAGGGACATGGCATCGATATGAT
1 GATTTCATATAAGACCACATCAGGGATATGGCATCGATAT-AT
* * *
25657289 -ATTTCATGTAAGACCATATCCGGGATATGGCAT
1 GATTTCATATAAGACCACATCAGGGATATGGCAT
25657322 TAACACGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 57 0.93
43 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (42 bp):
GATTTCATATAAGACCACATCAGGGATATGGCATCGATATAT
Found at i:25663295 original size:13 final size:13
Alignment explanation
Indices: 25663277--25663301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25663267 TTTAACAGGA
25663277 ATTAAACTTACCG
1 ATTAAACTTACCG
25663290 ATTAAACTTACC
1 ATTAAACTTACC
25663302 AATCTCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAAACTTACCG
Found at i:25668642 original size:12 final size:12
Alignment explanation
Indices: 25668627--25668657 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25668617 GCCATATCGC
25668627 AGGCCATGTACT
1 AGGCCATGTACT
*
25668639 AGGCCGTGTACT
1 AGGCCATGTACT
25668651 AGGCCAT
1 AGGCCAT
25668658 TCTGACTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (12 bp):
AGGCCATGTACT
Found at i:25670253 original size:26 final size:26
Alignment explanation
Indices: 25670224--25670332 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
25670214 TGGTACAAAT
25670224 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25670250 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25670276 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25670302 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25670328 TGATA
1 TGATA
25670333 GGCATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25671979 original size:27 final size:26
Alignment explanation
Indices: 25671939--25672079 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
25671929 AGGAAGCGTC
*
25671939 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
25671966 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
25671993 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
25672020 CTGGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* * *
25672047 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
25672074 CTGGTG
1 CTGGTG
25672080 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:25672021 original size:54 final size:53
Alignment explanation
Indices: 25671939--25672097 Score: 203
Period size: 54 Copynumber: 3.0 Consensus size: 53
25671929 AGGAAGCGTC
*
25671939 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
* *
25671993 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
* * * * * *
25672047 CTGGTGGCTCTACCACAATATCTGTATCTGGTGACTTCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
25672098 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 14 0.15
54 78 0.85
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
Found at i:25675104 original size:10 final size:10
Alignment explanation
Indices: 25675091--25675124 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25675081 TTACTTCTAT
25675091 TTATCTTTAA
1 TTATCTTTAA
25675101 TTATCTTTAA
1 TTATCTTTAA
* *
25675111 TTGTCTTTAT
1 TTATCTTTAA
25675121 TTAT
1 TTAT
25675125 TTGTGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:25684651 original size:10 final size:10
Alignment explanation
Indices: 25684636--25684673 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
25684626 GGCAACCCAA
25684636 TTTTTATTTC
1 TTTTTATTTC
*
25684646 TTTTTATTTA
1 TTTTTATTTC
25684656 TTTCTT-TTTC
1 TTT-TTATTTC
25684666 TTTTTATT
1 TTTTTATT
25684674 ATTTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.83
11 2 0.08
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTC
Found at i:25684657 original size:14 final size:14
Alignment explanation
Indices: 25684638--25684664 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25684628 CAACCCAATT
25684638 TTTATTTCTTTTTA
1 TTTATTTCTTTTTA
25684652 TTTATTTCTTTTT
1 TTTATTTCTTTTT
25684665 CTTTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTCTTTTTA
Found at i:25684690 original size:23 final size:22
Alignment explanation
Indices: 25684636--25684690 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
25684626 GGCAACCCAA
25684636 TTTTTAT-TTCTTTTTATTTAT
1 TTTTTATCTTCTTTTTATTTAT
*
25684657 TTCTTTTTCTT-TTTATTATTTAT
1 TT-TTTATCTTCTTT-TTATTTAT
25684680 TATTTTATCTT
1 T-TTTTATCTT
25684691 AATGATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 2 0.07
22 7 0.25
23 18 0.64
24 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTATCTTCTTTTTATTTAT
Found at i:25686491 original size:20 final size:20
Alignment explanation
Indices: 25686468--25686508 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25686458 GATTTATTTC
*
25686468 TATTTATTTTTAATTATCTT
1 TATTTATTTGTAATTATCTT
*
25686488 TATTTATTTGTATTTATCTT
1 TATTTATTTGTAATTATCTT
25686508 T
1 T
25686509 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTATTTGTAATTATCTT
Found at i:25688975 original size:26 final size:26
Alignment explanation
Indices: 25688910--25688969 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
25688900 CTTACATCAA
*
25688910 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
25688936 TACTCACACGAGCTGTGGAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
25688962 TGCTCACA
1 TGCTCACA
25688970 TAAGCTACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:25693010 original size:47 final size:47
Alignment explanation
Indices: 25692872--25693042 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 47
25692862 ATAGTAAAAC
* * * *
25692872 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
25692921 CATGGTCTTACAC-GGATCACATATCACACTGATGTCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
25692967 TATGGTCTTATACAGTAGCACATATCACACCGATGCCACATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
25693014 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
25693043 TTTCTTCGAA
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 25 0.25
47 54 0.53
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:25695755 original size:30 final size:30
Alignment explanation
Indices: 25695703--25695799 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
25695693 TTATGGAGCA
25695703 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
* *
25695734 AAGATAGAGAAACCCAGAATAAAGAAATTC
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * *
25695764 -AGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
25695794 AAGATA
1 AAGATA
25695800 CGATACTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 9 0.16
30 39 0.71
31 7 0.13
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:25695759 original size:15 final size:15
Alignment explanation
Indices: 25695711--25695790 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
25695701 CAAAGATAAG
*
25695711 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
25695725 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
25695740 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
25695755 AAGAAATTCAGAATA
1 AAGAAATCCAGAATA
* *
25695770 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
25695785 AAGAAA
1 AAGAAA
25695791 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:25695799 original size:15 final size:15
Alignment explanation
Indices: 25695722--25695799 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25695712 AGAAAACCGA
25695722 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
25695737 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
25695751 AATAAAGAAATTC-AG
1 -ATAAAGAAATCCAAG
* *
25695766 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25695782 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25695797 ATA
1 ATA
25695800 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 44 0.88
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25699146 original size:52 final size:49
Alignment explanation
Indices: 25698964--25699156 Score: 173
Period size: 47 Copynumber: 4.0 Consensus size: 49
25698954 TGCACATAGT
* ** * *
25698964 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * *
25699012 CACATACCACACT--GATGCCATATCTCAGATATGGTCTTATGCAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
25699059 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
25699106 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
25699157 ATCACATTTC
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
46 23 0.20
47 51 0.44
48 10 0.09
49 1 0.01
52 31 0.27
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:25709344 original size:14 final size:14
Alignment explanation
Indices: 25709323--25709391 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
25709313 CTTACCTAAT
25709323 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
25709337 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
*
25709351 TGTGTAAGTTGTGA
1 TGTGCAAGTTGTGA
* * *
25709365 TTTGCAAGTCGTAA
1 TGTGCAAGTTGTGA
25709379 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
25709392 CAAGTTGCAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:25709363 original size:28 final size:28
Alignment explanation
Indices: 25709323--25709391 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
25709313 CTTACCTAAT
*
25709323 TGTGCAAGTTGTGATTTGCAAGTTGCAA
1 TGTGCAAGTTGTGATTTGCAAGTCGCAA
* *
25709351 TGTGTAAGTTGTGATTTGCAAGTCGTAA
1 TGTGCAAGTTGTGATTTGCAAGTCGCAA
25709379 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
25709392 CAAGTTGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (28 bp):
TGTGCAAGTTGTGATTTGCAAGTCGCAA
Found at i:25714148 original size:50 final size:50
Alignment explanation
Indices: 25714030--25714424 Score: 382
Period size: 50 Copynumber: 7.8 Consensus size: 50
25714020 GTTGTGAGAA
* * * *
25714030 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* *
25714082 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * * *
25714132 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* *
25714183 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * * *
25714233 CGCATGTGCAGTACTAAGTGCAGGCTACTATGCATACTC-GATAGCTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TTAGGT
* * * *
25714284 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
25714334 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * *
25714384 CGCATGTGTAGAACTAAGTGTAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
25714425 GAGCTTCAGT
Statistics
Matches: 279, Mismatches: 58, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 166 0.59
51 78 0.28
52 29 0.10
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:25714211 original size:101 final size:101
Alignment explanation
Indices: 25714081--25714363 Score: 449
Period size: 101 Copynumber: 2.8 Consensus size: 101
25714071 CAGTTTTAGG
* *
25714081 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
*
25714146 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
* *
25714182 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGCAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
* *
25714247 TAAGTGCAGGCTACTATGCATACTCGATAGCTTTGA
66 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
* * * * *
25714283 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
*
25714348 TAAGTGTAGGCTACTA
66 TAAGTGCAGGCTACTA
25714364 CATGTACCAG
Statistics
Matches: 167, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 167 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
Found at i:25714430 original size:151 final size:152
Alignment explanation
Indices: 25714076--25714430 Score: 446
Period size: 151 Copynumber: 2.3 Consensus size: 152
25714066 TAAGACAGTT
* * * * * * **
25714076 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG-TTAGGTTGCATGTG
1 TTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTAGATCACATGTG
* * * *
25714140 TAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACGTGTGTAGTACTAAGTACA
66 TAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGCTTAGATCACGTGTGTAGTACTAAGTACA
*
25714205 GGCTACTACGTGTACCAGATTG
131 GGCTACTACATGTACCAGATTG
* * * * *
25714227 TTAGGTCGCATGTGCAGTACTAAGTGCAGGCTACTATGCATACTC-GATAGCTTTGATCACGTGT
1 TTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAC-CAGATAGCTTAGATCACATGT
* * * * **
25714291 GTAGTACTAAGTGCAAGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGT
65 GTAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGCTTAGATCACGTGTGTAGTACTAAGTAC
25714355 AGGCTACTACATGTACCAGATTG
130 AGGCTACTACATGTACCAGATTG
* *
25714378 TTAGGTCGCATGTGTAGAACTAAGTGTAGGCTACTATGCGTACCAGAGAGCTT
1 TTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTT
25714431 CAGTTACAAG
Statistics
Matches: 172, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
150 1 0.01
151 132 0.77
152 39 0.23
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (152 bp):
TTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTAGATCACATGTG
TAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGCTTAGATCACGTGTGTAGTACTAAGTACA
GGCTACTACATGTACCAGATTG
Found at i:25717680 original size:14 final size:14
Alignment explanation
Indices: 25717659--25717699 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25717649 CTTACCTAAT
25717659 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
25717673 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
25717687 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
25717700 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:25727919 original size:25 final size:25
Alignment explanation
Indices: 25727885--25727935 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25727875 ATAATACAAG
25727885 TTTACATACCAAATTTGACTCTCTC
1 TTTACATACCAAATTTGACTCTCTC
25727910 TTTACATACCAAATTTGACTCTCTC
1 TTTACATACCAAATTTGACTCTCTC
25727935 T
1 T
25727936 CTCTCTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTACATACCAAATTTGACTCTCTC
Found at i:25731476 original size:11 final size:12
Alignment explanation
Indices: 25731447--25731475 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25731437 TTAAGAAGGG
25731447 AAAAAAGAAAAA
1 AAAAAAGAAAAA
25731459 AAAAAAGAAAAA
1 AAAAAAGAAAAA
25731471 AAAAA
1 AAAAA
25731476 GGGGAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:25735504 original size:11 final size:11
Alignment explanation
Indices: 25735472--25735505 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25735462 TGCTTCTCTG
*
25735472 TTTCTATTCTA
1 TTTCTATTCTT
*
25735483 TTTCTTTTCTT
1 TTTCTATTCTT
25735494 TTTCTATTCTT
1 TTTCTATTCTT
25735505 T
1 T
25735506 ATTTGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTATTCTT
Found at i:25740883 original size:27 final size:26
Alignment explanation
Indices: 25740853--25740941 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
25740843 TTTATATAAA
25740853 ATAGTCATGACTGACTTTCCACAAAAG
1 ATAGTCATGAC-GACTTTCCACAAAAG
* * *
25740880 ATAGTCTTGACAGACTTTCTACCAAAG
1 ATAGTCATGAC-GACTTTCCACAAAAG
* * **
25740907 ATAGTCCTGACGAACTTCCCACATTAG
1 ATAGTCATGACG-ACTTTCCACAAAAG
25740934 ATAGTCAT
1 ATAGTCAT
25740942 TGTGGACTTC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGTCATGACGACTTTCCACAAAAG
Found at i:25740950 original size:27 final size:26
Alignment explanation
Indices: 25740920--25740991 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
25740910 GTCCTGACGA
* **
25740920 ACTTCCCACATTAGATAGTCATTGTGG
1 ACTTCCCGCATTAGATAGTC-TTGCAG
* *
25740947 ACTTCCTGCATAAGATAGTCTTGCAG
1 ACTTCCCGCATTAGATAGTCTTGCAG
*
25740973 ACTTCCCGCATTACATAGT
1 ACTTCCCGCATTAGATAGT
25740992 TATTACAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (26 bp):
ACTTCCCGCATTAGATAGTCTTGCAG
Found at i:25740983 original size:26 final size:26
Alignment explanation
Indices: 25740877--25740983 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 26
25740867 CTTTCCACAA
*
25740877 AAGATAGTCTTGACAGACTTTCTAC-CA-
1 AAGATAGTCTTG-CAGAC-TTC-CCGCAT
* *
25740904 AAGATAGTCCTG-ACGAACTTCCCACAT
1 AAGATAGTCTTGCA-G-ACTTCCCGCAT
* ** *
25740931 TAGATAGTCATTGTGGACTTCCTGCAT
1 AAGATAGTC-TTGCAGACTTCCCGCAT
25740958 AAGATAGTCTTGCAGACTTCCCGCAT
1 AAGATAGTCTTGCAGACTTCCCGCAT
25740984 TACATAGTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
25 2 0.03
26 20 0.32
27 38 0.60
28 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (26 bp):
AAGATAGTCTTGCAGACTTCCCGCAT
Found at i:25740990 original size:26 final size:27
Alignment explanation
Indices: 25740920--25741011 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
25740910 GTCCTGACGA
* **
25740920 ACTTCCCACATTAGATAGTCATTGTGG
1 ACTTCCCGCATTAGATAGTCATTGCAG
* *
25740947 ACTTCCTGCATAAGATAGTC-TTGCAG
1 ACTTCCCGCATTAGATAGTCATTGCAG
* * * *
25740973 ACTTCCCGCATTACATAGTTATTACAA
1 ACTTCCCGCATTAGATAGTCATTGCAG
*
25741000 ACTTCCCACATT
1 ACTTCCCGCATT
25741012 TACGGTAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 20 0.38
27 32 0.62
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (27 bp):
ACTTCCCGCATTAGATAGTCATTGCAG
Found at i:25742513 original size:49 final size:49
Alignment explanation
Indices: 25742451--25742611 Score: 122
Period size: 49 Copynumber: 3.3 Consensus size: 49
25742441 TTTAAAGCCT
* *
25742451 AAAAAGTATAAATAAATTATACTAAAAAAATCAAAAAATATTGTATTAA
1 AAAAATTAAAAATAAATTATACTAAAAAAATCAAAAAATATTGTATTAA
* * **
25742500 AAAAATTAAAAATAAA-GA-A-TAAGAAAAATGTATCAAATGATTCG-A--AA
1 AAAAATTAAAAATAAATTATACTAA-AAAAAT-CAAAAAAT-ATT-GTATTAA
* * * *
25742547 AGAAATGAACACAATAAGTTATACT--AAAAATCAAAACATATTGTATTAA
1 AAAAATTAA-A-AATAAATTATACTAAAAAAATCAAAAAATATTGTATTAA
25742596 AAAAATTAAAAATAAA
1 AAAAATTAAAAATAAA
25742612 AAAAGAAGAA
Statistics
Matches: 83, Mismatches: 17, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
46 4 0.05
47 25 0.30
48 12 0.14
49 38 0.46
50 2 0.02
51 1 0.01
52 1 0.01
ACGTcount: A:0.63, C:0.06, G:0.07, T:0.25
Consensus pattern (49 bp):
AAAAATTAAAAATAAATTATACTAAAAAAATCAAAAAATATTGTATTAA
Found at i:25742594 original size:96 final size:98
Alignment explanation
Indices: 25742461--25742655 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 98
25742451 AAAAAGTATA
* *
25742461 AATAAATTATACTAAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAAT-AAAGAATAAGAA
1 AATAAATTATACT-AAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAA
*
25742525 AAATGTATCAAATGATTCGAAAAGAAATGAACAC
65 AAATGTATCAAATGATTCAAAAAGAAATGAACAC
* *
25742559 AATAAGTTATACT-AAAAATCAAAACATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
1 AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
25742623 AATGTATCAAATGATTCAAAAAGAAATGAACAC
66 AATGTATCAAATGATTCAAAAAGAAATGAACAC
25742656 GAAATAGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
96 36 0.40
97 43 0.47
98 12 0.13
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.23
Consensus pattern (98 bp):
AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
AATGTATCAAATGATTCAAAAAGAAATGAACAC
Done.