Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 193 of 196
Found at i:57631856 original size:18 final size:18
Alignment explanation
Indices: 57631830--57631869 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
57631820 TATACAGCCA
*
57631830 GAGCTGGAGCAGGAGCAG
1 GAGCGGGAGCAGGAGCAG
*
57631848 GAGCGGGAGCTGGAGCAG
1 GAGCGGGAGCAGGAGCAG
57631866 GAGC
1 GAGC
57631870 TGGGGCAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.53, T:0.05
Consensus pattern (18 bp):
GAGCGGGAGCAGGAGCAG
Found at i:57632867 original size:24 final size:24
Alignment explanation
Indices: 57632840--57632885 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
57632830 TGTAACCAGG
*
57632840 ATTCAGGCTAGGGTAAGAGCTGTT
1 ATTCAGACTAGGGTAAGAGCTGTT
57632864 ATTCAGACTAGGGTAAGAGCTG
1 ATTCAGACTAGGGTAAGAGCTG
57632886 CTACTGCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (24 bp):
ATTCAGACTAGGGTAAGAGCTGTT
Found at i:57632974 original size:72 final size:72
Alignment explanation
Indices: 57632854--57633073 Score: 359
Period size: 72 Copynumber: 3.1 Consensus size: 72
57632844 AGGCTAGGGT
* *
57632854 AAGAGCTGTTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
*
57632919 GCACCCG
66 GAACCCG
* * * * *
57632926 AAGAGCTGCTATTGAGACTAGGGTGAGACCTGCTACTGCTTCCAAAGAGCCCATTAACCACTGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
57632991 GAACCCG
66 GAACCCG
*
57632998 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACCGCTTCCAAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
57633063 GAACCCG
66 GAACCCG
57633070 AAGA
1 AAGA
57633074 ATGAAAGCCA
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 134 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (72 bp):
AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
GAACCCG
Found at i:57639440 original size:50 final size:50
Alignment explanation
Indices: 57639345--57639444 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
57639335 ACCTTATTCT
* * *
57639345 AATCAATGTCAAATAGAAGAAGAGTGGTTATATACGGATTCTACTTGTGC
1 AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTCTACTTGTGC
* *
57639395 AATCAATGTCAAATAAAAGAAAAGTAGTTCTATATGGA-TCTTACTTGTGC
1 AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTC-TACTTGTGC
57639445 TACTTGGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTCTACTTGTGC
Found at i:57640696 original size:19 final size:15
Alignment explanation
Indices: 57640654--57640684 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57640644 CCCACCTTAT
57640654 GGGTGATAATTAATG
1 GGGTGATAATTAATG
57640669 GGGTGATAATTAATG
1 GGGTGATAATTAATG
57640684 G
1 G
57640685 TGTGTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
GGGTGATAATTAATG
Found at i:57646251 original size:2 final size:2
Alignment explanation
Indices: 57646244--57646283 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
57646234 AAATATAGAA
57646244 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57646284 TTCGTTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57654835 original size:23 final size:24
Alignment explanation
Indices: 57654790--57654835 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
57654780 GATTAAAGTT
*
57654790 ATGGATAAAATTTGGTTTTAAATA
1 ATGGATAAAATTTGGTTTGAAATA
**
57654814 ATGGATAAGGTTT-GTTTGAAAT
1 ATGGATAAAATTTGGTTTGAAAT
57654836 TTTTATATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (24 bp):
ATGGATAAAATTTGGTTTGAAATA
Found at i:57655922 original size:18 final size:18
Alignment explanation
Indices: 57655901--57655935 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57655891 AACTTTTAAA
*
57655901 TTTTTTAAATTTTAATTT
1 TTTTTTAAAATTTAATTT
57655919 TTTTTTAAAATTTAATT
1 TTTTTTAAAATTTAATT
57655936 ACTTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTAAAATTTAATTT
Found at i:57655941 original size:18 final size:18
Alignment explanation
Indices: 57655902--57655946 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
57655892 ACTTTTAAAT
* **
57655902 TTTTTAAATTTTAATTTT
1 TTTTTAAAATTTAATTAC
57655920 TTTTTAAAATTTAATTAC
1 TTTTTAAAATTTAATTAC
*
57655938 TTTTCAAAA
1 TTTTTAAAA
57655947 AAATCCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATTTAATTAC
Found at i:57655941 original size:19 final size:18
Alignment explanation
Indices: 57655901--57655941 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57655891 AACTTTTAAA
* *
57655901 TTTTTTAAATTTTAATTT
1 TTTTTTAAAATTTAATTC
57655919 TTTTTTAAAATTTAATTAC
1 TTTTTTAAAATTTAATT-C
57655938 TTTT
1 TTTT
57655942 CAAAAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAAAATTTAATTC
Found at i:57663465 original size:43 final size:43
Alignment explanation
Indices: 57663404--57663489 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
57663394 CTTGAATAAG
57663404 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
57663447 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
57663490 GGTCGAAGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (43 bp):
AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
Found at i:57672005 original size:58 final size:57
Alignment explanation
Indices: 57671910--57672080 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
57671900 TAATCTGATT
* * *
57671910 AGTGGCAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAGCGACAAGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG-GACAAGTGACA
*
57671968 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT-----C-AGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
*
57672019 AGTGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACAAGTGATA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA-GGACAAGTGACA
57672076 AGTGG
1 AGTGG
57672081 TTATACACAA
Statistics
Matches: 100, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
50 19 0.19
51 29 0.29
52 1 0.01
56 1 0.01
57 11 0.11
58 39 0.39
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (57 bp):
AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
Found at i:57672016 original size:51 final size:50
Alignment explanation
Indices: 57671961--57672079 Score: 202
Period size: 50 Copynumber: 2.4 Consensus size: 50
57671951 ATCAGCGACA
57671961 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
*
57672012 AGTGACAAGTGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* *
57672062 AGGGACAAGTGATAAGTG
1 AGTGACAAGTGACAAGTG
57672080 GTTATACACA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 35 0.55
51 29 0.45
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (50 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:57673425 original size:18 final size:19
Alignment explanation
Indices: 57673404--57673449 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
57673394 CTTTACCAAG
* *
57673404 ATTTTTAAAAT-TTATTTA
1 ATTTTTAAAATCTAAATTA
57673422 ATTTTT-AAATCTAAATTA
1 ATTTTTAAAATCTAAATTA
57673440 ATTTTTAAAA
1 ATTTTTAAAA
57673450 ATTTTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTAAAATCTAAATTA
Found at i:57677400 original size:43 final size:43
Alignment explanation
Indices: 57677321--57677403 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
57677311 AAAGATAGTT
* *
57677321 ATACTTTAACCGACAACCATTAAAAATATTAAAATAAATAGCA
1 ATACCTTAACCGACAACCATTAAAAAGATTAAAATAAATAGCA
* * * *
57677364 ATACCTTAACTGATAACCATTAGAAAGATTATAATAAATA
1 ATACCTTAACCGACAACCATTAAAAAGATTAAAATAAATA
57677404 ATAAATGTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (43 bp):
ATACCTTAACCGACAACCATTAAAAAGATTAAAATAAATAGCA
Found at i:57686941 original size:125 final size:124
Alignment explanation
Indices: 57686694--57687105 Score: 612
Period size: 125 Copynumber: 3.3 Consensus size: 124
57686684 ATTTATTAAG
* * * *
57686694 GAAATCGCTCCCACATGGATGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
57686759 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGTAGGATGCTTTAT-AAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAA-AAGAATTT-T
* * *
57686819 GAAATTGCTCTCACATGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
57686884 GTTTCTGTGTAAATAGTAT-AAAAACGATTCAAGTAGGATGCTTTATCAAAAGAAATTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAG-AATTTT
* * *
57686943 GAAATCGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCATGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
57687008 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAA-TTTT
* *
57687068 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
57687106 CATGTTTGGG
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
124 107 0.41
125 153 0.59
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (124 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAATTTT
Found at i:57690226 original size:48 final size:48
Alignment explanation
Indices: 57690130--57690251 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
57690120 GAATATTAAT
57690130 TATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAAC
1 TATTTTGTATTTTATTACATC-AATAATATCAAAATATTCAAAATAAAC
*
57690179 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAATTAAAC
1 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
*
57690227 TATTTTGTATTTTATTACATTAATA
1 TATTTTGTATTTTATTACATCAATA
57690252 TAAATTATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
48 50 0.70
49 21 0.30
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (48 bp):
TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
Found at i:57692497 original size:19 final size:20
Alignment explanation
Indices: 57692469--57692512 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
57692459 TTTTTACGAT
57692469 TTAAATTTTTTTTAAAAAAA
1 TTAAATTTTTTTTAAAAAAA
*
57692489 TTAAA-TTTTTTTAAAATAA
1 TTAAATTTTTTTTAAAAAAA
57692508 TTAAA
1 TTAAA
57692513 AATAGGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATTTTTTTTAAAAAAA
Found at i:57692536 original size:11 final size:12
Alignment explanation
Indices: 57692520--57692556 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
57692510 AAAAATAGGG
57692520 ATTTAAGAG-AA
1 ATTTAAGAGCAA
57692531 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
57692543 A-TTGAGAGCAA
1 ATTTAAGAGCAA
57692554 ATT
1 ATT
57692557 GATATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:57692580 original size:51 final size:50
Alignment explanation
Indices: 57692512--57692609 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
57692502 AAATAATTAA
57692512 AAATAGGGATTTAAGAGAAATTT-AAGAGCAAATTGAGAGCAAATTGATATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAATTGATATT
* * *
57692563 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAATTGA
57692610 GAGGAAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 38 0.90
52 1 0.02
53 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAATTGATATT
Found at i:57692601 original size:22 final size:22
Alignment explanation
Indices: 57692573--57692633 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
57692563 AAATATGGAT
57692573 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
57692595 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
57692617 TTGAGAAGAAA-TTGAGA
1 TTGAG-AGAAATTTGAGA
57692634 AAGGATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:57692608 original size:33 final size:33
Alignment explanation
Indices: 57692571--57692633 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
57692561 TTAAATATGG
57692571 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAGAA-GAAATTGAGAGCA
57692604 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
57692634 AAGGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAAGAAATTGAGAGCA
Found at i:57692634 original size:11 final size:11
Alignment explanation
Indices: 57692573--57692634 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
57692563 AAATATGGAT
57692573 TTGAG-AGAAA
1 TTGAGAAGAAA
57692583 TTTG-GAAGGAAA
1 -TTGAGAA-GAAA
*
57692595 TTGAG-AGCAAT
1 TTGAGAAG-AAA
*
57692606 TTGAGAGGAAA
1 TTGAGAAGAAA
57692617 TTGAGAAGAAA
1 TTGAGAAGAAA
57692628 TTGAGAA
1 TTGAGAA
57692635 AGGATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.05
11 34 0.81
12 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.23
Consensus pattern (11 bp):
TTGAGAAGAAA
Found at i:57700982 original size:22 final size:22
Alignment explanation
Indices: 57700954--57701001 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
57700944 CATTATCTTT
*
57700954 TTATTTATGGATTGGAGAGTGG
1 TTATTTATGGATTGGAGAGCGG
57700976 TTATTTATGGATTGGAGAGCGG
1 TTATTTATGGATTGGAGAGCGG
57700998 TTAT
1 TTAT
57701002 GAGTAGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (22 bp):
TTATTTATGGATTGGAGAGCGG
Found at i:57713588 original size:12 final size:12
Alignment explanation
Indices: 57713571--57713600 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57713561 TGTTAAAGAG
57713571 GCTGAAACTGAA
1 GCTGAAACTGAA
57713583 GCTGAAACTGAA
1 GCTGAAACTGAA
*
57713595 GTTGAA
1 GCTGAA
57713601 CTTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (12 bp):
GCTGAAACTGAA
Found at i:57714041 original size:2 final size:2
Alignment explanation
Indices: 57714028--57714069 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
57714018 GGATAGAAAT
*
57714028 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
57714070 AAAGTGCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57714653 original size:21 final size:23
Alignment explanation
Indices: 57714621--57714664 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
57714611 TAATATTCTA
*
57714621 ATTTTAAAAATTC-AATTAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
57714643 ATTTT-AAAATTCGAAATAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
57714665 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTTAAAAATTCGAAATAAAAT
Found at i:57715518 original size:23 final size:22
Alignment explanation
Indices: 57715486--57715528 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
57715476 AAAGATAAAA
*
57715486 GAAGTAGTGGGGAGTGGGGACT
1 GAAGTAGTGGGGACTGGGGACT
57715508 GAAGTCAGTGGGGACTGGGGA
1 GAAGT-AGTGGGGACTGGGGA
57715529 GGGTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.07, G:0.53, T:0.16
Consensus pattern (22 bp):
GAAGTAGTGGGGACTGGGGACT
Found at i:57715832 original size:40 final size:40
Alignment explanation
Indices: 57715777--57715859 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
57715767 TGGTTGTTAT
57715777 TATTATTATTATTATTATCCCTTTACCATTTCCCTTTTTC
1 TATTATTATTATTATTATCCCTTTACCATTTCCCTTTTTC
57715817 TATTATTATTATTATTATCCCTTTACCATTTCCCTTTTTC
1 TATTATTATTATTATTATCCCTTTACCATTTCCCTTTTTC
57715857 TAT
1 TAT
57715860 CCTGCTTGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.58
Consensus pattern (40 bp):
TATTATTATTATTATTATCCCTTTACCATTTCCCTTTTTC
Found at i:57716425 original size:14 final size:15
Alignment explanation
Indices: 57716406--57716434 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57716396 AAATTTTCTT
57716406 ATAAAAAA-TAAATA
1 ATAAAAAAGTAAATA
57716420 ATAAAAAAGTAAATA
1 ATAAAAAAGTAAATA
57716435 TATGAAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAAAAGTAAATA
Found at i:57722569 original size:19 final size:21
Alignment explanation
Indices: 57722545--57722588 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
57722535 AAAAATTGAC
57722545 ATATATTTTT-AT-TTTTATT
1 ATATATTTTTAATATTTTATT
57722564 ATATATTTTTAATATTTTATT
1 ATATATTTTTAATATTTTATT
57722585 ATAT
1 ATAT
57722589 CTTTCACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATATTTTTAATATTTTATT
Found at i:57726218 original size:27 final size:28
Alignment explanation
Indices: 57726186--57726239 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
57726176 TTTTTATACA
*
57726186 TTTAAG-ATTTAGTCTCTCTACTTTTAT
1 TTTAAGAATTTAGTCCCTCTACTTTTAT
*
57726213 TTTAAGAAATTTAGTCCCTTTACTTTT
1 TTTAAG-AATTTAGTCCCTCTACTTTT
57726240 TGGATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTAAGAATTTAGTCCCTCTACTTTTAT
Found at i:57726290 original size:29 final size:29
Alignment explanation
Indices: 57726248--57726311 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
57726238 TTTGGATTTA
57726248 AAAATGCAACTCCAATTATTAATACTATT
1 AAAATGCAACTCCAATTATTAATACTATT
*
57726277 AAAATGCAAGTCCAATTATTAATACTATT
1 AAAATGCAACTCCAATTATTAATACTATT
57726306 AAAATG
1 AAAATG
57726312 TTTCTCTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAATGCAACTCCAATTATTAATACTATT
Found at i:57728065 original size:13 final size:13
Alignment explanation
Indices: 57728047--57728071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57728037 AACTAATTAT
57728047 AAATATAGTTAAC
1 AAATATAGTTAAC
57728060 AAATATAGTTAA
1 AAATATAGTTAA
57728072 GTTTAGACAA
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:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
AAATATAGTTAAC
Found at i:57729047 original size:6 final size:6
Alignment explanation
Indices: 57729036--57729093 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
57729026 AACACAATAA
* *
57729036 TAATTT TAATTT TCAATATT TATATAT T-ATAT TAA-TT TAATTT TAATTT
1 TAATTT TAATTT T-AAT-TT TA-ATTT TAATTT TAATTT TAATTT TAATTT
57729085 TAATTT TAA
1 TAATTT TAA
57729094 AAATTTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 9 0.20
6 25 0.56
7 6 0.13
8 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (6 bp):
TAATTT
Found at i:57744358 original size:89 final size:89
Alignment explanation
Indices: 57744204--57744381 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 89
57744194 TCTCAAATCA
* *
57744204 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGGTTGTGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
*
57744269 TAGTTCAATTTATATTTTTATTGT
66 TAGTTCAATTTATATTATTATTGT
* * *
57744293 GATTAGTCACTCAAAGTAGCCATATTTTATAAAATTAAAAAATTATGAATATGATGATTGAGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
**
57744358 TAGTTCGGTTTATATTATTATTGT
66 TAGTTCAATTTATATTATTATTGT
57744382 TGTTACAGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (89 bp):
GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
TAGTTCAATTTATATTATTATTGT
Found at i:57746691 original size:3 final size:3
Alignment explanation
Indices: 57746683--57746712 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57746673 AGATTCACAT
57746683 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57746713 TACTATATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:57747265 original size:18 final size:18
Alignment explanation
Indices: 57747242--57747283 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
57747232 AATAACAAGC
57747242 TAATATAGCATTATAATA
1 TAATATAGCATTATAATA
*
57747260 TAATATATCATTATAATA
1 TAATATAGCATTATAATA
57747278 TAATAT
1 TAATAT
57747284 GAGAATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATATAGCATTATAATA
Found at i:57750162 original size:21 final size:21
Alignment explanation
Indices: 57750136--57750176 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57750126 ATCTGCTCAA
* *
57750136 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57750157 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57750177 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57755534 original size:20 final size:20
Alignment explanation
Indices: 57755497--57755537 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57755487 ATATATTTTG
*
57755497 ATTTTATATTTTTAAAATTT
1 ATTTTATATCTTTAAAATTT
* *
57755517 ATTTTTTATCTTTGAAATTT
1 ATTTTATATCTTTAAAATTT
57755537 A
1 A
57755538 AAATTTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTATATCTTTAAAATTT
Found at i:57757493 original size:4 final size:4
Alignment explanation
Indices: 57757486--57757510 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57757476 GCATGCATGA
57757486 ATCC ATCC ATCC ATCC ATCC ATCC A
1 ATCC ATCC ATCC ATCC ATCC ATCC A
57757511 AGTGCTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
ATCC
Found at i:57767499 original size:3 final size:3
Alignment explanation
Indices: 57767491--57767518 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57767481 GTCCCTTGTC
57767491 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
57767519 TTTCGCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:57774973 original size:249 final size:249
Alignment explanation
Indices: 57774624--57775112 Score: 942
Period size: 249 Copynumber: 2.0 Consensus size: 249
57774614 TCCCCCATTT
*
57774624 AATAATCTTATCATAAACTCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
1 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
57774689 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
66 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
*
57774754 CATCTAGGTTTTTACCTCTGGTTTTGGTTGTTGTCAACTTTTCTTTAGATCAACAACTATGACAC
131 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
*
57774819 TGATGTTATCCAAGCTTTTTCGTCCAAGAGCCAACCAAGTAAGCAATTTAATTC
196 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCAATTTAATTC
57774873 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
1 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
57774938 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
66 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
57775003 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
131 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
*
57775068 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCGAGTAAGCA
196 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCA
57775113 GTGCAGCGGC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 236 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (249 bp):
AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCAATTTAATTC
Found at i:57783354 original size:27 final size:27
Alignment explanation
Indices: 57783310--57783364 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
57783300 ATACGTGTTT
*** *
57783310 ATGTTCATTTACTTAATGCTCATGAAC
1 ATGTTCATTTAAACAATGCTCAAGAAC
*
57783337 ATGTTCATTTAAACAATGTTCAAGAAC
1 ATGTTCATTTAAACAATGCTCAAGAAC
57783364 A
1 A
57783365 ATATTCATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (27 bp):
ATGTTCATTTAAACAATGCTCAAGAAC
Found at i:57796948 original size:18 final size:19
Alignment explanation
Indices: 57796925--57796960 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57796915 AACTCAAATA
57796925 CCAAATT-AAGCATCAAAG
1 CCAAATTCAAGCATCAAAG
*
57796943 CCAAATTCAAGTATCAAA
1 CCAAATTCAAGCATCAAA
57796961 CCCTAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.19
Consensus pattern (19 bp):
CCAAATTCAAGCATCAAAG
Found at i:57804539 original size:17 final size:19
Alignment explanation
Indices: 57804517--57804556 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57804507 TTTTCTTTGT
57804517 ATTTTA-TAT-TAAAATTA
1 ATTTTATTATATAAAATTA
*
57804534 ATTTTATTTTATAAAATTA
1 ATTTTATTATATAAAATTA
57804553 ATTT
1 ATTT
57804557 AGCTTACGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATTATATAAAATTA
Found at i:57808027 original size:8 final size:8
Alignment explanation
Indices: 57808014--57808038 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57808004 CTAACTAGCT
57808014 TCGCTTTA
1 TCGCTTTA
57808022 TCGCTTTA
1 TCGCTTTA
57808030 TCGCTTTA
1 TCGCTTTA
57808038 T
1 T
57808039 TATTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (8 bp):
TCGCTTTA
Found at i:57813291 original size:25 final size:27
Alignment explanation
Indices: 57813263--57813313 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
57813253 TGGTGTTTTT
57813263 TATTTTTATGT-AA-TTTTTAAAAAAA
1 TATTTTTATGTAAAGTTTTTAAAAAAA
* *
57813288 TATTTTTCTTTAAAGTTTTTAAAAAA
1 TATTTTTATGTAAAGTTTTTAAAAAA
57813314 TAATCATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 2 0.09
27 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
TATTTTTATGTAAAGTTTTTAAAAAAA
Found at i:57816971 original size:15 final size:15
Alignment explanation
Indices: 57816923--57816971 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
57816913 AATTTATAAT
57816923 TTAATTAATCAAAA-
1 TTAATTAATCAAAAC
* * *
57816937 TTAAGTAATTAAACC
1 TTAATTAATCAAAAC
57816952 TTAATTAATCAAAAC
1 TTAATTAATCAAAAC
57816967 TTAAT
1 TTAAT
57816972 CATACTCAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAATTAATCAAAAC
Found at i:57823040 original size:106 final size:106
Alignment explanation
Indices: 57822855--57823065 Score: 422
Period size: 106 Copynumber: 2.0 Consensus size: 106
57822845 GTGACACTTT
57822855 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
1 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
57822920 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
66 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
57822961 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
1 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
57823026 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAA
66 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAA
57823066 AAAATGGTTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (106 bp):
AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
Found at i:57823502 original size:25 final size:25
Alignment explanation
Indices: 57823454--57823502 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
57823444 TATTAGTATT
* *
57823454 TTAAAAACTCAATTAAATTTTGAAA
1 TTAAAAACTCAATTAAAATCTGAAA
57823479 TTAAAAA-TCGAATTAAAATCTGAA
1 TTAAAAACTC-AATTAAAATCTGAA
57823503 TAAAAGTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAAACTCAATTAAAATCTGAAA
Found at i:57832051 original size:3 final size:3
Alignment explanation
Indices: 57832043--57832107 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
57832033 CTTTCTTTCT
57832043 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57832091 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
57832108 TACCTTCATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57833774 original size:31 final size:30
Alignment explanation
Indices: 57833738--57833833 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 30
57833728 TTTTTGGGTT
57833738 TAATTTAGTAGTCGAATTTGACAATTTTTCC
1 TAATTTAGTA-TCGAATTTGACAATTTTTCC
* * *
57833769 TAATTTAGTATCTAAGTTT----TTTTTTGTC
1 TAATTTAGTATCGAA-TTTGACAATTTTT-CC
* *
57833797 TAATTTAGTACTTGAATTTGACACTTTTTCC
1 TAATTTAGTA-TCGAATTTGACAATTTTTCC
57833828 TAATTT
1 TAATTT
57833834 GGTACCCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 5 0.10
28 14 0.27
29 3 0.06
30 4 0.08
31 20 0.39
32 5 0.10
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.52
Consensus pattern (30 bp):
TAATTTAGTATCGAATTTGACAATTTTTCC
Found at i:57834054 original size:18 final size:18
Alignment explanation
Indices: 57834033--57834068 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57834023 TTCATTGTTT
*
57834033 TAAATTAATAAAACTAAA
1 TAAATAAATAAAACTAAA
57834051 TAAATAAATAAAACTAAA
1 TAAATAAATAAAACTAAA
57834069 ATTAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATAAATAAAACTAAA
Found at i:57838114 original size:19 final size:19
Alignment explanation
Indices: 57838078--57838117 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57838068 TTTAGATCAA
*
57838078 CTTTACACTAGTTATTATG
1 CTTTACACTAGGTATTATG
57838097 CTTTATCACTAGGT-TTATG
1 CTTTA-CACTAGGTATTATG
57838116 CT
1 CT
57838118 AGATGTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (19 bp):
CTTTACACTAGGTATTATG
Found at i:57840569 original size:19 final size:20
Alignment explanation
Indices: 57840545--57840590 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
57840535 CATAATATAC
*
57840545 TATAAAAAATATTA-TTTAA
1 TATAAAAAATATTAGATTAA
*
57840564 TAT--AAATTATTAGATTAA
1 TATAAAAAATATTAGATTAA
57840582 TATAAAAAA
1 TATAAAAAA
57840591 AAAGAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 5
0.72 0.10 0.17
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 3 0.14
20 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATAAAAAATATTAGATTAA
Found at i:57846834 original size:14 final size:15
Alignment explanation
Indices: 57846809--57846847 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
57846799 TTAGATATAA
*
57846809 TTATTATTTAAATAT
1 TTATTATATAAATAT
57846824 TT-TTATATAAATAT
1 TTATTATATAAATAT
57846838 TTATTATATA
1 TTATTATATA
57846848 CTGATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATATAAATAT
Found at i:57848033 original size:3 final size:3
Alignment explanation
Indices: 57848025--57848053 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57848015 CATATTCCCC
57848025 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57848054 TGTGTAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57849084 original size:19 final size:19
Alignment explanation
Indices: 57849059--57849326 Score: 98
Period size: 19 Copynumber: 13.9 Consensus size: 19
57849049 ATATTTTTTC
57849059 TATAAAAATTATTAAAAAT
1 TATAAAAATTATTAAAAAT
* *
57849078 CATAAAAATATATCAAATAAAAT
1 TATAAAAAT-TAT--TA-AAAAT
*
57849101 TATAAATATATATATTAAATA-
1 TATAAA-A-AT-TATTAAAAAT
57849122 T-TAAAAA-TATT-AAAAT
1 TATAAAAATTATTAAAAAT
*
57849138 TGATATAAAATT-TTTAAAAT
1 T-ATA-AAAATTATTAAAAAT
* *
57849158 TATAAAAA-AAATAAAAACT
1 TATAAAAATTATTAAAAA-T
57849177 TATAAAAATTA-TAAAAA-
1 TATAAAAATTATTAAAAAT
*
57849194 TAT-ATAA-TATATAATAAAT
1 TATAAAAATTAT-TAA-AAAT
* ** *
57849213 TCTAATAAATTACAAAAAAA
1 TATAA-AAATTATTAAAAAT
*
57849233 TATATAAAATTAATAAAAACT
1 TATA-AAAATTATTAAAAA-T
* * *
57849254 TATTTAAAA-TATTTATAAT
1 TA-TAAAAATTATTAAAAAT
* *
57849273 T-TAAAAACATATT-AGAAT
1 TATAAAAA-TTATTAAAAAT
*
57849291 TCTTAAAAATTA-TAAATAAT
1 T-ATAAAAATTATTAAA-AAT
57849311 TATAAAAA-TATTAAAA
1 TATAAAAATTATTAAAA
57849327 TTGATATTAA
Statistics
Matches: 188, Mismatches: 29, Indels: 65
0.67 0.10 0.23
Matches are distributed among these distances:
15 5 0.03
16 8 0.04
17 11 0.06
18 24 0.13
19 54 0.29
20 49 0.26
21 12 0.06
22 7 0.04
23 11 0.06
24 1 0.01
25 6 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (19 bp):
TATAAAAATTATTAAAAAT
Found at i:57849146 original size:20 final size:19
Alignment explanation
Indices: 57849112--57849200 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 19
57849102 ATAAATATAT
57849112 ATATT-AAA-TAT-TAAAA
1 ATATTAAAATTATATAAAA
57849128 ATATTAAAATTGATATAAAA
1 ATATTAAAATT-ATATAAAA
* *
57849148 TTTTTAAAATTATA-AAAA
1 ATATTAAAATTATATAAAA
* * *
57849166 AAATAAAAACT-TATAAAA
1 ATATTAAAATTATATAAAA
*
57849184 AT-TATAAAAATATATAA
1 ATAT-TAAAATTATATAA
57849201 TATATAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.09
17 6 0.11
18 21 0.38
19 10 0.18
20 14 0.25
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
ATATTAAAATTATATAAAA
Found at i:57849165 original size:9 final size:9
Alignment explanation
Indices: 57849059--57849365 Score: 108
Period size: 10 Copynumber: 31.9 Consensus size: 9
57849049 ATATTTTTTC
57849059 TATAAAAAT
1 TATAAAAAT
57849068 TATTAAAAAT
1 TA-TAAAAAT
*
57849078 CATAAAAAT
1 TATAAAAAT
57849087 ATATCAAATAAAAT
1 -TAT---A-AAAAT
*
57849101 TATAAATAT
1 TATAAAAAT
*
57849110 ATATATTAAA-
1 -TATA-AAAAT
57849120 TATTAAAAA-
1 TA-TAAAAAT
*
57849129 TATTAAAAT
1 TATAAAAAT
57849138 TGATATAAAAT
1 T-ATA-AAAAT
* *
57849149 TTTTAAAAT
1 TATAAAAAT
*
57849158 TATAAAAAA
1 TATAAAAAT
*
57849167 AATAAAAACT
1 TATAAAAA-T
57849177 TATAAAAAT
1 TATAAAAAT
57849186 TATAAAAA-
1 TATAAAAAT
*
57849194 TAT-ATAAT
1 TATAAAAAT
57849202 ATATAATAAAT
1 -TATAA-AAAT
*
57849213 TCTAATAAAT
1 TATAA-AAAT
* *
57849223 TACAAAAAAA
1 TA-TAAAAAT
57849233 TATATAAAAT
1 TATA-AAAAT
57849243 TAATAAAAACT
1 T-ATAAAAA-T
57849254 TATTTAAAATAT
1 TA--TAAAA-AT
*
57849266 T-T-ATAAT
1 TATAAAAAT
*
57849273 T-TAAAAACA
1 TATAAAAA-T
* *
57849282 TATTAGAAT
1 TATAAAAAT
*
57849291 TCTTAAAAAT
1 T-ATAAAAAT
57849301 TATAAATAAT
1 TATAAA-AAT
57849311 TATAAAAA-
1 TATAAAAAT
*
57849319 TATTAAAAT
1 TATAAAAAT
* *
57849328 TGATATTAACT
1 T-ATA-AAAAT
*
57849339 TATAAAAGT
1 TATAAAAAT
57849348 TATAAAAAAT
1 TAT-AAAAAT
*
57849358 CATAAAAA
1 TATAAAAA
57849366 CACTTAAATT
Statistics
Matches: 223, Mismatches: 42, Indels: 66
0.67 0.13 0.20
Matches are distributed among these distances:
7 7 0.03
8 20 0.09
9 73 0.33
10 84 0.38
11 22 0.10
12 7 0.03
13 5 0.02
14 5 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:57849324 original size:28 final size:27
Alignment explanation
Indices: 57849061--57849326 Score: 119
Period size: 28 Copynumber: 9.2 Consensus size: 27
57849051 ATTTTTTCTA
*
57849061 TAAAAATTATTAAAAATCATAAAAATAT
1 TAAAAATTA-TAAAAATTATAAAAATAT
* *
57849089 ATCAAATAAAATTATAAATATATATATTAAATAT
1 -T---A-AAAATTATAAAAAT-TATA-AAAATAT
* *
57849123 TAAAAA-TATTAAAATTGATATAAAATTT
1 TAAAAATTATAAAAATT-ATA-AAAATAT
* **
57849151 TTAAAATTATAAAAAAAATAAAAACT-T
1 TAAAAATTATAAAAATTATAAAAA-TAT
*
57849178 ATAAAAATTATAAAAA-TAT-ATAATAT
1 -TAAAAATTATAAAAATTATAAAAATAT
* * *
57849204 ATAATAAATTCTAATAAATTACAAAAAAAT
1 -TAA-AAATTATAA-AAATTATAAAAATAT
*
57849234 ATATAAAATTAATAAAAACTTATTTAAAATAT
1 -TA-AAAATT-ATAAAAA-TTA-TAAAAATAT
* * * * * *
57849266 TTATAATT-TAAAAACATATTAGAATTCT
1 TAAAAATTATAAAAA-TTA-TAAAAATAT
57849294 TAAAAATTATAAATAATTATAAAAATAT
1 TAAAAATTATAAA-AATTATAAAAATAT
57849322 TAAAA
1 TAAAA
57849327 TTGATATTAA
Statistics
Matches: 181, Mismatches: 35, Indels: 43
0.70 0.14 0.17
Matches are distributed among these distances:
25 1 0.01
26 8 0.04
27 16 0.09
28 74 0.41
29 20 0.11
30 24 0.13
31 8 0.04
32 13 0.07
33 11 0.06
34 6 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (27 bp):
TAAAAATTATAAAAATTATAAAAATAT
Found at i:57849627 original size:14 final size:13
Alignment explanation
Indices: 57849608--57849656 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
57849598 CAGATCAATT
57849608 AAATAAAATATTAA
1 AAATAAAA-ATTAA
*
57849622 AAATAAAAAAT-A
1 AAATAAAAATTAA
57849634 AAA-AAAAATTAA
1 AAATAAAAATTAA
57849646 GAAATAAAAAT
1 -AAATAAAAAT
57849657 GGATTCAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 5 0.17
14 14 0.47
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (13 bp):
AAATAAAAATTAA
Found at i:57849641 original size:18 final size:18
Alignment explanation
Indices: 57849620--57849655 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57849610 ATAAAATATT
57849620 AAAAATAAAAAATAAAAA
1 AAAAATAAAAAATAAAAA
* *
57849638 AAAATTAAGAAATAAAAA
1 AAAAATAAAAAATAAAAA
57849656 TGGATTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAAATAAAAA
Found at i:57849650 original size:25 final size:25
Alignment explanation
Indices: 57849607--57849655 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
57849597 CCAGATCAAT
*
57849607 TAAATAAAATATTAAAAATAAAAAA
1 TAAATAAAAAATTAAAAATAAAAAA
57849632 TAAA-AAAAAATTAAGAAATAAAAA
1 TAAATAAAAAATTAA-AAATAAAAA
57849656 TGGATTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (25 bp):
TAAATAAAAAATTAAAAATAAAAAA
Found at i:57850668 original size:135 final size:134
Alignment explanation
Indices: 57850426--57850686 Score: 414
Period size: 135 Copynumber: 1.9 Consensus size: 134
57850416 AGTATCCAAT
* * * * * *
57850426 ATACAGTATAACTACAAGAAATAAAGAAATTCATGATAATTTTCTAAGAAATCAACTAGGAATCT
1 ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
* *
57850491 TCAATCTTGACAACAATTTGCTTCATAATCGGCTTCAATGGTGTTTTTTTTAGTTGTTTTCTCAT
66 TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTG-TTTTTTGAGTTGTTTTCTCAT
57850556 TCAAG
130 TCAAG
* *
57850561 ATACAGTATAACCACAATAAATAAAGGAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
1 ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
*
57850626 TCAATCTTGACAACAATTTGCTTCACAGTCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCT
66 TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCT
57850687 TGAATATTCT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
134 17 0.15
135 98 0.85
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (134 bp):
ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCTCATT
CAAG
Found at i:57851213 original size:9 final size:9
Alignment explanation
Indices: 57851199--57851271 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
57851189 GTACTATTAA
57851199 TTTTATAAT
1 TTTTATAAT
*
57851208 TTTTATAAAA
1 TTTTAT-AAT
* *
57851218 TATTAGAAT
1 TTTTATAAT
* *
57851227 TTATTAGAAA
1 TT-TTATAAT
57851237 TTTTAT-AT
1 TTTTATAAT
57851245 TTTTGATAAT
1 TTTT-ATAAT
*
57851255 GTTTATAAT
1 TTTTATAAT
57851264 TTTTATAA
1 TTTTATAA
57851272 GTTCACATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 5 0.10
9 26 0.52
10 19 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57851259 original size:18 final size:17
Alignment explanation
Indices: 57851238--57851284 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
57851228 TATTAGAAAT
57851238 TTTATATTTTTGATAATG
1 TTTATATTTTTGATAA-G
57851256 TTTATAATTTTT-ATAAG
1 TTTAT-ATTTTTGATAAG
* *
57851273 TTCACATTTTTG
1 TTTATATTTTTG
57851285 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 9 0.36
19 6 0.24
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTATATTTTTGATAAG
Found at i:57851267 original size:19 final size:17
Alignment explanation
Indices: 57851196--57851271 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 17
57851186 TATGTACTAT
57851196 TAATTTTATAATTTTTA
1 TAATTTTATAATTTTTA
* *
57851213 TAAAATATTAGAATTTATTA
1 T--AATTTTATAATTT-TTA
*
57851233 GAAATTTTAT-ATTTTTGA
1 -TAATTTTATAATTTTT-A
57851251 TAATGTTTATAATTTTTA
1 TAAT-TTTATAATTTTTA
57851269 TAA
1 TAA
57851272 GTTCACATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 6 0.13
18 14 0.30
19 23 0.50
20 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TAATTTTATAATTTTTA
Found at i:57855422 original size:37 final size:37
Alignment explanation
Indices: 57855368--57855458 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
57855358 AATAATTTGA
* *
57855368 CACCCAGTGTCTTATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
* *
57855405 CGCCCAGTGCCTCATCGGTTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
57855442 CACCCAGTGCCTCATCG
1 CACCCAGTGCCTCATCG
57855459 AATATATCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
Found at i:57856457 original size:22 final size:21
Alignment explanation
Indices: 57856425--57856479 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
57856415 TATTCTTTTC
57856425 TTTA-TTTATTACATTTACTT
1 TTTATTTTATTACATTTACTT
*
57856445 ATTTATTTTATTATATTTACTT
1 -TTTATTTTATTACATTTACTT
*
57856467 TATTATTATATTA
1 T-TTATTTTATTA
57856480 TATATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTTATTACATTTACTT
Found at i:57856463 original size:14 final size:14
Alignment explanation
Indices: 57856444--57856489 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
57856434 TACATTTACT
57856444 TATTTATTTTATTA
1 TATTTATTTTATTA
*
57856458 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
57856472 T-TATATTATA-TA
1 TATTTATTTTATTA
57856484 TATTTA
1 TATTTA
57856490 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:57856499 original size:26 final size:25
Alignment explanation
Indices: 57856426--57856500 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 25
57856416 ATTCTTTTCT
*
57856426 TTAT-TTATTACATTTACTT--AT-
1 TTATATTATTATATTTACTTAAATA
* * *
57856447 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
57856472 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
57856498 TTA
1 TTA
57856501 AGTGATACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.09
22 14 0.32
24 1 0.02
25 8 0.18
26 17 0.39
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:57856512 original size:26 final size:26
Alignment explanation
Indices: 57856457--57856514 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
57856447 TTATTTTATT
* * * *
57856457 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATGATAC
57856483 ATATTTACTTAAATATTA-AGTGATAC
1 ATATTTACTTAAATATTATA-TGATAC
57856509 ATATTT
1 ATATTT
57856515 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATGATAC
Found at i:57867465 original size:22 final size:21
Alignment explanation
Indices: 57867425--57867466 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
57867415 CAAAATGGAA
57867425 TATTATTATTGTAGAGCTTAT
1 TATTATTATTGTAGAGCTTAT
* *
57867446 TATTATTTATTTTAGGGCTTA
1 TATTA-TTATTGTAGAGCTTA
57867467 ACCACCTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (21 bp):
TATTATTATTGTAGAGCTTAT
Found at i:57876544 original size:3 final size:3
Alignment explanation
Indices: 57876528--57876562 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
57876518 ATTGGATTGT
57876528 GAA G-A GAA GAAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GA
57876563 GAGGAGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57882443 original size:13 final size:13
Alignment explanation
Indices: 57882425--57882449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57882415 TAAAGCTACC
57882425 TTGGCAAAAGAAT
1 TTGGCAAAAGAAT
57882438 TTGGCAAAAGAA
1 TTGGCAAAAGAA
57882450 ACTTGTTGTG
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:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
TTGGCAAAAGAAT
Found at i:57883580 original size:30 final size:30
Alignment explanation
Indices: 57883544--57883604 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
57883534 GGCCCATTTT
57883544 TATTTTAAAAAT-TTTAAAAAATTAAAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAAA
*
57883574 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
57883604 T
1 T
57883605 TAAAAAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAA
Found at i:57883583 original size:11 final size:11
Alignment explanation
Indices: 57883544--57883635 Score: 76
Period size: 11 Copynumber: 9.1 Consensus size: 11
57883534 GGCCCATTTT
57883544 TATTTT-AAAA
1 TATTTTAAAAA
57883554 -ATTTTAAAAA
1 TATTTTAAAAA
**
57883564 -ATTAAAAAAA
1 TATTTTAAAAA
57883574 TATTTTAAAAA
1 TATTTTAAAAA
57883585 TATTTT--AAA
1 TATTTTAAAAA
57883594 -A--TTAAAAA
1 TATTTTAAAAA
* *
57883602 -AATTAAAAAA
1 TATTTTAAAAA
57883612 GTATTTTAAAAA
1 -TATTTTAAAAA
57883624 TATTTTAAAAA
1 TATTTTAAAAA
57883635 T
1 T
57883636 TAAAAAAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
6 2 0.03
8 5 0.07
9 8 0.12
10 18 0.27
11 26 0.39
12 8 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:57883608 original size:39 final size:40
Alignment explanation
Indices: 57883544--57883644 Score: 168
Period size: 39 Copynumber: 2.5 Consensus size: 40
57883534 GGCCCATTTT
*
57883544 TATTTTAAAAATTTTAAAAAATTAAAAAAATATTTTAAAAA
1 TATTTTAAAAA-TTAAAAAAATTAAAAAAATATTTTAAAAA
*
57883585 TATTTT-AAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTAAAAAAATATTTTAAAAA
57883624 TATTTTAAAAATTAAAAAAAT
1 TATTTTAAAAATTAAAAAAAT
57883645 AAATATATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 33 0.58
40 18 0.32
41 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (40 bp):
TATTTTAAAAATTAAAAAAATTAAAAAAATATTTTAAAAA
Found at i:57891388 original size:15 final size:15
Alignment explanation
Indices: 57891348--57891398 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
57891338 TCCATCTCTC
57891348 TTTATTTGTTTTATAATA
1 TTTATTT-TTTT-T-ATA
*
57891366 TTT-GTTTTTTTATA
1 TTTATTTTTTTTATA
57891380 TTTATTTTTTTTATCA
1 TTTATTTTTTTTAT-A
57891396 TTT
1 TTT
57891399 CAAGACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
16 8 0.28
17 2 0.07
18 3 0.10
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTTATA
Found at i:57893343 original size:25 final size:26
Alignment explanation
Indices: 57893273--57893344 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
57893263 ATCTAATCCC
*
57893273 TGTTGATAACGATACAGATTTCCCCT
1 TGTTGATAACGATACAGATTGCCCCT
**
57893299 TACTGATAACGATACAGATTGCCCCT
1 TGTTGATAACGATACAGATTGCCCCT
*
57893325 TGTTGATAA-GATAGAGATTG
1 TGTTGATAACGATACAGATTG
57893345 TGCATGGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (26 bp):
TGTTGATAACGATACAGATTGCCCCT
Found at i:57894524 original size:45 final size:46
Alignment explanation
Indices: 57894451--57894558 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 46
57894441 TATGTATGAT
*
57894451 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
* *
57894494 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
57894540 CACTTATCACTTTGTCACC
1 CACTTATCACTTTGTCACC
57894559 ACTTATCACT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 10 0.17
44 5 0.09
45 20 0.34
46 23 0.40
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:57894593 original size:62 final size:64
Alignment explanation
Indices: 57894492--57894619 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 64
57894482 TAGCTAGGCT
* * * *
57894492 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAAACTACCACTTATCACATTGTC
*
57894556 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTATAGCTAAAATTACCACTTATCACATTGTC
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTATAGCTAAAACTACCACTTATCACATTGTC
57894618 AC
1 AC
57894620 TTGATCAGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
62 40 0.69
63 4 0.07
64 14 0.24
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAAACTACCACTTATCACATTGTC
Found at i:57894632 original size:46 final size:45
Alignment explanation
Indices: 57894556--57894674 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 45
57894546 TCACTTTGTC
*
57894556 ACCACTTATCACTTGTTC-C-TGATCAGATAAGTATAGCTAAAATT
1 ACCACTTATCACTTG-TCACTTGATCAGATAAGTATAGCTAAAACT
* *
57894600 ACCACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCAC-TTGTCACTTGATCAGATAAGTATAGCTAAAACT
57894646 ACCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCAC-TTGTCACTTGATCAGA
57894675 AGTACTCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
44 14 0.21
45 4 0.06
46 50 0.74
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
ACCACTTATCACTTGTCACTTGATCAGATAAGTATAGCTAAAACT
Found at i:57894639 original size:108 final size:107
Alignment explanation
Indices: 57894451--57894665 Score: 358
Period size: 108 Copynumber: 2.0 Consensus size: 107
57894441 TATGTATGAT
* ** *
57894451 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTATAGCTAAACTACCACTTATCACATTGTCACTTGA
*
57894516 TCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCAC
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
* *
57894558 CACTTATCACTTGTTCCTGATCAGATAAGTATAGCTAAAATTACCACTTATCACATTGTCACTTG
1 CACTTATCACTTGTCCCTGATCAGATAAGTATAGCT-AAACTACCACTTATCACATTGTCACTTG
57894623 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
65 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
57894666 TTGATCAGAA
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 34 0.34
108 66 0.66
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (107 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTATAGCTAAACTACCACTTATCACATTGTCACTTGA
TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
Found at i:57896350 original size:3 final size:3
Alignment explanation
Indices: 57896331--57896380 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
57896321 AATTTATTTC
* * *
57896331 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57896377 ATA A
1 ATA A
57896381 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:57896359 original size:18 final size:18
Alignment explanation
Indices: 57896331--57896377 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
57896321 AATTTATTTC
57896331 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
57896348 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
57896366 ATAATAA-AATAA
1 ATAATAATAATAA
57896378 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:57907780 original size:25 final size:26
Alignment explanation
Indices: 57907752--57907816 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
57907742 TCAAATAAAC
*
57907752 AATATATAAAAAAACA-CTTAAAATG
1 AATATATAAAAAAACAGCTTAAAATA
* *
57907777 AATA-ATAACAAAACAGTTTAAAATA
1 AATATATAAAAAAACAGCTTAAAATA
57907802 AATAATATAAAAAAA
1 AAT-ATATAAAAAAA
57907817 TAACATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 10 0.30
25 14 0.42
26 1 0.03
27 8 0.24
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (26 bp):
AATATATAAAAAAACAGCTTAAAATA
Found at i:57907967 original size:27 final size:27
Alignment explanation
Indices: 57907843--57907974 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
57907833 TTTTTAAATA
* *
57907843 ATATAT-AAAAATTTTAAAT-GATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
* * *
57907868 ATATAT-AATAGTTTAAAATAAGTAAT
1 ATATATAAAAAATTTAAAATAAATAAT
* *
57907894 ATA-ATAAAAAATTTTAAAGAAATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
** * *
57907920 AGGTA-AAAATAGTTTAGAATAAATAAT
1 ATATATAAAA-AATTTAAAATAAATAAT
*
57907947 ATATATAAAAAACTTAAAATAAATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
57907974 A
1 A
57907975 ATAAAATAGG
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
25 18 0.22
26 27 0.33
27 32 0.40
28 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (27 bp):
ATATATAAAAAATTTAAAATAAATAAT
Found at i:57907980 original size:53 final size:53
Alignment explanation
Indices: 57907837--57907980 Score: 145
Period size: 53 Copynumber: 2.8 Consensus size: 53
57907827 AACAGTTTTT
** * * *
57907837 TAAATAATAT-ATAAAAATTTTAAATG--ATAATATAT-ATAATAGTTTAAAA
1 TAAATAATATAATAAAAAACTTAAAAGAAATAATAGATAAAAATAGTTTAAAA
* * * * *
57907886 TAAGTAATATAATAAAAAATTTTAAAGAAATAATAGGTAAAAATAGTTTAGAA
1 TAAATAATATAATAAAAAACTTAAAAGAAATAATAGATAAAAATAGTTTAAAA
*
57907939 TAAATAATATATATAAAAAACTTAAAATAAATAATA-ATAAAA
1 TAAATAATATA-ATAAAAAACTTAAAAGAAATAATAGATAAAA
57907981 TAGGTCTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 9 0.12
50 13 0.17
52 7 0.09
53 27 0.35
54 21 0.27
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.33
Consensus pattern (53 bp):
TAAATAATATAATAAAAAACTTAAAAGAAATAATAGATAAAAATAGTTTAAAA
Found at i:57911222 original size:20 final size:18
Alignment explanation
Indices: 57911198--57911310 Score: 75
Period size: 20 Copynumber: 5.7 Consensus size: 18
57911188 AATATTTAGC
57911198 ATAATTCTTGGTATTTCTT
1 ATAATT-TTGGTATTTCTT
* * *
57911217 CATAATAATTGATATACTCTT
1 -ATAAT-TTTGGTAT-TTCTT
*
57911238 ATAATGTTTGATATTTCTT
1 ATAAT-TTTGGTATTTCTT
*
57911257 CATAATTTTCGGTACACTT-TT
1 -ATAATTTT-GGT--ATTTCTT
57911278 ATAATTTTTGGTATTCTCTT
1 ATAA-TTTTGGTATT-TCTT
57911298 ATAATTTTGGTAT
1 ATAATTTTGGTAT
57911311 AGTTTCGAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.03
19 17 0.23
20 43 0.57
21 10 0.13
22 3 0.04
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.53
Consensus pattern (18 bp):
ATAATTTTGGTATTTCTT
Found at i:57911280 original size:40 final size:39
Alignment explanation
Indices: 57911209--57911309 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 39
57911199 TAATTCTTGG
* * *
57911209 TATTTCTTCATAATAATTGATATACTCTTATAATGTTTGA
1 TATTTCTTCATAAT-TTTGGTACACTCTTATAATGTTTGA
* * *
57911249 TATTTCTTCATAATTTTCGGTACACTTTTATAATTTTTGG
1 TATTTCTTCATAATTTT-GGTACACTCTTATAATGTTTGA
57911289 TATTCTCTT-ATAATTTTGGTA
1 TATT-TCTTCATAATTTTGGTA
57911310 TAGTTTCGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 6 0.11
40 43 0.81
41 4 0.08
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (39 bp):
TATTTCTTCATAATTTTGGTACACTCTTATAATGTTTGA
Found at i:57912308 original size:62 final size:62
Alignment explanation
Indices: 57912211--57912334 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
57912201 TGGGTGGTAA
57912211 AGCAGAGCGTACTAATTATGAGGCAATAATGAATTTAGAAATATCCGTCCTGATATTCAAAT
1 AGCAGAGCGTACTAATTATGAGGCAATAATGAATTTAGAAATATCCGTCCTGATATTCAAAT
57912273 AGCAGAGCGTACTAATTATGAGGCAATAATGAATTTAGAAATATCCGTCCTGATATTCAAAT
1 AGCAGAGCGTACTAATTATGAGGCAATAATGAATTTAGAAATATCCGTCCTGATATTCAAAT
57912335 TTAGTGATTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (62 bp):
AGCAGAGCGTACTAATTATGAGGCAATAATGAATTTAGAAATATCCGTCCTGATATTCAAAT
Found at i:57916028 original size:29 final size:29
Alignment explanation
Indices: 57915982--57916037 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
57915972 CATAAATTTT
*
57915982 AAATTTAATCCTTGTACTT-TTATTTATAA
1 AAATTTAATCCTTCTACTTATT-TTTATAA
57916011 AAATTTAAT-CTATCTACTTATTTTTAT
1 AAATTTAATCCT-TCTACTTATTTTTAT
57916038 TAGTATTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 20 0.83
30 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATTTAATCCTTCTACTTATTTTTATAA
Found at i:57919440 original size:29 final size:29
Alignment explanation
Indices: 57919394--57919449 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
57919384 CATAAAATTT
* * *
57919394 AAATTTAATCCTTGTACTT-TTATTTATAG
1 AAATTTAAACCATCTACTTATT-TTTATAG
57919423 AAATTTAAACCATCTACTTATTTTTAT
1 AAATTTAAACCATCTACTTATTTTTAT
57919450 TAATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (29 bp):
AAATTTAAACCATCTACTTATTTTTATAG
Found at i:57921436 original size:39 final size:37
Alignment explanation
Indices: 57921369--57921461 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
57921359 ACCAGAATGG
* *
57921369 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
57921408 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
57921445 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
57921462 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:57921825 original size:3 final size:3
Alignment explanation
Indices: 57921817--57921864 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
57921807 ATTCCCACTC
* * * *
57921817 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57921865 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:57921865 original size:18 final size:18
Alignment explanation
Indices: 57921818--57921866 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
57921808 TTCCCACTCA
*
57921818 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
57921836 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
57921854 TAATATTAATACT
1 TAATAATAATACT
57921867 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:57921866 original size:12 final size:12
Alignment explanation
Indices: 57921817--57921864 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
57921807 ATTCCCACTC
*
57921817 ATAATAATAATA
1 ATAATACTAATA
57921829 ATAATACTAATA
1 ATAATACTAATA
57921841 ATAATACTAATA
1 ATAATACTAATA
* *
57921853 CTAATATTAATA
1 ATAATACTAATA
57921865 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:57922594 original size:20 final size:19
Alignment explanation
Indices: 57922557--57922609 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
57922547 TGTTCCTTTG
* *
57922557 TTCTTTCTATTCTGTTTCTT
1 TTCTTTTTATT-TCTTTCTT
*
57922577 TTCTGTTTTGTTTCTTTCTT
1 TTCT-TTTTATTTCTTTCTT
57922597 TTCTTTTTATTTC
1 TTCTTTTTATTTC
57922610 CTTTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.74
Consensus pattern (19 bp):
TTCTTTTTATTTCTTTCTT
Found at i:57922613 original size:20 final size:20
Alignment explanation
Indices: 57922571--57922609 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57922561 TTCTATTCTG
*
57922571 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
57922591 TTTCTTTTCT-TTTTATTTC
1 TTTCTTTTCTGTTTTATTTC
57922610 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:57922776 original size:31 final size:28
Alignment explanation
Indices: 57922740--57922807 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
57922730 TTGTCTTTAT
**
57922740 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
57922770 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
57922799 TTAATTTAT
1 TTAATTTAT
57922808 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:57922824 original size:21 final size:20
Alignment explanation
Indices: 57922786--57922824 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57922776 TAATTTAATA
*
57922786 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
57922806 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
57922825 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:57942505 original size:18 final size:17
Alignment explanation
Indices: 57942466--57942507 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
57942456 CATTATTCTT
57942466 ACATCTCTAAATTTTTA
1 ACATCTCTAAATTTTTA
*
57942483 TCATCT-TAAATTAGTTTA
1 ACATCTCTAAATT--TTTA
57942501 ACATCTC
1 ACATCTC
57942508 AATTTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.45
Consensus pattern (17 bp):
ACATCTCTAAATTTTTA
Found at i:57951389 original size:22 final size:22
Alignment explanation
Indices: 57951363--57951425 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
57951353 CATGGCTCTC
57951363 CTCTCTTTCTCTCGCTCTTTCA
1 CTCTCTTTCTCTCGCTCTTTCA
57951385 CTCTCCTTTC-CTCGC-CATTTCA
1 CTCT-CTTTCTCTCGCTC-TTTCA
*
57951407 CT-TCTTT-TCTC-CTCGTTCA
1 CTCTCTTTCTCTCGCTCTTTCA
57951426 ATCCGCCGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
19 5 0.14
20 8 0.22
21 2 0.06
22 16 0.44
23 5 0.14
ACGTcount: A:0.06, C:0.41, G:0.05, T:0.48
Consensus pattern (22 bp):
CTCTCTTTCTCTCGCTCTTTCA
Found at i:57956129 original size:25 final size:26
Alignment explanation
Indices: 57956101--57956161 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 26
57956091 TAGAAGTTTT
* *
57956101 AATTTTTTGAATATATATATTT-ATA
1 AATTTTTTGAATAAAAATATTTCATA
*
57956126 AA-TTTTGGAA-AAAAATATTTCATA
1 AATTTTTTGAATAAAAATATTTCATA
*
57956150 AATATTTTGAAT
1 AATTTTTTGAAT
57956162 TTTAGAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 8 0.29
24 12 0.43
25 8 0.29
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (26 bp):
AATTTTTTGAATAAAAATATTTCATA
Found at i:57959409 original size:2 final size:2
Alignment explanation
Indices: 57959402--57959427 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57959392 TAAAGGAAAA
57959402 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
57959428 TAGCCCACAA
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57962465 original size:25 final size:25
Alignment explanation
Indices: 57962414--57962465 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
57962404 TTTTTACAAA
*
57962414 TTTAGAATTTAGTTCTATTTTTATT
1 TTTAGAATTTAGTTCTACTTTTATT
57962439 TTTAGAAATTTAGTCTCT-CTTTT-TT
1 TTTAG-AATTTAGT-TCTACTTTTATT
57962464 TT
1 TT
57962466 ATATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 12 0.50
27 3 0.12
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.63
Consensus pattern (25 bp):
TTTAGAATTTAGTTCTACTTTTATT
Found at i:57964048 original size:22 final size:23
Alignment explanation
Indices: 57964023--57964066 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
57964013 TAATTTAAAT
*
57964023 TTTAATACT-TTTATATATATTA
1 TTTAATAATATTTATATATATTA
*
57964045 TTTATTAATAATTTATATATAT
1 TTTAATAAT-ATTTATATATAT
57964067 AGTACTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
24 11 0.61
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAATAATATTTATATATATTA
Found at i:57964437 original size:29 final size:30
Alignment explanation
Indices: 57964396--57964493 Score: 128
Period size: 29 Copynumber: 3.3 Consensus size: 30
57964386 ACAAAATAGT
*
57964396 ATTTTGACCCCTAAATTTTCTTAAAATTAT
1 ATTTTGACCCCTAAATTTTCTTAAAATTAC
* *
57964426 ATTCTGA-CCCTAAACTTTCTTAAAATTAC
1 ATTTTGACCCCTAAATTTTCTTAAAATTAC
* *
57964455 ATTTTAACCCCTAAATTTTC-CAAAATTAC
1 ATTTTGACCCCTAAATTTTCTTAAAATTAC
*
57964484 ACTTTGACCC
1 ATTTTGACCC
57964494 TAGAAGTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 41 0.71
30 17 0.29
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTTTGACCCCTAAATTTTCTTAAAATTAC
Found at i:57964988 original size:4 final size:4
Alignment explanation
Indices: 57964979--57965059 Score: 56
Period size: 4 Copynumber: 22.0 Consensus size: 4
57964969 GGCTGATCGG
*
57964979 GAAA GAAA G-AA -AAA GAGAA GAAA GAAA GAAA G-AA GAAGA GGAA G-AA
1 GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA
57965025 G-AA GAAA GGAAA -AAA -AAA G-AA -AAA GAAA -AAA GAAA
1 GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
57965060 ACAATTTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
3 26 0.40
4 28 0.43
5 11 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:57965001 original size:15 final size:15
Alignment explanation
Indices: 57964981--57965060 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
57964971 CTGATCGGGA
57964981 AAGAAAGAAAAAGAG
1 AAGAAAGAAAAAGAG
57964996 AAGAAAGAAAGAA-AG
1 AAGAAAGAAA-AAGAG
**
57965011 AAG-AAGAGGAAGAAG
1 AAGAAAGAAAAAG-AG
*
57965026 AAGAAAG-GAAA-A-
1 AAGAAAGAAAAAGAG
57965038 AA-AAAGAAAAAGA-
1 AAGAAAGAAAAAGAG
57965051 AA-AAAGAAAA
1 AAGAAAGAAAA
57965061 CAATTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
13 14 0.25
14 4 0.07
15 23 0.42
16 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAAAGAG
Found at i:57965005 original size:23 final size:23
Alignment explanation
Indices: 57964979--57965060 Score: 91
Period size: 23 Copynumber: 3.6 Consensus size: 23
57964969 GGCTGATCGG
57964979 GAAAGAAAGAAAAAGAGAAGAAA
1 GAAAGAAAGAAAAAGAGAAGAAA
*
57965002 GAAAGAAAGAAGAAGAGGAAGAAGAA
1 GAAAGAAAGAAAAAGA-GAAG-A-AA
57965028 GAAAGGAAA-AAAAA-AGAA-AAA
1 GAAA-GAAAGAAAAAGAGAAGAAA
57965049 GAAA-AAAGAAAA
1 GAAAGAAAGAAAA
57965061 CAATTTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
19 3 0.06
20 4 0.08
21 6 0.12
22 1 0.02
23 15 0.29
24 7 0.13
25 2 0.04
26 10 0.19
27 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (23 bp):
GAAAGAAAGAAAAAGAGAAGAAA
Found at i:57965047 original size:6 final size:6
Alignment explanation
Indices: 57964984--57965060 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
57964974 ATCGGGAAAG
* * * * *
57964984 AAAGAA AAAGAGA AGAA-AG AAAGAA AGAAGAA GAGGAA GAAGAA GAAAGGA
1 AAAGAA AAAGA-A A-AAGAA AAAGAA A-AAGAA AAAGAA AAAGAA -AAAGAA
57965035 AAA-AA AAAGAA AAAGAAA AAAGAA AA
1 AAAGAA AAAGAA AAAG-AA AAAGAA AA
57965061 CAATTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 6 0.11
6 30 0.54
7 18 0.32
8 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:57965389 original size:14 final size:14
Alignment explanation
Indices: 57965370--57965420 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
57965360 GAAAAAAAAT
57965370 AAAAAAAAGGAGAG
1 AAAAAAAAGGAGAG
* *
57965384 AAAAAAGAGAAGA-
1 AAAAAAAAGGAGAG
57965397 AAAAAAAAGG-GAAG
1 AAAAAAAAGGAG-AG
*
57965411 AAGAAAAAGG
1 AAAAAAAAGG
57965421 GGGTTCAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 1 0.03
13 9 0.30
14 20 0.67
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGAGAG
Found at i:57965421 original size:14 final size:15
Alignment explanation
Indices: 57965384--57965418 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
57965374 AAAAGGAGAG
*
57965384 AAAAAAGAGAAGAAA
1 AAAAAAGGGAAGAAA
57965399 AAAAAAGGGAAGAAGA
1 AAAAAAGGGAAGAA-A
57965415 AAAA
1 AAAA
57965419 GGGGGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAGGGAAGAAA
Found at i:57965803 original size:18 final size:17
Alignment explanation
Indices: 57965760--57966087 Score: 210
Period size: 17 Copynumber: 18.6 Consensus size: 17
57965750 TTTCAAAAAA
* *
57965760 GTTTCAAAAATTGTCGC
1 GTTTCAAAAATTTTCGT
*
57965777 GTTTTAAAAATTTTCGT
1 GTTTCAAAAATTTTCGT
* * *
57965794 GATTCAAAAATTGTCTT
1 GTTTCAAAAATTTTCGT
* *
57965811 GTTTTAAAATTTTTCGT
1 GTTTCAAAAATTTTCGT
* *
57965828 GTTTCTAAAGATTTCCGT
1 GTTTC-AAAAATTTTCGT
57965846 GTTTTCAAAAATTTTCGT
1 G-TTTCAAAAATTTTCGT
* *
57965864 AATTTCAAAAATTTTTGT
1 -GTTTCAAAAATTTTCGT
57965882 GTTTTCTAAAAA-TTTCTGT
1 G-TTTC-AAAAATTTTC-GT
*
57965901 GTTTCAAAAATTTTCAT
1 GTTTCAAAAATTTTCGT
*
57965918 GTTTTCAAAAATTGTCGT
1 G-TTTCAAAAATTTTCGT
* *
57965936 GTTTTCCAAAATTTTCTT
1 G-TTTCAAAAATTTTCGT
* *
57965954 GTTTCACAAATTTTTGT
1 GTTTCAAAAATTTTCGT
* * ** *
57965971 ATTTTAAATTTTTTTTGT
1 GTTTCAAA-AATTTTCGT
* * *
57965989 CTTTTGAAAATAATTCTT-AT
1 -GTTT-CAAA-AATT-TTCGT
* *
57966009 GTTTCAAAAGTTGTCGT
1 GTTTCAAAAATTTTCGT
*
57966026 GTTTTAAAAATTTTCGT
1 GTTTCAAAAATTTTCGT
* * *
57966043 GTTTTAAAAATTCTAGT
1 GTTTCAAAAATTTTCGT
* *
57966060 GTTTTCAAAAATTCTCTT
1 G-TTTCAAAAATTTTCGT
57966078 GTTTCAAAAA
1 GTTTCAAAAA
57966088 CATTCGTTTT
Statistics
Matches: 242, Mismatches: 55, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
16 1 0.00
17 110 0.45
18 104 0.43
19 18 0.07
20 7 0.03
21 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (17 bp):
GTTTCAAAAATTTTCGT
Found at i:57965884 original size:36 final size:35
Alignment explanation
Indices: 57965760--57966087 Score: 254
Period size: 36 Copynumber: 9.3 Consensus size: 35
57965750 TTTCAAAAAA
* *
57965760 GTTTCAAAAATTGTCGCGTTTT-AAAAATTTTCGT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
* * * *
57965794 GATTCAAAAATTGTCTTGTTTT-AAAATTTTTCGT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
* *
57965828 GTTTCTAAAGATTTCCGTGTTTTCAAAAATTTTCGT
1 GTTTC-AAAAATTTTCGTGTTTTCAAAAATTTTCGT
* *
57965864 AATTTCAAAAATTTTTGTGTTTTCTAAAAA-TTTCTGT
1 -GTTTCAAAAATTTTCGTGTTTTC-AAAAATTTTC-GT
* *
57965901 GTTTCAAAAATTTTCATGTTTTCAAAAATTGTCGT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
* * * *
57965936 GTTTTCCAAAATTTTCTTG-TTTCACAAATTTTTGT
1 G-TTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
* * ** * * * *
57965971 ATTTTAAATTTTTTTTGTCTTTTGAAAATAATTCTT-AT
1 GTTTCAAA-AATTTTCGTGTTTT-CAAA-AATT-TTCGT
* *
57966009 GTTTCAAAAGTTGTCGTGTTTT-AAAAATTTTCGT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
* * * * *
57966043 GTTTTAAAAATTCTAGTGTTTTCAAAAATTCTCTT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
57966078 GTTTCAAAAA
1 GTTTCAAAAA
57966088 CATTCGTTTT
Statistics
Matches: 231, Mismatches: 49, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
33 2 0.01
34 62 0.27
35 61 0.26
36 71 0.31
37 22 0.10
38 11 0.05
39 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (35 bp):
GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT
Found at i:57969257 original size:17 final size:17
Alignment explanation
Indices: 57969224--57969257 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57969214 ATGATTCCAG
* *
57969224 CTCGAAATTATTTAAAA
1 CTCGAAATGATTCAAAA
57969241 CTCGAAATGATTCAAAA
1 CTCGAAATGATTCAAAA
57969258 TTTTTGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (17 bp):
CTCGAAATGATTCAAAA
Done.