Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009370.1 Hibiscus syriacus cultivar Beakdansim tig00113236_pilon, whole genome shotgun sequence
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: 211821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:7889 original size:60 final size:60
Alignment explanation
Indices: 7825--7975 Score: 171
Period size: 61 Copynumber: 2.5 Consensus size: 60
7815 TGTTTTATTA
** * * * * *
7825 AGTCCCTCAACTATTAAAAATTACAAAATGGT-TATTCGACTATA-GATATTTGCTTTGTTG
1 AGTCCCTTGACTATTAAAAGTTACAAAATGGTCT-TTCGACTATATG-GAGTTGATTTGCTG
* * *
7885 AGTCCCTTGACAACTAAAAGTTACAAAAATGGTCTTTTGACTATATGGAGTTGATTTGCTG
1 AGTCCCTTGACTATTAAAAGTTAC-AAAATGGTCTTTCGACTATATGGAGTTGATTTGCTG
7946 AGTCCCTTGACTATTAAAAGTTACAAAATG
1 AGTCCCTTGACTATTAAAAGTTACAAAATG
7976 ATCACTTGGC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 25 0.33
61 49 0.64
62 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (60 bp):
AGTCCCTTGACTATTAAAAGTTACAAAATGGTCTTTCGACTATATGGAGTTGATTTGCTG
Found at i:15024 original size:35 final size:35
Alignment explanation
Indices: 14984--15061 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
14974 GATATATGTA
* *
14984 ATAATTTGAAATTTAGGTATTAAAGAGTCTAATCC
1 ATAATTTGAAATTTAGGCATTAAAAAGTCTAATCC
15019 ATAATTTGAAATTTAGGCATTAAAAAGTCTAATCC
1 ATAATTTGAAATTTAGGCATTAAAAAGTCTAATCC
*
15054 ACAATTTG
1 ATAATTTG
15062 CCCAAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (35 bp):
ATAATTTGAAATTTAGGCATTAAAAAGTCTAATCC
Found at i:23399 original size:6 final size:6
Alignment explanation
Indices: 23388--23416 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23378 GGACGGTCTT
23388 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
23417 AGAACTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23729 original size:12 final size:12
Alignment explanation
Indices: 23714--23748 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
23704 TTATTTTATT
23714 TTTAAAATTAAA
1 TTTAAAATTAAA
*
23726 TTTAAAATTATA
1 TTTAAAATTAAA
23738 TTTAAAATTAA
1 TTTAAAATTAA
23749 CTTTTAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:24604 original size:17 final size:18
Alignment explanation
Indices: 24574--24618 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
24564 TATGATTAGA
* *
24574 GATTTTATGAAATTT-GG
1 GATTTTAAGAAATTTAAG
*
24591 GATTTTAAGTAATTTAAG
1 GATTTTAAGAAATTTAAG
24609 GATTTTAAGA
1 GATTTTAAGA
24619 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
GATTTTAAGAAATTTAAG
Found at i:24771 original size:63 final size:63
Alignment explanation
Indices: 24693--24841 Score: 203
Period size: 62 Copynumber: 2.4 Consensus size: 63
24683 TTAAACACTG
* * * * * *
24693 ATTGAAAAACG-ATTTTTTAACGTCTTTTGACGATTAAGTACCTTAAATGGTAACTTTAAAAT
1 ATTGAATAACGAATTTTTTAACGTCTTCTAACGATCAAGCACCTTAAATGATAACTTTAAAAT
24755 ATTGAATAACGAA-TTTTTAACGTCTTCTAACGATCAAGCACCTTAAATGATAACTTTAAAAT
1 ATTGAATAACGAATTTTTTAACGTCTTCTAACGATCAAGCACCTTAAATGATAACTTTAAAAT
* **
24817 GTTGGGTAACGAATTTTTTAACGTC
1 ATTGAATAACGAATTTTTTAACGTC
24842 GGTTAAATAC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
62 64 0.84
63 12 0.16
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (63 bp):
ATTGAATAACGAATTTTTTAACGTCTTCTAACGATCAAGCACCTTAAATGATAACTTTAAAAT
Found at i:26243 original size:20 final size:20
Alignment explanation
Indices: 26218--26260 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
26208 CCTCTTATAT
26218 ACAAATATTTAACTTGCGAA
1 ACAAATATTTAACTTGCGAA
* *
26238 ACAAATGTTTAACTTGTGAA
1 ACAAATATTTAACTTGCGAA
26258 ACA
1 ACA
26261 TACTGCCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (20 bp):
ACAAATATTTAACTTGCGAA
Found at i:38278 original size:21 final size:21
Alignment explanation
Indices: 38233--38278 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
38223 CTAGTGTAAT
* *
38233 AAAATATTTAAATATATATAT
1 AAAATATTGAAATATATATAG
* *
38254 AAAATATTGAAATGTTTATAG
1 AAAATATTGAAATATATATAG
38275 AAAA
1 AAAA
38279 AATCTTTGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATATTGAAATATATATAG
Found at i:44050 original size:18 final size:18
Alignment explanation
Indices: 44006--44043 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
43996 ATTTTCTCAC
*
44006 TTAAAAAATATAAATATT
1 TTAAAAAATATAAATAAT
44024 TTAAAAAATAT-AATAAT
1 TTAAAAAATATAAATAAT
44041 TTA
1 TTA
44044 TTAAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAAAATATAAATAAT
Found at i:45197 original size:192 final size:194
Alignment explanation
Indices: 44859--45221 Score: 552
Period size: 192 Copynumber: 1.9 Consensus size: 194
44849 GAATTGCTTG
* * * *
44859 TCCAGCTTAGTTGGTAGAGCATAAGGCTCTTAACCTTGGGGTCGTGTGATCGAGTCCCACGGTGG
1 TCCAGCTCAGTTGGTAGAGCACAAGGCTCTTAACCTTGAGGTCGTGGGATCGAGTCCCACGGTGG
* * *
44924 GCAATTCATAATTCGGAGATCTCCTACGGAAGCTGCTCTCAACTTGGTGTTGGGGGCAACCTACT
66 GCAATTCATAATTCGAAGATCTCCTACGGAAGCTGCTCTCAACCTGGTGTTGGGGGCAACCTACC
* *
44989 ATCATATCTCCCCCTTACCCCATTACATAT-GGAATAAGGGTCAGCTAATGTAAAAGATGACTA
131 ATCATACCTCCCCCTTACCCCATTACATATGGGAACAAGGGTCAGCTAATGTAAAAGATGACTA
*
45052 TCCAGCTCAGTTGGTAGAGCACAAGGTTC-TAACCTTGAGGTCGTGGGATCGAGTCCCACGGAT-
1 TCCAGCTCAGTTGGTAGAGCACAAGGCTCTTAACCTTGAGGTCGTGGGATCGAGTCCCACGG-TG
* * * *
45115 GGCATTTCATAATTCGAAGGTCTTCTACGGAAGCTGCTCTCAACCTGGTGTTGGGGGCAGCCTAC
65 GGCAATTCATAATTCGAAGATCTCCTACGGAAGCTGCTCTCAACCTGGTGTTGGGGGCAACCTAC
* *
45180 CATCTTACCTTCCCCTTACCCCATTACATATGGGAACAAGGG
130 CATCATACCTCCCCCTTACCCCATTACATATGGGAACAAGGG
45222 ACAATCATTA
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
192 116 0.76
193 36 0.24
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (194 bp):
TCCAGCTCAGTTGGTAGAGCACAAGGCTCTTAACCTTGAGGTCGTGGGATCGAGTCCCACGGTGG
GCAATTCATAATTCGAAGATCTCCTACGGAAGCTGCTCTCAACCTGGTGTTGGGGGCAACCTACC
ATCATACCTCCCCCTTACCCCATTACATATGGGAACAAGGGTCAGCTAATGTAAAAGATGACTA
Found at i:49062 original size:60 final size:60
Alignment explanation
Indices: 48994--49109 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
48984 GATTACAAGG
* ** *
48994 TATTATTTTATTAAGTC-CATTTACTATTAAAAGTTATAAAATAGTCATTCGACTATAGAA
1 TATTATTTTATTAACTCTC-TCGACTATTAAAAATTATAAAATAGTCATTCGACTATAGAA
* *
49054 TATTATTTTATTAACTCTCTCGATTATTAAAAATTATAAAATGGTCATTCGACTAT
1 TATTATTTTATTAACTCTCTCGACTATTAAAAATTATAAAATAGTCATTCGACTAT
49110 TCATTAGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (60 bp):
TATTATTTTATTAACTCTCTCGACTATTAAAAATTATAAAATAGTCATTCGACTATAGAA
Found at i:50203 original size:25 final size:25
Alignment explanation
Indices: 50154--50204 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
50144 ACCCAAATAT
* **
50154 TTTTTTTAAAACAACCTGGACCCAA
1 TTTTTTTAAAAAAACCCCGACCCAA
*
50179 TTTTTTTAAAAAAACCCCGATCCAA
1 TTTTTTTAAAAAAACCCCGACCCAA
50204 T
1 T
50205 CGAATTAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (25 bp):
TTTTTTTAAAAAAACCCCGACCCAA
Found at i:56749 original size:287 final size:287
Alignment explanation
Indices: 56234--57097 Score: 1640
Period size: 287 Copynumber: 3.0 Consensus size: 287
56224 TCAGGTGACT
* *
56234 ATTTTATAACTTTTAATAGTCTAGAGACTCAACGAAACAACACTCTATAGTCAAATGACCATTTT
1 ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGACCATTTT
* ** *
56299 ATCGCTTTTAATAGTCAAGAGACTTAATAAAGTAGTATATTGTAATCGGGG-ACCATTTGTATAC
66 ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
*
56363 GTTACCCTTAATTTCACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
131 GTTACCCTTAATTTTACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
56428 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
196 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
56493 TAGATATTATTAGTACACAATACACTA
261 TAGATATTATTAGTACACAATACACTA
*
56520 ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGATCATTTT
1 ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGACCATTTT
56585 ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
66 ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
*
56650 GTTACCCTTAATTTTACTTGCATTCGATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
131 GTTACCCTTAATTTTACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
56715 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
196 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
56780 TAGATATTATTAGTACACAATACACTA
261 TAGATATTATTAGTACACAATACACTA
56807 ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGACCATTTT
1 ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGACCATTTT
56872 ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
66 ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
56937 GTTACCCTTAATTTTACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
131 GTTACCCTTAATTTTACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
57002 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
196 TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
57067 TAGATATTATTAGTACACAATACACTA
261 TAGATATTATTAGTACACAATACACTA
57094 ATTT
1 ATTT
57098 AATATAATAA
Statistics
Matches: 566, Mismatches: 11, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
286 109 0.19
287 457 0.81
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (287 bp):
ATTTTATAACTTTTAATAGTCAAGAGACTCAACGAAGCAACACTCTATAGTCAAATGACCATTTT
ATCACTTTTAATAGTCAAGAGACTTAATAAAGTAGTACCTTGTAACCGGGGAACCATTTGTATAC
GTTACCCTTAATTTTACTTGCATTCAATCAAAATCTTATATTAAAAAAATTAAATCAACTAAACT
TATAAGTAAGAGAATTGAATCAGTTAAACTCTTTAATTAATTTTGATCTTTAATTTAATTATTTT
TAGATATTATTAGTACACAATACACTA
Found at i:57112 original size:14 final size:15
Alignment explanation
Indices: 57093--57137 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 15
57083 ACAATACACT
57093 AATTTAA-TATAATA
1 AATTTAATTATAATA
57107 AATTTAATTCTATCAATA
1 AATTTAA-T-TAT-AATA
57125 AATTTAATTATAA
1 AATTTAATTATAA
57138 CTTATTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 7 0.26
15 2 0.07
16 3 0.11
17 4 0.15
18 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAATTATAATA
Found at i:57289 original size:60 final size:60
Alignment explanation
Indices: 57207--57383 Score: 201
Period size: 60 Copynumber: 3.0 Consensus size: 60
57197 ATATATCTCC
* * * * * * *
57207 AAACTATAACTTTCATTTTAAATTGATCCTTAAATTTTTAAATATTCTAATTTCATCCTT
1 AAACTATGACTCTCATTCTAAATTAATCCTTAAACTTTTAAACATTCTAATTTCATCCAT
* *
57267 AAACTATGACTCTCATTCTAAATTAATGCTTAAACTTTTGAACATTCTAATTTCATCCAT
1 AAACTATGACTCTCATTCTAAATTAATCCTTAAACTTTTAAACATTCTAATTTCATCCAT
* * * ** ** *
57327 AAACTATGACCCTCTTTCTAAATTAGTCCACAAACTTTTGGACATTCCAATTTCATC
1 AAACTATGACTCTCATTCTAAATTAATCCTTAAACTTTTAAACATTCTAATTTCATC
57384 ACCAAATTCA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 100 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (60 bp):
AAACTATGACTCTCATTCTAAATTAATCCTTAAACTTTTAAACATTCTAATTTCATCCAT
Found at i:57347 original size:31 final size:30
Alignment explanation
Indices: 57250--57347 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
57240 ATTTTTAAAT
57250 ATTCTAATTTCATCCTTAAACTATGACTCTC
1 ATTCTAATTTCATCCTTAAACTATGAC-CTC
* * * * *
57281 ATTCTAAATTAATGCTTAAACTTTTGA--AC
1 ATTCTAATTTCATCCTTAAAC-TATGACCTC
*
57310 ATTCTAATTTCATCCATAAACTATGACCCTC
1 ATTCTAATTTCATCCTTAAACTATGA-CCTC
*
57341 TTTCTAA
1 ATTCTAA
57348 ATTAGTCCAC
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 4 0.08
29 18 0.35
31 25 0.49
32 4 0.08
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (30 bp):
ATTCTAATTTCATCCTTAAACTATGACCTC
Found at i:57603 original size:60 final size:61
Alignment explanation
Indices: 57510--57652 Score: 177
Period size: 60 Copynumber: 2.4 Consensus size: 61
57500 GTATATACGT
* *
57510 ATAGTTT-GGGATGAAATTGGAATGTTCAAAAAGTTTGGGGACTAATTTACAATGA-AGGTC
1 ATAGTTTAGGGATGAAATTGGAATGTTCAAAAAGTTTGAGGAATAATTTACAATGATA-GTC
* *
57570 ATAGTTTAGGGATGGAATT-GAAGTGTT-AAAAAGTTTGAGGAATAATTTAGAATGATAGTC
1 ATAGTTTAGGGATGAAATTGGAA-TGTTCAAAAAGTTTGAGGAATAATTTACAATGATAGTC
** *
57630 ATAGTTTAATGATGAAGTTGGAA
1 ATAGTTTAGGGATGAAATTGGAA
57653 GATGTAAAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
60 53 0.75
61 18 0.25
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (61 bp):
ATAGTTTAGGGATGAAATTGGAATGTTCAAAAAGTTTGAGGAATAATTTACAATGATAGTC
Found at i:57677 original size:60 final size:59
Alignment explanation
Indices: 57510--57677 Score: 150
Period size: 60 Copynumber: 2.8 Consensus size: 59
57500 GTATATACGT
* *
57510 ATAGTTT-GGGATGAAATTGGAA-TGTTCAAAAAGTTTGGGGACTAATTTACAATGAAGGTC
1 ATAGTTTAAGGATGGAATT-GAAGTGTT-AAAAAGTTT-GGGACTAATTTACAATGAAGGTC
* * *
57570 ATAGTTTAGGGATGGAATTGAAGTGTTAAAAAGTTTGAGGAATAATTTAGAATGATA-GTC
1 ATAGTTTAAGGATGGAATTGAAGTGTTAAAAAGTTTG-GGACTAATTTACAATGA-AGGTC
* *
57630 ATAGTTTAATGAT-GAAGTTGGAAGATG-T-AAAAGTTTAGGGACCAATTT
1 ATAGTTTAAGGATGGAA-TT-GAAG-TGTTAAAAAGTTT-GGGACTAATTT
57678 GAAAGGATGA
Statistics
Matches: 93, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
59 4 0.04
60 66 0.71
61 21 0.23
62 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (59 bp):
ATAGTTTAAGGATGGAATTGAAGTGTTAAAAAGTTTGGGACTAATTTACAATGAAGGTC
Found at i:61824 original size:223 final size:223
Alignment explanation
Indices: 61415--61875 Score: 764
Period size: 223 Copynumber: 2.1 Consensus size: 223
61405 TTGTCAGTTT
* *
61415 GTGTCGATACTTTATAAAAATATATTGATTCATAACAATATAACAGGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAT
*
61480 CGGTCTATAAATGACAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
66 CGGTCTATAAATGACAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAA
*
61545 AATGTATCGATCCATAACAATATAACAGATAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
131 AATGTATCGATCCATAACAATATAACAGATAAAAAATGACAAAACCGATCTATAAATGACAAAAC
* *
61610 AGGTAAAGCGTTACCAGATTTATTGAAA
196 AGGTAAAGCGCTACCAGATATATTGAAA
* * *
61638 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAAAATGA-TAAAT
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAT
61701 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAA
66 CGGTCTATAAATGAC-AAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAA
* *
61766 AAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATTTATAAATGACAAA
130 AAATGTATCGATCCATAACAATATAACAGAT-AAAAAATGACAAAACCGATCTATAAATGACAAA
* * *
61831 ATAGGTAAAGCGCTACCGGATATATTGATA
194 ACAGGTAAAGCGCTACCAGATATATTGAAA
61861 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
61876 TATAAGTAGC
Statistics
Matches: 222, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
221 19 0.09
222 88 0.40
223 115 0.52
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (223 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAT
CGGTCTATAAATGACAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAA
AATGTATCGATCCATAACAATATAACAGATAAAAAATGACAAAACCGATCTATAAATGACAAAAC
AGGTAAAGCGCTACCAGATATATTGAAA
Found at i:61871 original size:112 final size:112
Alignment explanation
Indices: 61415--61875 Score: 748
Period size: 111 Copynumber: 4.1 Consensus size: 112
61405 TTGTCAGTTT
* * * *
61415 GTGTCGATACTTTATAAAAATATATTGATTCATAACAATATAACAGGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
61480 CGGTCTATAAATGAC-AAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
61527 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGAT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
61591 GGTCTATAAATGACAAAACAGGTAAAGCGTTACCAGATTTATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
61638 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGA-TAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
61702 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
61749 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
61814 GATTTATAAATGACAAAATAGGTAAAGCGCTACCGGATATATTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
61861 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
61876 TATAAGTAGC
Statistics
Matches: 322, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
110 29 0.09
111 179 0.56
112 114 0.35
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:61953 original size:182 final size:182
Alignment explanation
Indices: 61746--62173 Score: 635
Period size: 182 Copynumber: 2.4 Consensus size: 182
61736 GGATATATTG
* *
61746 AAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * ** * * *
61811 ACCGATTTATAAATGACAAAA-TAGGTAAAGCGCTACCGGATATATTGATAGTGTCGATACTTTA
66 ACCGATCTAGAAATGACAAAACT-GGTAAAGAACTACCAGATATATTGAAAGTGCCGATACTTTA
* *
61875 TTATAAGTAGCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAAATCT-AAT
130 TTATAAGTAGCGACACTTTTGAAATTTAAAAGAAAAGAAGTTAT-AATCTCAAT
61928 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * * * *
61993 ATCGGTCTCGAAATGACAAAACTGGTAAAGAACTATCAGATATGTTGAAAGTGCCGATATTTTAT
66 ACCGATCTAGAAATGACAAAACTGGTAAAGAACTACCAGATATATTGAAAGTGCCGATACTTTAT
* * * *
62058 TATAAGTATCGATACTTTTGAAATTTAAAAGAAAAGAAGTTATAGTGTCAAT
131 TATAAGTAGCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAATCTCAAT
62110 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAA
62174 TCGGTCTCGA
Statistics
Matches: 223, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
181 3 0.01
182 219 0.98
183 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGATCTAGAAATGACAAAACTGGTAAAGAACTACCAGATATATTGAAAGTGCCGATACTTTAT
TATAAGTAGCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAATCTCAAT
Found at i:62678 original size:23 final size:23
Alignment explanation
Indices: 62634--62679 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62624 ATAAAACAAC
* * *
62634 ATAAGCGTTATCTATTACATTAT
1 ATAAGCGCTACCTAATACATTAT
*
62657 ATAAGCGCTACCTAATATATTAT
1 ATAAGCGCTACCTAATACATTAT
62680 TGTACTTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (23 bp):
ATAAGCGCTACCTAATACATTAT
Found at i:64313 original size:13 final size:13
Alignment explanation
Indices: 64297--64328 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
64287 GCCCCGATTA
64297 CCCGATTACCCGC
1 CCCGATTACCCGC
64310 CCCGATTACCCGC
1 CCCGATTACCCGC
64323 CCCGAT
1 CCCGAT
64329 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:64408 original size:19 final size:19
Alignment explanation
Indices: 64384--64423 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64374 AATAAATTTA
64384 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
64403 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
64422 AT
1 AT
64424 ATATACCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:64474 original size:12 final size:12
Alignment explanation
Indices: 64426--64479 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
64416 ATATATATAT
* *
64426 ATACCCGGTCCG
1 ATACCCGGCCCA
*
64438 ATTCCCGGCCCA
1 ATACCCGGCCCA
*
64450 ATA-CCGACCCA
1 ATACCCGGCCCA
64461 ATACCCGGCCCA
1 ATACCCGGCCCA
64473 ATACCCG
1 ATACCCG
64480 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.24, C:0.46, G:0.17, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:67217 original size:59 final size:60
Alignment explanation
Indices: 67139--67265 Score: 141
Period size: 59 Copynumber: 2.1 Consensus size: 60
67129 ATAGCCATGT
* * * * * *
67139 GACCATTTTGTAACTTTTAATTGTCGAAG-GACTCAACAAAGCAACTTCGTATAGTCGGGG
1 GACCATTTAGTAACTTTTAATAGTC-AAGAAACTCAACAAAGCAACATCCTATAGTCGGGA
* * * *
67199 GACCATTTAGTATC-TTTAATAGTCAAGAAACTCAATAAAGTAGCATCCTATAGTCGGGA
1 GACCATTTAGTAACTTTTAATAGTCAAGAAACTCAACAAAGCAACATCCTATAGTCGGGA
67258 GACCATTT
1 GACCATTT
67266 GTGTACTTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 3 0.05
59 41 0.73
60 12 0.21
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (60 bp):
GACCATTTAGTAACTTTTAATAGTCAAGAAACTCAACAAAGCAACATCCTATAGTCGGGA
Found at i:72935 original size:22 final size:22
Alignment explanation
Indices: 72909--72952 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
72899 TAAATATTAT
72909 TCATTTAACTAAACGAATTTAA
1 TCATTTAACTAAACGAATTTAA
72931 TCATTTAACTAAACGAATTTAA
1 TCATTTAACTAAACGAATTTAA
72953 AATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
TCATTTAACTAAACGAATTTAA
Found at i:78783 original size:21 final size:21
Alignment explanation
Indices: 78759--78815 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
78749 TAAATGCATA
78759 CAAAATTCAACAAAAAGAACC
1 CAAAATTCAACAAAAAGAACC
* * *
78780 CAAATTTCGTAACAAAAAATAATC
1 CAAAATTC--AAC-AAAAAGAACC
78804 C-AAATTCAACAA
1 CAAAATTCAACAA
78816 GCTTGATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
23 8 0.28
24 9 0.31
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.18
Consensus pattern (21 bp):
CAAAATTCAACAAAAAGAACC
Found at i:79678 original size:38 final size:38
Alignment explanation
Indices: 79625--79702 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
79615 GTGGATCGGA
* *
79625 TCGAGTTCAGATCAGATGAAGGGTGTATTATTTTCAGG
1 TCGAGTTCAGATCAGATGAAGGATGTATAATTTTCAGG
* *
79663 TCGAGTTC-GAGTCAGATGGAGGATGTATAATTTTCGGG
1 TCGAGTTCAGA-TCAGATGAAGGATGTATAATTTTCAGG
79701 TC
1 TC
79703 TGGTTGACCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (38 bp):
TCGAGTTCAGATCAGATGAAGGATGTATAATTTTCAGG
Found at i:80490 original size:60 final size:60
Alignment explanation
Indices: 80389--80521 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 60
80379 TATGATGATC
* * * * *
80389 ATTTTGTAACTTTTAATAGTCGAGGGACTCGACAAAGTAATACTCTATAGTCAAAGGACT
1 ATTTTGTAACTTTTAATAGTCAAGAGACTCAACAAAATAATACCCTATAGTCAAAGGACT
* * **
80449 ATTTTGTAACTTTTAATAGTTAAGAGAGCT-AATAAAATAATACCCTATAGTCAGGGGACT
1 ATTTTGTAACTTTTAATAGTCAAGAGA-CTCAACAAAATAATACCCTATAGTCAAAGGACT
80509 ATTTATGT-ACTTT
1 ATTT-TGTAACTTT
80522 ACCCTATAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
60 57 0.92
61 5 0.08
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCAAGAGACTCAACAAAATAATACCCTATAGTCAAAGGACT
Found at i:83486 original size:72 final size:73
Alignment explanation
Indices: 83359--83499 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 73
83349 TGGGCACGTG
* * * *
83359 GCCACCCTGAAATATAATTTTTTTCCGATTAGTTACTTATTTTACTGATGGTGCCCACC-TGAAA
1 GCCACCCTGAAATATAATTTTCTTCCGATTAGTTACTTATGTTACTGACGATGCCCACCTTGAAA
83423 TTTTCTGT
66 TTTTCTGT
* * *
83431 GCCACTCTGAAATATGAGTTTTCTT-CGATTAGTTATTTATGTTA-TGAACGATGCCCACCTTGA
1 GCCACCCTGAAATAT-AATTTTCTTCCGATTAGTTACTTATGTTACTG-ACGATGCCCACCTTGA
83494 AATTTT
64 AATTTT
83500 ATTTGTATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
71 2 0.03
72 41 0.69
73 16 0.27
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (73 bp):
GCCACCCTGAAATATAATTTTCTTCCGATTAGTTACTTATGTTACTGACGATGCCCACCTTGAAA
TTTTCTGT
Found at i:83818 original size:2 final size:2
Alignment explanation
Indices: 83811--83838 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83801 GCCCGAAAGA
83811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83839 TTGTTTACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85266 original size:30 final size:30
Alignment explanation
Indices: 85230--85296 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
85220 GGGATTGAGA
85230 TGCAATTGTTTAAAATTTGATACAATAGGT
1 TGCAATTGTTTAAAATTTGATACAATAGGT
85260 TGCAATTGTTTAAAATTTGATACAATAGGT
1 TGCAATTGTTTAAAATTTGATACAATAGGT
85290 TGCAATT
1 TGCAATT
85297 AAACATTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (30 bp):
TGCAATTGTTTAAAATTTGATACAATAGGT
Found at i:86453 original size:24 final size:24
Alignment explanation
Indices: 86421--86530 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
86411 TATAGATTGA
86421 TCTTG-ATTAGTGCATTCGTGCAC
1 TCTTGTATTAGTGCATTCGTGCAC
* *
86444 TCATGTATTAGTGCAATT-TTGCAC
1 TCTTGTATTAGTGC-ATTCGTGCAC
* *
86468 TCTTGAATTAGTGCATCCGTGCAC
1 TCTTGTATTAGTGCATTCGTGCAC
* * * *
86492 TCTTGATTTTAGTTCATTCATGTAC
1 TCTTG-TATTAGTGCATTCGTGCAC
*
86517 TCCTGTATTAGTGC
1 TCTTGTATTAGTGC
86531 TTTGTTCTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
23 6 0.09
24 42 0.62
25 20 0.29
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (24 bp):
TCTTGTATTAGTGCATTCGTGCAC
Found at i:88922 original size:185 final size:185
Alignment explanation
Indices: 88530--88922 Score: 632
Period size: 185 Copynumber: 2.1 Consensus size: 185
88520 ATTAAATTTT
*
88530 AAATTTTAAATATATTATATATATAACATATGGGCTTAGCCCAAACCATTTAAAACTCAATTAAT
1 AAATATTAAATATA-T-TATATATAACATATGGGCTTAGCCCAAACCATTTAAAACTCAATTAAT
*
88595 AATTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTT
64 AATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTT
* *
88660 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTTGAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAAATATTTTTTTGAATTAAA
88717 AAATATTAAATATATTATATATAACATATGGG-TTAAGCCCAAACCATTTAAAAC-CTAATTAAT
1 AAATATTAAATATATTATATATAACATATGGGCTT-AGCCCAAACCATTTAAAACTC-AATTAAT
*
88780 AATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATATATATATAA-
64 AATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAT-TATATA-AAT
*
88844 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTTTGAATTAAA
127 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAAATATTTTTTTGAATTAAA
* *
88903 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
88923 AATTCGAAAT
Statistics
Matches: 194, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
184 3 0.02
185 103 0.53
186 73 0.38
187 15 0.08
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAACTCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAAATATTTTTTTGAATTAAA
Found at i:89745 original size:21 final size:20
Alignment explanation
Indices: 89659--89812 Score: 78
Period size: 21 Copynumber: 7.6 Consensus size: 20
89649 AAATGACCAA
**
89659 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
89678 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
89698 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
89718 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
89739 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
89760 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
89780 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
89801 GAAAATCGCAAC
1 CAAAATCGCAAC
89813 ACGAACACAT
Statistics
Matches: 100, Mismatches: 29, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 38 0.38
21 46 0.46
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:89809 original size:20 final size:20
Alignment explanation
Indices: 89784--89835 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
89774 GATTTTCAAG
* *
89784 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
*
89804 AATCGCAACACGAACACATA
1 AATCGCAACGCGAACACATA
89824 AATCGCAACGCG
1 AATCGCAACGCG
89836 TATCCGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.44, C:0.27, G:0.17, T:0.12
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:89845 original size:20 final size:20
Alignment explanation
Indices: 89822--90012 Score: 224
Period size: 20 Copynumber: 9.6 Consensus size: 20
89812 CACGAACACA
89822 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
89842 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
89862 TAAATAGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
89882 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
89902 TATATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
89922 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* *
89942 TAAATCGCAACGCGAATCTG
1 TAAATCGCAACGCGTATCCG
*
89962 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
89982 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
90002 TAAATCACAAC
1 TAAATCGCAAC
90013 ACTGAAATTT
Statistics
Matches: 145, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 144 0.99
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:89851 original size:40 final size:40
Alignment explanation
Indices: 89784--90014 Score: 193
Period size: 40 Copynumber: 5.8 Consensus size: 40
89774 GATTTTCAAG
* ** * *
89784 AATCGCAACGCGAATATGAAAATCGCAACACG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACACGTAAC-CGTA
* ** *
89824 AATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACACGTAACCGTA
* ** *
89864 AATAGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACACGTAACCGTA
* *
89904 TATCGCAACGTGTATCCGTAAATCGC-A-ACGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACACG-TAA-CCGTA
* *
89944 AATCGCAACGCGAATCTGTAAATCGC-A-ACGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACACG-TAA-CCGTA
* * * *
89984 AATCGCAACGAGAATCTGTAAATCACAACAC
1 AATCGCAACGCGTATCCGTAAATCGCAACAC
90015 TGAAATTTTG
Statistics
Matches: 162, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 152 0.94
41 3 0.02
42 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACACGTAACCGTA
Found at i:89993 original size:60 final size:60
Alignment explanation
Indices: 89822--90012 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
89812 CACGAACACA
* * *
89822 TAAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATAGCAACGCGT-ATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACG-ATAATCCG
* *
89882 TAAATCGCAATGCGTATCCGTATATCGCAACGTGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGATAATCCG
* * * * *
89942 TAAATCGCAACGCGAATCTGTAAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGTAAATCGCAACGATAATCCG
*
90002 TAAATCACAAC
1 TAAATCGCAAC
90013 ACTGAAATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.01
60 114 0.98
61 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (60 bp):
TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGATAATCCG
Found at i:90744 original size:24 final size:24
Alignment explanation
Indices: 90705--90751 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90695 AAATTTGGTC
90705 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
90729 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
90752 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:90943 original size:12 final size:12
Alignment explanation
Indices: 90926--90950 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90916 ATATAATCCT
90926 GAAGAAGAAAAA
1 GAAGAAGAAAAA
90938 GAAGAAGAAAAA
1 GAAGAAGAAAAA
90950 G
1 G
90951 TCCTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:93284 original size:33 final size:33
Alignment explanation
Indices: 93233--93412 Score: 245
Period size: 33 Copynumber: 5.2 Consensus size: 33
93223 CGGAAATTAC
*
93233 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
93266 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
93300 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
93338 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
93371 AATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAA
93405 AATCGCAA
1 AATCGCAA
93413 TGCGAAATGA
Statistics
Matches: 135, Mismatches: 4, Indels: 15
0.88 0.03 0.10
Matches are distributed among these distances:
32 1 0.01
33 67 0.50
34 32 0.24
36 3 0.02
38 16 0.12
39 16 0.12
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:93316 original size:19 final size:19
Alignment explanation
Indices: 93247--93436 Score: 221
Period size: 19 Copynumber: 10.7 Consensus size: 19
93237 GCAACGAGAG
93247 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
93266 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
93280 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
93300 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
93319 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
93338 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
93352 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
93371 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
93385 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
93405 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
93424 AATCGCATTGCGA
1 AATCGCAATGCGA
93437 TTCTCTCGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 34
0.78 0.04 0.18
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 4 0.03
17 6 0.04
18 1 0.01
19 73 0.50
20 29 0.20
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:93357 original size:14 final size:14
Alignment explanation
Indices: 93338--93392 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
93328 GCGAAATGAA
93338 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
93352 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
93371 AATCGCAACGAGAG
1 AATCGCAACGAGAG
93385 AATCGCAA
1 AATCGCAA
93393 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:93361 original size:105 final size:105
Alignment explanation
Indices: 93233--93436 Score: 365
Period size: 105 Copynumber: 1.9 Consensus size: 105
93223 CGGAAATTAC
93233 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGCGGAAAT
93297 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
65 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
93338 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATG
*
93403 AAAATCGCAATGCGAAATGAAAATCGCATTGCGA
66 AAAATCGCAATGCGAAATGAAAATCGCAATGCGA
93437 TTCTCTCGTT
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 94 0.99
106 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATG
AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:93494 original size:54 final size:52
Alignment explanation
Indices: 93426--93543 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 52
93416 GAAATGAAAA
93426 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
93479 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
93532 TCGCATTGCGAT
1 TCGCATTGCGAT
93544 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
52 11 0.17
53 20 0.31
54 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:93551 original size:19 final size:19
Alignment explanation
Indices: 93445--93543 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
93435 GATTCTCTCG
93445 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
93465 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
93485 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
93499 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
93518 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
93537 TTGCGAT
1 TTGCGAT
93544 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 5 0.07
17 6 0.08
18 3 0.04
19 26 0.36
20 26 0.36
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:93669 original size:14 final size:14
Alignment explanation
Indices: 93650--93686 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
93640 CATCAATTAC
93650 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
93664 ACAAATCATCTTTT
1 ACAAATCAACTTTT
93678 ACAAATCAA
1 ACAAATCAA
93687 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:95189 original size:21 final size:21
Alignment explanation
Indices: 95150--95190 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
95140 ACTCTCGAGG
* *
95150 AATGATAGGGGGGGCCTCTTC
1 AATGATAGGAGGGGACTCTTC
*
95171 AATGATAGGAGTGGACTCTT
1 AATGATAGGAGGGGACTCTT
95191 GAGGGATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (21 bp):
AATGATAGGAGGGGACTCTTC
Found at i:95640 original size:19 final size:19
Alignment explanation
Indices: 95598--95770 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
95588 TAGTTTACTT
* *
95598 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
95618 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
95637 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
95656 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
95675 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
95694 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
95708 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
95727 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
95741 TCGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
95760 TCGCAATGCGA
1 TCGCAACGCGA
95771 TTTTGGTTTC
Statistics
Matches: 127, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:95711 original size:14 final size:14
Alignment explanation
Indices: 95692--95748 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
95682 GCGAAATGAA
*
95692 AATCGCAACGACAG
1 AATCGCAACGAAAG
95706 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
95723 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
95739 AATCGCAACG
1 AATCGCAACG
95749 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:95719 original size:33 final size:33
Alignment explanation
Indices: 95673--95765 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
95663 GCGAAACCAA
95673 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
95706 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
95739 AATCGCAACGCGAAATTAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
95766 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:95801 original size:14 final size:14
Alignment explanation
Indices: 95782--95808 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95772 TTTGGTTTCG
95782 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
95796 CGTTGCGATTTTG
1 CGTTGCGATTTTG
95809 GTTTCGCGTT
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:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:95808 original size:33 final size:33
Alignment explanation
Indices: 95766--95889 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
95756 AAAATCGCAA
*
95766 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
*
95799 TGCGATTTTGGTTTCGCGTTGTGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
95832 TGCGAATTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* * *
95865 TGTGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
95890 AAGTAAACTA
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 66 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.16, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:95824 original size:19 final size:19
Alignment explanation
Indices: 95766--95824 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
95756 AAAATCGCAA
95766 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
95785 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
95799 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
95818 TGTGATT
1 TGCGATT
95825 CTGTCGTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 12 0.35
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.53
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:96300 original size:92 final size:93
Alignment explanation
Indices: 95987--96301 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
95977 TCAGGGTATT
95987 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
96052 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
96080 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
96145 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
96173 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
96237 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
96265 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
96302 AAGCAATCTA
Statistics
Matches: 221, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 66 0.30
93 155 0.70
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:98038 original size:21 final size:21
Alignment explanation
Indices: 97984--98048 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
97974 TCTTTTGGTT
*
97984 GAAATAAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
98005 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
98025 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
98046 GAA
1 GAA
98049 TCGCAACGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:98109 original size:14 final size:14
Alignment explanation
Indices: 98090--98146 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
98080 TTTGGTTTCG
98090 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
98104 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
98123 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
98137 CGTTGCGATT
1 CGTTGCGATT
98147 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:98122 original size:33 final size:33
Alignment explanation
Indices: 98074--98154 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
98064 AAAATCGCAA
**
98074 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
98107 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
98140 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
98155 TCTCGTTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:98157 original size:21 final size:21
Alignment explanation
Indices: 98131--98207 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
98121 CGCGTTGCGA
98131 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
98152 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
98174 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
98194 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
98208 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:98329 original size:33 final size:33
Alignment explanation
Indices: 98287--98357 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
98277 AATACTAACT
98287 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
98320 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
98353 TGAAA
1 TGAAA
98358 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:98761 original size:20 final size:20
Alignment explanation
Indices: 98736--98907 Score: 247
Period size: 20 Copynumber: 8.6 Consensus size: 20
98726 CTTTAAAAAT
98736 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
98756 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
98776 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
98796 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
98816 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
98836 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
98856 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
98876 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
98896 CGCGTTGCGATT
1 CGCGTTGCGATT
98908 CTGGAAAATC
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
20 137 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:99334 original size:31 final size:32
Alignment explanation
Indices: 99288--99358 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
99278 TTTATTTTAT
* *
99288 TTTAGTACCCCCGCCGTTAAAATCTTAATGCG
1 TTTAGTACCCCCGCCGTTAAAAACTTAATGCA
*
99320 TTTAGTA-TCCCGCCGTTAAAAACTTAATGCA
1 TTTAGTACCCCCGCCGTTAAAAACTTAATGCA
99351 TTTAGTAC
1 TTTAGTAC
99359 ATAAACTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTAGTACCCCCGCCGTTAAAAACTTAATGCA
Found at i:102998 original size:2 final size:2
Alignment explanation
Indices: 102991--103018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
102981 CGCGCTTCTT
102991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103019 CACACACACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108705 original size:2 final size:2
Alignment explanation
Indices: 108698--108724 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108688 TCATACAATG
108698 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
108725 ACAGTAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109191 original size:28 final size:28
Alignment explanation
Indices: 109160--109215 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
109150 TCAAAGACAC
109160 GATCCCGATCCATTCGAGGCATCGATCG
1 GATCCCGATCCATTCGAGGCATCGATCG
109188 GATCCCGATCCATTCGAGGCATCGATCG
1 GATCCCGATCCATTCGAGGCATCGATCG
109216 AGATGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.25, T:0.21
Consensus pattern (28 bp):
GATCCCGATCCATTCGAGGCATCGATCG
Found at i:119952 original size:111 final size:110
Alignment explanation
Indices: 119758--119985 Score: 304
Period size: 111 Copynumber: 2.1 Consensus size: 110
119748 ACAGGTACAG
* *
119758 TAAGGTTTGGACGTTCCGACTCTATACTAGGAAGAACGACGATCACCCGAAGCAGGTTCTCACTA
1 TAAGGTTTGGACGTTCCGACTCTATACTAGGAAGAACAACGATCACCCCAAGCA-GTTCTCACTA
* *
119823 CAGGGTGGCTCGATTTTGTGAAG-CAAATGGGTCTAAAAGTGGGGGA
65 AAGGGTGGCTCGATTTTGTGAAGACAAAT-GGTCTAAAAGTGGGAGA
*
119869 TAAGGTTTGGACGTTCCTG-CTCTATATTAGGAAGAACAACCG-T-AGCCCCAAGGC-GTTCCTC
1 TAAGGTTTGGACGTTCC-GACTCTATACTAGGAAGAACAA-CGATCA-CCCCAA-GCAGTT-CTC
*
119930 ACTAAAGGGTGGCTCGATTTTGTGAAGAGAAATGGTCTAAAAGTGGGAGA
61 ACTAAAGGGTGGCTCGATTTTGTGAAGACAAATGGTCTAAAAGTGGGAGA
119980 TAAGGT
1 TAAGGT
119986 GATTTTCCTC
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
110 4 0.04
111 92 0.88
112 9 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (110 bp):
TAAGGTTTGGACGTTCCGACTCTATACTAGGAAGAACAACGATCACCCCAAGCAGTTCTCACTAA
AGGGTGGCTCGATTTTGTGAAGACAAATGGTCTAAAAGTGGGAGA
Found at i:121007 original size:18 final size:18
Alignment explanation
Indices: 120966--121007 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
120956 AATATATTAT
120966 TTAATTATTACAAATATA
1 TTAATTATTACAAATATA
** *
120984 AAAATTATTATAAATATA
1 TTAATTATTACAAATATA
121002 TTAATT
1 TTAATT
121008 TAATTATTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTATTACAAATATA
Found at i:121013 original size:41 final size:42
Alignment explanation
Indices: 120956--121072 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
120946 TTATATCATT
**
120956 AATATATT-ATTTAATTA-TTACAAATATAA-AAATTATTATA
1 AATATATTAATTTAATTATTTA-AAATATAATAAACAATTATA
120996 AATATATTAATTTAATTATTTAAAATATAATAAACAATTATA
1 AATATATTAATTTAATTATTTAAAATATAATAAACAATTATA
121038 AATATATT-ATTATAAATTATATTAAAATATTAATA
1 AATATATTAATT-T-AATTAT-TTAAAATA-TAATA
121073 TATTTAGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
40 8 0.12
41 20 0.29
42 21 0.31
43 6 0.09
44 8 0.12
45 5 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (42 bp):
AATATATTAATTTAATTATTTAAAATATAATAAACAATTATA
Found at i:121060 original size:15 final size:14
Alignment explanation
Indices: 120987--121061 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
120977 AAATATAAAA
120987 ATTATTATAAATAT
1 ATTATTATAAATAT
*
121001 ATTAATT-TAATTAT
1 ATT-ATTATAAATAT
** *
121015 -TTAAAATATAATAA
1 ATTATTATA-AATAT
**
121029 ACAATTATAAATAT
1 ATTATTATAAATAT
121043 ATTATTATAAATTAT
1 ATTATTATAAA-TAT
121058 ATTA
1 ATTA
121062 AAATATTAAT
Statistics
Matches: 44, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
12 1 0.02
13 4 0.09
14 25 0.57
15 14 0.32
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATTATAAATAT
Found at i:121074 original size:23 final size:22
Alignment explanation
Indices: 120985--121074 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 22
120975 ACAAATATAA
120985 AAATTATTATAAATATATTAAT-T
1 AAATTATT-TAAA-ATATTAATAT
* *
121008 TAATTATTTAAAATA-TAATAA
1 AAATTATTTAAAATATTAATAT
*
121029 ACAATTA--TAAATATATTATTAT
1 A-AATTATTTAAA-ATATTAATAT
121051 AAATTATATTAAAATATTAATAT
1 AAATTAT-TTAAAATATTAATAT
121074 A
1 A
121075 TTTAGGTTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
20 8 0.15
21 11 0.20
22 14 0.26
23 17 0.31
24 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATTATTTAAAATATTAATAT
Found at i:122376 original size:15 final size:16
Alignment explanation
Indices: 122353--122386 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
122343 CTTCTTCTCC
122353 TCCCGCTTCATCCCCT
1 TCCCGCTTCATCCCCT
*
122369 TCCC-CTTCATCTCCT
1 TCCCGCTTCATCCCCT
122384 TCC
1 TCC
122387 TCTCTCCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.06, C:0.56, G:0.03, T:0.35
Consensus pattern (16 bp):
TCCCGCTTCATCCCCT
Found at i:122418 original size:22 final size:21
Alignment explanation
Indices: 122358--122427 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
122348 TCTCCTCCCG
*
122358 CTTCATCCCCTTCCCCT-TCAT
1 CTTCTTCCCC-TCCCCTCTCAT
* * * *
122379 CTCCTTCCTCTCTCCTCTCGT
1 CTTCTTCCCCTCCCCTCTCAT
*
122400 CTTCTTCCCCTGCCCCTCTCCT
1 CTTCTTCCCCT-CCCCTCTCAT
122422 CTTCTT
1 CTTCTT
122428 AACTCTTGCC
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 5 0.13
21 19 0.50
22 14 0.37
ACGTcount: A:0.03, C:0.53, G:0.03, T:0.41
Consensus pattern (21 bp):
CTTCTTCCCCTCCCCTCTCAT
Found at i:125251 original size:95 final size:94
Alignment explanation
Indices: 125076--125265 Score: 344
Period size: 95 Copynumber: 2.0 Consensus size: 94
125066 GGACCAGAAC
* *
125076 TAATGTAACCCGAGCATCACACATTTACGTTAAGCGTTATATTATTTTTGTCCTAAAAAGAACAC
1 TAATGTAACCCCAGCATCACACATTTACGTTAAGCATTATATTATTTTTGTCCTAAAAAGAACAC
125141 TGCCAATGAACATGCAAATACTTCACAAA
66 TGCCAATGAACATGCAAATACTTCACAAA
125170 TAATGTAACCCCCAGCATCACACATTTACGTTAAGCATTATATTATTTTTGTCCTAAAAAGAACA
1 TAATGTAA-CCCCAGCATCACACATTTACGTTAAGCATTATATTATTTTTGTCCTAAAAAGAACA
*
125235 CTGCCAATGAACATGCAGATACTTCACAAA
65 CTGCCAATGAACATGCAAATACTTCACAAA
125265 T
1 T
125266 TTGAACGTTC
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
94 8 0.09
95 84 0.91
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (94 bp):
TAATGTAACCCCAGCATCACACATTTACGTTAAGCATTATATTATTTTTGTCCTAAAAAGAACAC
TGCCAATGAACATGCAAATACTTCACAAA
Found at i:126042 original size:84 final size:84
Alignment explanation
Indices: 125928--126263 Score: 645
Period size: 84 Copynumber: 4.0 Consensus size: 84
125918 TGCAGTTCAG
*
125928 CCACTTTTTGGAAGAAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
1 CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
125993 CCCTTCTTTATGATTTATT
66 CCCTTCTTTATGATTTATT
126012 CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
1 CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
126077 CCCTTCTTTATGATTTATT
66 CCCTTCTTTATGATTTATT
*
126096 CCACTTTTTGGAAGGAGGCCGTCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
1 CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
126161 CCCTTCTTTATGATTTATT
66 CCCTTCTTTATGATTTATT
*
126180 CCACTTTTTGGAAGGAGGCCGTCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
1 CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
126245 CCCTTCTTTATGATTTATT
66 CCCTTCTTTATGATTTATT
126264 ATGATTTAAA
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 250 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (84 bp):
CCACTTTTTGGAAGGAGGCCATCCTTGGCCATTGCCGTTAGCACATTGAAAACTACATCCATGTT
CCCTTCTTTATGATTTATT
Found at i:131818 original size:28 final size:28
Alignment explanation
Indices: 131786--131843 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
131776 ATAAAAACAT
131786 TACAAAT-TAAATAATAAAAACAATTAAA
1 TACAAATGT-AATAATAAAAACAATTAAA
* **
131814 TACAAATGTTATAATTCAAACAATTAAA
1 TACAAATGTAATAATAAAAACAATTAAA
131842 TA
1 TA
131844 ATAAAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (28 bp):
TACAAATGTAATAATAAAAACAATTAAA
Found at i:131881 original size:25 final size:25
Alignment explanation
Indices: 131839--131919 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
131829 TCAAACAATT
131839 AAAT-AATAAAAACATTATGAAACA
1 AAATAAATAAAAACATTATGAAACA
* *
131863 AAATAAATAAAAA-GTT-T---A-T
1 AAATAAATAAAAACATTATGAAACA
* *
131882 AATTAAATAAAAACATTAAGAAACA
1 AAATAAATAAAAACATTATGAAACA
131907 AAATAAATAAAAA
1 AAATAAATAAAAA
131920 GTATAATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
19 12 0.28
20 3 0.07
23 1 0.02
24 7 0.16
25 20 0.47
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (25 bp):
AAATAAATAAAAACATTATGAAACA
Found at i:131938 original size:42 final size:43
Alignment explanation
Indices: 131843--131961 Score: 213
Period size: 42 Copynumber: 2.8 Consensus size: 43
131833 ACAATTAAAT
*
131843 AATAAAAACATTATGAAACAAAATAAATAAAAAGTTTATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAG-TTATAATTA
131887 AATAAAAACATTAAGAAACAAAATAAATAAAAAG-TATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTTATAATTA
131929 AATAAAAACATTAAGAAACAAAATAAATAAAAA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAA
131962 CAAATCCATT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 41 0.55
44 33 0.45
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (43 bp):
AATAAAAACATTAAGAAACAAAATAAATAAAAAGTTATAATTA
Found at i:132360 original size:21 final size:21
Alignment explanation
Indices: 132335--132402 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
132325 AAACAATGTG
132335 GTGGTGGCATCTGAAATTGTT
1 GTGGTGGCATCTGAAATTGTT
* *
132356 GTGGTGGCATC-GAAAATGGCT
1 GTGGTGGCATCTG-AAATTGTT
*
132377 GTGGTGCCATCTGAAATTGTT
1 GTGGTGGCATCTGAAATTGTT
*
132398 CTGGT
1 GTGGT
132403 AGCTATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.19, C:0.13, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGGTGGCATCTGAAATTGTT
Found at i:136655 original size:22 final size:21
Alignment explanation
Indices: 136605--136670 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
136595 TAAACGGTTA
*
136605 AAATAATATGTTTT-ATAA-T
1 AAATAATATATTTTAATAATT
**
136624 AAATTTTATATTTTTAATAATT
1 AAATAATATA-TTTTAATAATT
136646 AAATAATATATTTTAATAATAT
1 AAATAATATATTTTAATAAT-T
136668 AAA
1 AAA
136671 ATAAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.18
20 4 0.11
21 14 0.37
22 13 0.34
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATAATATATTTTAATAATT
Found at i:136695 original size:23 final size:23
Alignment explanation
Indices: 136635--136696 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
136625 AATTTTATAT
* *
136635 TTTTAAT-A-ATTAAATAATATA
1 TTTTAATAATATTAAATAAAAAA
*
136656 TTTTAATAATATAAAATAAAAAA
1 TTTTAATAATATTAAATAAAAAA
*
136679 TTATTAA-ATTATTAAATA
1 TT-TTAATAATATTAAATA
136697 TAATATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 21 0.64
24 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAATAATATTAAATAAAAAA
Found at i:139641 original size:15 final size:15
Alignment explanation
Indices: 139616--139687 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
139606 TGATTTTCCA
139616 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
139631 GAATTTGAATTACTG
1 GAAAATGAATTACTG
139646 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
139661 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
139675 GAAAATGAATTAC
1 GAAAATGAATTAC
139688 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:139685 original size:29 final size:30
Alignment explanation
Indices: 139616--139687 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
139606 TGATTTTCCA
139616 GAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
139646 GAAAATGAATTACTGGAATTTGAATT-CTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
139675 GAAAATGAATTAC
1 GAAAATGAATTAC
139688 ATTTCTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
GAAAATGAATTACTGGAATTTGAATTACTG
Found at i:139693 original size:20 final size:20
Alignment explanation
Indices: 139670--139739 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
139660 GGAATTTGAA
139670 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
139690 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
139710 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
139730 TTCTGGAAAA
1 TTCTGGAAAA
139740 CATCTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:139992 original size:28 final size:28
Alignment explanation
Indices: 139907--140049 Score: 91
Period size: 28 Copynumber: 5.1 Consensus size: 28
139897 CTTTACTAAA
*
139907 ATATTATTGAAATATATAA-ATAATATTATT
1 ATATTATT-AAA-ATAAAATATAATA-TATT
* *
139937 -CATTATTAAATATAAAA-A-AATTTATT
1 ATATTATTAAA-ATAAAATATAATATATT
*
139963 ATATTATTAAAATAAAATATAATATCTT
1 ATATTATTAAAATAAAATATAATATATT
* * * *
139991 ATATTATTATAATATAAT-TGATTATTTT
1 ATATTATTAAAATAAAATAT-AATATATT
* * *
140019 ATAATATTAAAA-ATAATATTATATTATT
1 ATATTATTAAAATAAAATATAATA-TATT
140047 ATA
1 ATA
140050 AATATTAATA
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
26 10 0.11
27 21 0.23
28 55 0.60
29 6 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATTATTAAAATAAAATATAATATATT
Found at i:140050 original size:28 final size:28
Alignment explanation
Indices: 139958--140067 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
139948 ATAAAAAAAT
* * *
139958 TTATTATATTATTAAAATAAAATATAATA
1 TTATTATAATATTAAAA-ATAATATTATA
* * * *
139987 -TCTTATATTATTATAATATAAT-TGATTA
1 TTATTATAATATTA-AAAATAATATTA-TA
140015 TT-TTATAATATTAAAAATAATATTATA
1 TTATTATAATATTAAAAATAATATTATA
140042 TTATTATAAATATTAATAAAT-ATATT
1 TTATTAT-AATATTAA-AAATAATATT
140068 TTAAATATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
27 13 0.19
28 34 0.51
29 16 0.24
30 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TTATTATAATATTAAAAATAATATTATA
Found at i:140054 original size:29 final size:30
Alignment explanation
Indices: 140011--140067 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
140001 AATATAATTG
*
140011 ATTATTTTATAATATTAA-AAATAATATTAT
1 ATTATTATATAATATTAATAAAT-ATATTAT
140041 ATTATTATA-AATATTAATAAATATATT
1 ATTATTATATAATATTAATAAATATATT
140068 TTAAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTATTATATAATATTAATAAATATATTAT
Found at i:140324 original size:42 final size:42
Alignment explanation
Indices: 140265--140384 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
140255 ATGAATTACA
**
140265 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
140307 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
140349 TTTCGGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
140385 TTCGGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:140779 original size:16 final size:17
Alignment explanation
Indices: 140758--140790 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
140748 ATACTTACTC
140758 TAAATTAAT-AAAAAAT
1 TAAATTAATCAAAAAAT
*
140774 TAAATTTATCAAAAAAT
1 TAAATTAATCAAAAAAT
140791 AATATTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATTAATCAAAAAAT
Found at i:141301 original size:42 final size:42
Alignment explanation
Indices: 141242--141325 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
141232 TCATTGTCTT
141242 ATGAATTATAACTCCATGGATGGATGATGATGGCCATTAGTG
1 ATGAATTATAACTCCATGGATGGATGATGATGGCCATTAGTG
141284 ATGAATTATAACTCCATGGATGGATGATGATGGCCATTAGTG
1 ATGAATTATAACTCCATGGATGGATGATGATGGCCATTAGTG
141326 TATGTATGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (42 bp):
ATGAATTATAACTCCATGGATGGATGATGATGGCCATTAGTG
Found at i:142524 original size:176 final size:174
Alignment explanation
Indices: 142315--142915 Score: 723
Period size: 176 Copynumber: 3.4 Consensus size: 174
142305 CATACATGTA
* * * *
142315 ATTTCATTTGTTAGGAGGAATGAACTTCTAAAATTTGATGAGTGATCGAATTTATAAAATACAAC
1 ATTTCATATGTTAGGAGGAATGAAATTCTAAAATTTGATGAGTGAACGAACTTATAAAATACAAC
142380 CATTTGTCCTTTTTATGACAAGTTTAGATCAATCTATAGGATATACATATATCACATGGTTAAAA
66 CATTTGT-CTTTTTATGACAAGTTTAGATCAATCTATA-GATATACATATATCACATGGTTAAAA
**
142445 GGGTTTTTAGTGCATGTCGTTTATGGTAGGCTGAGCCAGACGCATG
129 GAATTTTTAGTGCATGTCGTTTATGGTAGGCTGAGCCAGACGCATG
* * *
142491 ATTTCATATGTTAAGAGGGAT-AAATTACTAAAATTTGATGAATGAACGAACTTATAAAATACAA
1 ATTTCATATGTTAGGAGGAATGAAATT-CTAAAATTTGATGAGTGAACGAACTTATAAAATACAA
* * *
142555 CCATTTCTCTTTTTCCATTACAAGTTTAGATCAATCTAT-G-TGAT--ATATATCACATGATT-A
65 CCATTTGTCTTTTT--ATGACAAGTTTAGATCAATCTATAGAT-ATACATATATCACATGGTTAA
* * * * * *
142615 AAGTATTTTTAGTACATATCGTACATCGTTTGTGGCAGGTTGAGACAGACGCATG
127 AAGAATTTTTAGTGC--AT-G----TCGTTTATGGTAGGCTGAGCCAGACGCATG
* * *
142670 ATTTCATATGTTAGGAGGAATGAACTTCTAAAATTTGATGAGTGATCAAACTTATAAAATACAAC
1 ATTTCATATGTTAGGAGGAATGAAATTCTAAAATTTGATGAGTGAACGAACTTATAAAATACAAC
* *
142735 CAATTGTTCTTTTCATGACAAGTTTAGATCAATCTATACGATATACATATATCACATGGTTAAAA
66 CATTTG-TCTTTTTATGACAAGTTTAGATCAATCTATA-GATATACATATATCACATGGTTAAAA
* * * *
142800 AAAATTTTAGTGCATGCCGTTTATGGTAGGCTGAGCCAGACACATG
129 GAATTTTTAGTGCATGTCGTTTATGGTAGGCTGAGCCAGACGCATG
* * *
142846 ATTTCATATGTTAGGA-GAGAT-AAACTTTTAAAATTTGATAAGTGAACGAACTTATAAAATACG
1 ATTTCATATGTTAGGAGGA-ATGAAA-TTCTAAAATTTGATGAGTGAACGAACTTATAAAATACA
142909 ACCATTT
64 ACCATTT
142916 TTTTAATTAT
Statistics
Matches: 359, Mismatches: 45, Indels: 42
0.80 0.10 0.09
Matches are distributed among these distances:
172 13 0.04
173 14 0.04
174 3 0.01
175 18 0.05
176 140 0.39
177 22 0.06
178 22 0.06
179 84 0.23
180 14 0.04
181 3 0.01
182 14 0.04
183 12 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (174 bp):
ATTTCATATGTTAGGAGGAATGAAATTCTAAAATTTGATGAGTGAACGAACTTATAAAATACAAC
CATTTGTCTTTTTATGACAAGTTTAGATCAATCTATAGATATACATATATCACATGGTTAAAAGA
ATTTTTAGTGCATGTCGTTTATGGTAGGCTGAGCCAGACGCATG
Found at i:148976 original size:60 final size:60
Alignment explanation
Indices: 148874--149002 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
148864 AACACAATCA
* * * ** *
148874 ATAGTTGAGTGACCATTTTGTAACTTTTAATAGTCGTTGGACTCAACAAAATAATA-TCCT
1 ATAGTTAAGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAACAATACT-CT
* * *
148934 ATAGTTAAGAGACCATTTTATAACTTTTAATATTTGAGGGACTCAATAAAACAATACTCT
1 ATAGTTAAGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAACAATACTCT
*
148994 ATAATTAAG
1 ATAGTTAAG
149003 GGATGATTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (60 bp):
ATAGTTAAGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAACAATACTCT
Found at i:149457 original size:23 final size:22
Alignment explanation
Indices: 149397--149441 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
149387 ACAATCTGAT
*
149397 AATTTCAAAAAAAAATTATTTAA
1 AATTT-AAAAAAAAATTATATAA
149420 AATTTAAAAATAAAATTATATA
1 AATTTAAAAA-AAAATTATATA
149442 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTAAAAAAAAATTATATAA
Found at i:149469 original size:17 final size:18
Alignment explanation
Indices: 149447--149481 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
149437 ATATATATAT
149447 TTTTAAAA-AAACACAAA
1 TTTTAAAATAAACACAAA
*
149464 TTTTAAAATAAACTCAAA
1 TTTTAAAATAAACACAAA
149482 ACTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
TTTTAAAATAAACACAAA
Found at i:151653 original size:168 final size:168
Alignment explanation
Indices: 151375--151712 Score: 523
Period size: 168 Copynumber: 2.0 Consensus size: 168
151365 TGAAGTTCAA
** * * *
151375 TTTGTTGCTGCAAATTTCAATTTCTTGATTCATAGTTTAGATTTTGTTACGTAAATGGTATTGAA
1 TTTGTTGCTGCAAATTTCAATTTCTTGATTCATACATTAGATTTTATCACATAAATGGTATTGAA
* *
151440 TTTAGAAATTCATTTGGGACGGCATGTATCGAACTCGATGAGCTCTAGTTGATTATCGTTATCGT
66 TTTAGAAATGCATTTGGGACGGCATGTATCGAACTCGATGAGCTCTAGTTGATTATCGTTATCAT
* **
151505 GTTTAATTATGAAGCTGCAAAGTTTGTCTATGAAGAAT
131 GCTTAATTATGAAGCTGCAAAGCGTGTCTATGAAGAAT
*
151543 TTTGTTGCTGCAAATTTCAGTTTCTTGATTCATACATTAGATTTTATCACATAAATGGTATTGAA
1 TTTGTTGCTGCAAATTTCAATTTCTTGATTCATACATTAGATTTTATCACATAAATGGTATTGAA
* ***
151608 TTTGGAAATGCATTTGGTTTGGCATGTATCGAACTCGATGAGCTCTAGTTGATTATCGTTATCAT
66 TTTAGAAATGCATTTGGGACGGCATGTATCGAACTCGATGAGCTCTAGTTGATTATCGTTATCAT
* *
151673 GCTTAATTATGAAGTTGCAAAGCGTGTCTGTGAAGAAT
131 GCTTAATTATGAAGCTGCAAAGCGTGTCTATGAAGAAT
151711 TT
1 TT
151713 ATCAGTTTGA
Statistics
Matches: 153, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
168 153 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (168 bp):
TTTGTTGCTGCAAATTTCAATTTCTTGATTCATACATTAGATTTTATCACATAAATGGTATTGAA
TTTAGAAATGCATTTGGGACGGCATGTATCGAACTCGATGAGCTCTAGTTGATTATCGTTATCAT
GCTTAATTATGAAGCTGCAAAGCGTGTCTATGAAGAAT
Found at i:152655 original size:43 final size:44
Alignment explanation
Indices: 152588--152694 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 44
152578 CAGATTATTG
*
152588 CTCTGCATAA-GTTTTTTATGATCGTTATGTCACCTGATTTTTA
1 CTCTGCATAAGGTTTTTTATGATCGTTATGTCACCCGATTTTTA
* *
152631 CTCTGCATAAGGTTTTTT-TTATCGTTATGTCACCCGATTTTTG
1 CTCTGCATAAGGTTTTTTATGATCGTTATGTCACCCGATTTTTA
* *
152674 CCCTGCGTAAGG-TTTTTATGA
1 CTCTGCATAAGGTTTTTTATGA
152695 CCGGCTTCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.09
43 44 0.79
44 7 0.12
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.47
Consensus pattern (44 bp):
CTCTGCATAAGGTTTTTTATGATCGTTATGTCACCCGATTTTTA
Found at i:154490 original size:21 final size:21
Alignment explanation
Indices: 154464--154503 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
154454 TTACCTCTAA
* *
154464 CTTAAATCCTAAATTATAAAT
1 CTTAAACCCTAAATCATAAAT
154485 CTTAAACCCTAAATCATAA
1 CTTAAACCCTAAATCATAA
154504 CTACATAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
CTTAAACCCTAAATCATAAAT
Found at i:163676 original size:31 final size:31
Alignment explanation
Indices: 163633--163722 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
163623 ATAACTTTTA
* * *
163633 ATAGTCAA-GGACTTAATAAAGCATTATCAT
1 ATAGTTAAGGGACTCAATAAAACATTATCAT
*
163663 ATAGTTAAGGGACTCAATAAAATATTATCAT
1 ATAGTTAAGGGACTCAATAAAACATTATCAT
* *
163694 ATAATTAAGGGACTCGATAAAACATTATC
1 ATAGTTAAGGGACTCAATAAAACATTATC
163723 CTATTGTCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 7 0.13
31 45 0.87
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (31 bp):
ATAGTTAAGGGACTCAATAAAACATTATCAT
Found at i:167993 original size:48 final size:49
Alignment explanation
Indices: 167874--168036 Score: 274
Period size: 49 Copynumber: 3.3 Consensus size: 49
167864 ACTATGATGA
* * * *
167874 GAAACATTAACCGGTACACCAACCATCCATCATTCCATAGATCATATAG
1 GAAATATTAACTGATACATCAACCATCCATCATTCCATAGATCATATAG
167923 GAAATATTAACTGATACATCAACCATCCATCATTCCATAGATCATAT-G
1 GAAATATTAACTGATACATCAACCATCCATCATTCCATAGATCATATAG
*
167971 GAAATATTAACTGATACATCAACCATCCATCATTCTATAGATCATATAG
1 GAAATATTAACTGATACATCAACCATCCATCATTCCATAGATCATATAG
168020 GAAATATTAACTGATAC
1 GAAATATTAACTGATAC
168037 TTGTCTTCTC
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 47 0.44
49 61 0.56
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (49 bp):
GAAATATTAACTGATACATCAACCATCCATCATTCCATAGATCATATAG
Found at i:168712 original size:2 final size:2
Alignment explanation
Indices: 168705--168734 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
168695 AATAAAAATA
168705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
168735 TGTATCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:169086 original size:17 final size:15
Alignment explanation
Indices: 169055--169092 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
169045 ATAATTAAAT
169055 TAATATATTTTATAA
1 TAATATATTTTATAA
169070 TAATATA-TTTATAA
1 TAATATATTTTATAA
169084 TAATA-ATTT
1 TAATATATTT
169093 ACTGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 14 0.64
15 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATATATTTTATAA
Found at i:171618 original size:414 final size:414
Alignment explanation
Indices: 170848--171669 Score: 1644
Period size: 414 Copynumber: 2.0 Consensus size: 414
170838 TCGTCACCCA
170848 AGTTAACGATTTATTAACATTGAGTGATCAATTTATTATAAATCAACAATAATGACTAATTCATT
1 AGTTAACGATTTATTAACATTGAGTGATCAATTTATTATAAATCAACAATAATGACTAATTCATT
170913 AGTTTTAAAACTTTAGTGAAAAAAATAAAAAACTATTCGAACATAAACATTTATTGTAGTTTACC
66 AGTTTTAAAACTTTAGTGAAAAAAATAAAAAACTATTCGAACATAAACATTTATTGTAGTTTACC
170978 TTAAAAATAATTAAATAATTAAAACAAAGCAAAAAGATATCAGATGTTCTTGTACTTTTGAAAAA
131 TTAAAAATAATTAAATAATTAAAACAAAGCAAAAAGATATCAGATGTTCTTGTACTTTTGAAAAA
171043 AAATTAATGTAGTCATCGTATTATTTTTTCTCTCAATGTAACCATCTGACCAATGTTTTACGTAA
196 AAATTAATGTAGTCATCGTATTATTTTTTCTCTCAATGTAACCATCTGACCAATGTTTTACGTAA
171108 TTAATCGTTACGGTGTTGATGTGTCGATTCACAATAATGATAAGATCATCAATCTGTCATGTTTG
261 TTAATCGTTACGGTGTTGATGTGTCGATTCACAATAATGATAAGATCATCAATCTGTCATGTTTG
171173 AGTTATCAATTCAACTCATCTATCATATCATCTGTCACATCATCAATCACAATGGATTATCACGT
326 AGTTATCAATTCAACTCATCTATCATATCATCTGTCACATCATCAATCACAATGGATTATCACGT
171238 CAACATCGTAAACTGTCATGTTTG
391 CAACATCGTAAACTGTCATGTTTG
171262 AGTTAACGATTTATTAACATTGAGTGATCAATTTATTATAAATCAACAATAATGACTAATTCATT
1 AGTTAACGATTTATTAACATTGAGTGATCAATTTATTATAAATCAACAATAATGACTAATTCATT
171327 AGTTTTAAAACTTTAGTGAAAAAAATAAAAAACTATTCGAACATAAACATTTATTGTAGTTTACC
66 AGTTTTAAAACTTTAGTGAAAAAAATAAAAAACTATTCGAACATAAACATTTATTGTAGTTTACC
171392 TTAAAAATAATTAAATAATTAAAACAAAGCAAAAAGATATCAGATGTTCTTGTACTTTTGAAAAA
131 TTAAAAATAATTAAATAATTAAAACAAAGCAAAAAGATATCAGATGTTCTTGTACTTTTGAAAAA
171457 AAATTAATGTAGTCATCGTATTATTTTTTCTCTCAATGTAACCATCTGACCAATGTTTTACGTAA
196 AAATTAATGTAGTCATCGTATTATTTTTTCTCTCAATGTAACCATCTGACCAATGTTTTACGTAA
171522 TTAATCGTTACGGTGTTGATGTGTCGATTCACAATAATGATAAGATCATCAATCTGTCATGTTTG
261 TTAATCGTTACGGTGTTGATGTGTCGATTCACAATAATGATAAGATCATCAATCTGTCATGTTTG
171587 AGTTATCAATTCAACTCATCTATCATATCATCTGTCACATCATCAATCACAATGGATTATCACGT
326 AGTTATCAATTCAACTCATCTATCATATCATCTGTCACATCATCAATCACAATGGATTATCACGT
171652 CAACATCGTAAACTGTCA
391 CAACATCGTAAACTGTCA
171670 CGTCAACACT
Statistics
Matches: 408, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 408 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (414 bp):
AGTTAACGATTTATTAACATTGAGTGATCAATTTATTATAAATCAACAATAATGACTAATTCATT
AGTTTTAAAACTTTAGTGAAAAAAATAAAAAACTATTCGAACATAAACATTTATTGTAGTTTACC
TTAAAAATAATTAAATAATTAAAACAAAGCAAAAAGATATCAGATGTTCTTGTACTTTTGAAAAA
AAATTAATGTAGTCATCGTATTATTTTTTCTCTCAATGTAACCATCTGACCAATGTTTTACGTAA
TTAATCGTTACGGTGTTGATGTGTCGATTCACAATAATGATAAGATCATCAATCTGTCATGTTTG
AGTTATCAATTCAACTCATCTATCATATCATCTGTCACATCATCAATCACAATGGATTATCACGT
CAACATCGTAAACTGTCATGTTTG
Found at i:171684 original size:21 final size:21
Alignment explanation
Indices: 171646--171695 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
171636 CAATGGATTA
*
171646 TCACGTCAACATCGTAAACTG
1 TCACGTCAACATCATAAACTG
*
171667 TCACGTCAACA-CTATAAATTG
1 TCACGTCAACATC-ATAAACTG
*
171688 TTACGTCA
1 TCACGTCA
171696 GTATCATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (21 bp):
TCACGTCAACATCATAAACTG
Found at i:178507 original size:2 final size:2
Alignment explanation
Indices: 178502--178544 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
178492 TCACAAAACA
178502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178544 A
1 A
178545 ATGAAAAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:187434 original size:2 final size:2
Alignment explanation
Indices: 187427--187460 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
187417 AACTAATTGA
*
187427 AT AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
187461 AAAATTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:190966 original size:20 final size:20
Alignment explanation
Indices: 190872--191220 Score: 418
Period size: 20 Copynumber: 17.4 Consensus size: 20
190862 GATTTTCCAT
* ** *
190872 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
190892 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
190912 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
190932 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
190952 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
190972 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
190992 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
191012 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
191032 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
191052 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
191072 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
191092 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
191112 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
191132 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
191152 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
191172 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
191192 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
191212 AATCACAAC
1 AATCGCAAC
191221 ACTGAAATTT
Statistics
Matches: 285, Mismatches: 36, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
19 3 0.01
20 279 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:191933 original size:24 final size:23
Alignment explanation
Indices: 191894--191939 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
191884 AAATTTGGTC
191894 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
191918 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
191940 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:192131 original size:12 final size:12
Alignment explanation
Indices: 192114--192138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
192104 ATATAATCCT
192114 GAAGAAGAAAAA
1 GAAGAAGAAAAA
192126 GAAGAAGAAAAA
1 GAAGAAGAAAAA
192138 G
1 G
192139 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:194466 original size:19 final size:19
Alignment explanation
Indices: 194444--194769 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
194434 CGGAAAATAC
*
194444 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
194463 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
194477 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
194497 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
194511 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194530 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
194549 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
194563 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194582 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
194601 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
194615 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
194634 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
194653 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
194672 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194691 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194710 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
194724 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194743 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
194762 AATCGCAA
1 AATCGCAA
194770 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:194531 original size:33 final size:34
Alignment explanation
Indices: 194444--194769 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
194434 CGGAAAATAC
* *
194444 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
194477 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
194511 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
194549 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
194582 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
194615 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
194653 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
194691 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
194723 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
194762 AATCGCAA
1 AATCGCAA
194770 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:194705 original size:161 final size:157
Alignment explanation
Indices: 194472--194791 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
194462 AAATCCCAAC
*
194472 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
194537 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
194602 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
194629 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
194693 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
194758 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
194790 AT
1 AT
194792 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:194807 original size:52 final size:52
Alignment explanation
Indices: 194472--194791 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
194462 AAATCCCAAC
194472 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
194525 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
194577 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
194629 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
194686 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
194738 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
194790 AT
1 AT
194792 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:194907 original size:19 final size:19
Alignment explanation
Indices: 194798--194899 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
194788 AAATTATAAA
194798 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
194817 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
194837 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
194853 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
194870 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
194889 CGCATTGCGAT
1 CGCATTGCGAT
194900 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:195025 original size:14 final size:14
Alignment explanation
Indices: 195006--195042 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
194996 CATCAATTAC
195006 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
195020 ACAAATCATCTTTT
1 ACAAATCAACTTTT
195034 ACAAATCAA
1 ACAAATCAA
195043 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:195070 original size:37 final size:37
Alignment explanation
Indices: 195023--195093 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
195013 AACTTTTACA
*
195023 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
195060 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
195094 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:195101 original size:37 final size:37
Alignment explanation
Indices: 195023--195102 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
195013 AACTTTTACA
* ***
195023 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
195060 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
195097 AATCAA
1 AATCAA
195103 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:196945 original size:19 final size:19
Alignment explanation
Indices: 196905--197039 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
196895 TAGTTTACTT
* *
196905 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
196925 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
196944 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
196963 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
196977 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
196996 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
197010 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
197029 TCGCAATGCGA
1 TCGCAACGCGA
197040 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:196980 original size:14 final size:14
Alignment explanation
Indices: 196961--197017 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
196951 GCGAAATGAA
*
196961 AATCGCAACGACAG
1 AATCGCAACGAAAG
196975 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
196992 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
197008 AATCGCAACG
1 AATCGCAACG
197018 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:196984 original size:33 final size:33
Alignment explanation
Indices: 196942--197034 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
196932 GCGAAACCAA
*
196942 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
196975 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
197008 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
197035 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Done.