Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148
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: 1464219
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 85296 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:818908 original size:19 final size:19
Alignment explanation
Indices: 818884--818951 Score: 129
Period size: 19 Copynumber: 3.6 Consensus size: 19
818874 ATCGATACAA
818884 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
818903 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
818922 TGTATCGATACATAAGT-T
1 TGTATCGATACATAAGTGT
818940 TGTATCGATACA
1 TGTATCGATACA
818952 ATGTATCGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 13 0.27
19 36 0.73
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:819079 original size:52 final size:51
Alignment explanation
Indices: 819016--819164 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
819006 ATCGATATAT
***
819016 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* ** *
819068 TGTATCGATACACTAAAAAATGTATCGATACACACAAGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
819120 TGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTAT-AAATGTATCGATACATGCAGGCAAATTT
819165 TCATATTTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 1 0.01
52 83 0.99
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (51 bp):
TGTATCGATACACTATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:824649 original size:52 final size:51
Alignment explanation
Indices: 824571--824914 Score: 220
Period size: 51 Copynumber: 6.6 Consensus size: 51
824561 TTAAGTTTCT
* * *
824571 CAATTGTTCATAATCGGGGATACTCCAACTCCGATTTCATTTCCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTT-ATTTCCAAAAACAC
* * * * *
824623 CAATTTTTCACAATCGAGGATACTCCAACCTCG--TTATTTCATCGAGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTATTTC--C-A-AAAACAC
** * * *
824676 CAACCCCGTTACCTC-CAA--GGGGATACTCCAACCCCGGCTTTATTTCC-AAAATAT
1 CAA-----TT-TTTCACAATCGGGGATACTCCAACCCC-GATTTATTTCCAAAAACAC
** * * * * *
824730 TGATTTCTCATAATCGGGGATACTCTAACCCCGGTTTTATTT-CTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCC-GATTTATTTCCAAAAACAC
* * *
824781 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATCTT-C-AAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCC-GATTTAT-TTCCAAAAACAC
** *
824832 CAATTTTTCTTTAATCGGGGATACTCCAACTCCGAATTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCG-ATTTATTTCCAAAAACAC
**
824885 CAATTTTTCACAATCGATGATACTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
824915 TCGTTATTTC
Statistics
Matches: 229, Mismatches: 41, Indels: 44
0.73 0.13 0.14
Matches are distributed among these distances:
48 3 0.01
49 9 0.04
50 3 0.01
51 83 0.36
52 74 0.32
53 23 0.10
54 3 0.01
56 15 0.07
57 2 0.01
58 5 0.02
59 9 0.04
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTATTTCCAAAAACAC
Found at i:824760 original size:51 final size:50
Alignment explanation
Indices: 824694--824914 Score: 228
Period size: 51 Copynumber: 4.3 Consensus size: 50
824684 TTACCTCCAA
* * * *
824694 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTT-TCATAATC
* * *
824745 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTT-CATAATC
* *
824796 GGGGATACTCCAACCCCGGTTTTATCTT-CAAAACACCAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTAT-TTCCAAAACACTAA-TTTTC-ATAATC
* ** * *
824848 GGGGATACTCCAACTCCGAATTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAA-TTTTCATAATC
**
824900 GATGATACTCCAACC
1 GGGGATACTCCAACC
824915 TCGTTATTTC
Statistics
Matches: 144, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 78 0.54
52 49 0.34
53 16 0.11
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCATAATC
Found at i:824907 original size:104 final size:102
Alignment explanation
Indices: 824696--824914 Score: 260
Period size: 102 Copynumber: 2.1 Consensus size: 102
824686 ACCTCCAAGG
* *** *
824696 GGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCTAACCC
1 GGATACTCCAACCCCGGCTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAACCC
** * * *
824761 CGGTTTTATTTCTAAAACACTAATTTTCCACAATCGG
66 CGAATTTATTTCAAAAACACCAATTTTCCACAATCGA
* * *
824798 GGATACTCCAACCCCGGTTTTATCTT-CAAAACACCAATTTTTCTTTAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGGCTTTAT-TTCCAAAACACCAATTTCTC-ATAATCGGGGATACTCCAAC
* *
824862 TCCGAATTTATTTCCAAAAACACCAATTTTTCACAATCGA
64 CCCGAATTTATTT-CAAAAACACCAATTTTCCACAATCGA
*
824902 TGATACTCCAACC
1 GGATACTCCAACC
824915 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
102 34 0.35
103 30 0.31
104 34 0.35
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (102 bp):
GGATACTCCAACCCCGGCTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAACCC
CGAATTTATTTCAAAAACACCAATTTTCCACAATCGA
Found at i:824934 original size:28 final size:28
Alignment explanation
Indices: 824903--824972 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
824893 CACAATCGAT
** **
824903 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCTCGTTACCTCAGAGGG
* *
824931 GATACTCCAACCCCGTTACCTCCGAGGG
1 GATACTCCAACCTCGTTACCTCAGAGGG
824959 GATACTCCAACCTC
1 GATACTCCAACCTC
824973 AGCTTTATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.24
Consensus pattern (28 bp):
GATACTCCAACCTCGTTACCTCAGAGGG
Found at i:825206 original size:79 final size:79
Alignment explanation
Indices: 824927--825286 Score: 406
Period size: 79 Copynumber: 4.6 Consensus size: 79
824917 GTTATTTCAT
** *
824927 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCAGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGCTTTATTCCCAAAATAT
* * *
824992 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* ** *
825006 TGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCAGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGCTTTATTCCCAAAATAT
* * *
825071 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * *
825085 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCTC-GATTTTATTTCC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAG-CTTTATTCCCAAAAT-
*
825148 ATCGATTTTTCACAAC
64 ATCGATTTCTCACAAC
* * *
825164 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCC-C-GATTTTATTTCC-TAAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCTCAG-CTTTATTCCCAAAAT
*
825226 CATCGATTTTTCACAAC
64 -ATCGATTTCTCACAAC
* * *
825243 CGGGGATACTCCAAACCCATTATTTTCAAGGGGATACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
825287 CCGTTATTAT
Statistics
Matches: 261, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
78 6 0.02
79 254 0.97
80 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:828379 original size:27 final size:27
Alignment explanation
Indices: 828348--828410 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
828338 GAAAATAAAT
*
828348 AAATTTTTTACATTTGACAAAGGGTGAG
1 AAATTTTTTAC-TTTGACAAAGGGGGAG
** * *
828376 -AATTGCTTGCTTTGATAAAGGGGGAG
1 AAATTTTTTACTTTGACAAAGGGGGAG
828402 AAATTTTTT
1 AAATTTTTT
828411 TTAGAAATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (27 bp):
AAATTTTTTACTTTGACAAAGGGGGAG
Found at i:828944 original size:91 final size:91
Alignment explanation
Indices: 828785--828967 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
828775 ATGTTCTAAG
*
828785 TAATTTTCTATCAATGGAAGTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATAT
1 TAATTTTCTATCAATGGAAGTTTTTAAAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATAT
*
828850 TTTTAAGACAAAAATACTTGAAAGTA
66 TTTTAAGACAAAAATACTTCAAAGTA
*
828876 TAATTTTCTATCAATGGAAGTTTTTAAAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATGT
1 TAATTTTCTATCAATGGAAGTTTTTAAAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATAT
828941 TTTTAAGACAAAAATACTTCAAAGTA
66 TTTTAAGACAAAAATACTTCAAAGTA
828967 T
1 T
828968 CGATACATAG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (91 bp):
TAATTTTCTATCAATGGAAGTTTTTAAAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATAT
TTTTAAGACAAAAATACTTCAAAGTA
Found at i:829196 original size:33 final size:33
Alignment explanation
Indices: 829154--829222 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
829144 CTACCACTGT
*
829154 TTGTATCGATACATGGTAT-AA-TGTATCGATATA
1 TTGTATCGATACAT-G-ATGAATTGTATCGATACA
829187 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
829220 TTG
1 TTG
829223 CTTGTAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:830611 original size:32 final size:33
Alignment explanation
Indices: 830574--830637 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
830564 ATAAAGCTGT
*
830574 TTTAAAAT-AAAAATTTGAT-TATAGATTTTAAC
1 TTTAAAATAAAAAATTTG-TGTAAAGATTTTAAC
830606 TTTAAAATAAAAAATTTGTGTAAAGATTTTAA
1 TTTAAAATAAAAAATTTGTGTAAAGATTTTAA
830638 AATTAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (33 bp):
TTTAAAATAAAAAATTTGTGTAAAGATTTTAAC
Found at i:832665 original size:19 final size:21
Alignment explanation
Indices: 832618--832665 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
832608 TTTTTTAATA
832618 TTAATTAAAAATAATAAAAAT
1 TTAATTAAAAATAATAAAAAT
*
832639 ATATATTAAAAAT-A-AAAAAT
1 TTA-ATTAAAAATAATAAAAAT
832659 TTAATTA
1 TTAATTA
832666 TATTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 3 0.12
22 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAATTAAAAATAATAAAAAT
Found at i:833251 original size:15 final size:15
Alignment explanation
Indices: 833231--833269 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
833221 ATATAATATT
833231 TTTTAATTTCT-CTAA
1 TTTTAATTT-TACTAA
833246 TTTTAATTTTACTAA
1 TTTTAATTTTACTAA
833261 -TTTAATTTT
1 TTTTAATTTT
833270 TATCAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAATTTTACTAA
Found at i:833476 original size:19 final size:19
Alignment explanation
Indices: 833447--833504 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
833437 AACATTATTC
833447 AATTA-TTTATTAATAAAT
1 AATTATTTTATTAATAAAT
**
833465 AATTATTTTATTTAAT-TTT
1 AATTATTTTA-TTAATAAAT
*
833484 AATTATATTATTAATATAAT
1 AATTATTTTATTAATA-AAT
833504 A
1 A
833505 TCGTTTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTATTTTATTAATAAAT
Found at i:836512 original size:24 final size:24
Alignment explanation
Indices: 836479--836539 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
836469 CCAAAGTATA
* *
836479 AACTGAAGACATCTTTGGTCAAGT
1 AACTCAAGACATCTTTGGTCAAAT
** *
836503 AACTTGAGACATATTTGGTCAAAT
1 AACTCAAGACATCTTTGGTCAAAT
836527 AACTCAAGACATC
1 AACTCAAGACATC
836540 ACCTCTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (24 bp):
AACTCAAGACATCTTTGGTCAAAT
Found at i:837991 original size:2 final size:2
Alignment explanation
Indices: 837986--838015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
837976 ATAATATTTA
837986 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
838016 TGATCAGTTC
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:838434 original size:1 final size:1
Alignment explanation
Indices: 838428--838458 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
838418 TTGCGTGCCT
*
838428 GGGGGGGGGGGGGGGGGGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
838459 TAGTATGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:839151 original size:14 final size:15
Alignment explanation
Indices: 839119--839154 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
839109 TAGCTTGAAA
*
839119 TTTATTTTATATATT
1 TTTATTTTAAATATT
839134 TTTATTTTAAAT-TT
1 TTTATTTTAAATATT
839148 TTTATTT
1 TTTATTT
839155 ATTCAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTTAAATATT
Found at i:839223 original size:25 final size:25
Alignment explanation
Indices: 839203--839250 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
839193 ACTAATATTT
**
839203 TTTAAATTGAATTTAAATAATAATA
1 TTTAAATTGAACGTAAATAATAATA
*
839228 TTTAAATTTAACGTAAATAATAA
1 TTTAAATTGAACGTAAATAATAA
839251 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTAAATTGAACGTAAATAATAATA
Found at i:842255 original size:2 final size:2
Alignment explanation
Indices: 842248--842286 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
842238 CGTTCTGAAA
842248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
842287 AATTTCTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:846572 original size:22 final size:22
Alignment explanation
Indices: 846547--846629 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
846537 CATATACTAA
846547 CCCTTCACTAAGAGAACCAAAT
1 CCCTTCACTAAGAGAACCAAAT
*
846569 CCCTTCACTAAAAGAACCAAAT
1 CCCTTCACTAAGAGAACCAAAT
* *
846591 -CCTTCACAAAGATAACC-AAT
1 CCCTTCACTAAGAGAACCAAAT
* *
846611 CCTTTCA-TTAGAGAACCAA
1 CCCTTCACTAAGAGAACCAA
846630 CCACTCCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 10 0.20
21 20 0.39
22 21 0.41
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.20
Consensus pattern (22 bp):
CCCTTCACTAAGAGAACCAAAT
Found at i:846788 original size:22 final size:22
Alignment explanation
Indices: 846740--846804 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
846730 ACTATTTACG
*
846740 TATATGATTATAACTAAATGTA
1 TATATGACTATAACTAAATGTA
* * * *
846762 CATATGACTATAATTGAATTTA
1 TATATGACTATAACTAAATGTA
* *
846784 TATATGACTATGATTAAATGT
1 TATATGACTATAACTAAATGT
846805 GCATACAACA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (22 bp):
TATATGACTATAACTAAATGTA
Found at i:847078 original size:22 final size:22
Alignment explanation
Indices: 847053--847098 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
847043 CTATGCGTAT
847053 ATATGATTATACTTAAATGTAC
1 ATATGATTATACTTAAATGTAC
847075 ATATGATTATACTTAAATGTAC
1 ATATGATTATACTTAAATGTAC
847097 AT
1 AT
847099 TACAATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
ATATGATTATACTTAAATGTAC
Found at i:850372 original size:35 final size:35
Alignment explanation
Indices: 850326--850409 Score: 141
Period size: 35 Copynumber: 2.3 Consensus size: 35
850316 CCAAATTGAG
*
850326 ATTTTAGGGTTTGAAATTTAATTTAAGGAAAAGAA
1 ATTTTAGGGTTTGAAATTTAATTTAAAGAAAAGAA
850361 ATTTTAGGGTTTGAAATTTAATTTAAAGAAAAGAA
1 ATTTTAGGGTTTGAAATTTAATTTAAAGAAAAGAA
850396 ATGTTTTAGGGTTT
1 A--TTTTAGGGTTT
850410 AAGATTCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 35 0.76
37 11 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.40
Consensus pattern (35 bp):
ATTTTAGGGTTTGAAATTTAATTTAAAGAAAAGAA
Found at i:852445 original size:15 final size:17
Alignment explanation
Indices: 852409--852444 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
852399 TCGGATGTGA
852409 GTGTTAGATATAAGTGT
1 GTGTTAGATATAAGTGT
* *
852426 GTGTTCGATATAGGTGT
1 GTGTTAGATATAAGTGT
852443 GT
1 GT
852445 TTAACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (17 bp):
GTGTTAGATATAAGTGT
Found at i:858505 original size:31 final size:31
Alignment explanation
Indices: 858470--858543 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
858460 AGCTAAATTT
* * *
858470 AAATTGAATTTGTTAGCTGCCAGTCAAATCC
1 AAATTGAATTTGGTAGCCGCCAGCCAAATCC
* *
858501 AAATTAAATTTGGTAGCCGTCAGCCAAATCC
1 AAATTGAATTTGGTAGCCGCCAGCCAAATCC
858532 AAATTGAATTTG
1 AAATTGAATTTG
858544 ATTTGGCTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (31 bp):
AAATTGAATTTGGTAGCCGCCAGCCAAATCC
Found at i:863103 original size:31 final size:31
Alignment explanation
Indices: 863062--863138 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
863052 ATTCAATTTG
*
863062 GAATTTCTTAATCGCCGACCAAATCCAAATT
1 GAATTTCTTAATCGCCAACCAAATCCAAATT
* *
863093 GAATTCCTTAA-CTACCAACCAAATCCAAATT
1 GAATTTCTTAATC-GCCAACCAAATCCAAATT
* *
863124 AAATTTGTTAATCGC
1 GAATTTCTTAATCGC
863139 TAGTCAAATC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 1 0.03
31 35 0.95
32 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.30
Consensus pattern (31 bp):
GAATTTCTTAATCGCCAACCAAATCCAAATT
Found at i:869689 original size:16 final size:16
Alignment explanation
Indices: 869653--869743 Score: 67
Period size: 16 Copynumber: 5.8 Consensus size: 16
869643 ATTTAACTCG
*
869653 AATT-TTTTAAATTCA
1 AATTATTTTAAATTTA
* *
869668 AGTTATTATAAATTTA
1 AATTATTTTAAATTTA
**
869684 AATTATTTTTTATTTA
1 AATTATTTTAAATTTA
* *
869700 AATTTTTTTAAATTTT
1 AATTATTTTAAATTTA
* * *
869716 GATCATTTCAAATTTA
1 AATTATTTTAAATTTA
* *
869732 ATTTATCTTAAA
1 AATTATTTTAAA
869744 CTCAAGTTTG
Statistics
Matches: 54, Mismatches: 21, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
15 3 0.06
16 51 0.94
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.56
Consensus pattern (16 bp):
AATTATTTTAAATTTA
Found at i:869959 original size:19 final size:19
Alignment explanation
Indices: 869923--869961 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
869913 AACAAAATTA
*
869923 AAAAATTAATTTATTATAT
1 AAAAATTAATATATTATAT
869942 AAAAATT-ATATATATATAT
1 AAAAATTAATATAT-TATAT
869961 A
1 A
869962 TCATATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAATTAATATATTATAT
Found at i:870180 original size:16 final size:17
Alignment explanation
Indices: 870159--870194 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
870149 TGTAACCTAT
870159 AACTT-AAATTTATTAA
1 AACTTAAAATTTATTAA
870175 AACTTAAAATTTATTAA
1 AACTTAAAATTTATTAA
870192 AAC
1 AAC
870195 ACCAATGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AACTTAAAATTTATTAA
Found at i:871226 original size:43 final size:39
Alignment explanation
Indices: 871165--871254 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 39
871155 TTGAATCATG
871165 ATTAAATGTAAACAAAAATATTTATATATATATATATATTATA
1 ATTAAATGTAAACAAAAATATTT-T-TAT-TATATA-ATTATA
* * *
871208 ATTAAATTTAAATAAAAATATTTTTATTATTTAATTATA
1 ATTAAATGTAAACAAAAATATTTTTATTATATAATTATA
871247 ATTTAAAT
1 A-TTAAAT
871255 AAAATCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 7 0.16
40 11 0.26
41 3 0.07
42 1 0.02
43 21 0.49
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (39 bp):
ATTAAATGTAAACAAAAATATTTTTATTATATAATTATA
Found at i:873037 original size:19 final size:17
Alignment explanation
Indices: 872995--873040 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
872985 GAGGATTTTT
872995 TTTTTAAAAAAAAATAA
1 TTTTTAAAAAAAAATAA
* *
873012 ATATTAAATAAATAAATAA
1 TTTTTAAA-AAA-AAATAA
873031 TTTTTAAAAA
1 TTTTTAAAAA
873041 TATATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTTAAAAAAAAATAA
Found at i:873048 original size:32 final size:34
Alignment explanation
Indices: 873004--873071 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
872994 TTTTTTAAAA
873004 AAAAATAAATA-TTAAATAAATAA-ATAATTTTT
1 AAAAATAAATATTTAAATAAATAACATAATTTTT
* * *
873036 AAAAATATATATTTAATTAACTAACATAATTTTT
1 AAAAATAAATATTTAAATAAATAACATAATTTTT
873070 AA
1 AA
873072 TATAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 10 0.32
33 10 0.32
34 11 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAAATAAATATTTAAATAAATAACATAATTTTT
Found at i:873065 original size:34 final size:32
Alignment explanation
Indices: 873004--873086 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
872994 TTTTTTAAAA
873004 AAAAATAAATATTAAATAAATAAATAATTTTT
1 AAAAATAAATATTAAATAAATAAATAATTTTT
* * *
873036 AAAAATATATATTTAATTAACTAACATAATTTTT
1 AAAAATAAATA-TTAAATAAATAA-ATAATTTTT
*
873070 -AATATAAAT-TT-AATAAA
1 AAAAATAAATATTAAATAAA
873087 AATTAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
30 4 0.10
31 2 0.05
32 10 0.24
33 17 0.40
34 9 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
AAAAATAAATATTAAATAAATAAATAATTTTT
Found at i:873125 original size:17 final size:17
Alignment explanation
Indices: 873073--873134 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
873063 AATTTTTAAT
*
873073 ATAAATTTAATAA-AAA
1 ATAAATTTAAAAATAAA
* *
873089 TTAAATTTTATTAAATAAA
1 ATAAA-TTTA-AAAATAAA
873108 AT-AATTTAAAAATAAAA
1 ATAAATTTAAAAAT-AAA
873125 ATAAATTTAA
1 ATAAATTTAA
873135 TCTAAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 8 0.22
17 13 0.36
18 11 0.31
19 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAATTTAAAAATAAA
Found at i:887365 original size:37 final size:37
Alignment explanation
Indices: 887324--887404 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
887314 TAGCTTGGCC
** **
887324 AATCCACTATGATTGTTAGTGTTTGGATGGCAGTACT
1 AATCCACTATGATTGTTAGAATTTGGATGGCAACACT
*
887361 AATCCACTATGATTGTTAGAATTTGGGTGGCAACACT
1 AATCCACTATGATTGTTAGAATTTGGATGGCAACACT
887398 AATCCAC
1 AATCCAC
887405 GAAAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (37 bp):
AATCCACTATGATTGTTAGAATTTGGATGGCAACACT
Found at i:894196 original size:2 final size:2
Alignment explanation
Indices: 894189--894241 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
894179 CATTGATGTC
** * *
894189 AT AT AT AT AT AT AT AT AT AT AT GC AC ACT TT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
894231 AT AT AT AT AT A
1 AT AT AT AT AT A
894242 AATACATTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:894604 original size:13 final size:13
Alignment explanation
Indices: 894588--894632 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
894578 TTTATATTAT
894588 TATATAATATATA
1 TATATAATATATA
894601 TATATAATATAATGA
1 TATATAATAT-AT-A
*
894616 TATATAACAT-TA
1 TATATAATATATA
894628 TATAT
1 TATAT
894633 TTTAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.21
13 11 0.38
14 2 0.07
15 10 0.34
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
TATATAATATATA
Found at i:895795 original size:27 final size:28
Alignment explanation
Indices: 895765--895817 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
895755 GCTCATATTT
*
895765 TTTATTTTTTTAAAATAT-ATTTTTAAA
1 TTTAATTTTTTAAAATATAATTTTTAAA
* *
895792 TTTAATTTTTTATAATTTAATTTTTA
1 TTTAATTTTTTAAAATATAATTTTTA
895818 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTAATTTTTTAAAATATAATTTTTAAA
Found at i:895802 original size:15 final size:15
Alignment explanation
Indices: 895784--895816 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
895774 TTAAAATATA
895784 TTTTTA-AATTTAAT
1 TTTTTATAATTTAAT
895798 TTTTTATAATTTAAT
1 TTTTTATAATTTAAT
895813 TTTT
1 TTTT
895817 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATAATTTAAT
Found at i:895805 original size:22 final size:23
Alignment explanation
Indices: 895780--895837 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
895770 TTTTTTAAAA
895780 TATATTTTTAAATTTAATTTT-T
1 TATATTTTTAAATTTAATTTTAT
* * *
895802 TATA-ATTTAATTTTTATTTTAT
1 TATATTTTTAAATTTAATTTTAT
*
895824 TAAATTTTATAAAT
1 TATATTTT-TAAAT
895838 AAGTTAACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 13 0.48
22 8 0.30
23 2 0.07
24 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATTTTTAAATTTAATTTTAT
Found at i:895817 original size:14 final size:14
Alignment explanation
Indices: 895783--895818 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
895773 TTTAAAATAT
895783 ATTTTTA-AATTTA
1 ATTTTTATAATTTA
895796 ATTTTTTATAATTTA
1 A-TTTTTATAATTTA
895811 ATTTTTAT
1 ATTTTTAT
895819 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 13 0.62
15 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTATAATTTA
Found at i:895822 original size:27 final size:27
Alignment explanation
Indices: 895764--895822 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
895754 TGCTCATATT
*
895764 TTTTATTTTTTTAAAATATATTTTTAA
1 TTTTAATTTTTTAAAATATATTTTTAA
* * *
895791 ATTTAATTTTTTATAATTTAATTTTT-A
1 TTTTAATTTTTTAAAATAT-ATTTTTAA
895818 TTTTA
1 TTTTA
895823 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTAATTTTTTAAAATATATTTTTAA
Found at i:896215 original size:2 final size:2
Alignment explanation
Indices: 896210--896243 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
896200 TAAGAAAATA
*
896210 AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
896244 CTAAAATTAT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:897564 original size:17 final size:17
Alignment explanation
Indices: 897534--897575 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
897524 ATGGTAATAA
897534 ATAA-TATTTATATAGTT
1 ATAATTATTTATATA-TT
*
897551 AT-ATTATTTTTATATT
1 ATAATTATTTATATATT
897567 ATAATTATT
1 ATAATTATT
897576 AAAATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATAATTATTTATATATT
Found at i:897697 original size:28 final size:29
Alignment explanation
Indices: 897645--897700 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
897635 TTATAACATA
897645 TTTATATATTTTACAGTTATTTTTTTATG
1 TTTATATATTTTACAGTTATTTTTTTATG
897674 TTTATTATATTTTA-A-TTATTTTTTTAT
1 TTTA-TATATTTTACAGTTATTTTTTTAT
897701 ATATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 12 0.46
29 5 0.19
30 9 0.35
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTATATATTTTACAGTTATTTTTTTATG
Found at i:897715 original size:21 final size:21
Alignment explanation
Indices: 897674--897717 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
897664 TTTTTTTATG
*
897674 TTTATTATATTTTAATTATTTT
1 TTTATTATATTTT-ATAATTTT
897696 TTTATATATATTTT-TAATTTT
1 TTTAT-TATATTTTATAATTTT
897717 T
1 T
897718 ATAGTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTATATTTTATAATTTT
Found at i:897716 original size:30 final size:32
Alignment explanation
Indices: 897642--897716 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 32
897632 ATATTATAAC
*
897642 ATATTTATATATTTTACAGTTATTTTTTTATGT
1 ATATTTATA-ATTTTACAGTTATTTTTTTATAT
*
897675 TTA-TTAT-ATTTTA-A-TTATTTTTTTATAT
1 ATATTTATAATTTTACAGTTATTTTTTTATAT
*
897703 ATATTTTTAATTTT
1 ATATTTATAATTTT
897717 TATAGTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 15 0.42
29 4 0.11
30 11 0.31
32 4 0.11
33 2 0.06
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (32 bp):
ATATTTATAATTTTACAGTTATTTTTTTATAT
Found at i:897819 original size:44 final size:44
Alignment explanation
Indices: 897725--897811 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
897715 TTTATAGTAT
**
897725 AATATTATATATTTATATGTATGTTTTTGCTAAATCAATCCGAA
1 AATATTATATATTTATATGTACATTTTTGCTAAATCAATCCGAA
* *
897769 AATATTATATGTTTATATGTACATTTTTGCTAAGTCAATCCGA
1 AATATTATATATTTATATGTACATTTTTGCTAAATCAATCCGA
897812 TTGTATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (44 bp):
AATATTATATATTTATATGTACATTTTTGCTAAATCAATCCGAA
Found at i:898228 original size:17 final size:17
Alignment explanation
Indices: 898206--898263 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
898196 TTAAATTTTA
*
898206 TATTTTAAAATTTAATT
1 TATTTTTAAATTTAATT
**
898223 TATTTTTAAATAAAATT
1 TATTTTTAAATTTAATT
*
898240 TATTTTTAATTTTAA--
1 TATTTTTAAATTTAATT
898255 TATTTTTAA
1 TATTTTTAA
898264 TTAAACTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 9 0.26
17 26 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTAAATTTAATT
Found at i:898242 original size:36 final size:32
Alignment explanation
Indices: 898206--898268 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
898196 TTAAATTTTA
*
898206 TATTTTAAAATTTAATTTATTTTTAAATAAAATT
1 TATTTTTAAATTTAA--TATTTTTAAATAAAATT
* *
898240 TATTTTTAATTTTAATATTTTTAATTAAA
1 TATTTTTAAATTTAATATTTTTAAATAAA
898269 CTTCTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
34 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TATTTTTAAATTTAATATTTTTAAATAAAATT
Found at i:898256 original size:22 final size:22
Alignment explanation
Indices: 898211--898254 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
898201 TTTTATATTT
*
898211 TAAAATTTAATTTATTTTTAAA
1 TAAAATTTAATTTAATTTTAAA
*
898233 TAAAATTTATTTTTAATTTTAA
1 TAAAATTTA-ATTTAATTTTAA
898255 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTTAATTTAATTTTAAA
Found at i:903626 original size:40 final size:40
Alignment explanation
Indices: 903572--903655 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
903562 TTGCAACAAG
903572 AGAGAGCACCAGAATATAACCAAGCCCTTCCCAGAGACTA
1 AGAGAGCACCAGAATATAACCAAGCCCTTCCCAGAGACTA
903612 AGAGAGCACCAGAATATAACCAAGCCCTTCCCAGAGACTA
1 AGAGAGCACCAGAATATAACCAAGCCCTTCCCAGAGACTA
903652 AGAG
1 AGAG
903656 GACTGTGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.29, G:0.19, T:0.12
Consensus pattern (40 bp):
AGAGAGCACCAGAATATAACCAAGCCCTTCCCAGAGACTA
Found at i:906376 original size:24 final size:25
Alignment explanation
Indices: 906349--906402 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
906339 TTATTTATGA
*
906349 TTTATTA-TATTATTAA-ATATTGTT
1 TTTATTATTAATATTAATATATT-TT
906373 TTTA-TATTAATATTAATATATTTT
1 TTTATTATTAATATTAATATATTTT
*
906397 TATATT
1 TTTATT
906403 TTACGATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 17 0.68
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATTATTAATATTAATATATTTT
Found at i:908535 original size:6 final size:6
Alignment explanation
Indices: 908524--908558 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
908514 TTATGATTAA
908524 TAATTT TAATTT TAATTT TAATTTTT TAATTT TAA
1 TAATTT TAATTT TAATTT TAA--TTT TAATTT TAA
908559 AATGTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:908541 original size:12 final size:13
Alignment explanation
Indices: 908524--908558 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
908514 TTATGATTAA
908524 TAATTTTAA-TTT
1 TAATTTTAATTTT
908536 TAATTTTAATTTTT
1 TAATTTTAA-TTTT
908550 TAATTTTAA
1 TAATTTTAA
908559 AATGTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TAATTTTAATTTT
Found at i:913340 original size:20 final size:21
Alignment explanation
Indices: 913297--913350 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
913287 CATAAGTAAA
913297 TATCGATACATTTACTATTTG
1 TATCGATACATTTACTATTTG
*
913318 TATCGATACA-TTATTCA-TTG
1 TATCGATACATTTACT-ATTTG
*
913338 TATCAATACATTT
1 TATCGATACATTT
913351 TGGGTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (21 bp):
TATCGATACATTTACTATTTG
Found at i:913900 original size:13 final size:13
Alignment explanation
Indices: 913882--913907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
913872 TACACAAAGT
913882 ATGTATCGATACA
1 ATGTATCGATACA
913895 ATGTATCGATACA
1 ATGTATCGATACA
913908 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:913905 original size:32 final size:33
Alignment explanation
Indices: 913864--913927 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
913854 TAGCCAAACT
**
913864 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
913896 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
913928 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:917413 original size:15 final size:15
Alignment explanation
Indices: 917393--917424 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
917383 ATAAAAGTGT
*
917393 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
917408 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
917423 TC
1 TC
917425 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:919520 original size:13 final size:13
Alignment explanation
Indices: 919502--919540 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
919492 ACATTTTTCT
919502 TTGTATCGATACA
1 TTGTATCGATACA
919515 TTGTATCGATACA
1 TTGTATCGATACA
*
919528 CTGTATCGATACA
1 TTGTATCGATACA
919541 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:919695 original size:20 final size:20
Alignment explanation
Indices: 919652--919697 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
919642 AAATCTTTTG
919652 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
919673 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
919693 CAAAA
1 CAAAA
919698 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:921190 original size:23 final size:21
Alignment explanation
Indices: 921148--921191 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
921138 GTTTAAAGTT
**
921148 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
921169 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
921192 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:922116 original size:13 final size:13
Alignment explanation
Indices: 922098--922123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
922088 TACACAAAGT
922098 ATGTATCGATACA
1 ATGTATCGATACA
922111 ATGTATCGATACA
1 ATGTATCGATACA
922124 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:922121 original size:32 final size:33
Alignment explanation
Indices: 922080--922143 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
922070 TAGCCAAACT
**
922080 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
922112 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
922144 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:928064 original size:14 final size:14
Alignment explanation
Indices: 928041--928076 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
928031 ATGAAAAATG
928041 AAAAAAAAGAAAAC
1 AAAAAAAAGAAAAC
*
928055 AAAAATAAGAAAAC
1 AAAAAAAAGAAAAC
928069 AAAAAAAA
1 AAAAAAAA
928077 AGTGCAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAAAC
Found at i:928968 original size:20 final size:21
Alignment explanation
Indices: 928924--928977 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
928914 TTCTATAATT
*
928924 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
928945 TGTATCAATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
928965 TGTATCGATACAT
1 TGTATCGATACAT
928978 GCCTAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:929069 original size:20 final size:20
Alignment explanation
Indices: 929025--929100 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
929015 GCCAAGGAAA
*
929025 TGTATCGATACATGCTTTCAAT
1 TGTATCGATACAT--TTTTAAT
929047 TGTATCGATACATTTTTAAT
1 TGTATCGATACATTTTTAAT
* *
929067 TGTATCGATACTTTTTTCAT
1 TGTATCGATACATTTTTAAT
*
929087 TGTATCAATACATT
1 TGTATCGATACATT
929101 CTGGGTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 36 0.73
22 13 0.27
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTTTTAAT
Found at i:931746 original size:78 final size:79
Alignment explanation
Indices: 931567--931756 Score: 208
Period size: 78 Copynumber: 2.4 Consensus size: 79
931557 TTACCATTGA
* * * *
931567 GGATACTCCAACCCCATTTTTATTTCCAAAAATATCCAATTTTTTATCATGAGAATATTTCAACC
1 GGATACTCCAACCCTATTTTTATTTCC-AAAATATCCAAATTTTCATCATGAGAATATATCAACC
*
931632 CCATTATTTTTAAGT
65 CCATTATTTTTAAGG
** * *
931647 GGATACTCCAA-CCTCGCTTTTATTTTCAAAATAT-TAAATTTTCATCATGA-AGATACTAT-AA
1 GGATACTCCAACCCT-ATTTTTATTTCCAAAATATCCAAATTTTCATCATGAGA-ATA-TATCAA
* * *
931708 GCCCGTTATTTTTGAGG
63 CCCCATTATTTTTAAGG
931725 GGATACTCCAACCCTATTTTTATTTCCAAAAT
1 GGATACTCCAACCCTATTTTTATTTCCAAAAT
931757 GTTTTCATCT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.01
78 56 0.62
79 14 0.15
80 20 0.22
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (79 bp):
GGATACTCCAACCCTATTTTTATTTCCAAAATATCCAAATTTTCATCATGAGAATATATCAACCC
CATTATTTTTAAGG
Found at i:935620 original size:24 final size:25
Alignment explanation
Indices: 935583--935630 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
935573 AAAATAAAAG
935583 GAGAAGAATGGGCAAAAGA-AGAAA
1 GAGAAGAATGGGCAAAAGAGAGAAA
*
935607 GAGAAGAACT-GGCAACAGAGAGAA
1 GAGAAGAA-TGGGCAAAAGAGAGAA
935631 GTCGAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.54, C:0.08, G:0.33, T:0.04
Consensus pattern (25 bp):
GAGAAGAATGGGCAAAAGAGAGAAA
Found at i:937553 original size:11 final size:11
Alignment explanation
Indices: 937537--937561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
937527 CAGTCTTTGA
937537 ACCTCTTTTAG
1 ACCTCTTTTAG
937548 ACCTCTTTTAG
1 ACCTCTTTTAG
937559 ACC
1 ACC
937562 ATGTAAAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (11 bp):
ACCTCTTTTAG
Found at i:937765 original size:69 final size:69
Alignment explanation
Indices: 937675--937808 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
937665 TTCCTCTGAG
* * **
937675 GGGATACTCTAATCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCTGAATTATCATT
1 GGGATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
937740 TTTA
66 TTTA
* * * *
937744 GGGATACTCCAACCCCGTTTTTAAACTCATCGAAATTTAAGTCTTATTTTGTCCAAATTATCATT
1 GGGATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
937809 GTCGAAGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (69 bp):
GGGATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT
TTTA
Found at i:937819 original size:69 final size:69
Alignment explanation
Indices: 937677--937831 Score: 186
Period size: 69 Copynumber: 2.2 Consensus size: 69
937667 CCTCTGAGGG
* * ** *
937677 GATACTCTAATCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCTGAATTATCATTTT
1 GATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATTTC
* *
937742 TAGG
66 GAGA
* * * *
937746 GATACTCCAACCCCGTTTTTAAACTCATCGAAATTTAAGTCTTATTTTGTCCAAATTATCATTGT
1 GATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATT-T
937811 CGA-A
65 CGAGA
*
937815 GATACTCGAACCCCATT
1 GATACTCCAACCCCATT
937832 CCTCTGAGGG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 70 0.97
70 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (69 bp):
GATACTCCAACCCCATTTTTAAAATCATCAAAATTTAAATCTTATTTTGTCCAAATTATCATTTC
GAGA
Found at i:946034 original size:21 final size:21
Alignment explanation
Indices: 946008--946047 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
945998 ATCAAATCTT
* *
946008 TTTCAAATTTCTTCATTTTCA
1 TTTCAAAATACTTCATTTTCA
946029 TTTCAAAATACTTCATTTT
1 TTTCAAAATACTTCATTTT
946048 TTATCAAAAT
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:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTCAAAATACTTCATTTTCA
Found at i:946056 original size:20 final size:20
Alignment explanation
Indices: 946008--946057 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
945998 ATCAAATCTT
* *
946008 TTTCAAATTTCTTCATTTTCA
1 TTTCAAAATACTTCATTTT-A
946029 TTTCAAAATACTTCATTTT-
1 TTTCAAAATACTTCATTTTA
946048 TTATCAAAAT
1 TT-TCAAAAT
946058 TATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 7 0.27
21 17 0.65
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTCAAAATACTTCATTTTA
Found at i:947760 original size:22 final size:22
Alignment explanation
Indices: 947735--947790 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
947725 GTTTGAAAAT
* *
947735 AAATTTTTTATCAAGGGGGAGA
1 AAATTTTTTAACAAGGGAGAGA
*
947757 AAATCTTTTAAACAAGGGAGAGA
1 AAAT-TTTTTAACAAGGGAGAGA
*
947780 AAATCTTTTAA
1 AAATTTTTTAA
947791 ACAATTATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (22 bp):
AAATTTTTTAACAAGGGAGAGA
Found at i:947777 original size:21 final size:23
Alignment explanation
Indices: 947746--947794 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
947736 AATTTTTTAT
*
947746 CAAGGGGGAGAAAATCTTTTAAA
1 CAAGGGAGAGAAAATCTTTTAAA
947769 CAAGGGAGAGAAAATCTTTTAAA
1 CAAGGGAGAGAAAATCTTTTAAA
947792 CAA
1 CAA
947795 TTATCAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.20
Consensus pattern (23 bp):
CAAGGGAGAGAAAATCTTTTAAA
Found at i:948471 original size:13 final size:13
Alignment explanation
Indices: 948453--948477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
948443 CATGGCACAT
948453 TGTATCGATACAA
1 TGTATCGATACAA
948466 TGTATCGATACA
1 TGTATCGATACA
948478 TTGCTTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:952389 original size:21 final size:22
Alignment explanation
Indices: 952359--952399 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
952349 TGAAAATGTC
* *
952359 AAAAGCAAAAGCACAAAAAATA
1 AAAAGCAAAAACAAAAAAAATA
952381 AAAAG-AAAAACAAAAAAAA
1 AAAAGCAAAAACAAAAAAAA
952400 GGTGCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.80, C:0.10, G:0.07, T:0.02
Consensus pattern (22 bp):
AAAAGCAAAAACAAAAAAAATA
Found at i:953815 original size:31 final size:31
Alignment explanation
Indices: 953667--954282 Score: 378
Period size: 31 Copynumber: 20.3 Consensus size: 31
953657 AGCCTATAAG
* *
953667 TAGTGGC-ACCCTTTTAAAGCCCACA-AA-T
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* *
953695 TAGTGGC-ACCCTTTCAAAGCCCACATAAGT
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * *
953725 TGGTGGCAACCCTTCACAAAGCCCACACAAGC
1 TAGTGGCAACCC-TCTCAAAGCCCACACAAGT
* *
953757 TGGTGGCAACCCTTTTCAAAGCCCACACAAGT
1 TAGTGGCAACCC-TCTCAAAGCCCACACAAGT
* *
953789 TAGTGGCAACCCTCTCAAAGCTCACACAAGC
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * * *
953820 TGGTGGTAACCTTTTCTAAAG-CCA-ACAAGT
1 TAGTGGCAACCCTCTC-AAAGCCCACACAAGT
* * * * *
953850 CAATAGC-ATCCTTTCAAAGCCCACA-AA-T
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * * **
953878 TAGTAGC-ATCCTTTCAAAAG--CTTACAAGT
1 TAGTGGCAACCCTCTC-AAAGCCCACACAAGT
* * * * *
953907 CAGTGGC-ATCCTTTCAAAAGCCTACACAAGC
1 TAGTGGCAACCCTCTC-AAAGCCCACACAAGT
* *
953938 TAGTGG-TACCTTCTCTCAAA-CCCACACAAGC
1 TAGTGGCAACC--CTCTCAAAGCCCACACAAGT
* * *
953969 TGGTGGTAACCCTCTCAAAACCCACACAAGT
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * * * *
954000 TAGTTGCAACTCTCTTAAAGCCCATACAAGC
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * * * ** *
954031 TGGTGGTAACTCTCTTAAAGCCCACATGAGC
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* *
954062 TAGTGGCAACCCTCTCAAAGCCCATACAGGT
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* *
954093 TGGTGGCAACCCTCTCAAAGCCCACACAAGC
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
*
954124 TGGTGGCAACCCTCTCAAAGCCCACACAAGT
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
**
954155 CGGTGGCAACCTCTCTCAAAG-CC-CACAAGT
1 TAGTGGCAACC-CTCTCAAAGCCCACACAAGT
* * * * **
954185 CAGCGGC-ATCCTTTCAAAG--TTCACAAGT
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
* * * *
954213 CAGTGGC-ATCCTTTTAAAGCCCACACAAG-
1 TAGTGGCAACCCTCTCAAAGCCCACACAAGT
*
954242 TCGATGGCAAACCCT-TCTAAAGCCCACACAAGT
1 TAG-TGGC-AACCCTCTC-AAAGCCCACACAAGT
*
954275 TGGTGGCA
1 TAGTGGCA
954283 TCTCCTTCTA
Statistics
Matches: 476, Mismatches: 86, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.00
28 76 0.16
29 39 0.08
30 45 0.09
31 212 0.45
32 96 0.20
33 6 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (31 bp):
TAGTGGCAACCCTCTCAAAGCCCACACAAGT
Found at i:953932 original size:29 final size:29
Alignment explanation
Indices: 953618--953928 Score: 172
Period size: 28 Copynumber: 10.5 Consensus size: 29
953608 AAATCTTTTT
*
953618 CCCTTTCAAAAGCCCACAAGTCAGTAGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
* * *
953647 TCCTTTCAAAAGCCTATAAGT-AGTGGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
* * *
953675 CCCTTT-TAAAGCCCACAAATTAGTGGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
**
953703 CCCTTTC-AAAGCCCACATAAGTTGGTGGCAA
1 CCCTTTCAAAAGCCCAC--AAGTCAGTGGC-A
*
953734 CCC-TTCACAAAGCCCACACAAG-CTGGTGGCAA
1 CCCTTTCA-AAAG-CC-CACAAGTC-AGTGGC-A
*
953766 CCCTTTTC-AAAGCCCACACAAGTTAGTGGCAA
1 CCC-TTTCAAAAG-CC-CACAAGTCAGTGGC-A
* * *
953798 CCCTCTC-AAAGCTCACACAAG-CTGGTGGTAA
1 CCCTTTCAAAAGC-C-CACAAGTC-AGTGG-CA
* * * * *
953829 CCTTTTCTAAAGCCAACAAGTCAATAGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
* * * *
953858 TCCTTTC-AAAGCCCACAAATTAGTAGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
* **
953886 TCCTTTCAAAAGCTTACAAGTCAGTGGCA
1 CCCTTTCAAAAGCCCACAAGTCAGTGGCA
*
953915 TCCTTTCAAAAGCC
1 CCCTTTCAAAAGCC
953929 TACACAAGCT
Statistics
Matches: 226, Mismatches: 37, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
27 10 0.04
28 57 0.25
29 53 0.23
30 20 0.09
31 31 0.14
32 47 0.21
33 2 0.01
34 6 0.03
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (29 bp):
CCCTTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:953998 original size:211 final size:211
Alignment explanation
Indices: 953621--954040 Score: 515
Period size: 211 Copynumber: 2.0 Consensus size: 211
953611 TCTTTTTCCC
* * * * * *
953621 TTTCAAAAGCCCACAAGTCAGTAGCATCCTTTCAAAAGCCTATAAGTAGTGGCACCCTTTTAAAG
1 TTTCAAAAGCCAACAAGTCAATAGCATCCTTTCAAAAGCCCAAAAGTAGTAGCACCCTTTAAAAG
* * * *
953686 CCCACAAATTAGTGGCACCCTTTCAAAGCCCACATAAGTTGGTGGCAACCCTTCACAAAGCCCAC
66 CCCACAAATCAGTGGCACCCTTTCAAAGCCCACACAAGCTAGTGGCAACCCTTCACAAAGCCCAC
* * *
953751 ACAAGCTGGTGGCAACCCTTTTCAAAGCCCACACAAGTTAGTGGCAACCCTCTCAAAGCTCACAC
131 ACAAGCTGGTGGCAACCCTTCTCAAAACCCACACAAGTTAGTGGCAACCCTCTCAAAGCCCACAC
953816 AAGCTGGTGGTAACCT
196 AAGCTGGTGGTAACCT
* * *
953832 TTTCTAAAGCCAACAAGTCAATAGCATCCTTTC-AAAGCCCACAAATTAGTAGCATCCTTTCAAA
1 TTTCAAAAGCCAACAAGTCAATAGCATCCTTTCAAAAGCCCA-AAAGTAGTAGCACCCTTT-AAA
** * * * * * *
953896 AGCTTACAAGTCAGTGGCATCCTTTCAAAAGCCTACACAAGCTAGTGG-TACCTTCTCTCAAA-C
64 AGCCCACAAATCAGTGGCACCCTTTC-AAAGCCCACACAAGCTAGTGGCAACCCT-TCACAAAGC
* * * *
953959 CCACACAAGCTGGTGGTAACCC-TCTCAAAACCCACACAAGTTAGTTGCAACTCTCTTAAAGCCC
127 CCACACAAGCTGGTGGCAACCCTTCTCAAAACCCACACAAGTTAGTGGCAACCCTCTCAAAGCCC
*
954023 ATACAAGCTGGTGGTAAC
192 ACACAAGCTGGTGGTAAC
954041 TCTCTTAAAG
Statistics
Matches: 176, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
210 7 0.04
211 97 0.55
212 49 0.28
213 23 0.13
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (211 bp):
TTTCAAAAGCCAACAAGTCAATAGCATCCTTTCAAAAGCCCAAAAGTAGTAGCACCCTTTAAAAG
CCCACAAATCAGTGGCACCCTTTCAAAGCCCACACAAGCTAGTGGCAACCCTTCACAAAGCCCAC
ACAAGCTGGTGGCAACCCTTCTCAAAACCCACACAAGTTAGTGGCAACCCTCTCAAAGCCCACAC
AAGCTGGTGGTAACCT
Found at i:954209 original size:28 final size:28
Alignment explanation
Indices: 954178--954231 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
954168 TCTCAAAGCC
954178 CACAAGTCAGCGGCATCCTTTCAAAGTT
1 CACAAGTCAGCGGCATCCTTTCAAAGTT
* *
954206 CACAAGTCAGTGGCATCCTTTTAAAG
1 CACAAGTCAGCGGCATCCTTTCAAAG
954232 CCCACACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (28 bp):
CACAAGTCAGCGGCATCCTTTCAAAGTT
Found at i:954477 original size:51 final size:51
Alignment explanation
Indices: 954399--954506 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
954389 TCTCCCTATC
* * * *
954399 TTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTATCATG
1 TTTAAGTCCAACATCGCAAGCCATGAATCAACACATTGGCACCTTATCATG
* * ** * *
954450 TTTAAGTCCAACGTTGCAAGCCATGAATCAGTACATTGGCACTTTATCATT
1 TTTAAGTCCAACATCGCAAGCCATGAATCAACACATTGGCACCTTATCATG
954501 TTTAAG
1 TTTAAG
954507 CCTAATATCG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (51 bp):
TTTAAGTCCAACATCGCAAGCCATGAATCAACACATTGGCACCTTATCATG
Found at i:955220 original size:15 final size:15
Alignment explanation
Indices: 955200--955251 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
955190 ATATAGTAAT
955200 AAAAAAATCAAAATC
1 AAAAAAATCAAAATC
***
955215 AAAAAAATCTTCATC
1 AAAAAAATCAAAATC
*
955230 AAAAAGATCAAAATC
1 AAAAAAATCAAAATC
955245 AAAAAAA
1 AAAAAAA
955252 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAAATCAAAATC
Found at i:968972 original size:51 final size:50
Alignment explanation
Indices: 968831--969037 Score: 191
Period size: 51 Copynumber: 4.1 Consensus size: 50
968821 GGACTCATTC
* * * *
968831 AAATCAAAGTTCACATTAGGTGGCACCTATATAAAGAGGTCAAGCCTTAT
1 AAATTAAAGTCCACATTAGCTAGCACCTATATAAAGAGGTCAAGCCTTAT
* * * *
968881 AAAATCTAAAGTCCACATTAGTTGGCACTTTTATAAAGAGGTCAAGCCTTAT
1 -AAAT-TAAAGTCCACATTAGCTAGCACCTATATAAAGAGGTCAAGCCTTAT
* *
968933 AAAGTTAAAGTCCACACTAGCTAGCACCTATATAGAGAGGTCAAGGCC-TAT
1 AAA-TTAAAGTCCACATTAGCTAGCACCTATATAAAGAGGTCAA-GCCTTAT
* ** * * * ** *
968984 AGAACTCGAGTCCAAATTAACTAGCACCTGTATAGGGAGGTCAGGCCTTAT
1 A-AATTAAAGTCCACATTAGCTAGCACCTATATAAAGAGGTCAAGCCTTAT
969035 AAA
1 AAA
969038 ACCCCAAATC
Statistics
Matches: 131, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 5 0.04
51 79 0.60
52 47 0.36
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (50 bp):
AAATTAAAGTCCACATTAGCTAGCACCTATATAAAGAGGTCAAGCCTTAT
Found at i:971813 original size:18 final size:18
Alignment explanation
Indices: 971790--971829 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
971780 TGTCAACAAA
**
971790 TCCAAAAATATTTTATTT
1 TCCAAAAATATCCTATTT
*
971808 TCCAAAATTATCCTATTT
1 TCCAAAAATATCCTATTT
971826 TCCA
1 TCCA
971830 CCCACATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (18 bp):
TCCAAAAATATCCTATTT
Found at i:979373 original size:24 final size:24
Alignment explanation
Indices: 979322--979375 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
979312 TTTTTCTGCA
* **
979322 ATTTTTATTGAAGTTTCCTATGTG
1 ATTTTTATCGAAGTTTCCTACATG
* *
979346 ATTTTTGTCGAAGTTTCCTACATT
1 ATTTTTATCGAAGTTTCCTACATG
979370 ATTTTT
1 ATTTTT
979376 CGTGTTGTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (24 bp):
ATTTTTATCGAAGTTTCCTACATG
Found at i:982565 original size:13 final size:13
Alignment explanation
Indices: 982547--982572 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
982537 ACATTATGCT
982547 TTGTATCGATACA
1 TTGTATCGATACA
982560 TTGTATCGATACA
1 TTGTATCGATACA
982573 AGTTAACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:982667 original size:20 final size:18
Alignment explanation
Indices: 982642--982715 Score: 85
Period size: 20 Copynumber: 3.8 Consensus size: 18
982632 TTACCACTGT
982642 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGG-A-A
*
982662 TTGTATCTATACATGGTAAA
1 TTGTATCGATACATGG--AA
982682 TTGTATCGATACATGATGAA
1 TTGTATCGATACATG--GAA
982702 TTGTATCGATACAT
1 TTGTATCGATACAT
982716 TGCTTCAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 46 0.96
21 1 0.02
22 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (18 bp):
TTGTATCGATACATGGAA
Found at i:983611 original size:19 final size:19
Alignment explanation
Indices: 983583--983620 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
983573 ATATAACATG
*
983583 ATATATTTAA-ATATAATTA
1 ATATAATTAACATA-AATTA
983602 ATATAATTAACATAAATTA
1 ATATAATTAACATAAATTA
983621 TTTAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATAATTAACATAAATTA
Found at i:984214 original size:17 final size:19
Alignment explanation
Indices: 984174--984215 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
984164 TATGTAAATA
*
984174 TAAATATAATCTAAATTAT
1 TAAATATAATCAAAATTAT
984193 TAAATAT-ATCAAAATT-T
1 TAAATATAATCAAAATTAT
984210 TAAATA
1 TAAATA
984216 AAATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 7 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATATAATCAAAATTAT
Found at i:984279 original size:24 final size:23
Alignment explanation
Indices: 984223--984273 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
984213 ATAAAATATA
* *
984223 ATATATATTAACTATATCATATAT
1 ATATATATTAATTATAT-ATAAAT
984247 ATATATATTAATTATATATAAAT
1 ATATATATTAATTATATATAAAT
984270 ATAT
1 ATAT
984274 TGTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATATTAATTATATATAAAT
Found at i:985888 original size:25 final size:23
Alignment explanation
Indices: 985823--985888 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
985813 ATGATTTATT
985823 TTTATTTATA-AAATTTATTTAA
1 TTTATTTATATAAATTTATTTAA
* * *
985845 TTTATTTTTGTTAACTTTATTTTAA
1 TTTATTTAT-ATAAATTTA-TTTAA
985870 TTTATTATATATAAATTTA
1 TTTATT-TATATAAATTTA
985889 AAATATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 8 0.24
24 6 0.18
25 18 0.53
26 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATTTATATAAATTTATTTAA
Found at i:986544 original size:19 final size:19
Alignment explanation
Indices: 986508--986545 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
986498 AATTTTTAAG
*
986508 ATTGATATTTTATTTTTTT
1 ATTGATATTTTATATTTTT
986527 ATTGA-ATTTTATGATTTTT
1 ATTGATATTTTAT-ATTTTT
986546 TAAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (19 bp):
ATTGATATTTTATATTTTT
Found at i:986804 original size:18 final size:18
Alignment explanation
Indices: 986777--986811 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
986767 AAGTAAATCA
*
986777 TATTTTTTTAATTTTTAT
1 TATTTATTTAATTTTTAT
*
986795 TATTTATTTATTTTTTA
1 TATTTATTTAATTTTTA
986812 GTTAAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTATTTAATTTTTAT
Found at i:987724 original size:20 final size:21
Alignment explanation
Indices: 987699--987752 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
987689 ATTTGAGGCA
* *
987699 ATGTATCGATACAATTCT-TC
1 ATGTATCGATACAATTATCAC
987719 ATGTATCGATAC-ATTATCAC
1 ATGTATCGATACAATTATCAC
987739 ATGTATCGATACAA
1 ATGTATCGATACAA
987753 ATAGTGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTATCAC
Found at i:988791 original size:33 final size:33
Alignment explanation
Indices: 988744--988810 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
988734 AAGAGAACTA
* *
988744 AAGTTCTCATCCATGCGCTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
988777 AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
988810 A
1 A
988811 TCAACTCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (33 bp):
AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
Found at i:999230 original size:9 final size:9
Alignment explanation
Indices: 999217--999258 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
999207 AAAAATTATG
999217 AAAAAAA-A
1 AAAAAAACA
*
999225 ACAAAAACA
1 AAAAAAACA
999234 AAAAAAACA
1 AAAAAAACA
*
999243 AAAAACACA
1 AAAAAAACA
999252 AAAAAAA
1 AAAAAAA
999259 GAGAGTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:999236 original size:15 final size:16
Alignment explanation
Indices: 999218--999257 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
999208 AAAATTATGA
999218 AAAAAAAAC-AAAAAC
1 AAAAAAAACAAAAAAC
999233 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
999249 ACAAAAAAA
1 A-AAAAAAA
999258 AGAGAGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.39
16 7 0.30
17 7 0.30
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:999519 original size:9 final size:9
Alignment explanation
Indices: 999505--999543 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
999495 TTTTCCCAAC
999505 ACAAAAAAA
1 ACAAAAAAA
999514 ACAAAAAAA
1 ACAAAAAAA
*
999523 AGAGAAAAAA
1 ACA-AAAAAA
999533 ACAAAACAAA
1 ACAAAA-AAA
999543 A
1 A
999544 TAGAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:999532 original size:19 final size:20
Alignment explanation
Indices: 999508--999550 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
999498 TCCCAACACA
999508 AAAAAAACAAAA-AAAAGAG
1 AAAAAAACAAAACAAAAGAG
*
999527 AAAAAAACAAAACAAAATAG
1 AAAAAAACAAAACAAAAGAG
999547 AAAA
1 AAAA
999551 TCTCGGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAACAAAACAAAAGAG
Found at i:1000586 original size:31 final size:30
Alignment explanation
Indices: 1000548--1000876 Score: 300
Period size: 31 Copynumber: 10.5 Consensus size: 30
1000538 TCTCTTTTCT
*
1000548 TCAAAGTCCATGACTCAGTGGCAATCTCTTC
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTC
*
1000579 TCAAAGTCCACGAGTCAGTGGCATCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCTC--TTC
* * *
1000611 TCAAAATCCATGACTCAGTGGCATCTTTTTTC
1 TCAAAGTCCACGACTCAGTGGCATC--TCTTC
* * * *
1000643 TTCAAAGTCCATGACTCAGTGGCATTTTTTTT
1 -TCAAAGTCCACGACTCAGTGGCA-TCTCTTC
* * * *
1000675 TCAAAGTCCACAACTTAGTGTCGTCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCTC--TTC
* * * *
1000707 TCAAAATCCATGACCCAGTGGCATCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTC
* *
1000737 TTCAAAGTCCACGACTCAATGGCAATCCCTTC
1 -TCAAAGTCCACGACTCAGTGGC-ATCTCTTC
*
1000769 CCAAAGTCCACGACTCAGTGGCATCT-TTCC
1 TCAAAGTCCACGACTCAGTGGCATCTCTT-C
* *
1000799 TTCAGAGTCCACAACTCAGTGGCAATCTCTTC
1 -TCAAAGTCCACGACTCAGTGGC-ATCTCTTC
*
1000831 TCAAAGTCCATGACTCAGTGGCATCTCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTC
* *
1000861 CCAAAGCCCACGACTC
1 TCAAAGTCCACGACTC
1000877 TATGGCACCT
Statistics
Matches: 241, Mismatches: 43, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
29 2 0.01
30 35 0.15
31 114 0.47
32 64 0.27
33 24 0.10
34 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTC
Found at i:1000706 original size:96 final size:95
Alignment explanation
Indices: 1000537--1000892 Score: 377
Period size: 96 Copynumber: 3.8 Consensus size: 95
1000527 AATTCTTCAA
* *
1000537 ATCTCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGAGTCAGTGGCA
1 ATCT-TTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCA
*
1000602 TCTCTTTTCTCAAAATCCATGACTCAGTGGC
65 TCTCTTTTCTCAAAATCCATGACCCAGTGGC
* * * * * * *
1000633 ATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCATTTTTTTTTCAAAGTCCACAACTTAGTGTCG
1 ATC-TTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCA
1000698 TCTCTTTTCTCAAAATCCATGACCCAGTGGC
65 TCTCTTTTCTCAAAATCCATGACCCAGTGGC
* * * * *
1000729 ATC-TTTTCTTCAAAGTCCACGACTCAATGGCAATCCCTTCCCAAAGTCCACGACTCAGTGGCA-
1 ATCTTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAT
* * * ** *
1000792 -TCTTTCCTTCAGAGTCCACAACTCAGTGGC
66 CTCTTTTC-TCAAAATCCATGACCCAGTGGC
* * * *
1000822 AATC-TCTTC-TCAAAGTCCATGACTCAGTGGC-ATCTCTTCCCAAAGCCCACGACTCTA-TGGC
1 -ATCTTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTC-AGTGGC
*
1000883 ACCT-TTTTCT
64 ATCTCTTTTCT
1000893 TTTCAAAGTC
Statistics
Matches: 220, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
92 34 0.15
93 42 0.19
94 56 0.25
96 87 0.40
97 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (95 bp):
ATCTTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAT
CTCTTTTCTCAAAATCCATGACCCAGTGGC
Found at i:1000808 original size:125 final size:123
Alignment explanation
Indices: 1000540--1000883 Score: 341
Period size: 125 Copynumber: 2.7 Consensus size: 123
1000530 TCTTCAAATC
* ** * * **
1000540 TCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGAGTCAGTGGCATCT
1 TCTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAATCCATGACCCAGTGGCATCT
* ** * * ** * *
1000605 CTTTTCTCAAAATCCATGACTCAGTGGC-ATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCA
66 C--TTCCCAAAGCCCACGACTCAATGGCAATC--CCTTC-CCAAAGTCCACGACTCAGTGGCA
* ** * * *
1000667 TTTTTTTTTCAAAGTCCACAACTTAGTGTC-GTCTCTTTTCTCAAAATCCATGACCCAGTGGCAT
1 TCTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTC--TTCTCAAAATCCATGACCCAGTGGCAT
* * *
1000731 CTTTTCTTCAAAGTCCACGACTCAATGGCAATCCCTTCCCAAAGTCCACGACTCAGTGGCA
64 CTCTTC-CCAAAGCCCACGACTCAATGGCAATCCCTTCCCAAAGTCCACGACTCAGTGGCA
* * *
1000792 TCTTTCCTTCAGAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCATCT
1 TCTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAATCCATGACCCAGTGGCATCT
*
1000857 CTTCCCAAAGCCCACGACTCTATGGCA
66 CTTCCCAAAGCCCACGACTCAATGGCA
1000884 CCTTTTTCTT
Statistics
Matches: 180, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
123 20 0.11
124 30 0.17
125 45 0.25
126 14 0.08
127 43 0.24
128 28 0.16
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (123 bp):
TCTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAATCCATGACCCAGTGGCATCT
CTTCCCAAAGCCCACGACTCAATGGCAATCCCTTCCCAAAGTCCACGACTCAGTGGCA
Found at i:1000822 original size:62 final size:62
Alignment explanation
Indices: 1000540--1000876 Score: 367
Period size: 62 Copynumber: 5.4 Consensus size: 62
1000530 TCTTCAAATC
* * *
1000540 TCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGAGTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
1000602 TCTCTTT-TCTCAAAATCCATGACTCAGTGGC-ATCTTTTTTCTTCAAAGTCCATGACTCAGTGG
1 TCT-TTTCT-TCAAAGTCCACGACTCAGTGGCAATC--TCTTC-TCAAAGTCCATGACTCAGTGG
1000665 CA
61 CA
* * * * * * * *
1000667 TTTTTTTTTCAAAGTCCACAACTTAGTGTC-GTCTCTTTTCTCAAAATCCATGACCCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTC--TTCTCAAAGTCCATGACTCAGTGGCA
* * * *
1000730 TCTTTTCTTCAAAGTCCACGACTCAATGGCAATCCCTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
1000792 TCTTTCCTTCAGAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
1000854 TCTCTTC-CCAAAGCCCACGACTC
1 TCTTTTCTTCAAAGTCCACGACTC
1000877 TATGGCACCT
Statistics
Matches: 227, Mismatches: 39, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
61 12 0.05
62 90 0.40
63 69 0.30
64 32 0.14
65 24 0.11
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (62 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
Found at i:1000911 original size:34 final size:32
Alignment explanation
Indices: 1000868--1001278 Score: 299
Period size: 33 Copynumber: 12.8 Consensus size: 32
1000858 TTCCCAAAGC
* *
1000868 CCACGACTCTATGGCACCTTTTTCTTTTCAAAGT
1 CCACAACTCTGTGGCACCTTTTTCTTTT--AAGT
*
1000902 CCATAACTCTGTGGCACC-----CTTTTAAGT
1 CCACAACTCTGTGGCACCTTTTTCTTTTAAGT
** *
1000929 CCACAACTCCATGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACCTTTTTC-TTTT-AAGT
* **
1000963 CCATAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCAC-CTTTTT-CTTTTAAGT
* *
1000997 CCACAACTCTGTGGCATCTTTTCCCTTTTAAGT
1 CCACAACTCTGTGGCACCTTTT-TCTTTTAAGT
*
1001030 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCACCTTTTT-CTTTTAAGT
* * * ***
1001063 CCATAACTCCGTGACACCTTGCACCCTTTTAAGT
1 CCACAACTCTGTGGCACCTT--TTTCTTTTAAGT
*
1001097 CCACAACTCTGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCTGTGGCACCTT-TTTCTTTTAAGT
** * *
1001130 CCACAACTCCATGGCACCTTTTT-TTTAAAGC
1 CCACAACTCTGTGGCACCTTTTTCTTTTAAGT
*
1001161 CCACAACTCTGTGGCACTTTTTTTCTTTTTAAGT
1 CCACAACTCTGTGGCAC-CTTTTTC-TTTTAAGT
* *
1001195 CCATAA-TACCGTGGCACC-----CTTTTAAGT
1 CCACAACT-CTGTGGCACCTTTTTCTTTTAAGT
* * *
1001222 CCACAACTCCGTGGCATCTTTCTCCTTTTAAG-
1 CCACAACTCTGTGGCACCTTT-TTCTTTTAAGT
* * *
1001254 CTCACAAGTCAGTGGCACCCTTTTC
1 C-CACAACTCTGTGGCACCTTTTTC
1001279 AAAAGCCCAC
Statistics
Matches: 304, Mismatches: 48, Indels: 52
0.75 0.12 0.13
Matches are distributed among these distances:
27 41 0.13
28 2 0.01
29 5 0.02
31 21 0.07
32 11 0.04
33 118 0.39
34 95 0.31
35 10 0.03
36 1 0.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (32 bp):
CCACAACTCTGTGGCACCTTTTTCTTTTAAGT
Found at i:1000916 original size:64 final size:61
Alignment explanation
Indices: 1000826--1000979 Score: 166
Period size: 61 Copynumber: 2.5 Consensus size: 61
1000816 AGTGGCAATC
* * * * *
1000826 TCTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAAAGCCCACGACTCTATGGCACCTTTT
1 TCTTTTCAAAGTCCATAACTCAGTGGCA-CCCTT--CAAAGCCCACAACTCCATGGCACCTTTT
* ** *
1000890 TCTTTTCAAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCTTTT
1 TCTTTTCAAAGTCCATAACTCAGTGGCACCCTTCAAAGCCCACAACTCCATGGCACCTTTT
* *
1000951 TCTTTTTAAAGCCCATAACTCCA-TGGCAC
1 TCTTTTCAAAGTCCATAACT-CAGTGGCAC
1000980 TCTTTTTCCT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
61 47 0.61
62 1 0.01
63 4 0.05
64 25 0.32
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.32
Consensus pattern (61 bp):
TCTTTTCAAAGTCCATAACTCAGTGGCACCCTTCAAAGCCCACAACTCCATGGCACCTTTT
Found at i:1000931 original size:27 final size:27
Alignment explanation
Indices: 1000898--1000951 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1000888 TTTCTTTTCA
* **
1000898 AAGTCCATAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCATGGCACCCTTTT
*
1000925 AAGTCCACAACTCCATGGCACCTTTTT
1 AAGTCCACAACTCCATGGCACCCTTTT
1000952 CTTTTTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTCCATGGCACCCTTTT
Found at i:1000959 original size:33 final size:33
Alignment explanation
Indices: 1000919--1001630 Score: 345
Period size: 33 Copynumber: 21.9 Consensus size: 33
1000909 TCTGTGGCAC
*
1000919 CCTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
1000952 CTTTTTAAAGCCCATAACTCCATGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTT
* * *
1000987 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1001020 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * ***
1001053 CCTTTTAAGTCCATAACTCCGTGACACCTTGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-TTT
* *
1001087 CCTTTTAAGTCCACAACTCTGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
1001120 CCTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
1001153 --TTTAAAGCCCACAACTCTGTGGCACTTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* *
1001185 CTTTTTAAGTCCATAA-TACCGTGGCA-C-----
1 CCTTTTAAGTCCACAACT-CCGTGGCACCTTTTT
* *
1001212 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
1001245 CCTTTTAAG-CTCACAAGTCAGTGGCACCCTTTT
1 CCTTTTAAGTC-CACAACTCCGTGGCACCTTTTT
** * **** **
1001278 -C--AAAAGCCCACTAA-GGATTAGGCA--TTCCTCA
1 CCTTTTAAGTCCAC-AACTCCGT-GGCACCTT--TTT
** * * **
1001309 CCTTCCAAAGCCCACAAGTCAATGGCAACC---TT
1 CCTT-TTAAGTCCACAACTCCGTGGC-ACCTTTTT
** * * *
1001341 -C--AAAAGCCCACAAGTCAGTGGCAACC----T
1 CCTTTTAAGTCCACAACTCCGTGGC-ACCTTTTT
** * * * *
1001368 --TTAAAAGCCCACAAGTCAGTGGCACATTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
1001399 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1001432 -CTTTTCAAAGTCCATAACTCCGTGGCACCTTGTT
1 CCTTTT--AAGTCCACAACTCCGTGGCACCTTTTT
* * *
1001466 CCTTTTAATTCCACAACTCTGTGGCACTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
1001499 CTTTTTAAAG-CACATAACTCTGTGACACC-TTTT
1 CCTTTT-AAGTC-CACAACTCCGTGGCACCTTTTT
* ** *
1001532 CTTTTTAAGTCCATGACTCCGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* * * *
1001566 CCTTTTAAGCCCACACCTTCATGGCATCCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CC-TTTTT
* *
1001601 CC-TATAAGTCCACAACTCCATGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT
1001631 AAGTCCAATA
Statistics
Matches: 538, Mismatches: 96, Indels: 91
0.74 0.13 0.13
Matches are distributed among these distances:
27 25 0.05
28 46 0.09
29 1 0.00
30 8 0.01
31 31 0.06
32 31 0.06
33 192 0.36
34 170 0.32
35 34 0.06
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1001098 original size:67 final size:66
Alignment explanation
Indices: 1000919--1001272 Score: 316
Period size: 67 Copynumber: 5.4 Consensus size: 66
1000909 TCTGTGGCAC
* *** * * * **
1000919 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCATAACTCCATGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTCACCCTTTT-AAGTCCACAACTCTGTGGCA-TCTT
1000984 TTT
64 TTT
* * **
1000987 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTCCCTTTTAAGTCCACAACTCTGTGGCATCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTT
1001052 T
66 T
* * * *
1001053 CCTTTTAAGTCCATAACTCCGTGACACCTTGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTG
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-CACCCTTTTAAGTCCACAACTCTGTGGCATCTTT
1001118 TT
65 TT
* ** * *
1001120 CCTTTTAAGTCCACAACTCCATGGCACCTT---TTTTTTAAAGCCCACAACTCTGTGGCACTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTCACCCTTTT-AAGTCCACAACTCTGTGGCA-TCTT
1001182 TTT
64 TTT
* * *
1001185 CTTTTTAAGTCCATAA-TACCGTGG------CACCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CCTTTTAAGTCCACAACT-CCGTGGCACCTTCACCCTTTTAAGTCCACAACTCTGTGGCATCTTT
*
1001243 CT
65 TT
* *
1001245 CCTTTTAAG-CTCACAAGTCAGTGGCACC
1 CCTTTTAAGTC-CACAACTCCGTGGCACC
1001273 CTTTTCAAAA
Statistics
Matches: 235, Mismatches: 38, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
59 1 0.00
60 22 0.09
61 19 0.08
62 4 0.02
63 4 0.02
64 20 0.09
65 23 0.10
66 33 0.14
67 75 0.32
68 34 0.14
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (66 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTT
T
Found at i:1001124 original size:100 final size:101
Alignment explanation
Indices: 1000918--1001169 Score: 336
Period size: 100 Copynumber: 2.5 Consensus size: 101
1000908 CTCTGTGGCA
* *
1000918 CCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCATAACTCCATGGCACTCT
1 CCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCATAACTCCATGACACTCT
*** *
1000983 TTTTCCTTTTAAGTCCACAACTCTGTGGCATCTTTT
66 TCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
** * * *
1001019 CCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTT-AAGTCCATAACTCCGTGACAC-CT
1 CCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCATAACTCCATGACACTCT
1001082 TGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTT
66 T-CACCCTTTTAAGTCCACAACTCTGTGGCACCTT-TT
*
1001120 -CCTTTTAAGTCCACAACTCCATGGCACC-TTTT--TTTTAAAGCCCACAACTC
1 CCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCATAACTC
1001170 TGTGGCACTT
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
97 4 0.03
98 11 0.08
99 7 0.05
100 72 0.55
101 38 0.29
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (101 bp):
CCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCATAACTCCATGACACTCT
TCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
Found at i:1001277 original size:60 final size:59
Alignment explanation
Indices: 1001083--1001277 Score: 180
Period size: 60 Copynumber: 3.2 Consensus size: 59
1001073 GTGACACCTT
* * *
1001083 GCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCA-TG
1 GCACCCTTTTAAGTCCACAACTCTGTGGCATCTT-TTCCTTTTAAGT-CACAAATACAGTG
* * * * *
1001143 GCACCTTTTTTTTAAAGCCCACAACTCTGTGGCACTTTTTTTCTTTTTAAGTC-CATAATACCGT
1 GCACC---CTTTT-AAGTCCACAACTCTGTGGCA--TCTTTTCCTTTTAAGTCACA-AATACAGT
1001207 G
59 G
* *
1001208 GCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTAAGCTCACAAGT-CAGTG
1 GCACCCTTTTAAGTCCACAACTCTGTGGCATCTTT-TCCTTTTAAG-TCACAAATACAGTG
1001268 GCACCCTTTT
1 GCACCCTTTT
1001278 CAAAAGCCCA
Statistics
Matches: 109, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
59 4 0.04
60 28 0.26
61 22 0.20
62 6 0.06
63 6 0.06
64 23 0.21
65 18 0.17
66 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (59 bp):
GCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTTCCTTTTAAGTCACAAATACAGTG
Found at i:1001348 original size:28 final size:28
Alignment explanation
Indices: 1001308--1001391 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
1001298 GGCATTCCTC
* *
1001308 ACCTTCCAAAGCCCACAAGTCAATGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
1001336 ACCTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
1001364 ACCTTTAAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
1001392 CATTTTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (28 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:1001443 original size:34 final size:32
Alignment explanation
Indices: 1001386--1001630 Score: 197
Period size: 34 Copynumber: 7.3 Consensus size: 32
1001376 CCACAAGTCA
*
1001386 GTGGCACATTTTTCCTTTTAAGTCCATAACTCC
1 GTGGCACCTTTTT-CTTTTAAGTCCATAACTCC
1001419 GTGGCACCTTTTTCTTTTCAAAGTCCATAACTCC
1 GTGGCACCTTTTTCTTTT--AAGTCCATAACTCC
* * * *
1001453 GTGGCACCTTGTTCCTTTTAATTCCACAACTCT
1 GTGGCACCTT-TTTCTTTTAAGTCCATAACTCC
* *
1001486 GTGGCACTTTTTTCTTTTTAAAG-CACATAACTCT
1 GTGGCACCTTTTTC-TTTT-AAGTC-CATAACTCC
* *
1001520 GTGACACC-TTTTCTTTTTAAGTCCATGACTCC
1 GTGGCACCTTTTTC-TTTTAAGTCCATAACTCC
* * * * *
1001552 GTGGCACCCTTTTCCCTTTTAAGCCCACACCTTC
1 GTGGCA-CCTTTT-TCTTTTAAGTCCATAACTCC
* * * *
1001586 ATGGCATCCTTTTTTCCTATAAGTCCACAACTCC
1 GTGGCA-CC-TTTTTCTTTTAAGTCCATAACTCC
*
1001620 ATGGCACCTTT
1 GTGGCACCTTT
1001631 AAGTCCAATA
Statistics
Matches: 173, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
32 26 0.15
33 52 0.30
34 83 0.48
35 12 0.07
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (32 bp):
GTGGCACCTTTTTCTTTTAAGTCCATAACTCC
Found at i:1001491 original size:100 final size:100
Alignment explanation
Indices: 1001372--1001630 Score: 278
Period size: 100 Copynumber: 2.6 Consensus size: 100
1001362 CAACCTTTAA
* * *
1001372 AAGCCCACAAGTCAGTGGCACATTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCTGTGGCACTTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTT
1001437 CAAAGTCCATAACTCCGTGGCA-CCTTGTT-CCTTTT
66 -AAAGTCCATAACTCCGTGGCACCCTT-TTCCCTTTT
** * * *
1001472 AATTCCACAACTCTGTGGCACTTTTTTCTTTTTAAAG-CACATAACTCTGTGACACC-TTTTCTT
1 AAGCCCACAACTCTGTGGCACTTTTTTCCTTTT-AAGTC-CATAACTCCGTGGCACCTTTTTCTT
* *
1001535 TTTAAGTCCATGACTCCGTGGCACCCTTTTCCCTTTT
64 TTAAAGTCCATAACTCCGTGGCACCCTTTTCCCTTTT
* * * * *
1001572 AAGCCCACACCT-TCATGGCATCCTTTTTTCC-TATAAGTCCACAACTCCATGGCACCTTT
1 AAGCCCACAACTCT-GTGGCA--CTTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTT
1001631 AAGTCCAATA
Statistics
Matches: 130, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
99 22 0.17
100 77 0.59
101 23 0.18
102 8 0.06
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (100 bp):
AAGCCCACAACTCTGTGGCACTTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTT
AAAGTCCATAACTCCGTGGCACCCTTTTCCCTTTT
Found at i:1001498 original size:67 final size:66
Alignment explanation
Indices: 1001386--1001565 Score: 227
Period size: 67 Copynumber: 2.7 Consensus size: 66
1001376 CCACAAGTCA
*
1001386 GTGGCACATTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCAAAGTC-CATAAC
1 GTGGCAC-CTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCAAAG-CACATAAC
1001450 TCC
64 TCC
* * * * *
1001453 GTGGCACCTTGTTCCTTTTAATTCCACAACTCTGTGGCACTTTTTTCTTTTTAAAGCACATAACT
1 GTGGCACCTT-TTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCAAAGCACATAACT
*
1001518 CT
65 CC
* * * *
1001520 GTGACACCTTTTCTTTTTAAGTCCATGACTCCGTGGCACCCTTTTC
1 GTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTC
1001566 CCTTTTAAGC
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
66 32 0.33
67 64 0.67
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (66 bp):
GTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCAAAGCACATAACTC
C
Found at i:1001716 original size:52 final size:52
Alignment explanation
Indices: 1001637--1001819 Score: 245
Period size: 52 Copynumber: 3.6 Consensus size: 52
1001627 CTTTAAGTCC
*
1001637 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCT
1 AATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACATTCCTAAGCCT
* * *
1001689 AATATCGCTGGCCTTGAATCAGTATATTGGCATCTTTAACATTCCTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACATTCCTAAGCCT
* *
1001741 AATATCGCTGG-CTTGTATCAGCACATTGGCA-CTCTT--C-TT-C-AAGTCT
1 AATATCGCTGGCCTTGAATCAGCACATTGGCATCT-TTAACATTCCTAAGCCT
*
1001787 AATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1 AATATCGCTGGCCTTGAATCAGCACATTGGCAT
1001820 AAGTCCGATA
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
46 14 0.12
47 20 0.17
48 2 0.02
49 1 0.01
50 2 0.02
51 19 0.16
52 61 0.51
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (52 bp):
AATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACATTCCTAAGCCT
Found at i:1001835 original size:39 final size:39
Alignment explanation
Indices: 1001781--1001945 Score: 132
Period size: 39 Copynumber: 4.0 Consensus size: 39
1001771 ACTCTTCTTC
* *
1001781 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAT
* * * *
1001820 AAGTCCGATATCGCTGGCATCGAATCAGCATATTGGCACCGT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA---T
* * * *
1001862 CATCATTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 -A--AGT----CCAATATCGCTGGCCTTGAATCAGCACATTGGCAT
* *
1001908 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1001946 CCTTTTTCTC
Statistics
Matches: 97, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
39 63 0.65
42 1 0.01
43 2 0.02
45 3 0.03
49 28 0.29
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAT
Found at i:1001890 original size:88 final size:87
Alignment explanation
Indices: 1001734--1002677 Score: 830
Period size: 88 Copynumber: 10.6 Consensus size: 87
1001724 TTAACATTCC
* * * ** *
1001734 TAAGCCCAATATCGCTGG-CTTGTATCAGCACATTGGCA-C-TCTTCTTCAAGTCTAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTT-AAAACCAATGTCGCT
*
1001796 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGTACATTGGCA
* * * * *
1001819 TAAGTCCGATATCGCTGGCATCGAATCAGCATATTGGCACCGTCATCATTAAAACCAATGTCACT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATC-TTAAAACCAATGTCGCT
*
1001884 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGTACATTGGCA
* * ** *
1001907 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTCTAAAACCAATGACGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCT-TAAAACCAATGTCGCT
* * *
1001972 GGCCTTGAATCGGTATATTAGCA
65 GGCCTTGAATCAGTACATTGGCA
*
1001995 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC-TC-TAAAACCAATGACGC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--GTCATCTTAAAACCAATGTCGC
* *
1002058 TGGCCTTGAATCGGTACATTAGCA
64 TGGCCTTGAATCAGTACATTGGCA
* * * * * ** **
1002082 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGCCACCTTCATCTTTAAGACTGATGTCATT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATC-TTAAAACCAATGTCGCT
*
1002147 GGCCTTGAATCAGTATATTGGCA
65 GGCCTTGAATCAGTACATTGGCA
* * * * * * *
1002170 TCTTTAA-CATTCCTA-AGCCCAATATCGCTGGCTTGTATCAGCACATTGGCA-C-TCTTCTTCA
1 ----TAAGC---CCAATATCGC----T-G--GCCTTGAATCAGCATATTGGCACCGTCATCTT-A
** * *
1002231 AGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA
51 AAACCAATGTCGCTGGCCTTGAATCAGTACATTGGCA
* * * * *
1002268 TAAGTCCGATATCGCTGGCATCGAATCAGCATATTGGCACCGTCATCATTAAAACCAATGTCACT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATC-TTAAAACCAATGTCGCT
*
1002333 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGTACATTGGCA
* * ** * *
1002356 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTCTAAAACCAATGACGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCT-TAAAACCAATGTCGCT
* * *
1002421 GGCCTTGAATCGGTATATTAGCA
65 GGCCTTGAATCAGTACATTGGCA
*
1002444 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC-TC-TAAAACCAATGACGC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--GTCATCTTAAAACCAATGTCGC
*
1002507 TGGCCTTGAATCGGTACATTGGCA
64 TGGCCTTGAATCAGTACATTGGCA
* * * * * * **
1002531 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGCCACCTTCATCTTTAAGACCGATGTCATT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATC-TTAAAACCAATGTCGCT
1002596 GGCCTTGAATCAGTACATTGGCACGTTCA
65 GGCCTTGAATCAGTACATT-G---G--CA
* * *
1002625 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTT
1002678 TAAGTCCGAT
Statistics
Matches: 705, Mismatches: 108, Indels: 80
0.79 0.12 0.09
Matches are distributed among these distances:
85 20 0.03
86 37 0.05
87 154 0.22
88 359 0.51
89 10 0.01
90 2 0.00
91 1 0.00
92 7 0.01
93 6 0.01
94 8 0.01
97 5 0.01
98 78 0.11
99 1 0.00
100 17 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTAAAACCAATGTCGCTG
GCCTTGAATCAGTACATTGGCA
Done.