Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 35 of 295
Found at i:9820648 original size:26 final size:26
Alignment explanation
Indices: 9820619--9820726 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
9820609 TGGTACAAAT
*
9820619 TGATAATGGGTAAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9820645 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9820671 CGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9820697 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9820723 TGAT
1 TGAT
9820727 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9826930 original size:204 final size:205
Alignment explanation
Indices: 9826564--9827216 Score: 1058
Period size: 204 Copynumber: 3.2 Consensus size: 205
9826554 TGATTTGGCT
* *
9826564 TGATTTGGTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGGGAG
1 TGATTTGGTAT-TCTCTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAG
*
9826629 CAGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGTAAGATCCAAGATGATTTGGCAT
65 CAGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCAT
*
9826694 CCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGCTGAAG
130 CCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAG
9826759 CAAATCTAAGA
195 CAAATCTAAGA
9826770 TGATTTGGT-TTCTCTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
1 TGATTTGGTATTCTCTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
* *
9826834 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAAATCCAAGATAATTTGGCATC
66 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
* * *
9826899 TTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGTCTTTCACGTGTTTACGCTGAAGC
131 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
9826964 AAATCTAAGA
196 AAATCTAAGA
* * *
9826974 TGATTTGGTA-TCTCTATTGTTAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATGAAGAGC
1 TGATTTGGTATTCTCTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
* * *
9827038 AGATACATAGCAGATCTCACCTTCAGATAATTTCACTGAAGCAAGATCCAAGATGGTTTGGTATC
66 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
* ** * *
9827103 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTTGCGTGCTTACGCTAAAGC
131 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
9827168 AAATCTAAGA
196 AAATCTAAGA
* * * *
9827178 TGATTTGGCATCTTTGTATTGTTAGAGAACAAATCGAAG
1 TGATTTGGTAT-TCTCTATTGTCAGAGAACAAATCGAAG
9827217 AAGCAGATTT
Statistics
Matches: 416, Mismatches: 28, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
204 381 0.92
205 1 0.00
206 34 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
TGATTTGGTATTCTCTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
AAATCTAAGA
Found at i:9828898 original size:20 final size:19
Alignment explanation
Indices: 9828853--9828903 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
9828843 TTTAATATGA
*
9828853 ATATATGTAC-TATATTTT
1 ATATATTTACTTATATTTT
9828871 ATATTATTTACTTATATTTT
1 ATA-TATTTACTTATATTTT
9828891 AT-TATATTACTTA
1 ATATAT-TTACTTA
9828904 ATATCTTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.21
19 13 0.45
20 10 0.34
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATATTTACTTATATTTT
Found at i:9829040 original size:16 final size:15
Alignment explanation
Indices: 9829021--9829089 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
9829011 ATTAACCATA
9829021 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
9829037 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
9829050 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
9829065 TATTATTT-TA-CAT
1 TATTATTTATATTAT
9829078 TATTATTTATAT
1 TATTATTTATAT
9829090 ATTTTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:9829064 original size:38 final size:38
Alignment explanation
Indices: 9829022--9829096 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
9829012 TTAACCATAT
*
9829022 ATTATT-TCATATTATTATTATT-TATTATATATTTTTAA
1 ATTATTATCATATTA-CATTATTAT-TTATATATTTTTAA
* *
9829060 ATTATTATTATTTTACATTATTATTTATATATTTTTA
1 ATTATTATCATATTACATTATTATTTATATATTTTTA
9829097 CTTGTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
ATTATTATCATATTACATTATTATTTATATATTTTTAA
Found at i:9829082 original size:57 final size:58
Alignment explanation
Indices: 9829020--9829174 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 58
9829010 TATTAACCAT
*
9829020 ATATTATTTCATATTATTATTATTTATTATATATTT-TTAAATTA-TTAT-TATTTTAC
1 ATATTATTTCATATTATTATTATTTATTATATATTTATT-AATTATTTATGTATTATAC
* *
9829076 ATTATTATTT-ATA-TATTTTTACTTGTATTATATCTTTATTAATTATTTATGTATTATAC
1 A-TATTATTTCATATTATTATTA-TT-TATTATATATTTATTAATTATTTATGTATTATAC
*
9829135 ATATATACTTTCATATTATATATTATAATTATTTTATATT
1 ATAT-TA-TTTCATATTAT-TATTAT--TTATTATATATT
9829175 ATGTCATTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
55 7 0.09
56 6 0.08
57 24 0.30
58 9 0.11
59 10 0.12
60 3 0.04
61 3 0.04
62 4 0.05
63 13 0.16
64 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (58 bp):
ATATTATTTCATATTATTATTATTTATTATATATTTATTAATTATTTATGTATTATAC
Found at i:9829108 original size:19 final size:18
Alignment explanation
Indices: 9829042--9829108 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
9829032 ATTATTATTA
*
9829042 TTTATTATATATTTTTAA
1 TTTATTATATATTTTTAC
*
9829060 ATTATTAT-TA-TTTTAC
1 TTTATTATATATTTTTAC
9829076 ATTATTATTTATATATTTTTAC
1 --T-TTA-TTATATATTTTTAC
9829098 TTGTATTATAT
1 TT-TATTATAT
9829109 CTTTATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
16 5 0.13
17 2 0.05
18 7 0.18
19 10 0.26
20 7 0.18
21 2 0.05
22 6 0.15
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATTATATATTTTTAC
Found at i:9829121 original size:38 final size:37
Alignment explanation
Indices: 9829031--9829130 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 37
9829021 TATTATTTCA
*
9829031 TATTATTATTATTTA-TTATATATTTTTAAATTATTAT
1 TATT-TTATTAATTATTTATATATTTTTAAATTATTAT
**
9829068 TATTTTACATT-ATTATTTATATATTTTTACTTGTATTA-
1 TATTTT--ATTAATTATTTATATATTTTTAAAT-TATTAT
*
9829106 TATCTTTATTAATTATTTATGTATT
1 TAT-TTTATTAATTATTTATATATT
9829131 ATACATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
36 2 0.04
37 10 0.19
38 33 0.62
39 8 0.15
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (37 bp):
TATTTTATTAATTATTTATATATTTTTAAATTATTAT
Found at i:9829200 original size:23 final size:22
Alignment explanation
Indices: 9829174--9829219 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
9829164 TATTTTATAT
9829174 TATGTCATTTT-TTTATACTATTA
1 TATGT-ATTTTATTTATAC-ATTA
*
9829197 TATGTTTTTTATTTATACATTA
1 TATGTATTTTATTTATACATTA
9829219 T
1 T
9829220 TATCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (22 bp):
TATGTATTTTATTTATACATTA
Found at i:9830969 original size:18 final size:20
Alignment explanation
Indices: 9830934--9830987 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
9830924 ATTTTCTATT
*
9830934 TTTTAATATATATTTTTTAAAA
1 TTTTAATAT-T-TTTTTGAAAA
*
9830956 TTTTAA-ATTTTTTTGTAAA
1 TTTTAATATTTTTTTGAAAA
9830975 TTTTAATATTTTT
1 TTTTAATATTTTT
9830988 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
20 7 0.24
21 2 0.07
22 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTAATATTTTTTTGAAAA
Found at i:9836056 original size:20 final size:22
Alignment explanation
Indices: 9836017--9836057 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
9836007 TTTCAACTAC
*
9836017 AATAATATATATATATTTTCCT
1 AATAATATATATATAATTTCCT
9836039 AATAATA-AT-TATAATTTCC
1 AATAATATATATATAATTTCC
9836058 ATAAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAATATATATATAATTTCCT
Found at i:9838068 original size:98 final size:98
Alignment explanation
Indices: 9837897--9838089 Score: 271
Period size: 98 Copynumber: 2.0 Consensus size: 98
9837887 AATTGACGGA
** * * *
9837897 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGAGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATAACAATGTTTAAATGCAAGACCATAGCCGAGCTATGGCATTCTAA
9837962 TAAAAAGACCATAACT-GGATTATGGCACTATCG
66 TAAAAAGACCATAACTAGG-TTATGGCACTATCG
* * * *
9837995 TAAGACTATGGTTGGACCATAACAGTGTTTATATGCAAGACCATAGCCGAGCTATGGCATTCTAG
1 TAAGACCATGGTTGGACCATAACAATGTTTAAATGCAAGACCATAGCCGAGCTATGGCATTCTAA
* *
9838060 TGATAAGACCATAACTAGGTTATGGCACTA
66 TAAAAAGACCATAACTAGGTTATGGCACTA
9838090 CGAATGTAAG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
98 81 0.98
99 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (98 bp):
TAAGACCATGGTTGGACCATAACAATGTTTAAATGCAAGACCATAGCCGAGCTATGGCATTCTAA
TAAAAAGACCATAACTAGGTTATGGCACTATCG
Found at i:9845635 original size:71 final size:71
Alignment explanation
Indices: 9845552--9845807 Score: 248
Period size: 71 Copynumber: 3.6 Consensus size: 71
9845542 GTAAATAATG
* *
9845552 AAATGCGCCTTGCACTGGCCAGTAAAATCGACAAATGGGTGTG-CCAGCACTGGTCAGTATAACC
1 AAATGCGCCTTGCACTGGTCAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGTCAGTATAACC
9845616 GAAAAAT
66 -AAAAAT
* * * * *
9845623 AAATGCGCCTTGCACTGGTTAGCAAAATCAATAAATGAGTGTGCCCAGCACTGGTCGGTAT-ACC
1 AAATGCGCCTTGCACTGGTCAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGTCAGTATAACC
9845687 AAAAAGT
66 AAAAA-T
* ** * * * ** * *
9845694 AAATGCATCC-TGCGTTGGTCGGTAAAACCGACAAATGAGTGTGCCCAGCAGTGCCCAATACAAC
1 AAATGC-GCCTTGCACTGGTCAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGTCAGTATAAC
*
9845758 TAACAAAT
65 CAA-AAAT
* * * * *
9845766 AAATGCGCCCTGCACTGGTCGGTGAAACCAACAAATGAGTGT
1 AAATGCGCCTTGCACTGGTCAGTAAAATCGACAAATGAGTGT
9845808 TCATTTATTC
Statistics
Matches: 151, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
70 5 0.03
71 86 0.57
72 57 0.38
73 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (71 bp):
AAATGCGCCTTGCACTGGTCAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGTCAGTATAACC
AAAAAT
Found at i:9845639 original size:36 final size:36
Alignment explanation
Indices: 9845552--9845641 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 36
9845542 GTAAATAATG
* * *
9845552 AAATGCGCCTTGCACTGGCCAGTAAAATCGACAAAT
1 AAATGCGCCTTGCACTGGTCAGTAAAACCGAAAAAT
*** * * *
9845588 GGGTGTGCC-AGCACTGGTCAGTATAACCGAAAAAT
1 AAATGCGCCTTGCACTGGTCAGTAAAACCGAAAAAT
9845623 AAATGCGCCTTGCACTGGT
1 AAATGCGCCTTGCACTGGT
9845642 TAGCAAAATC
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
35 26 0.67
36 13 0.33
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (36 bp):
AAATGCGCCTTGCACTGGTCAGTAAAACCGAAAAAT
Found at i:9846356 original size:23 final size:23
Alignment explanation
Indices: 9846311--9846400 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
9846301 GTCCAGCTTA
* *
9846311 GACAACACTTAAAACATGCTTTG
1 GACAACATTTAAAACATACTTTG
** *
9846334 GATGACATTTAAAACATATTTTG
1 GACAACATTTAAAACATACTTTG
* *
9846357 TACAACATTTAAAACTTACTTT-
1 GACAACATTTAAAACATACTTTG
* *
9846379 GACAGCATTTGAAACATACTTT
1 GACAACATTTAAAACATACTTT
9846401 TGCCAGCATC
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
22 18 0.34
23 35 0.66
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (23 bp):
GACAACATTTAAAACATACTTTG
Found at i:9846407 original size:23 final size:23
Alignment explanation
Indices: 9846339--9846419 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
9846329 CTTTGGATGA
*
9846339 CATTTAAAACATA-TTTTGTACAA
1 CATTTAAAACATACTTTTG-ACAG
*
9846362 CATTTAAAACTTAC-TTTGACAG
1 CATTTAAAACATACTTTTGACAG
* *
9846384 CATTTGAAACATACTTTTGCCAG
1 CATTTAAAACATACTTTTGACAG
* *
9846407 CATCTAAAGCATA
1 CATTTAAAACATA
9846420 TCAAATGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 15 0.31
23 33 0.69
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (23 bp):
CATTTAAAACATACTTTTGACAG
Found at i:9854593 original size:30 final size:32
Alignment explanation
Indices: 9854557--9854624 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
9854547 GGTTTCATTT
* *
9854557 CAGTCACCTAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
*
9854587 CAGTCA-CTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
9854618 CAGTCAC
1 CAGTCAC
9854625 TGACTAACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (32 bp):
CAGTCACCTAACGTTATAAAAAAGTAACAAAA
Found at i:9854606 original size:29 final size:30
Alignment explanation
Indices: 9854557--9854625 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
9854547 GGTTTCATTT
* *
9854557 CAGTCACCTAACTTTTGAAAAA-TAACAAAA
1 CAGTCA-CTAACTTATAAAAAAGTAACAAAA
*
9854587 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAAC-TTATAAAAAAGTAACAAAA
9854618 CAGTCACT
1 CAGTCACT
9854626 GACTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (30 bp):
CAGTCACTAACTTATAAAAAAGTAACAAAA
Found at i:9855812 original size:21 final size:21
Alignment explanation
Indices: 9855788--9855828 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9855778 CAACGTGGCA
*
9855788 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
9855809 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
9855829 GGTTCTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:9855923 original size:29 final size:31
Alignment explanation
Indices: 9855863--9855931 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
9855853 ACTGTTAGTC
* *
9855863 AGTGACTGTTTTGTCACTTTTTTATAATGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
* *
9855894 AGTGATTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
9855923 AGGTGACTG
1 A-GTGACTG
9855932 AAATGAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 6 0.19
30 12 0.38
31 14 0.44
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:9858898 original size:4 final size:5
Alignment explanation
Indices: 9858879--9858918 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
9858869 AAAAAAAATC
9858879 TTATT TTATT TT-TAT TTATT TTATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TT-ATT TTAT
9858919 GTTAAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.03
5 25 0.78
6 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:9858899 original size:15 final size:14
Alignment explanation
Indices: 9858879--9858909 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9858869 AAAAAAAATC
9858879 TTATTTTATTTTTAT
1 TTATTTTA-TTTTAT
9858894 TTATTTTATTTTAT
1 TTATTTTATTTTAT
9858908 TT
1 TT
9858910 TGATTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:9861099 original size:13 final size:13
Alignment explanation
Indices: 9861081--9861106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9861071 CGAATCATGA
9861081 CTCACACGGGCGT
1 CTCACACGGGCGT
9861094 CTCACACGGGCGT
1 CTCACACGGGCGT
9861107 GTCCCTGCCG
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
CTCACACGGGCGT
Found at i:9864439 original size:21 final size:21
Alignment explanation
Indices: 9864413--9864453 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9864403 AGAGAAGACG
9864413 ACGTTTACGTATCCATTTGGT
1 ACGTTTACGTATCCATTTGGT
9864434 ACGTTTACGTATCCATTTGG
1 ACGTTTACGTATCCATTTGG
9864454 ACTTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (21 bp):
ACGTTTACGTATCCATTTGGT
Found at i:9867635 original size:13 final size:13
Alignment explanation
Indices: 9867617--9867660 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
9867607 TCCATGTCAT
9867617 CACCATCCACCGC
1 CACCATCCACCGC
9867630 CACCATCCACCGC
1 CACCATCCACCGC
**
9867643 CGTC-TCCACCGC
1 CACCATCCACCGC
9867655 CACCAT
1 CACCAT
9867661 AACAAACAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.20, C:0.59, G:0.09, T:0.11
Consensus pattern (13 bp):
CACCATCCACCGC
Found at i:9869648 original size:19 final size:19
Alignment explanation
Indices: 9869620--9869662 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
9869610 TTGTTTGAAA
9869620 AAAT-ATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
9869638 AAATAATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
9869657 AAATAA
1 AAATAA
9869663 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATAATTTGCTTGTACAT
Found at i:9869662 original size:4 final size:4
Alignment explanation
Indices: 9869655--9869688 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
9869645 TTGCTTGTAC
*
9869655 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
9869689 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9870083 original size:25 final size:25
Alignment explanation
Indices: 9870049--9870099 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9870039 ATCCTTAGCA
9870049 TTTATTTATTTTTGCCTATGTTGTT
1 TTTATTTATTTTTGCCTATGTTGTT
9870074 TTTATTTATTTTTGCCTATGTTGTT
1 TTTATTTATTTTTGCCTATGTTGTT
9870099 T
1 T
9870100 ACATTGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTATTTATTTTTGCCTATGTTGTT
Found at i:9870697 original size:3 final size:3
Alignment explanation
Indices: 9870691--9870743 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
9870681 AAATAGATAT
* * *
9870691 TTA TTA TTA TAA TTA TTAA TTA TTA TTA TTG TT- TATA TTA TTA TTT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA
9870737 TTA TTA T
1 TTA TTA T
9870744 GGAATAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 1 0.02
3 37 0.88
4 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9871372 original size:17 final size:18
Alignment explanation
Indices: 9871350--9871385 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9871340 TAAATGAGTT
9871350 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
9871367 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
9871385 A
1 A
9871386 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:9871867 original size:21 final size:21
Alignment explanation
Indices: 9871843--9871888 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9871833 AGGCACTATA
9871843 TGTGTCATATCAAGCACCTCC
1 TGTGTCATATCAAGCACCTCC
* *
9871864 TGTGTCGTATCAAGCACCTCG
1 TGTGTCATATCAAGCACCTCC
9871885 TGTG
1 TGTG
9871889 CCGTTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTGTCATATCAAGCACCTCC
Found at i:9873646 original size:4 final size:5
Alignment explanation
Indices: 9873627--9873666 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
9873617 AAAAAAAATC
9873627 TTATT TTATT TT-TAT TTATT TTATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TT-ATT TTAT
9873667 GTTAAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.03
5 25 0.78
6 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:9873647 original size:15 final size:14
Alignment explanation
Indices: 9873627--9873657 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9873617 AAAAAAAATC
9873627 TTATTTTATTTTTAT
1 TTATTTTA-TTTTAT
9873642 TTATTTTATTTTAT
1 TTATTTTATTTTAT
9873656 TT
1 TT
9873658 TGATTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:9875143 original size:15 final size:16
Alignment explanation
Indices: 9875109--9875145 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9875099 ACCCAACGTA
*
9875109 ACCCAAAACCCAGAAG
1 ACCCAAAACCCACAAG
9875125 -CCCAAAACCC-CAAG
1 ACCCAAAACCCACAAG
9875139 ACCCAAA
1 ACCCAAA
9875146 TCAGAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.49, C:0.43, G:0.08, T:0.00
Consensus pattern (16 bp):
ACCCAAAACCCACAAG
Found at i:9876194 original size:3 final size:3
Alignment explanation
Indices: 9876186--9876362 Score: 109
Period size: 3 Copynumber: 57.0 Consensus size: 3
9876176 TGCTTCAATT
9876186 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
9876234 TTA TGTA TTA GTGTA -TA CTTCA TGTA CGTA TATA TATA TGTA TTA ATG
1 TTA T-TA TTA -T-TA TTA -TT-A T-TA -TTA T-TA T-TA T-TA TTA TTA
* * * *
9876282 TT- TTA TTA CTTCA TTT TTA TTA TT- TTCA TTA -TA GTA GTA -TA TTT
1 TTA TTA TTA -TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
9876326 TTA -TA TCTA -TA TTA TTA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9876363 CTTTTTTTTC
Statistics
Matches: 144, Mismatches: 10, Indels: 40
0.74 0.05 0.21
Matches are distributed among these distances:
2 16 0.11
3 96 0.67
4 27 0.19
5 5 0.03
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9876344 original size:20 final size:21
Alignment explanation
Indices: 9876321--9876368 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
9876311 TATAGTAGTA
9876321 TATTTTTA-TATCTA-TATTAT
1 TATTTTTATTAT-TATTATTAT
9876341 TA-TTTTATTATTATTATTAT
1 TATTTTTATTATTATTATTAT
9876361 TACTTTTT
1 TA-TTTTT
9876369 TTTCATGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 13 0.54
22 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTTTATTATTATTATTAT
Found at i:9876425 original size:45 final size:42
Alignment explanation
Indices: 9876352--9876448 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 42
9876342 ATTTTATTAT
* * * *
9876352 TATTATTATTA-CTTTTTTTTCATGTCTATTTTTATGTAATGC
1 TATTATTATTATCTTTTTTTTCATATCTATTCTTA-CTAATAC
9876394 TATTATTATTATCTTATTTTATT-ATTATCTATTCTTACTAATAC
1 TATTATTATTATCTT-TTTT-TTCA-TATCTATTCTTACTAATAC
9876438 -ATTATTATTAT
1 TATTATTATTAT
9876449 TTTACCATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 11 0.23
43 14 0.30
44 10 0.21
45 12 0.26
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (42 bp):
TATTATTATTATCTTTTTTTTCATATCTATTCTTACTAATAC
Found at i:9877212 original size:63 final size:63
Alignment explanation
Indices: 9877145--9877274 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
9877135 ATGTATGAAT
9877145 ATTTCTAATATTATATTATGTTTTTATATATATTATGTATTTACTTTGGTACCATAATTATAC
1 ATTTCTAATATTATATTATGTTTTTATATATATTATGTATTTACTTTGGTACCATAATTATAC
9877208 ATTTCTAATATTATATTATGTTTTTATATATATTATGTATTTACTTTGGTACCATAATTATAC
1 ATTTCTAATATTATATTATGTTTTTATATATATTATGTATTTACTTTGGTACCATAATTATAC
9877271 ATTT
1 ATTT
9877275 TTATATGATC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.55
Consensus pattern (63 bp):
ATTTCTAATATTATATTATGTTTTTATATATATTATGTATTTACTTTGGTACCATAATTATAC
Found at i:9877668 original size:11 final size:11
Alignment explanation
Indices: 9877645--9877674 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
9877635 CATTTTTCAC
9877645 ATATATATATGT
1 ATATAT-TATGT
9877657 ATATATTATGT
1 ATATATTATGT
9877668 ATATATT
1 ATATATT
9877675 TTAATAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
ATATATTATGT
Found at i:9878128 original size:16 final size:16
Alignment explanation
Indices: 9878107--9878144 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
9878097 GTCCTTCTCA
9878107 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
9878123 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
9878139 AAAATC
1 AAAATC
9878145 CTCGTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:9881075 original size:17 final size:19
Alignment explanation
Indices: 9881043--9881086 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
9881033 ATTATTTAAG
9881043 AAATAATAATTATAATAAA
1 AAATAATAATTATAATAAA
9881062 AAAT-ATAA-TATAAT-AA
1 AAATAATAATTATAATAAA
*
9881078 TAATAATAA
1 AAATAATAA
9881087 AGAATGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 4 0.17
19 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAATAATTATAATAAA
Found at i:9882017 original size:6 final size:6
Alignment explanation
Indices: 9882006--9882043 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
9881996 TCCGTACCTG
*
9882006 ACTGTT ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
9882044 CCTTACGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:9882049 original size:18 final size:18
Alignment explanation
Indices: 9882010--9882049 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9882000 TACCTGACTG
* **
9882010 TTACTGTTACTGTTACTG
1 TTACTATTACTGTTACCC
9882028 TTACTATTACTGTTACCC
1 TTACTATTACTGTTACCC
9882046 TTAC
1 TTAC
9882050 GGTGTATTTC
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:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (18 bp):
TTACTATTACTGTTACCC
Found at i:9883241 original size:23 final size:23
Alignment explanation
Indices: 9883159--9883245 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 23
9883149 CCTGATCAGT
* *
9883159 ATACAACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
9883181 A-ATGACACACGAAGTACCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
9883201 ATACGGCACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
9883224 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
9883246 TTAGTAAAGC
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.58
22 1 0.02
23 18 0.38
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:9883482 original size:23 final size:21
Alignment explanation
Indices: 9883438--9883483 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
9883428 TCTCCATTCA
* *
9883438 ATTCAATTCAATTCAATTCTT
1 ATTCAACTCAATTCAATACTT
9883459 ATTCAACTCAAATATCAATACTT
1 ATTCAACTC-AAT-TCAATACTT
9883482 AT
1 AT
9883484 CTTATAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 10 0.48
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTCAACTCAATTCAATACTT
Found at i:9885177 original size:22 final size:22
Alignment explanation
Indices: 9885149--9885204 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
9885139 CGGGTTGATG
*
9885149 ACACGGGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACACCAGCC
*
9885171 ACACGGGCGTGTTACACCAGCC
1 ACACGGGCGTGTCACACCAGCC
*
9885193 ACACAGGCGTGT
1 ACACGGGCGTGT
9885205 GGTACTATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.34, G:0.29, T:0.14
Consensus pattern (22 bp):
ACACGGGCGTGTCACACCAGCC
Found at i:9886265 original size:13 final size:15
Alignment explanation
Indices: 9886228--9886266 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
9886218 AGACATTTTA
9886228 ATTTATTATAACACT
1 ATTTATTATAACACT
9886243 AATTTATTATAACACT
1 -ATTTATTATAACACT
9886259 -TTT-TTATA
1 ATTTATTATA
9886267 GTAATGTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 3 0.13
16 15 0.65
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTATTATAACACT
Found at i:9886265 original size:16 final size:16
Alignment explanation
Indices: 9886226--9886258 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9886216 ACAGACATTT
9886226 TAATTTATTATAACAC
1 TAATTTATTATAACAC
9886242 TAATTTATTATAACAC
1 TAATTTATTATAACAC
9886258 T
1 T
9886259 TTTTTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTTATTATAACAC
Found at i:9886399 original size:22 final size:21
Alignment explanation
Indices: 9886355--9886399 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
9886345 GTCATTGGTG
*
9886355 TAAAAAAAATATAGAATGATT
1 TAAAAAAAATATAGAATAATT
9886376 TAAAAATAAATATA-AATAACTT
1 TAAAAA-AAATATAGAATAA-TT
9886398 TA
1 TA
9886400 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAAAAAAATATAGAATAATT
Found at i:9887198 original size:27 final size:27
Alignment explanation
Indices: 9887168--9887254 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
9887158 ATTATTTAAT
*
9887168 ATTTTTTCATTTATGTAATTTTAATTA
1 ATTTTTTCATTTATGTATTTTTAATTA
* *
9887195 A--TTTTAATTTTTGAATATTATTTAA-TA
1 ATTTTTTCATTTATG--TATT-TTTAATTA
*
9887222 TTTTTTTCATTTATGTATTTTTAATTA
1 ATTTTTTCATTTATGTATTTTTAATTA
9887249 ATTTTT
1 ATTTTT
9887255 ATTTTATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
25 10 0.21
26 5 0.11
27 17 0.36
28 5 0.11
29 10 0.21
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (27 bp):
ATTTTTTCATTTATGTATTTTTAATTA
Found at i:9887222 original size:53 final size:54
Alignment explanation
Indices: 9887142--9887259 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
9887132 GTAACGATTT
* *
9887142 ATTTTAAATATTGAATATTATTTAATA-TTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAATTA
*
9887195 ATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTATTTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAATTA
*
9887249 ATTTTTATTTT
1 ATTTTAATTTT
9887260 ATAATTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 25 0.42
54 35 0.58
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (54 bp):
ATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAATTA
Found at i:9887233 original size:29 final size:29
Alignment explanation
Indices: 9887152--9887233 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 29
9887142 ATTTTAAATA
9887152 TTGAATATTATTTAATA-TTTTTTCATTT
1 TTGAATATTATTTAATATTTTTTTCATTT
* * ** *
9887180 ATG--TAAT-TTTAAT-TAATTTTAATTT
1 TTGAATATTATTTAATATTTTTTTCATTT
9887205 TTGAATATTATTTAATATTTTTTTCATTT
1 TTGAATATTATTTAATATTTTTTTCATTT
9887234 ATGTATTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
25 16 0.41
26 3 0.08
27 3 0.08
28 8 0.21
29 9 0.23
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (29 bp):
TTGAATATTATTTAATATTTTTTTCATTT
Found at i:9888954 original size:35 final size:35
Alignment explanation
Indices: 9888890--9889087 Score: 227
Period size: 35 Copynumber: 5.6 Consensus size: 35
9888880 CATGGCAAAG
9888890 TGTGAAACGTAAGGTAT-AGTATTAACCATACTGAGT
1 TGTGAAACGT-AGGTATGA-TATTAACCATACTGAGT
* *
9888926 TGTGAAACGTAGGTATGATATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
* * *
9888961 TGTGAAATGTAGGTATGGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
*
9888996 TGTGAAACGTAGGTATGATATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
** ** ** * *
9889031 TAAGAAACGTAGGTATGGCATTTCCCATACCGAAT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
* *
9889066 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGATATT
9889088 TCAATGAGGA
Statistics
Matches: 138, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
35 127 0.92
36 11 0.08
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGATATTAACCATACTGAGT
Found at i:9888995 original size:70 final size:70
Alignment explanation
Indices: 9888890--9889082 Score: 269
Period size: 70 Copynumber: 2.7 Consensus size: 70
9888880 CATGGCAAAG
*
9888890 TGTGAAACGTAAGGTATAGTATTAACCATACTGAGTTGTGAAACGTAGGTATGATATCATCCATA
1 TGTGAAACGT-AGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGATATCATCCATA
9888955 CTGAGT
65 CTGAGT
* * *
9888961 TGTGAAATGTAGGTATGGTATTAACCATATTGAGTTGTGAAACGTAGGTATGATATTATCCATAC
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGATATCATCCATAC
9889026 TGAGT
66 TGAGT
** * ** * * *
9889031 TAAGAAACGTAGGTATGGCATTTCCCATACCGAATTGTGAAATGTAGGTATG
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATG
9889083 GTATTTCAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 99 0.92
71 9 0.08
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGATATCATCCATAC
TGAGT
Found at i:9889059 original size:105 final size:105
Alignment explanation
Indices: 9888890--9889087 Score: 285
Period size: 105 Copynumber: 1.9 Consensus size: 105
9888880 CATGGCAAAG
**
9888890 TGTGAAACGTAAGGTATAGTATTAACCATACTGAGTTGTGAAACGTAGGTATGATATCATCCATA
1 TGTGAAACGTAAGGTATAGTATTAACCATACTGAGTTAAGAAACGTAGGTATGATATCA-CCATA
* *
9888955 CTGAGTTGTGAAATGTAGGTATGGTATTAACCATATTGAGT
65 CCGAATTGTGAAATGTAGGTATGGTATTAACCATATTGAGT
* *
9888996 TGTGAAACGT-AGGTAT-GATATTATCCATACTGAGTTAAGAAACGTAGGTATGGCATTTC-CCA
1 TGTGAAACGTAAGGTATAG-TATTAACCATACTGAGTTAAGAAACGTAGGTAT-G-ATATCACCA
9889058 TACCGAATTGTGAAATGTAGGTATGGTATT
63 TACCGAATTGTGAAATGTAGGTATGGTATT
9889088 TCAATGAGGA
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
104 1 0.01
105 67 0.81
106 11 0.13
107 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (105 bp):
TGTGAAACGTAAGGTATAGTATTAACCATACTGAGTTAAGAAACGTAGGTATGATATCACCATAC
CGAATTGTGAAATGTAGGTATGGTATTAACCATATTGAGT
Found at i:9890363 original size:7 final size:7
Alignment explanation
Indices: 9890348--9890393 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
9890338 AGTCGTTTCA
9890348 TATTTAG
1 TATTTAG
*
9890355 TACTTAG
1 TATTTAG
9890362 TATTTAG
1 TATTTAG
9890369 TATTTAG
1 TATTTAG
9890376 TATTTAG
1 TATTTAG
9890383 TATTTAG
1 TATTTAG
9890390 TATT
1 TATT
9890394 ATGTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (7 bp):
TATTTAG
Found at i:9890940 original size:30 final size:30
Alignment explanation
Indices: 9890892--9890948 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9890882 TGATGGGACG
*
9890892 AGCCCATCAACAGCGCCCATACAATCACCA
1 AGCCCATCAACAGCGCCCACACAATCACCA
* * *
9890922 AGCCTATCAATAGTGCCCACACAATCA
1 AGCCCATCAACAGCGCCCACACAATCA
9890949 TTGGGCCCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.39, G:0.11, T:0.14
Consensus pattern (30 bp):
AGCCCATCAACAGCGCCCACACAATCACCA
Found at i:9891076 original size:18 final size:18
Alignment explanation
Indices: 9891055--9891101 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
9891045 CGTATCCTAG
9891055 CCCTTATATGTATCATAA
1 CCCTTATATGTATCATAA
9891073 CCCTTATATGTATCATAA
1 CCCTTATATGTATCATAA
9891091 CCCTTATATGT
1 CCCTTATATGT
9891102 TTCCTTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (18 bp):
CCCTTATATGTATCATAA
Found at i:9894869 original size:126 final size:125
Alignment explanation
Indices: 9894644--9894891 Score: 336
Period size: 126 Copynumber: 2.0 Consensus size: 125
9894634 GGTCAAGCAT
* * *
9894644 GAACTACTGCAGAAAAAGAGCGTCTAAATGAGAGGTTTTTTCAGAAATTTTGCTGACAGTGCATC
1 GAACTACTGCAGAAAAAGAGCGCCCAAATGAGAGATTTTTTCAGAAATTTTGCTGACAGTGCATC
*
9894709 CTACTTGAAGCAGTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTAG
66 CTACTTGAAGCAGTTTTTACACTATTAGTTCAGAAACATCTTCTC-AAATTATTTTTTTAG
* ** * ** * *
9894770 GAACTACTGTAGAAAAAGAGCGCCCACGTGGGAGATTTTTTTTGTAATTTTGTTGACAGTGCATC
1 GAACTACTGCAGAAAAAGAGCGCCCAAATGAGAGATTTTTTCAGAAATTTTGCTGACAGTGCATC
* * *
9894835 CTTCTTGAAG-TGTTTTTGACACTATTAGTTCAGAAACGTCTTCTCAAATTATTTTTT
66 CTACTTGAAGCAGTTTTT-ACACTATTAGTTCAGAAACATCTTCTCAAATTATTTTTT
9894892 CAGGGTCAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
125 18 0.17
126 88 0.83
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (125 bp):
GAACTACTGCAGAAAAAGAGCGCCCAAATGAGAGATTTTTTCAGAAATTTTGCTGACAGTGCATC
CTACTTGAAGCAGTTTTTACACTATTAGTTCAGAAACATCTTCTCAAATTATTTTTTTAG
Found at i:9899056 original size:18 final size:18
Alignment explanation
Indices: 9899033--9899092 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
9899023 AATCGGTTAA
*
9899033 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
9899051 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
9899069 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
9899087 TCAGTA
1 TCAGTA
9899093 GCAGGCAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:9899980 original size:11 final size:11
Alignment explanation
Indices: 9899964--9899995 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
9899954 TACATAATAA
9899964 TAATAATAACT
1 TAATAATAACT
9899975 TAATAATAACT
1 TAATAATAACT
9899986 TATATAATAA
1 TA-ATAATAA
9899996 GTAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Found at i:9900150 original size:31 final size:31
Alignment explanation
Indices: 9900104--9900162 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9900094 ATATCAATTT
*
9900104 AATAATAATAAATACATTAATAT-TTACTTA
1 AATAATAATAAATACATAAATATATTACTTA
9900134 AATAATAAGTAAATACATAAATATATTAC
1 AATAATAA-TAAATACATAAATATATTAC
9900163 AAATGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (31 bp):
AATAATAATAAATACATAAATATATTACTTA
Found at i:9900581 original size:22 final size:21
Alignment explanation
Indices: 9900553--9900605 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
9900543 TAAACACCAT
9900553 AAACCCTAGTTTAATTTATTTA
1 AAACCCTAGTTT-ATTTATTTA
*
9900575 AAACCCTAACTTTATTTATTTA
1 AAACCCT-AGTTTATTTATTTA
*
9900597 AAACTCTAG
1 AAACCCTAG
9900606 AACCCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.81
23 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (21 bp):
AAACCCTAGTTTATTTATTTA
Found at i:9900633 original size:34 final size:34
Alignment explanation
Indices: 9900583--9900651 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
9900573 TAAAACCCTA
* * *
9900583 ACTTTATTTATTTAAAACTC-TAGAACCCTAATTT
1 ACTTAATTCATTTAAAAATCATA-AACCCTAATTT
9900617 ACTTAATTCATTTAAAAATCATAAACCCTAATTT
1 ACTTAATTCATTTAAAAATCATAAACCCTAATTT
9900651 A
1 A
9900652 AATAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.41
Consensus pattern (34 bp):
ACTTAATTCATTTAAAAATCATAAACCCTAATTT
Found at i:9900658 original size:34 final size:34
Alignment explanation
Indices: 9900592--9900658 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
9900582 AACTTTATTT
* **
9900592 ATTTAAAACTCTAGAACCCTAATTTACTTAATTC
1 ATTTAAAAATCTAGAACCCTAATTTAAATAATTC
9900626 ATTTAAAAATCATA-AACCCTAATTTAAATAATT
1 ATTTAAAAATC-TAGAACCCTAATTTAAATAATT
9900659 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (34 bp):
ATTTAAAAATCTAGAACCCTAATTTAAATAATTC
Found at i:9902224 original size:15 final size:15
Alignment explanation
Indices: 9902204--9902260 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
9902194 GTTCAATATT
9902204 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9902219 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
9902238 AATATATTAATAATA
1 AATATTTTAATAATA
9902253 AATATTTT
1 AATATTTT
9902261 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9904994 original size:18 final size:18
Alignment explanation
Indices: 9904966--9905000 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9904956 CAGTAACAGG
9904966 AGAAGTGAAG-AAGAAAA
1 AGAAGTGAAGAAAGAAAA
9904983 AGAAGATGAAGAAAGAAA
1 AGAAG-TGAAGAAAGAAA
9905001 GGGAAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.06
Consensus pattern (18 bp):
AGAAGTGAAGAAAGAAAA
Found at i:9906174 original size:3 final size:3
Alignment explanation
Indices: 9906168--9906206 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9906158 TTATATAGTC
9906168 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9906207 CCTCCTCCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9919090 original size:24 final size:26
Alignment explanation
Indices: 9919043--9919095 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
9919033 TTCTAAAACA
**
9919043 ATAAATTTATTTTTTTAAACAAAATT
1 ATAAATTTATTTTTAGAAACAAAATT
9919069 ATAAATTTA-TTTTAGAAA-AAAATT
1 ATAAATTTATTTTTAGAAACAAAATT
9919093 ATA
1 ATA
9919096 TTGATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 7 0.28
26 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATAAATTTATTTTTAGAAACAAAATT
Found at i:9919118 original size:23 final size:23
Alignment explanation
Indices: 9919088--9919133 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9919078 TTTTAGAAAA
9919088 AAATTATATTGATAAATT-GAATT
1 AAATTATATT-ATAAATTGGAATT
*
9919111 AAATTATATTATAGATTGGAATT
1 AAATTATATTATAAATTGGAATT
9919134 TGAACCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (23 bp):
AAATTATATTATAAATTGGAATT
Found at i:9919982 original size:25 final size:26
Alignment explanation
Indices: 9919941--9919992 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
9919931 AAATCATCAA
9919941 CCCAATTAAACCAAACTAAACCCAAC
1 CCCAATTAAACCAAACTAAACCCAAC
*
9919967 CCCAATTAAACC-AACTAAGCCCAAC
1 CCCAATTAAACCAAACTAAACCCAAC
9919992 C
1 C
9919993 TACCCTAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.46, C:0.40, G:0.02, T:0.12
Consensus pattern (26 bp):
CCCAATTAAACCAAACTAAACCCAAC
Found at i:9921320 original size:4 final size:4
Alignment explanation
Indices: 9921311--9921343 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
9921301 ATTTTAATCC
*
9921311 ATTT ATTT ATTT ATTT ATTT ATTT ATCT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
9921344 CTTGTTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:9923587 original size:21 final size:21
Alignment explanation
Indices: 9923562--9923617 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
9923552 TTTAATGTTT
*
9923562 TTTAATTATTTTTTAAA-TTC
1 TTTAATTATTTTTTAAACATC
*
9923582 TATTAACTATGTTTTTAAACATC
1 T-TTAATTAT-TTTTTAAACATC
*
9923605 TTTTATTATTTTT
1 TTTAATTATTTTT
9923618 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 14 0.48
23 3 0.10
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTAATTATTTTTTAAACATC
Found at i:9933877 original size:15 final size:15
Alignment explanation
Indices: 9933859--9933892 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9933849 TTTAAAAATT
9933859 TTGATGATAATAAAA
1 TTGATGATAATAAAA
9933874 TTGATGATAATAAAA
1 TTGATGATAATAAAA
9933889 TTGA
1 TTGA
9933893 CGAGCAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
TTGATGATAATAAAA
Found at i:9938278 original size:21 final size:21
Alignment explanation
Indices: 9938245--9938296 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9938235 GTAGCAACAT
9938245 AATAGTG--AAATAATAGCAA
1 AATAGTGAAAAATAATAGCAA
*
9938264 AATAGTGAAAAATAATAGGAA
1 AATAGTGAAAAATAATAGCAA
*
9938285 AACAGTGAAAAA
1 AATAGTGAAAAA
9938297 GTATCAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.24
21 22 0.76
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (21 bp):
AATAGTGAAAAATAATAGCAA
Found at i:9947955 original size:15 final size:15
Alignment explanation
Indices: 9947935--9947966 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9947925 AATTTCTAAA
9947935 ATGATGATTATTCTG
1 ATGATGATTATTCTG
9947950 ATGATGATTATTCTG
1 ATGATGATTATTCTG
9947965 AT
1 AT
9947967 AGTAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (15 bp):
ATGATGATTATTCTG
Found at i:9950925 original size:33 final size:33
Alignment explanation
Indices: 9950888--9951011 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
9950878 CTCTGTTTCA
9950888 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
9950921 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
9950954 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
9950987 GGTTGCTGGACAGTAGCTAGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
9951012 CAAGATGAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:9956862 original size:24 final size:24
Alignment explanation
Indices: 9956834--9956900 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
9956824 TCTTCCCCTC
9956834 ATAATTAAATTATATATTTTTATG
1 ATAATTAAATTATATATTTTTATG
* * *
9956858 ATAATAAAAATATA-ATTTCATTATT
1 ATAATTAAATTATATATTT--TTATG
*
9956883 TTAA-TAAATTATAT-TTTT
1 ATAATTAAATTATATATTTT
9956901 ATAATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.03
23 4 0.12
24 22 0.65
25 7 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
ATAATTAAATTATATATTTTTATG
Found at i:9956871 original size:22 final size:21
Alignment explanation
Indices: 9956845--9956902 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
9956835 TAATTAAATT
9956845 ATATATTTTTATGATAATAAAA
1 ATATATTTTTATGATAAT-AAA
**
9956867 ATATAATTTCATTATTTTAATAAA
1 ATAT-ATTT--TTATGATAATAAA
*
9956891 TTATATTTTTAT
1 ATATATTTTTAT
9956903 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.13
22 4 0.13
23 8 0.27
24 6 0.20
25 8 0.27
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATATTTTTATGATAATAAA
Found at i:9956915 original size:24 final size:24
Alignment explanation
Indices: 9956846--9956917 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 24
9956836 AATTAAATTA
* **
9956846 TATATTTTTATGATAAT-AAAAA-
1 TATATTTTTATAATTTTAAAAAAT
* * * *
9956868 TATAATTTCATTATTTTAATAAAT
1 TATATTTTTATAATTTTAAAAAAT
9956892 TATATTTTTATAATTTTAAAAAAT
1 TATATTTTTATAATTTTAAAAAAT
9956916 TA
1 TA
9956918 AATTAAATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 22 0.58
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TATATTTTTATAATTTTAAAAAAT
Found at i:9957396 original size:16 final size:16
Alignment explanation
Indices: 9957357--9957412 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
9957347 TGTTTGATTC
* *
9957357 ACTGTAATGGAATAAA
1 ACTGTAATGAAATAGA
* * *
9957373 ACTATAATGTAATATA
1 ACTGTAATGAAATAGA
*
9957389 ATTGTAATGAAATAGA
1 ACTGTAATGAAATAGA
9957405 ACTGTAAT
1 ACTGTAAT
9957413 CAATAATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.32
Consensus pattern (16 bp):
ACTGTAATGAAATAGA
Found at i:9957628 original size:37 final size:37
Alignment explanation
Indices: 9957576--9957646 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
9957566 TTATTATTAA
9957576 ATTTTAATAAGATTATTATTAAAA-ATAATTTAATCAT
1 ATTTTAATAAGATTATTA-TAAAATATAATTTAATCAT
9957613 ATTTTAATATA-ATTATTATAAAATATAATTTAAT
1 ATTTTAATA-AGATTATTATAAAATATAATTTAAT
9957647 AAAAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
36 5 0.16
37 26 0.81
38 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTTAATAAGATTATTATAAAATATAATTTAATCAT
Found at i:9957645 original size:26 final size:25
Alignment explanation
Indices: 9957603--9957680 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
9957593 ATTAAAAATA
*
9957603 ATTTAATCATAT-TTTAATATAATT
1 ATTTAATAATATATTTAATATAATT
* *
9957627 ATTATAA-AATATAATTTAATAAAAATA
1 ATT-TAATAATAT-ATTTAAT-ATAATT
*
9957654 ATTTAATAATATTTTTAATATAATT
1 ATTTAATAATATATTTAATATAATT
9957679 AT
1 AT
9957681 CTTTATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
24 7 0.16
25 9 0.21
26 15 0.35
27 12 0.28
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATAATATATTTAATATAATT
Found at i:9957656 original size:14 final size:15
Alignment explanation
Indices: 9957618--9957662 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
9957608 ATCATATTTT
*
9957618 AATATAATTATTATAA
1 AATATAATT-TAATAA
9957634 AATATAATTTAATAA
1 AATATAATTTAATAA
9957649 AA-ATAATTTAATAA
1 AATATAATTTAATAA
9957663 TATTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 12 0.43
15 7 0.25
16 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATAATTTAATAA
Found at i:9957693 original size:51 final size:52
Alignment explanation
Indices: 9957591--9957705 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 52
9957581 AATAAGATTA
*
9957591 TTAT-TAAAAATAATTTAATCATATTTTAATATAATTATTATAAAATATAAT
1 TTATATAAAAATAATTTAATAATATTTTAATATAATTATTATAAAATATAAT
* *
9957642 TTA-ATAAAAATAATTTAATAATATTTTTAATATAATTATCT-TTATAT-TAAT
1 TTATATAAAAATAATTTAATAATA-TTTTAATATAATTAT-TATAAAATATAAT
*
9957693 TTATATTAAAATA
1 TTATATAAAAATA
9957706 TTTTTGTTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 28 0.50
52 27 0.48
53 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (52 bp):
TTATATAAAAATAATTTAATAATATTTTAATATAATTATTATAAAATATAAT
Found at i:9957704 original size:52 final size:52
Alignment explanation
Indices: 9957592--9957705 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
9957582 ATAAGATTAT
*
9957592 TATTAAAAATAATTTAATCATATTTTAATATAATTATTATAAAATATAATTTA
1 TATT-AAAATAATTTAATAATATTTTAATATAATTATTATAAAATATAATTTA
* * *
9957645 -ATAAAAATAATTTAATAATATTTTTAATATAATTATCT-TTATAT-TAATTTA
1 TATTAAAATAATTTAATAATA-TTTTAATATAATTAT-TATAAAATATAATTTA
9957696 TATTAAAATA
1 TATTAAAATA
9957706 TTTTTGTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
51 23 0.43
52 29 0.55
53 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (52 bp):
TATTAAAATAATTTAATAATATTTTAATATAATTATTATAAAATATAATTTA
Found at i:9957732 original size:10 final size:10
Alignment explanation
Indices: 9957717--9957814 Score: 64
Period size: 10 Copynumber: 10.1 Consensus size: 10
9957707 TTTTGTTGTT
9957717 TTATATTAAA
1 TTATATTAAA
9957727 TTATATTAAA
1 TTATATTAAA
9957737 TTATATTAAA
1 TTATATTAAA
*
9957747 ATAT-TTAAA
1 TTATATTAAA
**
9957756 --ATATTTTA
1 TTATATTAAA
9957764 TT-T-TTAAA
1 TTATATTAAA
*
9957772 TTATATTTTGAA
1 TTATA--TTAAA
* **
9957784 TTA-AATATT
1 TTATATTAAA
9957793 TTATATTAAA
1 TTATATTAAA
9957803 TTATATTCAAA
1 TTATATT-AAA
9957814 T
1 T
9957815 ATTCAAATAC
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
7 2 0.03
8 8 0.12
9 11 0.17
10 33 0.50
11 5 0.08
12 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (10 bp):
TTATATTAAA
Found at i:9957763 original size:44 final size:45
Alignment explanation
Indices: 9957683--9957778 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 45
9957673 ATAATTATCT
* **** *
9957683 TTATATTAATTTATATTAAAATATTTTTGTTGTTTTA-TATTAAA
1 TTATATTAAATTATATTAAAATATTTAAAATATTTTATTATTAAA
*
9957727 TTATATTAAATTATATTAAAATATTTAAAATATTTTATTTTTAAA
1 TTATATTAAATTATATTAAAATATTTAAAATATTTTATTATTAAA
9957772 TTATATT
1 TTATATT
9957779 TTGAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 31 0.70
45 13 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (45 bp):
TTATATTAAATTATATTAAAATATTTAAAATATTTTATTATTAAA
Found at i:9959535 original size:13 final size:14
Alignment explanation
Indices: 9959508--9959536 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9959498 TAATGTAACC
9959508 GAAACTAATTAATT
1 GAAACTAATTAATT
9959522 GAAACTAA-TAATT
1 GAAACTAATTAATT
9959535 GA
1 GA
9959537 CAATGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (14 bp):
GAAACTAATTAATT
Found at i:9961228 original size:21 final size:20
Alignment explanation
Indices: 9961181--9961230 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
9961171 ATAGCCCAGG
* * *
9961181 TCGTATGGCTTCACACATGG
1 TCGTGTGGCTTCACACACGC
*
9961201 TCATGTGGCTTCCACACACGC
1 TCGTGTGGCTT-CACACACGC
9961222 TCGTGTGGC
1 TCGTGTGGC
9961231 CAGACCGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (20 bp):
TCGTGTGGCTTCACACACGC
Found at i:9967809 original size:63 final size:64
Alignment explanation
Indices: 9967727--9967932 Score: 208
Period size: 63 Copynumber: 3.2 Consensus size: 64
9967717 AACATGGGCG
* * *
9967727 TGTGCCCAGGTCGTGTAACTCACTGTTTGTA-GTATAAAAACCATATGGCC-AGAGACAC-AGGC
1 TGTGCCTAGGCCGTGTAACTCACTGTTTGTAGGTATAAAAACCACATGGCCAAG-GACACGA-GC
9967789 A
64 A
* *
9967790 TGTGCCTAGGCCGTGTAACTCACTGTTTG-AGGTATAGAAACCACATGGCCAAGGACACGAGCT
1 TGTGCCTAGGCCGTGTAACTCACTGTTTGTAGGTATAAAAACCACATGGCCAAGGACACGAGCA
* * * * * * *
9967853 TGTGCCTAAGCCATGTAACTCACAGTTTGT-GCT-TAAAAAACCACATTGCCAAGGCACATGGGC
1 TGTGCCTAGGCCGTGTAACTCACTGTTTGTAGGTAT-AAAAACCACATGGCCAAGG-ACACGAGC
*
9967916 G
64 A
*
9967917 TGTGCCCAGGCCGTGT
1 TGTGCCTAGGCCGTGT
9967933 GGCAGAATGT
Statistics
Matches: 120, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
62 2 0.02
63 96 0.80
64 22 0.18
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (64 bp):
TGTGCCTAGGCCGTGTAACTCACTGTTTGTAGGTATAAAAACCACATGGCCAAGGACACGAGCA
Found at i:9969280 original size:13 final size:13
Alignment explanation
Indices: 9969262--9969286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9969252 CAAACATTTC
9969262 AAAAACACTTTTG
1 AAAAACACTTTTG
9969275 AAAAACACTTTT
1 AAAAACACTTTT
9969287 TCACAGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAAACACTTTTG
Found at i:9970002 original size:6 final size:6
Alignment explanation
Indices: 9969987--9970022 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
9969977 AATAATTATA
*
9969987 TATATG TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT
9970023 AAATCACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:9970111 original size:21 final size:19
Alignment explanation
Indices: 9970069--9970111 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9970059 AAAACTTAAA
* *
9970069 AAATAACTTACCCAACTAT
1 AAATAACTAACCCAAATAT
9970088 AAATAACTCAACCCAAAATAT
1 AAATAACT-AACCC-AAATAT
9970109 AAA
1 AAA
9970112 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAACTAACCCAAATAT
Found at i:9970989 original size:26 final size:27
Alignment explanation
Indices: 9970956--9971006 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
9970946 TTTTCACATA
*
9970956 TTTAAAATTTT-AATATATTTAAAATT
1 TTTAAAATTTTAAATATATTAAAAATT
9970982 TTTAAAATTTTAAATATATTAAAAA
1 TTTAAAATTTTAAATATATTAAAAA
9971007 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAAATTTTAAATATATTAAAAATT
Found at i:9971046 original size:9 final size:9
Alignment explanation
Indices: 9971032--9971127 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
9971022 ACCTATTAAA
9971032 AAATATATT
1 AAATATATT
9971041 AAATATATT
1 AAATATATT
9971050 AAA-AT-TT
1 AAATATATT
*
9971057 TAATATATTT
1 AAATATA-TT
9971067 GAAATATATATT
1 --AA-ATATATT
*
9971079 GAATATATT
1 AAATATATT
9971088 AAAATTATATT
1 -AAA-TATATT
*
9971099 GAATATATT
1 AAATATATT
*
9971108 AAAAAT-TT
1 AAATATATT
*
9971116 TAATATATT
1 AAATATATT
9971125 AAA
1 AAA
9971128 ATTTTAAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
7 4 0.06
8 10 0.15
9 33 0.49
10 7 0.10
11 6 0.09
12 3 0.04
13 5 0.07
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (9 bp):
AAATATATT
Found at i:9971076 original size:38 final size:35
Alignment explanation
Indices: 9971031--9971134 Score: 113
Period size: 38 Copynumber: 2.8 Consensus size: 35
9971021 TACCTATTAA
9971031 AAAATATATTAAATATATTAAAATTTTAATATATTT
1 AAAATATATTAAATATATTAAAATTTTAATATA-TT
*
9971067 GAAATATATATTGAATATATTAAAATTATATTGAATATATT
1 -AAA-ATATATTAAATATATTAAAA-T-T-TT-AATATATT
*
9971108 AAAA-AT-TTTAATATATTAAAATTTTAA
1 AAAATATATTAAATATATTAAAATTTTAA
9971135 AATTGGTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
33 2 0.03
34 2 0.03
35 1 0.02
36 1 0.02
37 17 0.28
38 21 0.35
39 2 0.03
40 4 0.07
41 4 0.07
42 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAATATATTAAATATATTAAAATTTTAATATATT
Found at i:9971077 original size:13 final size:11
Alignment explanation
Indices: 9971058--9971106 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9971048 TTAAAATTTT
9971058 AATATAT-TTG
1 AATATATATTG
9971068 AAATATATATTG
1 -AATATATATTG
**
9971080 AATATAT-TAA
1 AATATATATTG
9971090 AAT-TATATTG
1 AATATATATTG
9971100 AATATAT
1 AATATAT
9971107 TAAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 3 0.10
10 8 0.26
11 17 0.55
12 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
AATATATATTG
Found at i:9971086 original size:22 final size:21
Alignment explanation
Indices: 9971025--9971114 Score: 84
Period size: 20 Copynumber: 4.5 Consensus size: 21
9971015 TATGTTTACC
* * *
9971025 TATTAAAAAATATATTAAATA
1 TATTTAAAATTATATTGAATA
9971046 TA-TTAAAA-T-T-TT-AATA
1 TATTTAAAATTATATTGAATA
*
9971062 TATTTGAAATATATATTGAATA
1 TATTTAAAAT-TATATTGAATA
9971084 TA-TTAAAATTATATTGAATA
1 TATTTAAAATTATATTGAATA
*
9971104 TATTAAAAATT
1 TATTTAAAATT
9971115 TTAATATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
16 6 0.10
17 7 0.12
18 1 0.02
19 2 0.03
20 19 0.33
21 17 0.29
22 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TATTTAAAATTATATTGAATA
Found at i:9972460 original size:25 final size:27
Alignment explanation
Indices: 9972416--9972466 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
9972406 CCCTAAACCA
*
9972416 TTTGTACCTAATTGGGACCT-AATTTT
1 TTTGTACCTAATTGAGACCTGAATTTT
*
9972442 TTTG-ACCTAATTGATACCTGAATTT
1 TTTGTACCTAATTGAGACCTGAATTT
9972467 GTATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (27 bp):
TTTGTACCTAATTGAGACCTGAATTTT
Found at i:9974186 original size:11 final size:11
Alignment explanation
Indices: 9974153--9974185 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
9974143 TATTTTTTAA
9974153 ATTTGTTATTTT
1 ATTT-TTATTTT
9974165 ATTTTTATTTT
1 ATTTTTATTTT
9974176 A-TTTTATTTT
1 ATTTTTATTTT
9974186 TTTACGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 8 0.38
12 4 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:9986140 original size:21 final size:20
Alignment explanation
Indices: 9986116--9986164 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
9986106 ATAAATTTTA
9986116 AAAATAATAAA-TAATATATAT
1 AAAATAATAAAGTAATAT-T-T
*
9986137 AAAA-AGTAAAGTAATATTT
1 AAAATAATAAAGTAATATTT
9986156 AAAATAATA
1 AAAATAATA
9986165 TATAGGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 9 0.38
21 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATAATAAAGTAATATTT
Found at i:9986378 original size:16 final size:17
Alignment explanation
Indices: 9986350--9986381 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9986340 GAAAGATATT
9986350 TATATTATATTAATAAA
1 TATATTATATTAATAAA
9986367 TATATT-TATTAATAA
1 TATATTATATTAATAA
9986382 CGATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATTATATTAATAAA
Found at i:9986687 original size:17 final size:17
Alignment explanation
Indices: 9986665--9986698 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9986655 AATAGTTCTC
*
9986665 AAATAATTTATTTAATA
1 AAATAATTTATATAATA
9986682 AAATAATTTATATAATA
1 AAATAATTTATATAATA
9986699 TTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAATTTATATAATA
Found at i:9986811 original size:16 final size:16
Alignment explanation
Indices: 9986792--9986833 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9986782 TTATTTTTCT
9986792 AATTTATTATTAT-TAA
1 AATTTATTATTATAT-A
* *
9986808 AATTTAATATTATATT
1 AATTTATTATTATATA
9986824 AATTTATTAT
1 AATTTATTAT
9986834 CGTTAACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTATTATTATATA
Found at i:9987627 original size:23 final size:25
Alignment explanation
Indices: 9987601--9987659 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
9987591 ATTCTAGGCT
*
9987601 TATTTTTTTTTTGTA-AATGTAT-A
1 TATTTTTTTTTTGCATAATGTATCA
* *
9987624 TATTTTTAGTTTTGCATAATTTATCA
1 TATTTTT-TTTTTGCATAATGTATCA
9987650 TATTTTTTTT
1 TATTTTTTTT
9987660 ATAATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 7 0.24
24 6 0.21
25 8 0.28
26 8 0.28
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (25 bp):
TATTTTTTTTTTGCATAATGTATCA
Found at i:9989558 original size:18 final size:18
Alignment explanation
Indices: 9989535--9989573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9989525 TAACCAACTA
*
9989535 ATTAACCGAATTTAA-TCG
1 ATTAACC-AAATTAATTCG
9989553 ATTAACCAAATTAATTCG
1 ATTAACCAAATTAATTCG
9989571 ATT
1 ATT
9989574 TTACTTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (18 bp):
ATTAACCAAATTAATTCG
Found at i:9990128 original size:3 final size:3
Alignment explanation
Indices: 9990120--9990145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9990110 ATTTTTTAAA
9990120 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
9990146 AGTTATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9995359 original size:24 final size:25
Alignment explanation
Indices: 9995317--9995369 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
9995307 AAATTTAGCT
* * *
9995317 TTTAATATTTATCTCTTTT-GTCAC
1 TTTAAGATTTATCTATTTTAATCAC
*
9995341 TTTAAGATTTATTTATTTTAATCAC
1 TTTAAGATTTATCTATTTTAATCAC
9995366 TTTA
1 TTTA
9995370 GCTCTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTAAGATTTATCTATTTTAATCAC
Found at i:9995524 original size:29 final size:29
Alignment explanation
Indices: 9995454--9995524 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 29
9995444 AAAGAAATTA
*
9995454 TTAAAAGTTATTATAACATTAAATAAAAT
1 TTAAAAATTATTATAACATTAAATAAAAT
*
9995483 TTAAAAA-TA-TATAA-A-TATATAAATAT
1 TTAAAAATTATTATAACATTAAATAAA-AT
9995509 TTAAAAATTATCTATA
1 TTAAAAATTAT-TATA
9995525 TTAATAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 7 0.19
26 10 0.28
27 7 0.19
28 2 0.06
29 10 0.28
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (29 bp):
TTAAAAATTATTATAACATTAAATAAAAT
Found at i:9995536 original size:21 final size:22
Alignment explanation
Indices: 9995510--9995572 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
9995500 TATAAATATT
9995510 TAAAAATTATCTATATTAATAA
1 TAAAAATTATCTATATTAATAA
* * *
9995532 T-AAAATATATGTAAATT-ATTA
1 TAAAAAT-TATCTATATTAATAA
*
9995553 TAAAAACTATC-ATATTAATA
1 TAAAAATTATCTATATTAATA
9995573 CTGTTAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
20 4 0.13
21 14 0.45
22 13 0.42
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAAATTATCTATATTAATAA
Found at i:9995538 original size:39 final size:41
Alignment explanation
Indices: 9995495--9995572 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
9995485 AAAAATATAT
*
9995495 AAATATA-TAAA-TATT-TAAAAATTATCTATATTAATAATA
1 AAATATAGTAAATTATTATAAAAACTATC-ATATTAATAATA
9995534 AAATATATGTAAATTATTATAAAAACTATCATATTAATA
1 AAATATA-GTAAATTATTATAAAAACTATCATATTAATA
9995573 CTGTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
39 7 0.21
41 4 0.12
42 13 0.38
43 10 0.29
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (41 bp):
AAATATAGTAAATTATTATAAAAACTATCATATTAATAATA
Found at i:9998000 original size:16 final size:16
Alignment explanation
Indices: 9997979--9998010 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9997969 TAAATACGTG
9997979 AAATATAAATTAAAAA
1 AAATATAAATTAAAAA
9997995 AAATATAAATTAAAAA
1 AAATATAAATTAAAAA
9998011 TTTACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATAAATTAAAAA
Found at i:9999256 original size:33 final size:34
Alignment explanation
Indices: 9999214--9999281 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
9999204 CGAATCAAAG
*
9999214 ACTACAAAATTCTAATTCATAA-ATTTTTTTATT
1 ACTACAAAATTCAAATTCATAATATTTTTTTATT
9999247 ACTACAAAATTCAAATTCATAATATTTTTTTATT
1 ACTACAAAATTCAAATTCATAATATTTTTTTATT
9999281 A
1 A
9999282 TGTGTTGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (34 bp):
ACTACAAAATTCAAATTCATAATATTTTTTTATT
Found at i:10001084 original size:20 final size:20
Alignment explanation
Indices: 10001059--10001098 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10001049 TTATTGCGGT
*
10001059 TAGTATAAAAATAATAATAA
1 TAGTATAAAAATAACAATAA
10001079 TAGTATAAAAATAACAATAA
1 TAGTATAAAAATAACAATAA
10001099 CTGTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TAGTATAAAAATAACAATAA
Found at i:10002816 original size:39 final size:39
Alignment explanation
Indices: 10002773--10002849 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
10002763 CCCCAGTCAG
* *
10002773 TCAACAAAATGCAAAATTTACTAGAATGCTTAGTGGGAT
1 TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGAT
* *
10002812 TCAACAAAATGGAAAATTAACCAGAATTCTTAGTGGGA
1 TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGA
10002850 CTGAAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (39 bp):
TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGAT
Found at i:10010830 original size:23 final size:23
Alignment explanation
Indices: 10010795--10010839 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10010785 CTTTTAGAGT
*
10010795 TTTACTATCACAAATATAATATA
1 TTTACAATCACAAATATAATATA
*
10010818 TTTACAATTACAAATATAATAT
1 TTTACAATCACAAATATAATAT
10010840 TAGTTTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTACAATCACAAATATAATATA
Found at i:10018310 original size:18 final size:18
Alignment explanation
Indices: 10018287--10018321 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10018277 ACAATTCTGC
10018287 CGGATTTCTATTTGAGAT
1 CGGATTTCTATTTGAGAT
10018305 CGGATTTCTATTTGAGA
1 CGGATTTCTATTTGAGA
10018322 AGAGATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (18 bp):
CGGATTTCTATTTGAGAT
Found at i:10026771 original size:18 final size:18
Alignment explanation
Indices: 10026715--10026771 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
10026705 CCGGATAATA
10026715 GTCAATAACCAGATTATT
1 GTCAATAACCAGATTATT
** * * *
10026733 GTCTTTTATCA-ATTCAAT
1 GTCAATAACCAGATT-ATT
10026751 GTCAATAACCAGATTATT
1 GTCAATAACCAGATTATT
10026769 GTC
1 GTC
10026772 TTTTATCAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (18 bp):
GTCAATAACCAGATTATT
Found at i:10028709 original size:23 final size:23
Alignment explanation
Indices: 10028651--10028723 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
10028641 TAAGTGCCAA
* *
10028651 ACTGATATGTAGCTGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
* *
10028674 ACTG-GATGTAGCCAAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
10028696 ACTGAAATGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
10028719 ACTGA
1 ACTGA
10028724 TCAATAACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (23 bp):
ACTGAAATGTAGCCGAAGCTACC
Done.