Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 24 of 205
Found at i:7281741 original size:19 final size:19
Alignment explanation
Indices: 7281704--7281742 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7281694 TAAGAGCTTA
*
7281704 TAAATAATTATTAAATTAT
1 TAAATAATTAATAAATTAT
7281723 TAAATAA-TAATAAAGTTAT
1 TAAATAATTAATAAA-TTAT
7281742 T
1 T
7281743 GTGAAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TAAATAATTAATAAATTAT
Found at i:7282845 original size:22 final size:22
Alignment explanation
Indices: 7282807--7282862 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
7282797 GTATTTAAAA
7282807 AAAACAAATAAACTAATAATGG-
1 AAAA-AAATAAACTAATAATGGC
*
7282829 AATAAAATAACACTAATAATGGC
1 AAAAAAATAA-ACTAATAATGGC
7282852 AAAAAAATAAA
1 AAAAAAATAAA
7282863 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.20
22 15 0.50
23 9 0.30
ACGTcount: A:0.66, C:0.09, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAAAAATAAACTAATAATGGC
Found at i:7282871 original size:13 final size:13
Alignment explanation
Indices: 7282853--7282877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7282843 AATAATGGCA
7282853 AAAAAATAAAAAT
1 AAAAAATAAAAAT
7282866 AAAAAATAAAAA
1 AAAAAATAAAAA
7282878 AAACAAGCCA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:7286504 original size:5 final size:5
Alignment explanation
Indices: 7286491--7286520 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
7286481 TTTAATACAG
7286491 TTCATA TTCAA TTCAA TTCAA TTCAA TTCA
1 TTCA-A TTCAA TTCAA TTCAA TTCAA TTCA
7286521 CATCCTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TTCAA
Found at i:7291064 original size:19 final size:19
Alignment explanation
Indices: 7291040--7291083 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7291030 TAAAAGCAAC
7291040 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
7291059 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
7291078 ACAACA
1 ACAACA
7291084 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:7293758 original size:90 final size:90
Alignment explanation
Indices: 7293654--7294053 Score: 640
Period size: 90 Copynumber: 4.4 Consensus size: 90
7293644 ATTAAAAATT
*
7293654 AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACATTTTAAAC
1 AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
7293719 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
* * *
7293744 AATTAATATAATAGTACAATAACATAAATTAAACAAAAAAAAGTCTGTTAAGCTATC-GTTTAAA
1 AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTA-CAGTTTAAA
7293808 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
7293834 AATTAATATAATAGTACAAGTACGACATCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
1 AATTAATATAATAGTAC-A--AC-A-A-CATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
7293899 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
60 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * *
7293930 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAAAGTATGTTAAACCACAGTTTAA
1 AATTAATATAATAGTACAACAACATAAATTAAAC--AAAAAAAAGTATGTTAAACTACAGTTTAA
7293995 ACTTTAAAGTTAGTTAATTGAAGCCTA
64 ACTTTAAAGTTAGTTAATTGAAGCCTA
*
7294022 AATTAATATAATAGTACAACAGCATAAATTAA
1 AATTAATATAATAGTACAACAACATAAATTAA
7294054 TTAATTGAAG
Statistics
Matches: 289, Mismatches: 11, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
90 113 0.39
91 2 0.01
92 87 0.30
93 2 0.01
94 1 0.00
95 3 0.01
96 81 0.28
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:7293962 original size:186 final size:187
Alignment explanation
Indices: 7293649--7294040 Score: 659
Period size: 186 Copynumber: 2.1 Consensus size: 187
7293639 ATTAAATTAA
7293649 AAATTAAT-TAATA-TA-ATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACA
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACA
*
7293711 TTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAA
65 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAA
* * *
7293776 AC-AAAAAAAAGTCTGTTAAGCTATC-GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
130 ACAAAAAAAAAGTATGTTAAACCA-CAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
* *
7293833 AAATTAATATAATAGTACAAGTACGACATCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
*
7293898 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
66 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAAA
7293963 CAAAAAAAAAAGTATGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
131 C-AAAAAAAAAGTATGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
7294021 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
7294041 CAGCATAAAT
Statistics
Matches: 195, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
184 8 0.04
185 5 0.03
186 110 0.56
187 2 0.01
188 70 0.36
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (187 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAAA
CAAAAAAAAAGTATGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
Found at i:7294380 original size:17 final size:17
Alignment explanation
Indices: 7294358--7294409 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
7294348 TTTTATCTAT
*
7294358 TAATATTATGTTATTAC
1 TAATATTATATTATTAC
7294375 TAATATTATATTATTAC
1 TAATATTATATTATTAC
*
7294392 TAATATTACATTATTAC
1 TAATATTATATTATTAC
7294409 T
1 T
7294410 TTGGGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTATATTATTAC
Found at i:7294981 original size:3 final size:3
Alignment explanation
Indices: 7294973--7295002 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7294963 GGTTTATTTT
7294973 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7295003 GGTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7295809 original size:44 final size:44
Alignment explanation
Indices: 7295745--7295835 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
7295735 ATTGCTAAGA
*
7295745 TAATATTAAAATAATATACACTAATCAGAGTTTAAGTAAAAAAT
1 TAATATTAAAATAATATACACTAATCAAAGTTTAAGTAAAAAAT
* * * *
7295789 TAATATTAAAATAATCTACACTAATTAAAGTTTAAGTGAGAAAT
1 TAATATTAAAATAATATACACTAATCAAAGTTTAAGTAAAAAAT
7295833 TAA
1 TAA
7295836 AAACAAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.33
Consensus pattern (44 bp):
TAATATTAAAATAATATACACTAATCAAAGTTTAAGTAAAAAAT
Found at i:7303454 original size:14 final size:15
Alignment explanation
Indices: 7303432--7303508 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7303422 CAATCAAACA
7303432 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
7303446 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
7303461 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
7303481 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
7303495 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
7303509 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:7303473 original size:20 final size:20
Alignment explanation
Indices: 7303448--7303487 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7303438 AATATTTTCC
*
7303448 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7303468 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7303488 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7303493 original size:34 final size:35
Alignment explanation
Indices: 7303436--7303502 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7303426 CAAACACCAG
*
7303436 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7303471 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7303503 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7304975 original size:40 final size:40
Alignment explanation
Indices: 7304915--7305054 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
7304905 AACACACCAG
* * *
7304915 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * *
7304955 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
7304993 -TTGGCACCTAGTACCTCATCGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAA
* *
7305033 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
7305055 ACTCAAAGTC
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 17 0.22
38 12 0.15
39 2 0.03
40 31 0.39
41 17 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:7306023 original size:3 final size:3
Alignment explanation
Indices: 7306015--7306051 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
7306005 TTATTAGTTT
7306015 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7306052 TATATTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7307366 original size:26 final size:26
Alignment explanation
Indices: 7307336--7307389 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
7307326 ATAAGCCACC
7307336 ACGTCCGGGTGTATTCAAAGCTTGAA
1 ACGTCCGGGTGTATTCAAAGCTTGAA
7307362 ACGTCCGGGTGTATTCAAAGCTTGAA
1 ACGTCCGGGTGTATTCAAAGCTTGAA
7307388 AC
1 AC
7307390 CTCTATCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
ACGTCCGGGTGTATTCAAAGCTTGAA
Found at i:7314584 original size:14 final size:14
Alignment explanation
Indices: 7314550--7314584 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7314540 CTACCATTTC
*
7314550 ACTATTATATTGTT
1 ACTATTTTATTGTT
7314564 ACTATTTTATTGTT
1 ACTATTTTATTGTT
*
7314578 ATTATTT
1 ACTATTT
7314585 GGATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (14 bp):
ACTATTTTATTGTT
Found at i:7316134 original size:40 final size:40
Alignment explanation
Indices: 7316085--7316166 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
7316075 CTGGAATAAG
7316085 TATGTTTCCTCTCCGTTGACTGCAGAGGCCTAGGCTGGAT
1 TATGTTTCCTCTCCGTTGACTGCAGAGGCCTAGGCTGGAT
7316125 TATGTTTCCTCTCCGTTGACTGCAGAGGCCTAGGCTGGAT
1 TATGTTTCCTCTCCGTTGACTGCAGAGGCCTAGGCTGGAT
7316165 TA
1 TA
7316167 CAGAAGATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (40 bp):
TATGTTTCCTCTCCGTTGACTGCAGAGGCCTAGGCTGGAT
Found at i:7317078 original size:60 final size:60
Alignment explanation
Indices: 7316975--7317115 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
7316965 CACCTAAATT
* *
7316975 TGACATTTTTTCCTAATTTGGTATCTAAACTTTGTTTTGGCCCAATTCAGTACTTGAACG
1 TGACATTTTTTCCTAATTTGGTACCTAAACTTTGTTTTGGCCCAATTCAGTACCTGAACG
** *
7317035 TGACATATTTTT-CTAATTTGGTACCTAAA-TGTT-TTTTGAGCCCAATTTGGTACCTGAACT
1 TGACAT-TTTTTCCTAATTTGGTACCTAAACT-TTGTTTTG-GCCCAATTCAGTACCTGAACG
*
7317095 TGACATTTTTTCCTAGTTTGG
1 TGACATTTTTTCCTAATTTGG
7317116 CACGTAAGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
59 11 0.15
60 55 0.77
61 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.45
Consensus pattern (60 bp):
TGACATTTTTTCCTAATTTGGTACCTAAACTTTGTTTTGGCCCAATTCAGTACCTGAACG
Found at i:7317607 original size:31 final size:31
Alignment explanation
Indices: 7317570--7317648 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
7317560 TGGACCCAAA
* *
7317570 AAATTTAAGTACCAACTTAAGAAAAAGTTTC
1 AAATTTAAGTACCAAATTAAGAAAAAGTGTC
*
7317601 AAATTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAATTTAAGTACCAAATTAAGAAAAAGTGTC
* * *
7317632 AAGTTCAAATACCAAAT
1 AAATTTAAGTACCAAAT
7317649 ATTATATTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (31 bp):
AAATTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:7318502 original size:6 final size:6
Alignment explanation
Indices: 7318491--7318517 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7318481 ATATTTATCA
7318491 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
7318518 GATTAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:7321029 original size:21 final size:20
Alignment explanation
Indices: 7321005--7321153 Score: 113
Period size: 18 Copynumber: 7.7 Consensus size: 20
7320995 CATCTTGAAG
7321005 GAGAAGGAGGAGGAGAAGATA
1 GAGAAGGAGGAGGAGAAGA-A
* *
7321026 GAGAAGGAGAAGAAGAAGAA
1 GAGAAGGAGGAGGAGAAGAA
7321046 GA-AA-GAGGA-G-G-AG--
1 GAGAAGGAGGAGGAGAAGAA
*
7321059 GAGAAGGAGGAGAAGAAGAA
1 GAGAAGGAGGAGGAGAAGAA
7321079 -AG-AGGAGGAGGAGAAGAA
1 GAGAAGGAGGAGGAGAAGAA
*
7321097 GGAGGAGGAGGAGGAGGAGGAGAA
1 -GA-GA--AGGAGGAGGAGAAGAA
* *
7321121 CGAGGAGGAGGAGGGGAAG--
1 -GAGAAGGAGGAGGAGAAGAA
7321140 GAGAAGGAGGAGGA
1 GAGAAGGAGGAGGA
7321154 AGGAAAGGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 29
0.71 0.09 0.20
Matches are distributed among these distances:
13 2 0.02
14 2 0.02
15 7 0.07
16 1 0.01
17 1 0.01
18 33 0.32
19 4 0.04
20 4 0.04
21 30 0.29
23 1 0.01
24 17 0.17
ACGTcount: A:0.46, C:0.01, G:0.52, T:0.01
Consensus pattern (20 bp):
GAGAAGGAGGAGGAGAAGAA
Found at i:7321056 original size:3 final size:3
Alignment explanation
Indices: 7321050--7321206 Score: 111
Period size: 3 Copynumber: 52.3 Consensus size: 3
7321040 GAAGAAGAAA
* * * * * * *
7321050 GAG GAG GAG GAG AAG GAG GAG AAG AAG AAA GAG GAG GAG GAG AAG AAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* *
7321098 GAG GAG GAG GAG GAG GAG GAG AAC GAG GAG GAG GAG G-G GAAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G-AG GAG
* * * * * * *
7321143 AAG GAG GAG GAAG GA- AAG GAG GAG AAG AAA GAG GAG GAA AAG GAG
1 GAG GAG GAG G-AG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* * *
7321188 GAG AAG GAA AAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG G
7321207 TTGAAGATGA
Statistics
Matches: 120, Mismatches: 30, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
2 3 0.03
3 112 0.93
4 5 0.04
ACGTcount: A:0.45, C:0.01, G:0.54, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:7321101 original size:15 final size:15
Alignment explanation
Indices: 7321006--7321206 Score: 141
Period size: 15 Copynumber: 13.6 Consensus size: 15
7320996 ATCTTGAAGG
7321006 AGAAGGAGGAGGAGA
1 AGAAGGAGGAGGAGA
*
7321021 AGATA-GAGAAGGAGA
1 AGA-AGGAGGAGGAGA
* *
7321036 AGAA-GAAGAAGA-A
1 AGAAGGAGGAGGAGA
7321049 AG-AGGAGGAGGAGA
1 AGAAGGAGGAGGAGA
* * *
7321063 AGGAGGAGAAGAAGA
1 AGAAGGAGGAGGAGA
7321078 A-AGAGGAGGAGGAGA
1 AGA-AGGAGGAGGAGA
7321093 AGAAGGAGGAGGAG-
1 AGAAGGAGGAGGAGA
7321107 -G-AGGAGGAGGAGA
1 AGAAGGAGGAGGAGA
*
7321120 ACG-AGGAGGAGGAGG
1 A-GAAGGAGGAGGAGA
* *
7321135 GGAAGGAGAAGGAGGA
1 AGAAGGAGGAGGA-GA
*
7321151 GGAAGGAAAGGAGGAGA
1 AGAAGG--AGGAGGAGA
* *
7321168 AGAAAGAGGAGGAAA
1 AGAAGGAGGAGGAGA
* * *
7321183 AGGAGGAGAAGGAAA
1 AGAAGGAGGAGGAGA
*
7321198 AGGAGGAGG
1 AGAAGGAGG
7321207 TTGAAGATGA
Statistics
Matches: 150, Mismatches: 23, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
12 12 0.08
13 10 0.07
14 10 0.07
15 97 0.65
16 9 0.06
17 6 0.04
18 6 0.04
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.00
Consensus pattern (15 bp):
AGAAGGAGGAGGAGA
Found at i:7321107 original size:24 final size:24
Alignment explanation
Indices: 7321003--7321206 Score: 171
Period size: 24 Copynumber: 8.4 Consensus size: 24
7320993 ACCATCTTGA
*
7321003 AGGAGAAGGAGGAGGAGAAGATA-G
1 AGGAGGAGGAGGAGGAGAAGA-AGG
* * * * *
7321027 AGAAGGAGAAGAAGAAGAAGAAAG
1 AGGAGGAGGAGGAGGAGAAGAAGG
* * *
7321051 AGGAGGAGGAGAAGGAGGAGAAGA
1 AGGAGGAGGAGGAGGAGAAGAAGG
* *
7321075 AGAAAGAGGAGGAGGAGAAGAAGG
1 AGGAGGAGGAGGAGGAGAAGAAGG
* *
7321099 AGGAGGAGGAGGAGGAGGAGAACG
1 AGGAGGAGGAGGAGGAGAAGAAGG
*
7321123 AGGAGGAGGAGG-GGAAGGAGAAGG
1 AGGAGGAGGAGGAGG-AGAAGAAGG
*
7321147 AGGAGGAAGGAAAGGAGGAGAAGAAAG
1 AGGAGG-AGG--AGGAGGAGAAGAAGG
** *
7321174 AGGAGGAAAAGGAGGAGAAGGAA-A
1 AGGAGGAGGAGGAGGAGAA-GAAGG
7321198 AGGAGGAGG
1 AGGAGGAGG
7321207 TTGAAGATGA
Statistics
Matches: 145, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.02
24 117 0.81
25 6 0.04
26 1 0.01
27 16 0.11
28 2 0.01
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.00
Consensus pattern (24 bp):
AGGAGGAGGAGGAGGAGAAGAAGG
Found at i:7321161 original size:21 final size:20
Alignment explanation
Indices: 7321001--7321163 Score: 91
Period size: 21 Copynumber: 8.3 Consensus size: 20
7320991 CCACCATCTT
*
7321001 GAAGGAGAAGGAGGAGGAGAA
1 GAAGGAGAAGGAGGAGGA-AG
*
7321022 GATA-GAGAAGGA-GAAGAA-
1 GA-AGGAGAAGGAGGAGGAAG
*
7321040 GAAGAAGAA--A-GAGG-AG
1 GAAGGAGAAGGAGGAGGAAG
7321056 G-AGGAGAAGGAGGA-GAA-
1 GAAGGAGAAGGAGGAGGAAG
* *
7321073 GAA-GAAAGAGGAGGAGGAGAA
1 GAAGGAGA-AGGAGGAGGA-AG
*
7321094 GAAGGAGGAGGAGGAGG-AG
1 GAAGGAGAAGGAGGAGGAAG
*
7321113 G-AGGAGAACGAGGAGGAGGAGGG
1 GAAGGAG-A--AGGAGGAGGA-AG
7321136 GAAGGAGAAGGAGGAGGAAG
1 GAAGGAGAAGGAGGAGGAAG
7321156 GAAAGGAG
1 G-AAGGAG
7321164 GAGAAGAAAG
Statistics
Matches: 111, Mismatches: 11, Indels: 40
0.69 0.07 0.25
Matches are distributed among these distances:
15 7 0.06
16 5 0.05
17 7 0.06
18 22 0.20
19 5 0.05
20 7 0.06
21 47 0.42
22 3 0.03
23 3 0.03
24 5 0.05
ACGTcount: A:0.47, C:0.01, G:0.52, T:0.01
Consensus pattern (20 bp):
GAAGGAGAAGGAGGAGGAAG
Found at i:7325120 original size:94 final size:97
Alignment explanation
Indices: 7325015--7325199 Score: 245
Period size: 94 Copynumber: 1.9 Consensus size: 97
7325005 TCAAAAGTCA
** * *
7325015 TTTTTGATGCATTTTGGCAGATC-AAGTACCTAATTGAGTG-GAAAAA-AAAAAGCAGA-GGCTT
1 TTTTTGATGCATTTTGAAAG-TCTAAGTACCCAATTGAGTGCAAAAAATAAAAAGCA-ATGGCTT
*
7325076 AATTGC-TTTTTTTTGAAAAAGTTTGAGGGCTTT
64 AATTACTTTTTTTTTGAAAAAGTTTGAGGGCTTT
*
7325109 TTTTTTATGCATTTTGAAAGTCTAAGTACCCAATTGAGTGCAAAAAATAAAAAGCAATGGCTTAA
1 TTTTTGATGCATTTTGAAAGTCTAAGTACCCAATTGAGTGCAAAAAATAAAAAGCAATGGCTTAA
7325174 TTACTTTTTTTTTTTGAAAAAGTTTG
66 TTAC--TTTTTTTTTGAAAAAGTTTG
7325200 TAGGTTTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
93 2 0.03
94 33 0.42
95 6 0.08
96 18 0.23
99 19 0.24
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (97 bp):
TTTTTGATGCATTTTGAAAGTCTAAGTACCCAATTGAGTGCAAAAAATAAAAAGCAATGGCTTAA
TTACTTTTTTTTTGAAAAAGTTTGAGGGCTTT
Found at i:7325796 original size:29 final size:29
Alignment explanation
Indices: 7325764--7325819 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7325754 TACCTAAATA
7325764 ATATA-AAAAAATAATTAATTACGAAAAAG
1 ATATAGAAAAAA-AATTAATTACGAAAAAG
* *
7325793 ATATAGAAAACAAGTTAATTACGAAAA
1 ATATAGAAAAAAAATTAATTACGAAAA
7325820 TAGGCATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.23
Consensus pattern (29 bp):
ATATAGAAAAAAAATTAATTACGAAAAAG
Found at i:7326039 original size:27 final size:28
Alignment explanation
Indices: 7325984--7326047 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
7325974 AATGGATAAA
*
7325984 TTCTTCATAAGCCCCCTTATTTATTATT
1 TTCTTCATAAGACCCCTTATTTATTATT
* *
7326012 TTCTTCATAA-ACCCTTTTTTTATTATT
1 TTCTTCATAAGACCCCTTATTTATTATT
*
7326039 TGCTTCATA
1 TTCTTCATA
7326048 TATAATTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (28 bp):
TTCTTCATAAGACCCCTTATTTATTATT
Found at i:7342416 original size:15 final size:15
Alignment explanation
Indices: 7342398--7342426 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7342388 TTGATGTTTG
7342398 GTATCATTTTGTTCA
1 GTATCATTTTGTTCA
7342413 GTATCATTTTGTTC
1 GTATCATTTTGTTC
7342427 GTGATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (15 bp):
GTATCATTTTGTTCA
Found at i:7357998 original size:14 final size:12
Alignment explanation
Indices: 7357980--7358036 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 12
7357970 TTTGCTTTCA
7357980 AAATAAAAGAAAT
1 AAATAAAA-AAAT
*
7357993 AAAATAAGAAAAT
1 -AAATAAAAAAAT
7358006 AAATAAATAAAAAT
1 AAAT-AA-AAAAAT
* *
7358020 AAATAAATAAAC
1 AAATAAAAAAAT
7358032 AAATA
1 AAATA
7358037 GGCCGAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 13 0.35
13 8 0.22
14 16 0.43
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:7358035 original size:22 final size:22
Alignment explanation
Indices: 7357979--7358036 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
7357969 GTTTGCTTTC
*
7357979 AAAATAAAAGAAAT-AAAATAAG
1 AAAAT-AAACAAATAAAAATAAG
*
7358001 AAAATAAATAAATAAAAATAA-
1 AAAATAAACAAATAAAAATAAG
7358022 ATAAATAAACAAATA
1 A-AAATAAACAAATA
7358037 GGCCGAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (22 bp):
AAAATAAACAAATAAAAATAAG
Found at i:7358469 original size:17 final size:17
Alignment explanation
Indices: 7358447--7358497 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
7358437 TTTGTAATTG
*
7358447 TTATTTGGACTTTTATT
1 TTATTTGGATTTTTATT
**
7358464 TTATTTTTATTTTTATT
1 TTATTTGGATTTTTATT
*
7358481 TT-TTTGGGTTTTTATT
1 TTATTTGGATTTTTATT
7358497 T
1 T
7358498 GGTTTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.75
Consensus pattern (17 bp):
TTATTTGGATTTTTATT
Found at i:7364112 original size:43 final size:43
Alignment explanation
Indices: 7364051--7364361 Score: 304
Period size: 43 Copynumber: 7.3 Consensus size: 43
7364041 TTTTAAAAAT
* *
7364051 AAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
* * *
7364094 AAACGCCGCAATAGACCATGACCTTTAGCGGCGC-TTCCCCAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
* **
7364136 AAATGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
**
7364179 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
* * * * *
7364222 AAACACCACTAAAGACCATTACCTTTAGCGGCGCTTCTCCCAT
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
* * ** * * * ** **
7364265 AAATGCCGTTATAGGTCATGACTTTTAACAACGCTTTTTCGTAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGC-TTTTCCCAC
** * * *
7364309 AAACGCCATTATAGA--ATTGGCCTTTAGCAGCGCTTTTCACAC
1 AAACGCCGCTATAGACCATT-ACCTTTAGCGGCGCTTTTCCCAC
7364351 AAACGCCGCTA
1 AAACGCCGCTA
7364362 AAAACATATC
Statistics
Matches: 220, Mismatches: 45, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
42 56 0.25
43 147 0.67
44 17 0.08
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCAC
Found at i:7364203 original size:85 final size:86
Alignment explanation
Indices: 7364051--7364257 Score: 290
Period size: 85 Copynumber: 2.4 Consensus size: 86
7364041 TTTTAAAAAT
* * *
7364051 AAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCAATAGACCATGAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCAATAGACCATGAC
*
7364116 CTTTAGCGGCGC-TTCCCCAC
66 CTTTAGCGGCGCTTTCACCAC
* * * *
7364136 AAATGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATCACAAACGCCGCTATAGACCATTAC
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCAATAGACCATGAC
* *
7364201 CTTTAGCGGCGCTTTTATCAC
66 CTTTAGCGGCGCTTTCACCAC
* * *
7364222 AAACACCACTAAAGACCATTACCTTTAGCGGCGCTT
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTT
7364258 CTCCCATAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 70 0.65
86 37 0.35
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCAATAGACCATGAC
CTTTAGCGGCGCTTTCACCAC
Found at i:7364213 original size:128 final size:129
Alignment explanation
Indices: 7364051--7364363 Score: 368
Period size: 128 Copynumber: 2.4 Consensus size: 129
7364041 TTTTAAAAAT
* * *
7364051 AAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGC-AATAGACCATGA
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA-AGACCATGA
* * **
7364115 CCTTTAGCGGCGCTTC-CCCACAAATGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATC-A
65 CCTTTAGCGGCGCTTCTCCCACAAATGCCGCTATAGACCATGACCTTTAACAACGCTTTT-TCGA
7364178 C
129 C
* * *
7364179 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTT-ATCACAAACACCACTAAAGACCATTA
1 AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCA-CACAAACGCCGCTAAAGACCATGA
* * ** *
7364243 CCTTTAGCGGCGCTTCTCCCATAAATGCCGTTATAGGTCATGACTTTTAACAACGCTTTTTCGTA
65 CCTTTAGCGGCGCTTCTCCCACAAATGCCGCTATAGACCATGACCTTTAACAACGCTTTTTCG-A
7364308 C
129 C
** * *
7364309 AAACGCCATTATAGA--ATTGGCCTTTAGCAGCGCTTTTCACACAAACGCCGCTAAA
1 AAACGCCGCTATAGACCATT-ACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
7364364 AACATATCTT
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
128 75 0.48
129 66 0.42
130 16 0.10
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (129 bp):
AAACGCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGACCATGAC
CTTTAGCGGCGCTTCTCCCACAAATGCCGCTATAGACCATGACCTTTAACAACGCTTTTTCGAC
Found at i:7364685 original size:43 final size:43
Alignment explanation
Indices: 7364637--7364727 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
7364627 ACATATGCAA
** * * *
7364637 GGTAATAAATTATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
7364680 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
7364723 -GTAAT
1 GGTAAT
7364728 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:7368948 original size:83 final size:83
Alignment explanation
Indices: 7368829--7369091 Score: 311
Period size: 83 Copynumber: 3.2 Consensus size: 83
7368819 CGTTTACACA
* ** *
7368829 AAAACGCCACTAAT-TTT-A--CAACAATGAAATAACGCCGTTTTGTTAAATTTTTAATTTATTT
1 AAAACGCCACTAATATTTAATTCATCAATGAAATGGCGCCGTTTTGTTAAATTTTTAATATATTT
* *
7368890 TTTGTGGCATTTTTATAG
66 TTTGCGGCATTTTTATAC
* *
7368908 AAAACGCCACTAATATTTAATTCATCAATGAAATGGCGCCGTTTTATTAAATTCTTAATATATTT
1 AAAACGCCACTAATATTTAATTCATCAATGAAATGGCGCCGTTTTGTTAAATTTTTAATATATTT
* * *
7368973 TTTGCAGCGTTTGTATAC
66 TTTGCGGCATTTTTATAC
* * * * * *
7368991 AAAACGCCACTAATATTTAATTCGTCAATGAAACGGTGCCGTTTGGTTAAATTTTAAATGTATTT
1 AAAACGCCACTAATATTTAATTCATCAATGAAATGGCGCCGTTTTGTTAAATTTTTAATATATTT
7369056 TTTGCGGCATTTTT-TAC
66 TTTGCGGCATTTTTATAC
* *
7369073 CAAACGCCGCTAATGATTT
1 AAAACGCCACTAAT-ATTT
7369092 CACTTTTAAA
Statistics
Matches: 155, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
79 14 0.09
80 3 0.02
81 1 0.01
82 15 0.10
83 122 0.79
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (83 bp):
AAAACGCCACTAATATTTAATTCATCAATGAAATGGCGCCGTTTTGTTAAATTTTTAATATATTT
TTTGCGGCATTTTTATAC
Found at i:7369233 original size:14 final size:14
Alignment explanation
Indices: 7369214--7369241 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7369204 ACATCATTAT
7369214 TAATATTATTTAAA
1 TAATATTATTTAAA
7369228 TAATATTATTTAAA
1 TAATATTATTTAAA
7369242 ATTTTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:7369356 original size:17 final size:17
Alignment explanation
Indices: 7369311--7369357 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
7369301 CTTTTACAAT
*
7369311 TATATAATATATATCCA
1 TATAAAATATATATCCA
*
7369328 TATAAAAAATATATCCA
1 TATAAAATATATATCCA
* *
7369345 TATCAATTATATA
1 TATAAAATATATA
7369358 AATCTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAATATATATCCA
Found at i:7370029 original size:7 final size:7
Alignment explanation
Indices: 7370017--7370156 Score: 61
Period size: 7 Copynumber: 19.7 Consensus size: 7
7370007 CTAGTTAATC
7370017 TAAACCA
1 TAAACCA
7370024 TAAACCA
1 TAAACCA
*
7370031 TAAACCC
1 TAAACCA
*
7370038 TTAACACA
1 TAAAC-CA
*
7370046 T-AACCTC
1 TAAACC-A
*
7370053 TAAACCT
1 TAAACCA
*
7370060 TAAACCC
1 TAAACCA
* **
7370067 CAAACTT
1 TAAACCA
*
7370074 TTAACCA
1 TAAACCA
*
7370081 TAAATCA
1 TAAACCA
* *
7370088 TAACCCC
1 TAAACCA
7370095 TAAACCCA
1 TAAA-CCA
*
7370103 TAATCCA
1 TAAACCA
*
7370110 TAAACCT
1 TAAACCA
7370117 TAAACTC-
1 TAAAC-CA
7370124 TAAACCA
1 TAAACCA
* *
7370131 TATACCC
1 TAAACCA
7370138 TAAACCCA
1 TAAA-CCA
*
7370146 AAAACC-
1 TAAACCA
7370152 TAAAC
1 TAAAC
7370157 TATAGTGATA
Statistics
Matches: 97, Mismatches: 29, Indels: 15
0.69 0.21 0.11
Matches are distributed among these distances:
6 6 0.06
7 74 0.76
8 17 0.18
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:7370036 original size:14 final size:14
Alignment explanation
Indices: 7370017--7370156 Score: 86
Period size: 14 Copynumber: 9.9 Consensus size: 14
7370007 CTAGTTAATC
*
7370017 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
7370031 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
7370046 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* **
7370060 TAAACCCCAAACTT
1 TAAACCCTAAACCA
* * *
7370074 TTAACCATAAATCA
1 TAAACCCTAAACCA
*
7370088 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
7370103 TAATCCATAAACCT
1 TAAACCCTAAACCA
*
7370117 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
7370131 TATACCCTAAACCCA
1 TAAACCCTAAA-CCA
*
7370146 -AAAACCTAAAC
1 TAAACCCTAAAC
7370157 TATAGTGATA
Statistics
Matches: 94, Mismatches: 27, Indels: 11
0.71 0.20 0.08
Matches are distributed among these distances:
13 1 0.01
14 67 0.71
15 26 0.28
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:7370078 original size:36 final size:35
Alignment explanation
Indices: 7370015--7370083 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
7370005 TACTAGTTAA
*
7370015 TCTAAACCATAAACCATAAACCCTTAACACATAACC
1 TCTAAACCATAAACCACAAACCCTTAAC-CATAACC
* * **
7370051 TCTAAACCTTAAACCCCAAACTTTTAACCATAA
1 TCTAAACCATAAACCACAAACCCTTAACCATAA
7370084 ATCATAACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (35 bp):
TCTAAACCATAAACCACAAACCCTTAACCATAACC
Found at i:7370383 original size:41 final size:41
Alignment explanation
Indices: 7370337--7370620 Score: 451
Period size: 41 Copynumber: 6.9 Consensus size: 41
7370327 ATTTTAAATT
* *
7370337 CCTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
*
7370378 CCTGAGCATTAGCGGCGCTTCCACAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* * *
7370419 CATGAGCATTAGCGGCGCTTCCTTACAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
**
7370460 CCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
*
7370501 CATGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* **
7370542 CTTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
*
7370583 CCTAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAA
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAA
7370621 TGCCCCGAAA
Statistics
Matches: 221, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 221 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
Found at i:7374251 original size:5 final size:5
Alignment explanation
Indices: 7374243--7374293 Score: 75
Period size: 5 Copynumber: 9.8 Consensus size: 5
7374233 TAGAGTGTGC
*
7374243 AGGAG AGGAG AGGAG AGGAG AGGAG AGGAG AGGAG AGCGAC AGGAG TAGGA
1 AGGAG AGGAG AGGAG AGGAG AGGAG AGGAG AGGAG AG-GAG AGGAG -AGGA
7374294 AGCGGCTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.39, C:0.04, G:0.55, T:0.02
Consensus pattern (5 bp):
AGGAG
Found at i:7381589 original size:67 final size:67
Alignment explanation
Indices: 7381481--7381615 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
7381471 AGAAATTTTC
*
7381481 AACTGATTCTATAGTGCTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
7381546 GG
66 GG
*
7381548 AACTGATTCTATAGTACTTGTTGCATTATTAGTAGGATTGAGCTCATAAGCTCACGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
7381613 GG
66 GG
7381615 A
1 A
7381616 TGAGTCAGTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (67 bp):
AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
GG
Found at i:7381916 original size:3 final size:3
Alignment explanation
Indices: 7381908--7381961 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
7381898 TCTAGTCAAG
7381908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7381956 TAA TAA
1 TAA TAA
7381962 GCAAAGTCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7389653 original size:15 final size:14
Alignment explanation
Indices: 7389632--7389667 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
7389622 ATAATCCTTA
*
7389632 ATAATTATCTTAAT
1 ATAATTATCCTAAT
7389646 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
7389661 ATAATTA
1 ATAATTA
7389668 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:7391929 original size:17 final size:17
Alignment explanation
Indices: 7391873--7391930 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
7391863 ATACGGGGTC
7391873 ATACCAATCGGTCCCTT
1 ATACCAATCGGTCCCTT
* *
7391890 ATACGCAGTCCGATAGGCCCTT
1 ATAC-CAAT-CG---GTCCCTT
7391912 ATACCAATCGGTCCCTT
1 ATACCAATCGGTCCCTT
7391929 AT
1 AT
7391931 CCTTTCAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
17 12 0.38
18 3 0.09
19 2 0.06
20 2 0.06
21 3 0.09
22 10 0.31
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (17 bp):
ATACCAATCGGTCCCTT
Found at i:7400720 original size:13 final size:13
Alignment explanation
Indices: 7400702--7400745 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
7400692 ATTATTATAT
7400702 TTACCATCATAAC
1 TTACCATCATAAC
7400715 TTACCATCATAAC
1 TTACCATCATAAC
7400728 TTACCATACA-AAC
1 TTACCAT-CATAAC
7400741 TTACC
1 TTACC
7400746 TGACCAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 28 0.93
14 2 0.07
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.30
Consensus pattern (13 bp):
TTACCATCATAAC
Found at i:7401442 original size:48 final size:48
Alignment explanation
Indices: 7401387--7401484 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
7401377 AAACTCTCGC
7401387 TTTCTTTCCACTTTTGTTTCTTTTAATTAATGTTTTGATTTCATTATT
1 TTTCTTTCCACTTTTGTTTCTTTTAATTAATGTTTTGATTTCATTATT
7401435 TTTCTTTCCACTTTTGTTTCTTTTAATTAATGTTTTGATTTCATTATT
1 TTTCTTTCCACTTTTGTTTCTTTTAATTAATGTTTTGATTTCATTATT
7401483 TT
1 TT
7401485 AACTTTAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.65
Consensus pattern (48 bp):
TTTCTTTCCACTTTTGTTTCTTTTAATTAATGTTTTGATTTCATTATT
Found at i:7410750 original size:21 final size:21
Alignment explanation
Indices: 7410724--7410767 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7410714 AGACGAGCAA
* *
7410724 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7410745 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7410766 TA
1 TA
7410768 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7414131 original size:21 final size:24
Alignment explanation
Indices: 7414105--7414154 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7414095 AAAAACTATC
7414105 TACAT-ATCAAAT-TTCT-AAGAT
1 TACATAATCAAATATTCTAAAGAT
**
7414126 TACATAATCGTATATTCTAAAGAT
1 TACATAATCAAATATTCTAAAGAT
7414150 TACAT
1 TACAT
7414155 TTAATGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 4 0.17
24 10 0.42
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (24 bp):
TACATAATCAAATATTCTAAAGAT
Found at i:7414617 original size:21 final size:21
Alignment explanation
Indices: 7414593--7414636 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7414583 TATTCGTTTT
*
7414593 AATTAAATTCTT-ATGAATGAC
1 AATTAAATT-TTCACGAATGAC
7414614 AATTAAATTTTCACGAATGAC
1 AATTAAATTTTCACGAATGAC
7414635 AA
1 AA
7414637 CCTCTCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (21 bp):
AATTAAATTTTCACGAATGAC
Found at i:7417344 original size:13 final size:13
Alignment explanation
Indices: 7417326--7417351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7417316 CTAAATCATA
7417326 ATTATAATAATTT
1 ATTATAATAATTT
7417339 ATTATAATAATTT
1 ATTATAATAATTT
7417352 TAGCAAACTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:7419898 original size:27 final size:27
Alignment explanation
Indices: 7419868--7420045 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
7419858 ATATTGAGTC
* * * *
7419868 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
7419895 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7419922 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
7419950 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
7419977 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
7420004 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7420031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7420046 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:7420007 original size:82 final size:81
Alignment explanation
Indices: 7419889--7420044 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
7419879 TGCTATATAA
* *
7419889 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
7419954 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
7419971 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
7420035 CACTTAGTGC
65 CACTTAGTGC
7420045 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:7427962 original size:27 final size:27
Alignment explanation
Indices: 7427932--7428109 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
7427922 ATATTGAGCC
* *
7427932 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
7427959 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
7427986 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
7428014 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
7428041 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
7428068 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
7428095 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7428110 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:7428071 original size:82 final size:81
Alignment explanation
Indices: 7427953--7428108 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
7427943 TGCTATATAA
* * *
7427953 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
7428018 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
7428035 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
7428099 CACTTAGTGC
65 CACTTAGTGC
7428109 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:7435057 original size:22 final size:23
Alignment explanation
Indices: 7435017--7435067 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
7435007 TTATGAAAAC
*
7435017 AAAAAAAAACTCTTTAAAAT-TCA
1 AAAAAAAAACTCTTAAAAATAT-A
*
7435040 AAAAAAAAATTC-TAAAAATATA
1 AAAAAAAAACTCTTAAAAATATA
7435062 AAAAAA
1 AAAAAA
7435068 TCCAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAAAAACTCTTAAAAATATA
Found at i:7435065 original size:23 final size:23
Alignment explanation
Indices: 7435017--7435067 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7435007 TTATGAAAAC
* *
7435017 AAAAAAAAACTCTTTAAAATTCA
1 AAAAAAAAACTCTTAAAAATTAA
*
7435040 AAAAAAAAATTC-TAAAAATATAA
1 AAAAAAAAACTCTTAAAAAT-TAA
7435063 AAAAA
1 AAAAA
7435068 TCCAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAAAAACTCTTAAAAATTAA
Found at i:7437171 original size:3 final size:3
Alignment explanation
Indices: 7437163--7437193 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7437153 CCTCCTTCCC
7437163 CTT CTT CTT C-T CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
7437194 CATTTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:7437443 original size:9 final size:10
Alignment explanation
Indices: 7437412--7437456 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 10
7437402 AATAAAATAG
7437412 TTGTATTATT
1 TTGTATTATT
7437422 TTGGTATTATT
1 TT-GTATTATT
*
7437433 TT-TATTTTT
1 TTGTATTATT
7437442 TTGTATTA-T
1 TTGTATTATT
7437451 TTGTAT
1 TTGTAT
7437457 AAAAAACTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 15 0.48
10 6 0.19
11 10 0.32
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (10 bp):
TTGTATTATT
Found at i:7437447 original size:19 final size:20
Alignment explanation
Indices: 7437415--7437452 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7437405 AAAATAGTTG
7437415 TATTATTTTGGTATTATTTT
1 TATTATTTTGGTATTATTTT
*
7437435 TATT-TTTTTGTATTATTT
1 TATTATTTTGGTATTATTT
7437453 GTATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (20 bp):
TATTATTTTGGTATTATTTT
Found at i:7437978 original size:9 final size:9
Alignment explanation
Indices: 7437937--7438004 Score: 57
Period size: 10 Copynumber: 7.0 Consensus size: 9
7437927 TTCATATTTT
7437937 TAAAAAAT-
1 TAAAAAATA
*
7437945 TAAAAAAAA
1 TAAAAAATA
7437954 TTATAAAAATA
1 -TA-AAAAATA
*
7437965 TTAAAAAATC
1 -TAAAAAATA
7437975 TAAAGAATATA
1 TAAA-AA-ATA
7437986 TAAAAAATA
1 TAAAAAATA
7437995 TAAAATAATA
1 TAAAA-AATA
7438005 ATTTTTGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.14
9 12 0.24
10 16 0.32
11 15 0.30
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (9 bp):
TAAAAAATA
Found at i:7437987 original size:29 final size:28
Alignment explanation
Indices: 7437936--7437999 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
7437926 ATTCATATTT
7437936 TTAAAAAATTAAAAAAAATTATAAAAATA
1 TTAAAAAATTAAAAAAAATTATAAAAA-A
* *
7437965 TTAAAAAATCTAAAGAATA-TATAAAAAA
1 TTAAAAAAT-TAAAAAAAATTATAAAAAA
7437993 TATAAAA
1 T-TAAAA
7438000 TAATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
TTAAAAAATTAAAAAAAATTATAAAAAA
Found at i:7437989 original size:11 final size:10
Alignment explanation
Indices: 7437949--7437999 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
7437939 AAAAATTAAA
7437949 AAAAAT-TAT
1 AAAAATATAT
7437958 AAAAATAT-T
1 AAAAATATAT
*
7437967 AAAAA-ATCT
1 AAAAATATAT
7437976 AAAGAATATAT
1 AAA-AATATAT
7437987 AAAAA-ATAT
1 AAAAATATAT
7437996 AAAA
1 AAAA
7438000 TAATAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 2 0.05
9 24 0.65
10 5 0.14
11 6 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAATATAT
Found at i:7437989 original size:20 final size:18
Alignment explanation
Indices: 7437948--7438004 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
7437938 AAAAAATTAA
7437948 AAAAAATTATAAAAATATT
1 AAAAAATTA-AAAAATATT
*
7437967 AAAAAATCTAAAGAATATAT
1 AAAAAAT-TAAAAAATAT-T
7437987 AAAAAATATAAAATAATA
1 AAAAAAT-TAAAA-AATA
7438005 ATTTTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
20 14 0.44
21 4 0.12
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAATTAAAAAATATT
Found at i:7438218 original size:18 final size:18
Alignment explanation
Indices: 7438195--7438232 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7438185 TAATTTAATT
*
7438195 TTAAAA-AATTAAATCAAA
1 TTAAAATAATAAAAT-AAA
7438213 TTAAAATAATAAAATAAA
1 TTAAAATAATAAAATAAA
7438231 TT
1 TT
7438233 TATCAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAATAATAAAATAAA
Found at i:7446714 original size:19 final size:19
Alignment explanation
Indices: 7446692--7446735 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7446682 TTGATTCATT
7446692 CTATTTAATTATGAATTCA
1 CTATTTAATTATGAATTCA
* * *
7446711 CTATTTATTTATTATTTCA
1 CTATTTAATTATGAATTCA
7446730 CTATTT
1 CTATTT
7446736 TCAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (19 bp):
CTATTTAATTATGAATTCA
Found at i:7451974 original size:27 final size:27
Alignment explanation
Indices: 7451928--7451989 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
7451918 CCGAATATAA
*
7451928 TAAATATATTTTTTTTATTTTTTAATTT
1 TAAA-ATACTTTTTTTATTTTTTAATTT
*
7451956 TAAAATACTTTTTTTATTTTTTATTTT
1 TAAAATACTTTTTTTATTTTTTAATTT
7451983 TAAAATA
1 TAAAATA
7451990 AAATTTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TAAAATACTTTTTTTATTTTTTAATTT
Found at i:7451996 original size:27 final size:27
Alignment explanation
Indices: 7451939--7452006 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
7451929 AAATATATTT
* ***
7451939 TTTTTATTTTTTAATTTTAAAATACTT
1 TTTTTATTTTTTATTTTTAAAATAAAA
7451966 TTTTTATTTTTTATTTTTAAAATAAAA
1 TTTTTATTTTTTATTTTTAAAATAAAA
*
7451993 -TTTTAGTTTTTATT
1 TTTTTATTTTTTATT
7452007 AAAAAATGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 13 0.36
27 23 0.64
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTTTATTTTTTATTTTTAAAATAAAA
Found at i:7453160 original size:20 final size:20
Alignment explanation
Indices: 7453121--7453162 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7453111 CTGTTAGAGT
*
7453121 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
7453141 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
7453161 TA
1 TA
7453163 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:7457885 original size:20 final size:20
Alignment explanation
Indices: 7457846--7457887 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7457836 ATGTTAGAGT
*
7457846 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
7457866 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
7457886 TA
1 TA
7457888 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:7457916 original size:15 final size:15
Alignment explanation
Indices: 7457896--7457926 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7457886 TACCGTTGTA
7457896 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
7457911 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
7457926 A
1 A
7457927 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:7459759 original size:19 final size:19
Alignment explanation
Indices: 7459732--7459769 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7459722 TCACATGTAT
7459732 AAATACATGTACCAAATTA
1 AAATACATGTACCAAATTA
* *
7459751 AAATTCATGTATCAAATTA
1 AAATACATGTACCAAATTA
7459770 CACATTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATACATGTACCAAATTA
Found at i:7467441 original size:169 final size:169
Alignment explanation
Indices: 7467161--7467501 Score: 529
Period size: 169 Copynumber: 2.0 Consensus size: 169
7467151 GGCCTCCCCA
* * *
7467161 AATTCAACGCTACAGATTAAAGTATATCAACAACTAATATTAAAAGCTATCTACAAATCAAACCT
1 AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
*
7467226 CTAATATTACAAAATCATATATTTTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
66 CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
* *
7467291 TTACGTTCCATAATTGTCACGCTTTGTAGATGGGCCTTC
131 TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
* * ** *
7467330 AATTCAATGCTACAGATTAAAGTCCATCAACGGCTAAAATTAAAAGCTATCAACAAATCAAATCT
1 AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
* * * * *
7467395 CTAATATTACAAAATCTTATCTTCTAAGGTTACAAGTAATATCTAAGATTGCATATCTTCGAAGA
66 CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
*
7467460 TTACGTTCCATAATTATCATGCTTTGTAGATGAGCCTTC
131 TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
7467499 AAT
1 AAT
7467502 CTCTCCAAGC
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
169 155 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (169 bp):
AATTCAACGCTACAGATTAAAGTACATCAACAACTAAAATTAAAAGCTATCAACAAATCAAACCT
CTAATATTACAAAATCATATATTCTAAGATTACAAGTAAAATCTAAGATTGCATATCTTCAAAGA
TTACGTTCCATAATTATCACGCTTTGTAGATGAGCCTTC
Found at i:7468938 original size:2 final size:2
Alignment explanation
Indices: 7468931--7468956 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7468921 CCTCCCATTC
7468931 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
7468957 GTGCTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7475940 original size:7 final size:7
Alignment explanation
Indices: 7475928--7475958 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7475918 GTTGTTGCTA
7475928 ATTTGGG
1 ATTTGGG
7475935 ATTTGGG
1 ATTTGGG
7475942 ATTTGGG
1 ATTTGGG
7475949 ATTTGGG
1 ATTTGGG
7475956 ATT
1 ATT
7475959 GGTTTGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
ATTTGGG
Found at i:7477847 original size:21 final size:21
Alignment explanation
Indices: 7477821--7477863 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
7477811 GGTTCGCTGT
*
7477821 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
7477842 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
7477863 A
1 A
7477864 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:7477863 original size:16 final size:16
Alignment explanation
Indices: 7477844--7477876 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7477834 TGTATTGGAT
*
7477844 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
7477860 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
7477876 T
1 T
7477877 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:7477921 original size:45 final size:44
Alignment explanation
Indices: 7477855--7477949 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
7477845 GGATTAGAGG
* *
7477855 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
7477900 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
7477944 TGTAAT
1 TGTAAT
7477950 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:7478132 original size:18 final size:17
Alignment explanation
Indices: 7478111--7478145 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7478101 TTATTATTTA
*
7478111 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7478129 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7478146 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7478139 original size:28 final size:27
Alignment explanation
Indices: 7478069--7478141 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
7478059 TTTATTATCA
*
7478069 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
7478097 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
7478124 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
7478142 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:7478258 original size:144 final size:147
Alignment explanation
Indices: 7478030--7478301 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
7478020 ATGATTATTG
7478030 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
7478095 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
7478160 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
7478179 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
7478241 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
7478302 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:7478276 original size:18 final size:17
Alignment explanation
Indices: 7478255--7478289 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7478245 TTATTATTAA
*
7478255 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7478273 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7478290 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7481816 original size:11 final size:11
Alignment explanation
Indices: 7481802--7481841 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
7481792 TTTGTTTTCT
7481802 TTATTTGTTTA
1 TTATTTGTTTA
*
7481813 TTATTTGTTTTT
1 TTATTTG-TTTA
7481825 TTATTTGTTTA
1 TTATTTGTTTA
7481836 TTATTT
1 TTATTT
7481842 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTATTTGTTTA
Found at i:7481830 original size:12 final size:12
Alignment explanation
Indices: 7481792--7481834 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
7481782 AAATCTACTT
7481792 TTTGTTTTCTTTA
1 TTTGTTTT-TTTA
*
7481805 TTTG-TTTATTA
1 TTTGTTTTTTTA
7481816 TTTGTTTTTTTA
1 TTTGTTTTTTTA
7481828 TTTGTTT
1 TTTGTTT
7481835 ATTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 7 0.26
12 16 0.59
13 4 0.15
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:7481831 original size:23 final size:24
Alignment explanation
Indices: 7481792--7481846 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
7481782 AAATCTACTT
7481792 TTTGTTTTCTTTATTTGTTTATTA
1 TTTGTTTTCTTTATTTGTTTATTA
7481816 TTTGTTTT-TTTATTTGTTTATTA
1 TTTGTTTTCTTTATTTGTTTATTA
*
7481839 TTTATTTT
1 TTTGTTTT
7481847 ATAATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTGTTTTCTTTATTTGTTTATTA
Found at i:7481922 original size:14 final size:15
Alignment explanation
Indices: 7481903--7481941 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7481893 CCACCTGTAC
7481903 TTTTTTTAAATTT-A
1 TTTTTTTAAATTTAA
*
7481917 TTTTTTTATATTTAA
1 TTTTTTTAAATTTAA
*
7481932 ATTTTTTAAA
1 TTTTTTTAAA
7481942 AAAATAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTTAAATTTAA
Found at i:7482530 original size:53 final size:52
Alignment explanation
Indices: 7482456--7482559 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 52
7482446 TATTTTTCAA
* * ** * *
7482456 TTTGTAAGATAGAATGATGTCAGTTTTGAACAAAATTGTTTAATTATATTTTG
1 TTTGTAAGACACAATGATGTCAGACTTGAAAAAAATCGTTTAATTAT-TTTTG
*
7482509 TTTGTAAGACACAAT-ATTGTCAGACTTGAAAAAAATCGTTTATTTATTTTT
1 TTTGTAAGACACAATGA-TGTCAGACTTGAAAAAAATCGTTTAATTATTTTT
7482560 AGTATTGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (52 bp):
TTTGTAAGACACAATGATGTCAGACTTGAAAAAAATCGTTTAATTATTTTTG
Found at i:7483206 original size:67 final size:68
Alignment explanation
Indices: 7483060--7483207 Score: 271
Period size: 68 Copynumber: 2.2 Consensus size: 68
7483050 TCCATTCAAA
7483060 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
1 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
7483125 CTG
66 CTG
7483128 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATAT-ATAGT
1 TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
*
7483192 TTG
66 CTG
*
7483195 TATTTTATATTTT
1 TATTTTGTATTTT
7483208 ATAGTTATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
67 19 0.24
68 59 0.76
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (68 bp):
TATTTTGTATTTTGTAGAAGAGAATGAAGAAAGGAGAAAAAAAAACTTGTAAGGTATATAATAGT
CTG
Found at i:7484477 original size:36 final size:34
Alignment explanation
Indices: 7484435--7484515 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 34
7484425 AGGTGTATGT
7484435 TATTATAAA-ATTTATAGTTAAAAATATATATTATAA
1 TATTATAAATATTTA-A-TTAAAAATATATATTAT-A
**
7484471 TATTATAATATATTTAATTAAGTATATATATTATA
1 TATTATAA-ATATTTAATTAAAAATATATATTATA
7484506 TATTATAAAT
1 TATTATAAAT
7484516 GAATGAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 2 0.05
35 9 0.22
36 23 0.56
37 2 0.05
38 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (34 bp):
TATTATAAATATTTAATTAAAAATATATATTATA
Found at i:7485310 original size:24 final size:26
Alignment explanation
Indices: 7485256--7485310 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
7485246 GTGTTTTGCA
* *
7485256 ATTGAAATGAATTGATTTTGTATGTG
1 ATTGAAATGAATTGAATTTATATGTG
*
7485282 A-TGAAAT-TATTGAATTTATAT-TG
1 ATTGAAATGAATTGAATTTATATGTG
7485305 ATTGAA
1 ATTGAA
7485311 TTGGTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 3 0.12
24 15 0.60
25 6 0.24
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (26 bp):
ATTGAAATGAATTGAATTTATATGTG
Found at i:7488516 original size:25 final size:25
Alignment explanation
Indices: 7488431--7488590 Score: 167
Period size: 25 Copynumber: 6.6 Consensus size: 25
7488421 TTGTTATGCA
7488431 CTAATGAA-CAGAGAGCACTGAA-GTG
1 CTAAT-AATCAGAGAGCACT-AATGTG
7488456 CT-AT-A-CAGAGAGCAC-AGATGTG
1 CTAATAATCAGAGAGCACTA-ATGTG
*
7488478 CT-A-AA-CAGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* * *
7488500 CTAGTAATCAGAGAGCATTAACGTG
1 CTAATAATCAGAGAGCACTAATGTG
7488525 CTAATAATCAGAGAGCACTAATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* *
7488550 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACTAATGTG
*
7488575 CTAATATTCAGAGAGC
1 CTAATAATCAGAGAGC
7488591 GTGCTAAAGT
Statistics
Matches: 117, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 35 0.30
24 4 0.03
25 76 0.65
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAATGTG
Found at i:7489543 original size:5 final size:5
Alignment explanation
Indices: 7489533--7489561 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7489523 TTATTTCTTT
7489533 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
7489562 TAACTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:7492248 original size:3 final size:3
Alignment explanation
Indices: 7492242--7492271 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7492232 ACCACCACTG
7492242 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7492272 CTCTCTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7498905 original size:9 final size:9
Alignment explanation
Indices: 7498883--7498919 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
7498873 ATTTTTATTT
7498883 TTAAAAATA
1 TTAAAAATA
*
7498892 TTTAAAATTA
1 -TTAAAAATA
7498902 TTAAAAATA
1 TTAAAAATA
7498911 TTAAAAATA
1 TTAAAAATA
7498920 CATATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:7498979 original size:21 final size:19
Alignment explanation
Indices: 7498947--7499002 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
7498937 ATTTAGTCAT
7498947 ATAATAAATTATTAATATA
1 ATAATAAATTATTAATATA
7498966 ATAATATAAGTTATT-AT-T-
1 ATAATA-AA-TTATTAATATA
*
7498984 TTAATAAATTATTTAATAT
1 ATAATAAATTA-TTAATAT
7499003 TTCAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 7 0.23
19 8 0.26
20 4 0.13
21 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAATAAATTATTAATATA
Found at i:7499101 original size:15 final size:15
Alignment explanation
Indices: 7499011--7499140 Score: 54
Period size: 15 Copynumber: 8.5 Consensus size: 15
7499001 ATTTCAATTT
*
7499011 TATTTTAACAATAAA
1 TATTTTAATAATAAA
7499026 T-TTTTAA-AATAAGA
1 TATTTTAATAATAA-A
7499040 -ATTTTAAATAATACTAA
1 TATTTT-AATAATA--AA
* * * *
7499057 CATATTATTGA-AAA
1 TATTTTAATAATAAA
* * *
7499071 TA-TTCAATATTCAA
1 TATTTTAATAATAAA
7499085 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
7499100 TATTTATTACAATTATAAA
1 TA-TT-TT--AATAATAAA
*
7499119 TATATTAATAATAAA
1 TATTTTAATAATAAA
*
7499134 TGTTTTA
1 TATTTTA
7499141 TAGTATAAAG
Statistics
Matches: 84, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
13 8 0.10
14 18 0.21
15 27 0.32
16 7 0.08
17 8 0.10
18 6 0.07
19 10 0.12
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:7499535 original size:32 final size:34
Alignment explanation
Indices: 7499497--7499569 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
7499487 CAACTTTTAT
*
7499497 AAAATATTTTTA-A-GAAATCTACCAAACAACAG
1 AAAATATTTTTACACGAAATCAACCAAACAACAG
* * *
7499529 AAAATA-TTTTACACGGATTCAACCAAACACCAG
1 AAAATATTTTTACACGAAATCAACCAAACAACAG
7499562 AAAATATT
1 AAAATATT
7499570 AACTTTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 5 0.15
32 7 0.21
33 21 0.62
34 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (34 bp):
AAAATATTTTTACACGAAATCAACCAAACAACAG
Found at i:7499605 original size:14 final size:14
Alignment explanation
Indices: 7499586--7499625 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
7499576 TTCAAAAAAG
7499586 TAAATCATTTTCCA
1 TAAATCATTTTCCA
*
7499600 TAAATCATTTTCCG
1 TAAATCATTTTCCA
*
7499614 TAAGTCATTTTC
1 TAAATCATTTTC
7499626 AATGAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (14 bp):
TAAATCATTTTCCA
Found at i:7501521 original size:36 final size:37
Alignment explanation
Indices: 7501481--7501561 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
7501471 AGGATTGAAC
* *
7501481 TGTAGAACAAG-AAAAA-TT-GCTTTTGAGGAATTAAAT
1 TGTAGAA-AAGTAAAAATTTGGATTTT-AGGAACTAAAT
*
7501517 TGTAGAATAGTAAAAATTTGGATTTTAGGAACTAAAT
1 TGTAGAAAAGTAAAAATTTGGATTTTAGGAACTAAAT
7501554 TGTA-AAAA
1 TGTAGAAAA
7501562 TATATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
35 2 0.05
36 15 0.39
37 16 0.42
38 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.32
Consensus pattern (37 bp):
TGTAGAAAAGTAAAAATTTGGATTTTAGGAACTAAAT
Found at i:7504237 original size:41 final size:41
Alignment explanation
Indices: 7504179--7504296 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
7504169 TGATTCAATA
* *
7504179 CACCGGCATTAAACCTGCTAGACGTAAGGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
* *
7504220 CATCGGCGTTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
7504261 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA
7504297 ATCTCATATA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
Found at i:7507455 original size:40 final size:39
Alignment explanation
Indices: 7507334--7507465 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 39
7507324 GACTTCGAGT
* * *
7507334 CGATGAGACATTGGGTGTCAATTTACTACTTC-AGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGA-ATT-ATC
* * ** *
7507375 CGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
*
7507412 CGATGAGACACTGGGTGTCAACTTATTACTCCGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGAATTATC
7507452 CGATGATG-CACTGG
1 CGATGA-GACACTGG
7507466 TTGCCAAACT
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
37 20 0.28
38 8 0.11
39 2 0.03
40 23 0.32
41 19 0.26
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:7511740 original size:24 final size:25
Alignment explanation
Indices: 7511712--7511766 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7511702 GTCATTAGGG
* * *
7511712 TTACCGATTC-CAACTCTTATTAGC
1 TTACCGATACTCAACTCGTATAAGC
7511736 TTACCGATACTCAACTCGTATAAGC
1 TTACCGATACTCAACTCGTATAAGC
7511761 TTACCG
1 TTACCG
7511767 TTATTCAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAACTCGTATAAGC
Found at i:7511809 original size:24 final size:25
Alignment explanation
Indices: 7511733--7511809 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
7511723 AACTCTTATT
* * * *
7511733 AGCTTACCGATACTCAACTCGTATA
1 AGCTTACCGTTATTCAGCTCGTATG
* *
7511758 AGCTTACCGTTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCTCGTATG
*
7511783 AGCTTAGCGTT-TATC-GCTCGTATG
1 AGCTTACCGTTAT-TCAGCTCGTATG
7511807 AGC
1 AGC
7511810 ATACATGTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCTCGTATG
Found at i:7517234 original size:6 final size:6
Alignment explanation
Indices: 7517219--7517252 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7517209 GTTTCATCAA
* *
7517219 CCAAAC CCAAAT CCAAAC CCAAAC CCAAAT CCAA
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
7517253 GATTTTGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (6 bp):
CCAAAC
Found at i:7518045 original size:8 final size:8
Alignment explanation
Indices: 7518032--7518058 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
7518022 CTTTTAGGGT
7518032 ATATAATA
1 ATATAATA
7518040 ATATAATA
1 ATATAATA
7518048 ATATAATA
1 ATATAATA
7518056 ATA
1 ATA
7518059 GCTTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:7519078 original size:19 final size:19
Alignment explanation
Indices: 7519054--7519091 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7519044 TTGATGCAAG
7519054 GCTTTTCTGGTAAAATTTT
1 GCTTTTCTGGTAAAATTTT
7519073 GCTTTTCTGGTAAAATTTT
1 GCTTTTCTGGTAAAATTTT
7519092 TCTCAGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (19 bp):
GCTTTTCTGGTAAAATTTT
Found at i:7523097 original size:24 final size:24
Alignment explanation
Indices: 7523053--7523105 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7523043 TTTCTAAAAG
**
7523053 ATTTAGTATTTATGTGTATAATAT
1 ATTTAGTATTTATGTACATAATAT
7523077 ATTTAGTATTTAT-TAACATAATAT
1 ATTTAGTATTTATGT-ACATAATAT
7523101 ATTTA
1 ATTTA
7523106 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTAGTATTTATGTACATAATAT
Found at i:7525744 original size:38 final size:37
Alignment explanation
Indices: 7525702--7525785 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 37
7525692 TGATAAATAT
*
7525702 AAATGATATAATAT-AATTTAAATTTGAAATTTCAACAA
1 AAATGATATAATATAAATTGAAA-TTGAAATTTCAA-AA
*
7525740 AAATGATATAATATAAATTGAAATTGAAATTTTAAAA
1 AAATGATATAATATAAATTGAAATTGAAATTTCAAAA
7525777 AAATTGATA
1 AAA-TGATA
7525786 ATACATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 5 0.12
38 30 0.71
39 7 0.17
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (37 bp):
AAATGATATAATATAAATTGAAATTGAAATTTCAAAA
Found at i:7527815 original size:18 final size:18
Alignment explanation
Indices: 7527792--7527843 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
7527782 GAAACTCTAT
7527792 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
7527810 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
* *
7527828 ATTCTTCAAGGATTTT
1 ATCCTTCAGGGATTTT
7527844 CATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (18 bp):
ATCCTTCAGGGATTTTAA
Found at i:7528415 original size:20 final size:20
Alignment explanation
Indices: 7528387--7528427 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7528377 AAATCTCCTT
*
7528387 TTGGGTTTTTTGATTAGTTA
1 TTGGATTTTTTGATTAGTTA
7528407 TTGGATTTTTTGATTAGTTA
1 TTGGATTTTTTGATTAGTTA
7528427 T
1 T
7528428 ATCTTTAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (20 bp):
TTGGATTTTTTGATTAGTTA
Found at i:7531616 original size:29 final size:32
Alignment explanation
Indices: 7531564--7531630 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
7531554 TTGGCCTGAA
7531564 TATATTATGTTATAAAAATTAATTATAT-TAAT
1 TATA-TATGTTATAAAAATTAATTATATATAAT
* *
7531596 TATATATGTTA-AATAA-TAATTATATATATT
1 TATATATGTTATAAAAATTAATTATATATAAT
7531626 TATAT
1 TATAT
7531631 TAAATCACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 7 0.22
32 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TATATATGTTATAAAAATTAATTATATATAAT
Found at i:7531721 original size:7 final size:7
Alignment explanation
Indices: 7531709--7531733 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7531699 AACCCAAGCC
7531709 AAAATAT
1 AAAATAT
7531716 AAAATAT
1 AAAATAT
7531723 AAAATAT
1 AAAATAT
7531730 AAAA
1 AAAA
7531734 ATTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:7538302 original size:61 final size:64
Alignment explanation
Indices: 7538196--7538317 Score: 144
Period size: 62 Copynumber: 2.0 Consensus size: 64
7538186 GGAAGCTACC
** * *
7538196 TAAAAATTTCAAAAAACTTTAAGAGAAAAAT-AAAATTTTCTAAAAATTTTGGGG-GGCCTAAT
1 TAAAAATTTCAAAAAACTTTAAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCTAAT
* * *
7538258 TAAAATTTTCTAAAAA-TTTGAAG-GAAAAGTAAAAATTCCCAAAAAATTTAGGGGTGGCCT
1 TAAAAATTTCAAAAAACTTT-AAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCT
7538318 TAAGCCACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
61 9 0.18
62 36 0.72
63 5 0.10
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (64 bp):
TAAAAATTTCAAAAAACTTTAAGAGAAAAATAAAAATTCCCAAAAAATTTAGGGGTGGCCTAAT
Found at i:7541201 original size:75 final size:75
Alignment explanation
Indices: 7541085--7541227 Score: 277
Period size: 75 Copynumber: 1.9 Consensus size: 75
7541075 TGAGAGATCT
*
7541085 TCTTCTATCGAGGTCCCCAGCAAAATCAGCATCAACATACCCAATGACTCCATCTCTAGTTCTTC
1 TCTTCTATCGAGGTCCCCAGCAAAATCAGCATCAACATACCCAATGACTCCATCTATAGTTCTTC
7541150 CAATGAGAGA
66 CAATGAGAGA
7541160 TCTTCTATCGAGGTCCCCAGCAAAATCAGCATCAACATACCCAATGACTCCATCTATAGTTCTTC
1 TCTTCTATCGAGGTCCCCAGCAAAATCAGCATCAACATACCCAATGACTCCATCTATAGTTCTTC
7541225 CAA
66 CAA
7541228 ACTGTAAGCA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (75 bp):
TCTTCTATCGAGGTCCCCAGCAAAATCAGCATCAACATACCCAATGACTCCATCTATAGTTCTTC
CAATGAGAGA
Found at i:7546449 original size:7 final size:7
Alignment explanation
Indices: 7546428--7546464 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
7546418 CTACTCGACT
7546428 TCACAGC
1 TCACAGC
7546435 TC-CAGC
1 TCACAGC
7546441 TCACAGC
1 TCACAGC
7546448 TCACAGC
1 TCACAGC
*
7546455 TCACATC
1 TCACAGC
7546462 TCA
1 TCA
7546465 TTTGAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.27, C:0.43, G:0.11, T:0.19
Consensus pattern (7 bp):
TCACAGC
Found at i:7559762 original size:15 final size:16
Alignment explanation
Indices: 7559734--7559763 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7559724 TATTTTAGTC
7559734 ATTATTTGTGAAATTA
1 ATTATTTGTGAAATTA
7559750 ATTATTT-TGAAATT
1 ATTATTTGTGAAATT
7559764 TGGTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
ATTATTTGTGAAATTA
Done.