Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 15
Found at i:10823 original size:13 final size:13
Alignment explanation
Indices: 10805--10834 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10795 GTCTTATCTT
*
10805 CTTTTCACTTTTA
1 CTTTTCACTTTCA
10818 CTTTTCACTTTCA
1 CTTTTCACTTTCA
10831 CTTT
1 CTTT
10835 GGTTTCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (13 bp):
CTTTTCACTTTCA
Found at i:13286 original size:98 final size:86
Alignment explanation
Indices: 13181--13391 Score: 295
Period size: 85 Copynumber: 2.5 Consensus size: 86
13171 TATTACGCAC
* * * * * *
13181 ATTTATGACGCGCAT-TAATGACGTT-CTTTGAGTGTCATTGAAGCCCCCGTCATAAATTACGAT
1 ATTTATGACACGCATAT-ATGACCTTACATTGAGCGTCATTGAAGCCCCCATCATAAATTAAGAT
13244 GACACACATTTGTGCGTCATAA
65 GACACACATTTGTGCGTCATAA
* *
13266 ATTTATGACACGCATGTATGA-CTTACATTGCGCGTCATTGAAGCCCCCATCATAAATTAAGATG
1 ATTTATGACACGCATATATGACCTTACATTGAGCGTCATTGAAGCCCCCATCATAAATTAAGATG
13330 ACACACATTTGTGCGTCATAA
66 ACACACATTTGTGCGTCATAA
* *
13351 ATTTATGACACGCATATATGA-CTTACATTGTGTGTCATTGA
1 ATTTATGACACGCATATATGACCTTACATTGAGCGTCATTGA
13392 TGCACACGTC
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
84 2 0.02
85 111 0.97
86 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (86 bp):
ATTTATGACACGCATATATGACCTTACATTGAGCGTCATTGAAGCCCCCATCATAAATTAAGATG
ACACACATTTGTGCGTCATAA
Found at i:13324 original size:85 final size:85
Alignment explanation
Indices: 13214--13391 Score: 311
Period size: 85 Copynumber: 2.1 Consensus size: 85
13204 TTCTTTGAGT
* *
13214 GTCATTGAAGCCCCCGTCATAAATTACGATGACACACATTTGTGCGTCATAAATTTATGACACGC
1 GTCATTGAAGCCCCCATCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACACGC
*
13279 ATGTATGACTTACATTGCGC
66 ATATATGACTTACATTGCGC
13299 GTCATTGAAGCCCCCATCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACACGC
1 GTCATTGAAGCCCCCATCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACACGC
* *
13364 ATATATGACTTACATTGTGT
66 ATATATGACTTACATTGCGC
13384 GTCATTGA
1 GTCATTGA
13392 TGCACACGTC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (85 bp):
GTCATTGAAGCCCCCATCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACACGC
ATATATGACTTACATTGCGC
Found at i:13423 original size:85 final size:84
Alignment explanation
Indices: 13249--13423 Score: 226
Period size: 85 Copynumber: 2.1 Consensus size: 84
13239 ACGATGACAC
* * *
13249 ACATTTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCC
1 ACATTTGTGCGTCATAAATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCACAC
** *
13314 ATCATAAATTAAGATGACAC
66 ATCATAAA-TAAGACCACAA
* * *
13334 ACATTTGTGCGTCATAAATTTATGACACGCATATATGACTTACATTGTGTGTCATTGATGCACAC
1 ACATTTGTGCGTCATAAATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCACAC
*
13399 GTCATTTAAA-AAGACCACAA
66 ATCA--TAAATAAGACCACAA
13419 ACATT
1 ACATT
13424 CATTTATCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 74 0.95
87 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (84 bp):
ACATTTGTGCGTCATAAATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCACAC
ATCATAAATAAGACCACAA
Found at i:13458 original size:2 final size:2
Alignment explanation
Indices: 13451--13512 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
13441 TTTCAGAAAT
*
13451 TA TA TA TA TA TA TA -A TA TA TA TA TA TA -A TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13491 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
13513 GATTGACAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:19384 original size:15 final size:15
Alignment explanation
Indices: 19359--19414 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
19349 GATGCTTTCT
*
19359 TTTTCCTTCTTTGACA
1 TTTT-CTTCTTTGACG
19375 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
19390 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
19405 TTGTCTTCTT
1 TTTTCTTCTT
19415 ACCCCATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.09, C:0.21, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:33756 original size:91 final size:90
Alignment explanation
Indices: 33622--33800 Score: 286
Period size: 91 Copynumber: 2.0 Consensus size: 90
33612 TAATCCTGAA
* * * * *
33622 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
33687 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
33712 TATTAAATTCCAATTAATTAAATATATATTTTAATTAATTTGAAATAATAAAAACCCTAATATGA
1 TATTAAATTCCAATTAATTAAATATAGA-TTTAATTAATTTGAAATAATAAAAACCCTAATATGA
*
33777 CTAGGGTAACTTGGCTATAAAAGG
65 CTAGGGTAACTTGGATATAAAAGG
33801 GTGTGTTCAG
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 25 0.31
91 56 0.69
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:43564 original size:24 final size:24
Alignment explanation
Indices: 43537--43627 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
43527 TCAAATTAAA
* *
43537 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
43561 ATTCTGATATGATA-TTAACATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
43584 ATTTTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
43608 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
43628 TTGAATTATG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.33
24 36 0.67
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:45157 original size:20 final size:20
Alignment explanation
Indices: 45132--45180 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
45122 ATTTCCACGC
*
45132 ATTTGTAAAGCCTCCGGATA
1 ATTTGTAAAACCTCCGGATA
* *
45152 ATTTGTAAAACCTTCGGGTA
1 ATTTGTAAAACCTCCGGATA
*
45172 ATTGGTAAA
1 ATTTGTAAA
45181 TTCTCTGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (20 bp):
ATTTGTAAAACCTCCGGATA
Found at i:45396 original size:94 final size:94
Alignment explanation
Indices: 45235--45446 Score: 361
Period size: 94 Copynumber: 2.2 Consensus size: 94
45225 TAAGTCATCC
*
45235 TCAAACTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAACAAAAGAAAATTTGAACTCCATGAAAG
1 TCAAACTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAACAAAAGAAAATATGAACTCCATGAAAG
45300 AGTAGTGGAACAGATTTTTCAGCAAAGTA
66 AGTAGTGGAACAGATTTTTCAGCAAAGTA
* * *
45329 TCAAACTTCACAGAAGAGTAGTGAAGCAAAAGCAAGAACAAAAGCAAATATGAACTCCATGATAG
1 TCAAACTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAACAAAAGAAAATATGAACTCCATGAAAG
45394 AGTAGTGGAACAGATTTTTCAGCAAAGTA
66 AGTAGTGGAACAGATTTTTCAGCAAAGTA
* *
45423 TGAAACTTTCACGGGAGAGTAGTG
1 TCAAAC-TTCACGGAAGAGTAGTG
45447 GAGTAATCCA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 95 0.86
95 15 0.14
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (94 bp):
TCAAACTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAACAAAAGAAAATATGAACTCCATGAAAG
AGTAGTGGAACAGATTTTTCAGCAAAGTA
Found at i:47854 original size:15 final size:13
Alignment explanation
Indices: 47836--47875 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 13
47826 ACAACAATTC
47836 AAAAAACAAATATA
1 AAAAAACAAA-ATA
47850 AAAAAGACAAGAATA
1 AAAAA-ACAA-AATA
47865 AAAAAACAAAA
1 AAAAAACAAAA
47876 CAACAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 12 0.50
16 1 0.04
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.07
Consensus pattern (13 bp):
AAAAAACAAAATA
Found at i:50580 original size:38 final size:39
Alignment explanation
Indices: 50539--50822 Score: 304
Period size: 38 Copynumber: 7.6 Consensus size: 39
50529 CATATAATGC
* ** *
50539 ATATAATATATAGTTTTGAAAATATTTTTTTTGAAA-AC
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
*
50577 ATATAATATATAGTTTTG---A-ATTTTTTT-AGAATAT
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
*
50611 ATATATATATATAATTTTGAAAACATTTTTTTAAAAATAT
1 ATATA-ATATATAGTTTTGAAAACATTTTTTTAAAAATAT
*
50651 ATATAATATATAGTTTTGAAAACA-TTTTTCAAAAATAT
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
* * *
50689 ATATAATATATAGTTTT-AAAAAATGTTTTT--GAA-AT
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
* * *
50724 ATATAATATATAGTTTTCAAAACATTTTTTTTAAATTAT
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
* * * * * *
50763 ATATTATATATA-ATTTCAAAAAATGTTTTCAAAAATAT
1 ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
50801 ATATAATATATAGTTTTGAAAA
1 ATATAATATATAGTTTTGAAAA
50823 GCGTATATAA
Statistics
Matches: 208, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
33 2 0.01
34 14 0.07
35 32 0.15
36 13 0.06
37 5 0.02
38 85 0.41
39 46 0.22
40 11 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (39 bp):
ATATAATATATAGTTTTGAAAACATTTTTTTAAAAATAT
Found at i:50733 original size:112 final size:114
Alignment explanation
Indices: 50539--50822 Score: 348
Period size: 112 Copynumber: 2.5 Consensus size: 114
50529 CATATAATGC
* *** * * *
50539 ATATAATATATAGTTTTGAAAATATTTTTTTTGAAA-ACATATAATATATAGTTTT--GAATTTT
1 ATATAATATATAGTTTTGAAAA-AATTTTTCAAAAATATATATAATATATAGTTTTAAAAATGTT
*
50601 TTTAGAATATATATATATATATAATTTTGAAAACATTTTTTTAAAAATAT
65 TTTAGAATATATATATATATATAATTTTCAAAACATTTTTTTAAAAATAT
*
50651 ATATAATATATAGTTTTGAAAACATTTTTCAAAAATATATATAATATATAGTTTTAAAAAATGTT
1 ATATAATATATAGTTTTGAAAAAATTTTTCAAAAATATATATAATATATAGTTTT-AAAAATGTT
* * *
50716 TTT-GAA-ATATATA-ATATATAGTTTTCAAAACATTTTTTTTAAATTAT
65 TTTAGAATATATATATATATATAATTTTCAAAACATTTTTTTAAAAATAT
* * * *
50763 ATATTATATATA-ATTTCAAAAAATGTTTTCAAAAATATATATAATATATAGTTTTGAAAA
1 ATATAATATATAGTTTTGAAAAAAT-TTTTCAAAAATATATATAATATATAGTTTTAAAAA
50823 GCGTATATAA
Statistics
Matches: 150, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
111 21 0.14
112 111 0.74
113 7 0.05
114 3 0.02
115 8 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (114 bp):
ATATAATATATAGTTTTGAAAAAATTTTTCAAAAATATATATAATATATAGTTTTAAAAATGTTT
TTAGAATATATATATATATATAATTTTCAAAACATTTTTTTAAAAATAT
Found at i:50822 original size:26 final size:25
Alignment explanation
Indices: 50787--50842 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
50777 TTCAAAAAAT
*
50787 GTTTTCAAAAATATATATAATATATA
1 GTTTTCAAAAACATATATAATAT-TA
* * *
50813 GTTTTGAAAAGCGTATATAATATTA
1 GTTTTCAAAAACATATATAATATTA
50838 GTTTT
1 GTTTT
50843 TTTAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (25 bp):
GTTTTCAAAAACATATATAATATTA
Found at i:52571 original size:52 final size:52
Alignment explanation
Indices: 52493--52605 Score: 208
Period size: 52 Copynumber: 2.2 Consensus size: 52
52483 AAAAAAATAT
*
52493 CATTCTCTCATTTCTCACTTTCTCTCTTCCAACCGAGCTCTCCCATTCTCTA
1 CATTCTCTCATTTCTCACTTCCTCTCTTCCAACCGAGCTCTCCCATTCTCTA
*
52545 CATTCTCTCATTTCTCACTTCCTCTCTTCCAACCGAGCTCTCCCCTTCTCTA
1 CATTCTCTCATTTCTCACTTCCTCTCTTCCAACCGAGCTCTCCCATTCTCTA
52597 CATTCTCTC
1 CATTCTCTC
52606 CCCCTTTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.14, C:0.42, G:0.04, T:0.40
Consensus pattern (52 bp):
CATTCTCTCATTTCTCACTTCCTCTCTTCCAACCGAGCTCTCCCATTCTCTA
Found at i:66542 original size:13 final size:13
Alignment explanation
Indices: 66526--66555 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66516 ATCTTATCTT
*
66526 CTTTTCACTTTTA
1 CTTTTCACTTTCA
66539 CTTTTCACTTTCA
1 CTTTTCACTTTCA
66552 CTTT
1 CTTT
66556 CTTTCATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (13 bp):
CTTTTCACTTTCA
Found at i:69119 original size:82 final size:83
Alignment explanation
Indices: 68915--69122 Score: 289
Period size: 82 Copynumber: 2.5 Consensus size: 83
68905 TATTACGCAC
* * * *
68915 ATTTATGACGCGCATTAATGACGTT-CTTTGAGTGTCATTGAAGCCCCCGTCATAAATTACGATG
1 ATTTATGACACGCATT-ATGAC-TTACATTGTGTGTCATTGAAGCCCCCG-CATAAATTAAGATG
68979 ACACACATTTGTGCGTCATAA
63 ACACACATTTGTGCGTCATAA
*
69000 ATTTATGACACGCATGTATGACTTACATT-TCGCGTCATTGAAG-CCCC-CATAAATTAAGATGA
1 ATTTATGACACGCAT-TATGACTTACATTGT-GTGTCATTGAAGCCCCCGCATAAATTAAGATGA
69062 CACACATTTGTGCGTCATAA
64 CACACATTTGTGCGTCATAA
69082 ATTTATGACACGCATATATGACTTACATTGTGTGTCATTGA
1 ATTTATGACACGCAT-TATGACTTACATTGTGTGTCATTGA
69123 TGCACACGTC
Statistics
Matches: 112, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
82 71 0.63
83 1 0.01
84 6 0.05
85 33 0.29
86 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (83 bp):
ATTTATGACACGCATTATGACTTACATTGTGTGTCATTGAAGCCCCCGCATAAATTAAGATGACA
CACATTTGTGCGTCATAA
Found at i:69189 original size:2 final size:2
Alignment explanation
Indices: 69182--69235 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
69172 TTTCAGAAAT
69182 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69223 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
69236 TGTAGATTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71215 original size:36 final size:35
Alignment explanation
Indices: 71175--71254 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 35
71165 CTCCTTTTCT
*
71175 TTCTTTCTTTCCCTCTTCG-GTGTCCTTTCTT-TCCTC
1 TTCTTT-TTTCCCT-TT-GTGTGTCCCTTCTTCTCCTC
*
71211 TTCTTTTTTTCCTTTGTTGTGTCCCTTCTTCTCCTC
1 TTCTTTTTTCCCTTTG-TGTGTCCCTTCTTCTCCTC
71247 TTCTTTTT
1 TTCTTTTT
71255 CAACAAGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 1 0.03
34 2 0.05
35 17 0.44
36 19 0.49
ACGTcount: A:0.00, C:0.31, G:0.07, T:0.61
Consensus pattern (35 bp):
TTCTTTTTTCCCTTTGTGTGTCCCTTCTTCTCCTC
Found at i:75065 original size:15 final size:15
Alignment explanation
Indices: 75045--75099 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
75035 GATGCTTTCT
*
75045 TTTTCTTCTTTGACA
1 TTTTCTTCTTTGACG
75060 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
75075 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
75090 TTGTCTTCTT
1 TTTTCTTCTT
75100 ACCCCATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:81199 original size:163 final size:167
Alignment explanation
Indices: 80910--81230 Score: 569
Period size: 163 Copynumber: 1.9 Consensus size: 167
80900 GTCTCCATAC
*
80910 CCAGGCTAGGGGAGACGTTATTTTAATAACACCTTTTTTACTCTCTTGTTCATTTCCTGAATAAT
1 CCAGGCTAGGGGAGACGTTATTTTAATAACACCTTTTTTACTCTCTTGTTCATTTCCTGAACAAT
* *
80975 TGCATTAACCTCGCTTTCTTGGTGGTTAGAAAAAGGGTTCTGTGTAACATACGGGGCCCCTGAGT
66 TGCATTAACCTCGCTTTCTTGGTGGTTAAAAAAAGGGTTCTGTGTAACATACGAGGCCCCTGAGT
81040 TGTTGAATTGGATCCAATTCTTATTGTGTCTGCACGA
131 TGTTGAATTGGATCCAATTCTTATTGTGTCTGCACGA
81077 CCAGGCTA-GGG-GA-GTTATTTTAATAACACC-TTTTTACTCTCTTGTTCATTTCCTGAACAAT
1 CCAGGCTAGGGGAGACGTTATTTTAATAACACCTTTTTTACTCTCTTGTTCATTTCCTGAACAAT
*
81138 TGCATTAACCTCGCTTTCTTGGTGGTTAAAAAAAGGGTTCTGTGTAACATACGATGCCCCTGAGT
66 TGCATTAACCTCGCTTTCTTGGTGGTTAAAAAAAGGGTTCTGTGTAACATACGAGGCCCCTGAGT
*
81203 TGTTGAATTGGATCCAATTCTTGTTGTG
131 TGTTGAATTGGATCCAATTCTTATTGTG
81231 CATTCTCTGC
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
163 119 0.80
164 17 0.11
165 2 0.01
166 3 0.02
167 8 0.05
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (167 bp):
CCAGGCTAGGGGAGACGTTATTTTAATAACACCTTTTTTACTCTCTTGTTCATTTCCTGAACAAT
TGCATTAACCTCGCTTTCTTGGTGGTTAAAAAAAGGGTTCTGTGTAACATACGAGGCCCCTGAGT
TGTTGAATTGGATCCAATTCTTATTGTGTCTGCACGA
Found at i:89294 original size:90 final size:89
Alignment explanation
Indices: 89180--89354 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
89170 TCCTGAATAT
* * * *
89180 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
89245 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
89269 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
*
89334 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
89355 GTGTGTTCAG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:96111 original size:90 final size:90
Alignment explanation
Indices: 95990--96167 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
95980 TAATCCCGAA
* * * * * *
95990 TATTTAATTTCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
96055 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
96080 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
96145 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
96168 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:98227 original size:20 final size:20
Alignment explanation
Indices: 98202--98239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98192 TTAATAACTA
*
98202 TTTTAAATTATTTAAATTAT
1 TTTTAAATTATCTAAATTAT
*
98222 TTTTAATTTATCTAAATT
1 TTTTAAATTATCTAAATT
98240 TTCTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATTATCTAAATTAT
Found at i:102519 original size:194 final size:194
Alignment explanation
Indices: 102164--102572 Score: 455
Period size: 194 Copynumber: 2.1 Consensus size: 194
102154 GTTTTGCTAC
** *
102164 AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGAGAATATAAATTATCAAT
1 AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGAGAATATAAATCATCAAT
** * *
102229 AACGAAATCTTATTTAATTCAGTGACATAATCAACTGTCATAGAATATAAATTATAAAGTGACGT
66 AACGAAATCTTACATAATTCAGTGAAATAATCAACTGTCATAGAATATAAATTATAAAGTGACAT
* * *
102294 TATGCATAAACGTCATTAATAATATTATTAGGTAACATTTATATTATGTCACTAAAAATGTGAT
131 TATACATAAACGTCATCAATAATACTATTAGGTAACATTTATATTATGTCACTAAAAATGTGAT
* * *
102358 AATATCTCTTTCGTCTCATATAGGTTGATTTTAATGTATTATCCGTGATG-ATATAAATCATCAA
1 AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGA-GAATATAAATCATCAA
* * * ** * * * *
102422 TAACGAAATTTTACATAATTTAGTGAAATAATTAGTTGTCATTGAATATTAATTATATAGTGATA
65 TAACGAAATCTTACATAATTCAGTGAAATAATCAACTGTCATAGAATATAAATTATAAAGTGACA
* * * ** * * * * * * *
102487 TTATATATAAATGTCATCCATGCTACTATTAGGTGAC-TATATACTACGTTACTAACAATGTGAC
130 TTATACATAAACGTCATCAATAATACTATTAGGTAACATTTATATTATGTCACTAAAAATGTGAT
* *
102551 AAT-TTTCTTTTCGTCACGTATA
1 AATATCTC-TTTCGTCACATATA
102573 CAATGAAATT
Statistics
Matches: 176, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
192 3 0.02
193 36 0.20
194 136 0.77
195 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (194 bp):
AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGAGAATATAAATCATCAAT
AACGAAATCTTACATAATTCAGTGAAATAATCAACTGTCATAGAATATAAATTATAAAGTGACAT
TATACATAAACGTCATCAATAATACTATTAGGTAACATTTATATTATGTCACTAAAAATGTGAT
Found at i:113710 original size:53 final size:53
Alignment explanation
Indices: 113613--113761 Score: 149
Period size: 53 Copynumber: 2.8 Consensus size: 53
113603 TCGACTAGCA
* **
113613 GGTTTGCTCCCTCTTACTTTAGGAAGTAGAACTCGAACCGTCTTCTGCTGAAG
1 GGTTTGCTCCCTATTACTTTAGGAAGTAGAACTCGAACAATCTTCTGCTGAAG
* * *
113666 GGTTTGCTCCCTATT-GTTTCAGGAAGTAGAACTCGAATAATCTTCTGCCT-ACG
1 GGTTTGCTCCCTATTACTTT-AGGAAGTAGAACTCGAACAATCTTCTG-CTGAAG
** * * ** *
113719 GGTTCACTCCCTCTTGCTTTAGGGGGTAAAACTCGAACAATCT
1 GGTTTGCTCCCTATTACTTTAGGAAGTAGAACTCGAACAATCT
113762 GCTGGTGTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 3 0.04
53 71 0.90
54 5 0.06
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (53 bp):
GGTTTGCTCCCTATTACTTTAGGAAGTAGAACTCGAACAATCTTCTGCTGAAG
Found at i:119670 original size:16 final size:16
Alignment explanation
Indices: 119647--119693 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
119637 ATATAAATCT
119647 TAAA-TAAATTAAACC
1 TAAACTAAATTAAACC
*
119662 TAAACTAAATTAAACA
1 TAAACTAAATTAAACC
119678 TAAAC-AAATTAAACC
1 TAAACTAAATTAAACC
119693 T
1 T
119694 CACACAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 14 0.48
16 15 0.52
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAACTAAATTAAACC
Found at i:120982 original size:3 final size:3
Alignment explanation
Indices: 120970--121023 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
120960 CAATTTTTTT
* *
120970 TTA TTG TTA TTA TTG TTA TTA TTA TT- TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
121015 TTA TTA TTA
1 TTA TTA TTA
121024 AAAATACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:122412 original size:3 final size:3
Alignment explanation
Indices: 122400--122437 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
122390 ATTTTCAGTA
*
122400 TAT T-T TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
122438 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:122650 original size:27 final size:30
Alignment explanation
Indices: 122613--122667 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
122603 TTTTAAATAA
122613 ATAAATATTTTAA-A-TTA-TTATTTTTAG
1 ATAAATATTTTAATATTTATTTATTTTTAG
*
122640 ATAAATGTTTTAATATTTATTTATTTTT
1 ATAAATATTTTAATATTTATTTATTTTT
122668 TAATGTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 1 0.04
29 3 0.12
30 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (30 bp):
ATAAATATTTTAATATTTATTTATTTTTAG
Found at i:123301 original size:23 final size:24
Alignment explanation
Indices: 123275--123334 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
123265 ATATATATAC
123275 ATATTATTTTCATAATAT-TTTAT
1 ATATTATTTTCATAATATCTTTAT
* *
123298 ATATTCTTTTTTATTAATATCTTTAT
1 ATATT-ATTTTCA-TAATATCTTTAT
123324 -T-TTATTTTCAT
1 ATATTATTTTCAT
123335 GCATTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 1 0.03
23 10 0.33
24 7 0.23
25 7 0.23
26 5 0.17
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATTATTTTCATAATATCTTTAT
Found at i:126640 original size:15 final size:16
Alignment explanation
Indices: 126610--126642 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
126600 ATCAATACAT
*
126610 TTTTGCATTTCATTCA
1 TTTTGCATTACATTCA
126626 TTTTGCA-TACATTCA
1 TTTTGCATTACATTCA
126641 TT
1 TT
126643 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTTGCATTACATTCA
Found at i:145887 original size:73 final size:73
Alignment explanation
Indices: 145801--145945 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 73
145791 CATTGAACTT
* * * * *
145801 GAAACGATACAACTTACACAAGATTGGATTTTAACTTTACAATGAATGATATCCAACTCAAAGTC
1 GAAACGATACAACTTACACAAGATTGGATTTCAACTTCACAATAAAGGATATCCAACTCAAAGAC
145866 AATTTAAC
66 AATTTAAC
*
145874 GAAACGATACAACTTACACAAGATTGGATTTCAACTTCAGAATAAAGGATATCCAACTCAAAGAC
1 GAAACGATACAACTTACACAAGATTGGATTTCAACTTCACAATAAAGGATATCCAACTCAAAGAC
145939 AATTTAA
66 AATTTAA
145946 ACTCAACTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (73 bp):
GAAACGATACAACTTACACAAGATTGGATTTCAACTTCACAATAAAGGATATCCAACTCAAAGAC
AATTTAAC
Found at i:150685 original size:16 final size:16
Alignment explanation
Indices: 150664--150695 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
150654 ATTTAATTCG
150664 AAGCCCAATTCTGGGC
1 AAGCCCAATTCTGGGC
150680 AAGCCCAATTCTGGGC
1 AAGCCCAATTCTGGGC
150696 CCACTCGAAG
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:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
AAGCCCAATTCTGGGC
Found at i:156586 original size:23 final size:23
Alignment explanation
Indices: 156560--156606 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
156550 TACGAACAAG
156560 GTAT-TTTAATGAATAAAAAATTA
1 GTATGTTTAAT-AATAAAAAATTA
* *
156583 GTATGTTTCATAATATAAAATTA
1 GTATGTTTAATAATAAAAAATTA
156606 G
1 G
156607 GATAAAGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (23 bp):
GTATGTTTAATAATAAAAAATTA
Found at i:157118 original size:15 final size:16
Alignment explanation
Indices: 157098--157127 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
157088 TGTCCTAAAT
157098 TAAAATG-TTCAAAAC
1 TAAAATGCTTCAAAAC
157113 TAAAATGCTTCAAAA
1 TAAAATGCTTCAAAA
157128 AAATAAAGTC
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:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (16 bp):
TAAAATGCTTCAAAAC
Found at i:159947 original size:44 final size:44
Alignment explanation
Indices: 159881--159970 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
159871 CTCTACTATG
* * *
159881 TACCATATATGAAGGCTCCTCTGTTGTGTG-ACAGGGTAAGACCT
1 TACCATATATGAAGGCTCCTCTGCTATATGCA-AGGGTAAGACCT
* * *
159925 TACCATTTCTGAAGGCTTCTCTGCTATATGCAAGGGTAAGACCT
1 TACCATATATGAAGGCTCCTCTGCTATATGCAAGGGTAAGACCT
159969 TA
1 TA
159971 TCGCTTTCCG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TACCATATATGAAGGCTCCTCTGCTATATGCAAGGGTAAGACCT
Found at i:166848 original size:44 final size:44
Alignment explanation
Indices: 166783--166912 Score: 161
Period size: 44 Copynumber: 3.0 Consensus size: 44
166773 GGAGGAAGTT
* * *
166783 TCTGAAGGCTCCTCTGCTGTGTTCTAGGGCAAGACCTTACCATA
1 TCTGAAAGCTCCTCTGCTGTGTTCAAGGGTAAGACCTTACCATA
* * * * *
166827 TCTGAATGCTCCTCTGTTGTGTTCCAGGGTAAGGCCTTACCATT
1 TCTGAAAGCTCCTCTGCTGTGTTCAAGGGTAAGACCTTACCATA
* * *
166871 TCTGAAAGATCCTCTACTATGTTCAAGGGTAAGACCTTACCA
1 TCTGAAAGCTCCTCTGCTGTGTTCAAGGGTAAGACCTTACCA
166913 CTTTTTGCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (44 bp):
TCTGAAAGCTCCTCTGCTGTGTTCAAGGGTAAGACCTTACCATA
Found at i:177529 original size:21 final size:23
Alignment explanation
Indices: 177499--177558 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
177489 GTCAAAATTC
*
177499 TAAACAAAAATATTTTTAAAAGA
1 TAAAGAAAAATATTTTTAAAAGA
**
177522 -AAAG-AAAATA-TAATAAAAGA
1 TAAAGAAAAATATTTTTAAAAGA
177542 TAAAGATAAAATATTTT
1 TAAAGA-AAAATATTTT
177559 ACTACAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
20 8 0.29
21 10 0.36
22 3 0.11
23 6 0.21
24 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (23 bp):
TAAAGAAAAATATTTTTAAAAGA
Found at i:188609 original size:34 final size:34
Alignment explanation
Indices: 188566--188633 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
188556 AAACTAATTT
*
188566 GATGTCATTGCTTGCATC-AATTAAGTTAGGTGAA
1 GATGTCATTGCTTACATCAAATT-AGTTAGGTGAA
188600 GATGTCATTGCTTACATCAAATTAGTTAGGTGAA
1 GATGTCATTGCTTACATCAAATTAGTTAGGTGAA
188634 AGTTAGGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (34 bp):
GATGTCATTGCTTACATCAAATTAGTTAGGTGAA
Found at i:203390 original size:9 final size:9
Alignment explanation
Indices: 203345--203403 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
203335 CGGTTTCTTC
203345 TTTT-TTTA
1 TTTTATTTA
*
203353 TTTTTTTTA
1 TTTTATTTA
203362 TTTTA-TTA
1 TTTTATTTA
**
203370 CTTTTA-AAA
1 -TTTTATTTA
203379 TTTTATTTA
1 TTTTATTTA
203388 -TTTATTTA
1 TTTTATTTA
203396 TTTTATTT
1 TTTTATTT
203404 TCCCCCTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 20 0.48
9 22 0.52
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:210328 original size:3 final size:3
Alignment explanation
Indices: 210316--210347 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
210306 GTTTAAAAAA
210316 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
210348 TTAATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:212817 original size:8 final size:8
Alignment explanation
Indices: 212806--212835 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
212796 ATTTTATTAT
212806 TTTTAAAA
1 TTTTAAAA
212814 TTTTAAAA
1 TTTTAAAA
212822 TTTTAAAA
1 TTTTAAAA
212830 TTTTAA
1 TTTTAA
212836 TTTTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:214020 original size:5 final size:5
Alignment explanation
Indices: 214010--214034 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
214000 GTACGAAACC
214010 TTTCA TTTCA TTTCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA
214035 AACATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:214049 original size:2 final size:2
Alignment explanation
Indices: 214042--214095 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
214032 TCAAACATAC
*
214042 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
214084 AT AT AT AT AT AT
1 AT AT AT AT AT AT
214096 CACTTGGCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:216484 original size:14 final size:14
Alignment explanation
Indices: 216467--216532 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
216457 CCTTAACTTA
216467 AAACCCTAAATTAT
1 AAACCCTAAATTAT
* *
216481 AAACCCCAAATCAT
1 AAACCCTAAATTAT
*
216495 -AACCCTATAATCTCT
1 AAACCCTA-AAT-TAT
* *
216510 AAACCATAAATTCT
1 AAACCCTAAATTAT
216524 AAACCCTAA
1 AAACCCTAA
216533 TTTAATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
13 6 0.14
14 26 0.62
15 4 0.10
16 6 0.14
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATTAT
Found at i:218121 original size:40 final size:40
Alignment explanation
Indices: 218071--218153 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
218061 AAACTATTAG
* *
218071 TTTTGATTCATTTTAGTATCCTGCCGTTAAAAACTCTAGT
1 TTTTGATTCATTTTAATACCCTGCCGTTAAAAACTCTAGT
* * *
218111 TTTTGTTTCATTTTAATACCCTGTCGTTAAAAACTTTAGT
1 TTTTGATTCATTTTAATACCCTGCCGTTAAAAACTCTAGT
218151 TTT
1 TTT
218154 GAAGAAAGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (40 bp):
TTTTGATTCATTTTAATACCCTGCCGTTAAAAACTCTAGT
Found at i:218237 original size:13 final size:13
Alignment explanation
Indices: 218219--218244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
218209 TAAACGTGTT
218219 GAGTTTTTAACGA
1 GAGTTTTTAACGA
218232 GAGTTTTTAACGA
1 GAGTTTTTAACGA
218245 CAGGTGTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
GAGTTTTTAACGA
Found at i:219057 original size:25 final size:25
Alignment explanation
Indices: 219027--219075 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
219017 AATAATAAAT
219027 AAAACAAG-AAAAAATGAAAAATAAC
1 AAAACAAGTAAAAAAT-AAAAATAAC
* *
219052 AAAACACGTAAAAAATAATAATAA
1 AAAACAAGTAAAAAATAAAAATAA
219076 AAATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (25 bp):
AAAACAAGTAAAAAATAAAAATAAC
Found at i:219115 original size:19 final size:17
Alignment explanation
Indices: 219068--219115 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 17
219058 CGTAAAAAAT
219068 AATAATAAAAATAATAAA
1 AATAA-AAAAATAATAAA
219086 AATAAACAAAATGAATAAA
1 AATAAA-AAAAT-AATAAA
219105 ATATTAAAAAA
1 A-A-TAAAAAA
219116 CAAAGATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 7 0.27
20 4 0.15
21 4 0.15
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAAAAAAATAATAAA
Found at i:219335 original size:16 final size:17
Alignment explanation
Indices: 219303--219341 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
219293 TATTAATAAA
219303 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
*
219320 AAAATAA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
*
219336 ATAATA
1 AAAATA
219342 TATATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:219395 original size:36 final size:35
Alignment explanation
Indices: 219349--219428 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
219339 ATATATATAT
*
219349 AAATAAATAAATAAACA-AAAATAGAATATTAAG-A
1 AAATATATAAA-AAACATAAAATAGAATATTAAGAA
* *
219383 AAATATATATAAAACGTATAAAATATAATATTAAGAA
1 AAATATATAAAAAAC--ATAAAATAGAATATTAAGAA
219420 AAATATATA
1 AAATATATA
219429 CATAGTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.10
34 9 0.23
35 1 0.03
36 15 0.38
37 10 0.26
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (35 bp):
AAATATATAAAAAACATAAAATAGAATATTAAGAA
Found at i:219470 original size:2 final size:2
Alignment explanation
Indices: 219458--219508 Score: 61
Period size: 2 Copynumber: 26.0 Consensus size: 2
219448 TTAATACATC
*
219458 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
*
219499 GA TA TA TA TA
1 TA TA TA TA TA
219509 ATAAAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:219512 original size:14 final size:14
Alignment explanation
Indices: 219458--219531 Score: 62
Period size: 14 Copynumber: 5.1 Consensus size: 14
219448 TTAATACATC
* *
219458 TATACATATATATA
1 TATATATATATAAA
*
219472 TATATATATATATA
1 TATATATATATAAA
219486 TATA-ATGATATAAGA
1 TATATAT-ATATAA-A
219501 TATATATA-ATAAA
1 TATATATATATAAA
*
219514 AATAATATAATATAAA
1 TAT-ATAT-ATATAAA
219530 TA
1 TA
219532 AAAAAAGAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.10
14 30 0.60
15 7 0.14
16 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (14 bp):
TATATATATATAAA
Found at i:219521 original size:25 final size:27
Alignment explanation
Indices: 219473--219523 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
219463 ATATATATAT
* *
219473 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
219500 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
219524 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:219526 original size:23 final size:23
Alignment explanation
Indices: 219469--219570 Score: 66
Period size: 25 Copynumber: 4.3 Consensus size: 23
219459 ATACATATAT
* *
219469 ATAT-ATATATATATATATATAATG
1 ATATAATATATATA-ATA-AAAATA
219493 ATATAAGATATATATAATAAAAATA
1 ATAT-A-ATATATATAATAAAAATA
* * *
219518 ATATAATATAAATAAAAAAAGAGGA
1 ATATAATATATATAATAAAA-A-TA
* *
219543 ATATAGTAAATA-AATAAAAA-A
1 ATATAATATATATAATAAAAATA
219564 ATATAAT
1 ATATAAT
219571 TAAAAAAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
21 7 0.11
23 14 0.22
24 12 0.19
25 18 0.29
26 3 0.05
27 9 0.14
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (23 bp):
ATATAATATATATAATAAAAATA
Found at i:219574 original size:14 final size:14
Alignment explanation
Indices: 219552--219587 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
219542 AATATAGTAA
219552 ATAAATAAAAAAAT
1 ATAAATAAAAAAAT
*
219566 ATAATTAAAAAAAT
1 ATAAATAAAAAAAT
*
219580 ATATATAA
1 ATAAATAA
219588 GGGACGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATAAAAAAAT
Found at i:221080 original size:106 final size:106
Alignment explanation
Indices: 220889--221643 Score: 980
Period size: 106 Copynumber: 7.0 Consensus size: 106
220879 GTATTGTTCT
* * * * *
220889 GAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCCGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACA
* * * *
220953 GCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTC
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * *
220995 GAGAT-CAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 GAG-TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACA
* * * * *
221059 ACCAGTCGTCCCTTCATTGTGAATTTGAACTTGTGTCGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * *
221101 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTTTGAAA-TTGAAAAGTGGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-TGGTTTGTTGACA
* * *
221165 ACCAGTCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
**
221207 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-TGGTTTGTTGACA
* * *
221272 ACCAGTCGTCACTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * *
221314 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGGTTTATT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAA-TGGTTTGTT
*
221378 GACAACCAGACGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* *
221424 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACAA
221489 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* *
221530 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAA-TGGTTTGTT
* * *
221594 GACAACCAACCGTCCCTTCGTTGTGAAGTTAAACTTGTGTAGTCTC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
221640 GAGT
1 GAGT
221644 GGCGCGATAT
Statistics
Matches: 578, Mismatches: 56, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
105 6 0.01
106 314 0.54
107 97 0.17
109 3 0.01
110 151 0.26
111 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
Found at i:221481 original size:323 final size:318
Alignment explanation
Indices: 220888--221643 Score: 1034
Period size: 323 Copynumber: 2.3 Consensus size: 318
220878 AGTATTGTTC
* * * *
220888 TGAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCCGGAACTGGGAAATTGTTTGTTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGAC
* * * * *
220952 AGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGATCAATATCCTTCACTGTG
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCACTGTG
* * * * * *
221017 AAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTCGTCCCTTCATTGTGAA
130 AAGTTGAAATTGACTCTGAAACTGGAAAATGGTTTATTGACAACCAGACGTCCCTTCATTGTGAA
* * * *
221082 TTTGAACTTGTGTCGTCTTGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTTTGAAATTG
195 GTTGAACTTGTGTCGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
*
221147 AAAAGTGGTTTGTTGACAACCAGTCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
260 AAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
*
221206 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTTGTTGAC
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATT-GTTTGTTGAC
* * * *
221271 AACCAGTCGTCACTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTTCAATATCCTTCGCTGTG
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCACTGTG
*
221336 AAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGGTTTATTGACAACCAGACGTCCCTTCGTT
130 AAGTTGAAATTGACTC----TGAAACTGGAAAA-TGGTTTATTGACAACCAGACGTCCCTTCATT
*
221400 GTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
190 GTGAAGTTGAACTTGTGTCGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
** *
221465 AATTGGGTAA-TGGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
255 AATT-GAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
* * * *
221529 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGGTTTGT
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAA-TTGTTTGT
* * *
221593 TGACAACCAACCGTCCCTTCGTTGTGAAGTTAAACTTGTGTAGTCTCGAGT
61 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
221644 GGCGCGATAT
Statistics
Matches: 384, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
318 48 0.12
319 81 0.21
322 4 0.01
323 186 0.48
324 3 0.01
326 54 0.14
327 8 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (318 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCACTGTGA
AGTTGAAATTGACTCTGAAACTGGAAAATGGTTTATTGACAACCAGACGTCCCTTCATTGTGAAG
TTGAACTTGTGTCGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
AAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
Found at i:222195 original size:36 final size:36
Alignment explanation
Indices: 222154--222224 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
222144 AAGATATCTG
* * * *
222154 TTGTTTCATGAGAAACGGTCTTAAGGGAGACAAAAT
1 TTGTTTCAAGAAAAACGGTCTCAAGAGAGACAAAAT
* *
222190 TTGTTTTAAGAAAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAAAAACGGTCTCAAGAGAGACAAAA
222225 CTTAGTTCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGAAAAACGGTCTCAAGAGAGACAAAAT
Found at i:222386 original size:16 final size:16
Alignment explanation
Indices: 222361--222399 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
222351 AATGTTTATG
**
222361 TTTC-AAGAGAAACTT
1 TTTCAAAGAGAAACGA
222376 TTTCAAAGAGAAACGA
1 TTTCAAAGAGAAACGA
222392 TTTCAAAG
1 TTTCAAAG
222400 GTTTTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (16 bp):
TTTCAAAGAGAAACGA
Found at i:222449 original size:36 final size:37
Alignment explanation
Indices: 222395--222470 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
222385 GAAACGATTT
*
222395 CAAAGGTTTTTTCTAAGGGAAACTGTCTCAAGGGAGA
1 CAAAGGTTTTTTCTAAGGGAAACTGTCTCAAGAGAGA
*
222432 CAAA-GTTTGTTTC-AAGGGAAATTGTCTCAAGAGAGA
1 CAAAGGTTT-TTTCTAAGGGAAACTGTCTCAAGAGAGA
222468 CAA
1 CAA
222471 TGGTGGGCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 28 0.78
37 8 0.22
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (37 bp):
CAAAGGTTTTTTCTAAGGGAAACTGTCTCAAGAGAGA
Found at i:222941 original size:18 final size:18
Alignment explanation
Indices: 222914--222949 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
222904 TGTTGAATCC
*
222914 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
222932 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
222950 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:223165 original size:24 final size:24
Alignment explanation
Indices: 223136--223196 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
223126 ATATCAAAAA
223136 AAGAGTTTTGAAAGATGTTTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
*
223160 AAGAGTTTTGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
223184 AAAAGTTTTGAAA
1 AAGAGTTTTGAAA
223197 ATATTATCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:224057 original size:11 final size:10
Alignment explanation
Indices: 224035--224090 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
224025 TTATTTTTGA
*
224035 TTTTTGTTCT
1 TTTTTTTTCT
224045 TTCTTTTTTCT
1 TT-TTTTTTCT
*
224056 TTTGTTTTC-
1 TTTTTTTTCT
224065 TTTTTTTT-T
1 TTTTTTTTCT
**
224074 TTTTGCTTCT
1 TTTTTTTTCT
224084 TTTTTTT
1 TTTTTTT
224091 GCCCTTTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
9 13 0.36
10 14 0.39
11 9 0.25
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:224058 original size:19 final size:18
Alignment explanation
Indices: 224035--224090 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
224025 TTATTTTTGA
224035 TTTTTG-TTCTTTCTTTTT
1 TTTTTGTTTCTTT-TTTTT
224053 TCTTTTGTTTTCTTTTTTTT
1 T-TTTTG-TTTCTTTTTTTT
*
224073 TTTTTGCTTCTTTTTTTT
1 TTTTTGTTTCTTTTTTTT
224091 GCCCTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 12 0.35
19 10 0.29
20 6 0.18
21 6 0.18
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTGTTTCTTTTTTTT
Found at i:224066 original size:17 final size:16
Alignment explanation
Indices: 224044--224091 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
224034 ATTTTTGTTC
224044 TTTCTTTTTTCTTTTGT
1 TTTCTTTTTT-TTTTGT
224061 TTTCTTTTTTTTTT-T
1 TTTCTTTTTTTTTTGT
*
224076 TTGCTTCTTTTTTTTG
1 TTTCTT-TTTTTTTTG
224092 CCCTTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 12 0.43
17 10 0.36
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTTTTGT
Found at i:228901 original size:16 final size:17
Alignment explanation
Indices: 228869--228926 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
228859 TATTAAGAAA
228869 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
228886 AAAATAA-AGTAAAAATAT
1 AAAATAATAG-AAAAA-AT
* *
228904 AATATATATATAAATAAAT
1 AAAATA-ATAGAAA-AAAT
228923 AAAA
1 AAAA
228927 ACAAAAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 2 0.06
17 12 0.36
18 7 0.21
19 9 0.27
20 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:229028 original size:2 final size:2
Alignment explanation
Indices: 229021--229064 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
229011 AAATTAATAC
*
229021 AT AT AT AT AT AT AT AT AT AT AT AT A- AT GAT AT A- AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
229062 AT A
1 AT A
229065 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:229068 original size:14 final size:14
Alignment explanation
Indices: 229021--229087 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
229011 AAATTAATAC
*
229021 ATATATATATATAT
1 ATATAAATATATAT
*
229035 ATATATATATA-AT
1 ATATAAATATATAT
229048 GATATAAGATATATAT
1 -ATATAA-ATATATAT
*
229064 A-ATAAAAATAATAT
1 ATATAAATAT-ATAT
229078 AATATAAATA
1 -ATATAAATA
229088 AAAAAGAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 24 0.55
15 7 0.16
16 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:229077 original size:25 final size:27
Alignment explanation
Indices: 229029--229079 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
229019 ACATATATAT
* *
229029 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
229056 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
229080 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:235096 original size:17 final size:16
Alignment explanation
Indices: 235039--235098 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
235029 AATTTTTCAT
235039 TATATTATT-TTAAT-
1 TATATTATTATTAATA
235053 TATTATTATTATTAA-A
1 TA-TATTATTATTAATA
*
235069 TAAAATATATTATTATATA
1 T-ATAT-TATTATTA-ATA
235088 TATATTATTAT
1 TATATTATTAT
235099 CATTAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 2 0.05
15 7 0.19
16 7 0.19
17 15 0.41
18 4 0.11
19 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTATTATTAATA
Found at i:235115 original size:40 final size:35
Alignment explanation
Indices: 235039--235110 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
235029 AATTTTTCAT
* *
235039 TATATTATTTTAATTATTATTATTATTAAATAAAA
1 TATATTATTATAATTATTATTATCATTAAATAAAA
235074 TATATTATTATATATATATTATTATCATTAAATAAAA
1 TATATTATTATA-AT-TATTATTATCATTAAATAAAA
235111 AAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 11 0.33
36 2 0.06
37 20 0.61
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TATATTATTATAATTATTATTATCATTAAATAAAA
Found at i:235832 original size:13 final size:13
Alignment explanation
Indices: 235814--235839 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
235804 GCCACCGTTT
235814 ACGGTGGCCGGCG
1 ACGGTGGCCGGCG
235827 ACGGTGGCCGGCG
1 ACGGTGGCCGGCG
235840 GCGGAATACG
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:0.08, C:0.31, G:0.54, T:0.08
Consensus pattern (13 bp):
ACGGTGGCCGGCG
Found at i:239365 original size:21 final size:21
Alignment explanation
Indices: 239341--239381 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
239331 TTTTCATACA
239341 TGCATTTACATTTTGTATTTG
1 TGCATTTACATTTTGTATTTG
*
239362 TGCATTTTCATTTTGTATTT
1 TGCATTTACATTTTGTATTT
239382 TTACTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.61
Consensus pattern (21 bp):
TGCATTTACATTTTGTATTTG
Found at i:239390 original size:21 final size:21
Alignment explanation
Indices: 239343--239390 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
239333 TTCATACATG
* *
239343 CATTTACATTTTGTATTTGTG
1 CATTTTCATTTTGTATTTGTA
*
239364 CATTTTCATTTTGTATTTTTA
1 CATTTTCATTTTGTATTTGTA
*
239385 CTTTTT
1 CATTTT
239391 ATATCTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.65
Consensus pattern (21 bp):
CATTTTCATTTTGTATTTGTA
Found at i:244378 original size:82 final size:82
Alignment explanation
Indices: 244241--244656 Score: 661
Period size: 82 Copynumber: 5.0 Consensus size: 82
244231 TCATAATAGA
*
244241 AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
1 AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
244306 GACATAACCAATCATTG
66 GGCAAAACCAATCATTG
* *
244323 AATTGGAAGATGAATATGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTT
1 AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
244388 GGCATAACCAATCATTG
66 GGCAAAACCAATCATTG
*
244405 AATTGGAAGATGAATATGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
244470 GGCAGAACCAATCATTT
66 GGCAAAACCAATCATTG
* * *
244487 AATTTGAGAGATGAATGTGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATTGGA-AGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
244552 TGGTAAAACCAATCATTG
65 TGGCAAAACCAATCATTG
* * *
244570 AATTTGAGAGATGAATGTGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATTGGA-AGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
244635 TGGTAAAACCAATCATTG
65 TGGCAAAACCAATCATTG
244653 AATT
1 AATT
244657 TAAAAGATAA
Statistics
Matches: 318, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
82 162 0.51
83 156 0.49
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (82 bp):
AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGCAAAACCAATCATTG
Found at i:244542 original size:83 final size:82
Alignment explanation
Indices: 244241--244678 Score: 660
Period size: 83 Copynumber: 5.3 Consensus size: 82
244231 TCATAATAGA
* *
244241 AATTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
1 AATTTGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
244306 GACATAACCAATCATTG
66 GGCAAAACCAATCATTG
* * *
244323 AATTGGAAGATGAATATGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTT
1 AATTTGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
244388 GGCATAACCAATCATTG
66 GGCAAAACCAATCATTG
* *
244405 AATTGGAAGATGAATATGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AATTTGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
244470 GGCAGAACCAATCATTT
66 GGCAAAACCAATCATTG
* *
244487 AATTTGAGAGATGAATGTGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATTTGA-AGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
244552 TGGTAAAACCAATCATTG
65 TGGCAAAACCAATCATTG
* *
244570 AATTTGAGAGATGAATGTGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATTTGA-AGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
244635 TGGTAAAACCAATCATTG
65 TGGCAAAACCAATCATTG
* * *
244653 AATTTAAAAGATAAATTTGCTCATAG
1 AATTT-GAAGATGAATATGCTCATAG
244679 TAAAAATAAG
Statistics
Matches: 336, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
82 162 0.48
83 173 0.51
84 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (82 bp):
AATTTGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGCAAAACCAATCATTG
Found at i:246830 original size:54 final size:54
Alignment explanation
Indices: 246740--246855 Score: 189
Period size: 54 Copynumber: 2.1 Consensus size: 54
246730 ACTTCAATGA
* *
246740 TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTATTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTT
*
246794 TTACGAACATCTGAGCAGAAGCCACAGGAAAA-GATGAATGCACTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACA-AAAAAGGATGAATGCACTGTCAAATGTT
246848 TTACGAAC
1 TTACGAAC
246856 CTGTTATTCT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 54 0.93
55 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (54 bp):
TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTT
Found at i:247247 original size:22 final size:22
Alignment explanation
Indices: 247219--247273 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
247209 ATCTACATTC
* *
247219 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGACTCTCTT
*
247241 TTTAAAGATGACAGACTCTCTT
1 TTCAAAGATGACAGACTCTCTT
247263 TTCAAAGATGA
1 TTCAAAGATGA
247274 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGACTCTCTT
Found at i:248078 original size:77 final size:77
Alignment explanation
Indices: 247951--249511 Score: 2782
Period size: 77 Copynumber: 20.4 Consensus size: 77
247941 CTATTTCCCA
247951 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248016 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248028 CATCTGTAAGTCCTTCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248092 AAGCCTTCGGGT
66 AAACCTTCGGGT
*
248104 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248169 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248181 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248245 AAGCCTTCGGGT
66 AAACCTTCGGGT
*
248257 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248322 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248334 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGGGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248398 AAGCCTTCGGGT
66 AAACCTTCGGGT
*
248410 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248475 AAACCTTCGGGT
66 AAACCTTCGGGT
* *
248487 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248552 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248564 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248628 AAGCCTTCGGGT
66 AAACCTTCGGGT
248640 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248705 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248717 CATCTGTAAGTCCTTCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248781 AAGCCTTCGGGT
66 AAACCTTCGGGT
*
248793 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248858 AAACCTTCGGGT
66 AAACCTTCGGGT
*
248870 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248934 AAGCCTTCGGGT
66 AAACCTTCGGGT
*
248946 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
249011 AAACCTTCGGGT
66 AAACCTTCGGGT
* * *
249023 CATATGTAAGCCCTTCAGTTCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
249088 AAACCTTCGGGT
66 AAACCTTCGGGT
* *
249100 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
249165 AAACCTTCGGGT
66 AAACCTTCGGGT
*
249177 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
249242 AAACCTTCGGGT
66 AAACCTTCGGGT
*
249254 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATG-TTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
249317 AAAGCCTTCGGGT
65 AAAACCTTCGGGT
249330 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
249394 AAGCCTTCGGGT
66 AAACCTTCGGGT
249406 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
249470 AAGCCTTCGGGT
66 AAACCTTCGGGT
249482 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
249512 TCAATATTTC
Statistics
Matches: 1431, Mismatches: 45, Indels: 17
0.96 0.03 0.01
Matches are distributed among these distances:
75 26 0.02
76 605 0.42
77 774 0.54
78 26 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (77 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AAACCTTCGGGT
Found at i:248229 original size:153 final size:154
Alignment explanation
Indices: 247951--249511 Score: 2782
Period size: 153 Copynumber: 10.2 Consensus size: 154
247941 CTATTTCCCA
247951 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248016 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
248081 TGATGTTTTC-AAAGCCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248104 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248169 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
248234 TGATGTTTTC-AAAGCCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248257 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248322 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGGGCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
248387 TGATGTTTTC-AAAGCCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248410 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
248475 AAACCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248540 TGATGTTTTCAAAAACCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248564 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
248628 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248693 TGATGTTTTCAAAAACCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248717 CATCTGTAAGTCCTTCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
248781 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248846 TGATGTTTTCAAAAACCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
248870 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
248934 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248999 TGATGTTTTCAAAAACCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
* * *
249023 CATATGTAAGCCCTTCAGTTCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
249088 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
249153 TGATGTTTTCAAAAACCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
*
249177 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
249242 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTT
*
249307 TTGATG-TTTC-AAAGCCTTCGGGT
130 TTGATGTTTTCAAAAACCTTCGGGT
249330 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
249394 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
249459 TGATGTTTTC-AAAGCCTTCGGGT
131 TGATGTTTTCAAAAACCTTCGGGT
249482 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
249512 TCAATATTTC
Statistics
Matches: 1370, Mismatches: 34, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
151 26 0.02
152 90 0.07
153 957 0.70
154 272 0.20
155 25 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (154 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTCAAAAACCTTCGGGT
Found at i:248969 original size:536 final size:536
Alignment explanation
Indices: 247951--249511 Score: 2928
Period size: 536 Copynumber: 2.9 Consensus size: 536
247941 CTATTTCCCA
247951 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
248016 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248081 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
248146 CGGGATCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
196 CGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
248211 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
261 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
*
248276 GCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGT
326 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGT
*
248341 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGGGCTTTTTGATGTTTTCAAAGCCTTC
391 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
248406 GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
456 GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
248471 TCAAAAACCTTCGGGT
521 TCAAAAACCTTCGGGT
* *
248487 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
248552 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
248617 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
* *
248682 CGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTCT
196 CGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
248747 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
261 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
*
248812 GCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGT
326 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGT
*
248877 AAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
391 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
248942 GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
456 GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
249007 TCAAAAACCTTCGGGT
521 TCAAAAACCTTCGGGT
* * *
249023 CATATGTAAGCCCTTCAGTTCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
249088 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
66 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
249153 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCT
131 TGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
249218 TCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTT
195 TCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTT
249283 TCCAAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCA
260 TCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCA
*
249347 GTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCT
324 GTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCT
249411 GTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCT
389 GTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCT
249476 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
454 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
249512 TCAATATTTC
Statistics
Matches: 999, Mismatches: 24, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
536 776 0.78
537 197 0.20
538 26 0.03
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (536 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGT
AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
TCAAAAACCTTCGGGT
Found at i:249682 original size:16 final size:17
Alignment explanation
Indices: 249647--249688 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
249637 TTATTTTAAT
*
249647 TATTATTAAATAAAATA
1 TATTATTATATAAAATA
*
249664 TATTATTATAT-ATATA
1 TATTATTATATAAAATA
249680 TATTATTAT
1 TATTATTAT
249689 CATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATTATATAAAATA
Found at i:260380 original size:641 final size:641
Alignment explanation
Indices: 259159--260444 Score: 2509
Period size: 641 Copynumber: 2.0 Consensus size: 641
259149 CCTAAAGACG
259159 GATTAAAAGTTGATGGAGACAAAGAATGAACTCTTACCATCCACCTTGAAGATATAGACACTTGG
1 GATTAAAAGTTGATGGAGACAAAGAATGAACTCTTACCATCCACCTTGAAGATATAGACACTTGG
259224 AGAAAGAATAAAGAAGATGAAAAGGAAATGGGACTCCTCAATAAATCCTCAAATTTCACCTTCAA
66 AGAAAGAATAAAGAAGATGAAAAGGAAATGGGACTCCTCAATAAATCCTCAAATTTCACCTTCAA
259289 TTTCCATCAATGGTCTAATTGCTCTTTTGGTCCTTCACATTTTGTCTCATATTTAAAAATTCATT
131 TTTCCATCAATGGTCTAATTGCTCTTTTGGTCCTTCACATTTTGTCTCATATTTAAAAATTCATT
*
259354 TTTATTGCTAATTGACCCCCTAATCCAACCCAATTAAGCCCAACTCGGCCCAATAACTTTAATTA
196 TTTATTGCTAATTGACCCCCTAATCCAACCCAATTAAGCCCAACTCGGCCCAATAAATTTAATTA
259419 TAAATTGCATGAGGTCCACATACGTCTTGGGTAAAATCAAAAGTACTAGTCCGAAATTTGGGATG
261 TAAATTGCATGAGGTCCACATACGTCTTGGGTAAAATCAAAAGTACTAGTCCGAAATTTGGGATG
*
259484 TTACAACTCTCTCATCCTTAAAAGAAATTTCTTCCTTGAAATTTACTTGGACTGAATAACGACAT
326 TTACAACTCTCTCATCCTAAAAAGAAATTTCTTCCTTGAAATTTACTTGGACTGAATAACGACAT
259549 ATCCTTAGGTCAAACACTTAGAAACCTCGAAGCACCTAAATCCATATTAACATGATCCTTACTAA
391 ATCCTTAGGTCAAACACTTAGAAACCTCGAAGCACCTAAATCCATATTAACATGATCCTTACTAA
259614 AAAAGTCCTTGCAATATGGCTTGCAACTCGAAAACTCACAAACTAATCTATAACCCCTTTTCGTA
456 AAAAGTCCTTGCAATATGGCTTGCAACTCGAAAACTCACAAACTAATCTATAACCCCTTTTCGTA
259679 TAGGGTGCTCCTAGGTCGAACCTCAATAAAAAATCTTTGAGAAACACGAAGCCAAGGAATCACAC
521 TAGGGTGCTCCTAGGTCGAACCTCAATAAAAAATCTTTGAGAAACACGAAGCCAAGGAATCACAC
* *
259744 TCTTATTGTCTGATACTATATGGTTAGAATGACTCACAAGAAAAATGATATTTTAT
586 TCTTACTGTCTGATACTATATGGTTAGAATGAATCACAAGAAAAATGATATTTTAT
*
259800 GATTAAAAGTTGATGGAGACAAAGAATGAACTCTTACCATCCACCTTGAAGATATATACACTTGG
1 GATTAAAAGTTGATGGAGACAAAGAATGAACTCTTACCATCCACCTTGAAGATATAGACACTTGG
259865 AGAAAGAATAAAGAAGATGAAAAGGAAATGGGACTCCTCAATAAATCCTCAAATTTCACCTTCAA
66 AGAAAGAATAAAGAAGATGAAAAGGAAATGGGACTCCTCAATAAATCCTCAAATTTCACCTTCAA
259930 TTTCCATCAATGGTCTAATTGCTCTTTTGGTCCTTCACATTTTGTCTCATATTTAAAAATTCATT
131 TTTCCATCAATGGTCTAATTGCTCTTTTGGTCCTTCACATTTTGTCTCATATTTAAAAATTCATT
*
259995 TTTATTGCTAATTGGCCCCCTAATCCAACCCAATTAAGCCCAACTCGGCCCAATAAATTTAATTA
196 TTTATTGCTAATTGACCCCCTAATCCAACCCAATTAAGCCCAACTCGGCCCAATAAATTTAATTA
*
260060 TAAATTGCATGAGGTCCACATACGTCTTGGGTAAAATTAAAAGTACTAGTCCGAAATTTGGGATG
261 TAAATTGCATGAGGTCCACATACGTCTTGGGTAAAATCAAAAGTACTAGTCCGAAATTTGGGATG
260125 TTACAACTCTCTCATCCTAAAAAGAAATTTCTTCCTTGAAATTTACTTGGACTGAATAACGACAT
326 TTACAACTCTCTCATCCTAAAAAGAAATTTCTTCCTTGAAATTTACTTGGACTGAATAACGACAT
260190 ATCCTTAGGTCAAACACTTAGAAACCTCGAAGCACCTAAATCCATATTAACATGATCCTTACTAA
391 ATCCTTAGGTCAAACACTTAGAAACCTCGAAGCACCTAAATCCATATTAACATGATCCTTACTAA
260255 AAAAGTCCTTGCAATATGGCTTGCAACTCGAAAACTCACAAACTAATCTATAACCCCTTTTCGTA
456 AAAAGTCCTTGCAATATGGCTTGCAACTCGAAAACTCACAAACTAATCTATAACCCCTTTTCGTA
260320 TAGGGTGCTCCTAGGTCGAACCTCAATAAAAAATCTTTGAGAAACACGAAGCCAAGGAATCACAC
521 TAGGGTGCTCCTAGGTCGAACCTCAATAAAAAATCTTTGAGAAACACGAAGCCAAGGAATCACAC
260385 TCTTACTGTCTGATACTATATGGTTAGAATGAATCACAAGAAAAATGATATTTTAT
586 TCTTACTGTCTGATACTATATGGTTAGAATGAATCACAAGAAAAATGATATTTTAT
260441 GATT
1 GATT
260445 CAATTACTAT
Statistics
Matches: 638, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
641 638 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (641 bp):
GATTAAAAGTTGATGGAGACAAAGAATGAACTCTTACCATCCACCTTGAAGATATAGACACTTGG
AGAAAGAATAAAGAAGATGAAAAGGAAATGGGACTCCTCAATAAATCCTCAAATTTCACCTTCAA
TTTCCATCAATGGTCTAATTGCTCTTTTGGTCCTTCACATTTTGTCTCATATTTAAAAATTCATT
TTTATTGCTAATTGACCCCCTAATCCAACCCAATTAAGCCCAACTCGGCCCAATAAATTTAATTA
TAAATTGCATGAGGTCCACATACGTCTTGGGTAAAATCAAAAGTACTAGTCCGAAATTTGGGATG
TTACAACTCTCTCATCCTAAAAAGAAATTTCTTCCTTGAAATTTACTTGGACTGAATAACGACAT
ATCCTTAGGTCAAACACTTAGAAACCTCGAAGCACCTAAATCCATATTAACATGATCCTTACTAA
AAAAGTCCTTGCAATATGGCTTGCAACTCGAAAACTCACAAACTAATCTATAACCCCTTTTCGTA
TAGGGTGCTCCTAGGTCGAACCTCAATAAAAAATCTTTGAGAAACACGAAGCCAAGGAATCACAC
TCTTACTGTCTGATACTATATGGTTAGAATGAATCACAAGAAAAATGATATTTTAT
Found at i:262890 original size:109 final size:109
Alignment explanation
Indices: 262071--262876 Score: 1136
Period size: 109 Copynumber: 7.4 Consensus size: 109
262061 TACTATCAAC
* * * * *
262071 AAGTGTGCAAAACCACGGAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTATACAG
1 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
* *
262136 CCCACAGAATTCATAATATGTTTATGAACGACCATATCGACACT
66 CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
* * * *
262180 AAGTGTGCAAAACCACA-TAATTCATAATATGTTTATGAATGACCGTATCGGTAATAAGTGTGCA
1 AAGTGTGCAAAACCA-AGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCA
** * * *
262244 ACCCATGGAATTCATAATATGTTTATAAACCAACGTATCGGCACT
65 ACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
*
262289 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAATGTGCAA
1 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
* * *
262354 CCCATAGAATTCATAATATGTTTATAAACCACCGTATCGGCACT
66 CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
* *
262398 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCAGCACTACGTGTGCAA
1 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
* *
262463 CCCAC-GAAATTCATAATATGTTTATGAACGACCATATCAGCACT
66 CCCACAG-AATTCATAATATGTTTATGAACGACCGTATCGGCACT
* * *
262507 AAGTGTGCAAAACCATGAAATTCATAATATGTTTATGAATGACCGTATCGTCACTAAGTGTGCAA
1 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
262572 CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
66 CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
* * * * * *
262616 AAGTGTGTAAAACCACA-TAATTCATAATATGTTTATGAAAGACCGTATCAGTACTAAGTATGCA
1 AAGTGTGCAAAACCA-AGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCA
*
262680 ACCCAC-GAAATTCATAATATGTTTATTAACGACCGTATCGGCACT
65 ACCCACAG-AATTCATAATATGTTTATGAACGACCGTATCGGCACT
* * * *
262725 AAGTGTGCAAAACCACGAAATTCATAATATATTTATGAACGAACGTATCGACACTAAGTGTGCAA
1 AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
* ** **
262790 CCCACAAAATTCATAATATGTTTATGAACGATTGTATCAACACT
66 CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
*
262834 AAGTGTACAAAACCATAG-AATTCATAATATGTTTATGAACGAC
1 AAGTGTGCAAAACCA-AGAAATTCATAATATGTTTATGAACGAC
262877 ATTATAGACA
Statistics
Matches: 622, Mismatches: 66, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
108 3 0.00
109 617 0.99
110 2 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (109 bp):
AAGTGTGCAAAACCAAGAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
CCCACAGAATTCATAATATGTTTATGAACGACCGTATCGGCACT
Found at i:266723 original size:12 final size:11
Alignment explanation
Indices: 266705--266757 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
266695 TTTTTTTATA
266705 TTTTTCTTTCT
1 TTTTTCTTTCT
266716 TGTTTTCTTTCAT
1 T-TTTTCTTTC-T
*
266729 TTTCTCTCTTTAT
1 TTT-T-TCTTTCT
266742 TCTTTTCTTTCT
1 T-TTTTCTTTCT
266754 TTTT
1 TTTT
266758 ATTTTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
11 4 0.11
12 18 0.51
13 6 0.17
14 7 0.20
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:266748 original size:22 final size:22
Alignment explanation
Indices: 266706--266746 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
266696 TTTTTTATAT
* *
266706 TTTTCTTTCTTGTTTTCTTTCA
1 TTTTCTCTCTTGTATTCTTTCA
266728 TTTTCTCTCTT-TATTCTTT
1 TTTTCTCTCTTGTATTCTTT
266747 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTCTCTCTTGTATTCTTTCA
Found at i:266760 original size:18 final size:18
Alignment explanation
Indices: 266697--266760 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
266687 GTTTTGTCTT
266697 TTTTTATAT-TTTTCTTTC
1 TTTTTAT-TCTTTTCTTTC
*
266715 TTGTT-TTC-TTTCATTTTC
1 TTTTTATTCTTTTC--TTTC
266733 TCTCTTTATTCTTTTCTTTC
1 T-T-TTTATTCTTTTCTTTC
266753 TTTTTATT
1 TTTTTATT
266761 TTCTTCAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 5 0.14
17 1 0.03
18 15 0.41
19 2 0.05
20 7 0.19
21 3 0.08
22 4 0.11
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTATTCTTTTCTTTC
Found at i:271091 original size:19 final size:19
Alignment explanation
Indices: 271041--271098 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
271031 CAATACAAAA
*
271041 CTTTCATATCTCATTTTCAT
1 CTTTCACAT-TCATTTTCAT
* *
271061 CTTTCACTTTCATATTCA-
1 CTTTCACATTCATTTTCAT
271079 CTTTCACAATTCATTTTCAT
1 CTTTCAC-ATTCATTTTCAT
271099 AATTTGTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 7 0.23
19 17 0.55
20 7 0.23
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (19 bp):
CTTTCACATTCATTTTCAT
Found at i:271102 original size:13 final size:12
Alignment explanation
Indices: 271040--271099 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
271030 ACAATACAAA
271040 ACTTTCATATCTC
1 ACTTTCATAT-TC
* *
271053 ATTTTCATCTTTC
1 ACTTTCAT-ATTC
271066 ACTTTCATATTC
1 ACTTTCATATTC
*
271078 ACTTTCACAATTC
1 ACTTTCA-TATTC
*
271091 ATTTTCATA
1 ACTTTCATA
271100 ATTTGTACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 11 0.29
13 26 0.68
14 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (12 bp):
ACTTTCATATTC
Found at i:271143 original size:19 final size:18
Alignment explanation
Indices: 271116--271175 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
271106 ACTTTCACAT
* *
271116 TTCATAACTCATTATCAGA
1 TTCAAAACTTATT-TCAGA
* *
271135 TTCAGAACTTGTTTTCAGA
1 TTCAAAACTT-ATTTCAGA
*
271154 CTCAAAACTTATTTCAGA
1 TTCAAAACTTATTTCAGA
271172 TTCA
1 TTCA
271176 TAGCTTACTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 10 0.30
19 21 0.64
20 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (18 bp):
TTCAAAACTTATTTCAGA
Found at i:271182 original size:18 final size:19
Alignment explanation
Indices: 271147--271198 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
271137 CAGAACTTGT
* * *
271147 TTTCAGACTCAAAACTTA-
1 TTTCAGATTCATAGCTTAC
271165 TTTCAGATTCATAGCTTAC
1 TTTCAGATTCATAGCTTAC
271184 TTTCA-AGTTCATAGC
1 TTTCAGA-TTCATAGC
271199 CCAATGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
TTTCAGATTCATAGCTTAC
Found at i:274397 original size:16 final size:16
Alignment explanation
Indices: 274376--274411 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
274366 CAAATGCAAG
274376 AAAATAAA-ACCAAAAT
1 AAAATAAACA-CAAAAT
274392 AAAATAAACACAAAAT
1 AAAATAAACACAAAAT
274408 AAAA
1 AAAA
274412 ATGGGTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAAACACAAAAT
Found at i:274532 original size:26 final size:26
Alignment explanation
Indices: 274499--274551 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
274489 TACCCATACA
* *
274499 TGGTTTAATAAATCTTACTTTAACAT
1 TGGTTTAATAAATCCTACTTGAACAT
274525 TGGTTTAATAAATCCTACTTGAACAT
1 TGGTTTAATAAATCCTACTTGAACAT
274551 T
1 T
274552 CTTTCTACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (26 bp):
TGGTTTAATAAATCCTACTTGAACAT
Found at i:279983 original size:14 final size:14
Alignment explanation
Indices: 279960--279998 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
279950 TATTACACTC
*
279960 TAAACTTTAAATTA
1 TAAACCTTAAATTA
279974 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
279988 TAAATCTTAAA
1 TAAACCTTAAA
279999 CCTTGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:279991 original size:21 final size:20
Alignment explanation
Indices: 279974--280039 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
279964 CTTTAAATTA
279974 TAAACCTTAAATTATAAATCT
1 TAAACCTTAAA-TATAAATCT
* *
279995 TAAACCTTGAATATAAAACCT
1 TAAACCTTAAATAT-AAATCT
* *
280016 TAAACCATAAATCATAAACCT
1 TAAACCTTAAAT-ATAAATCT
280037 TAA
1 TAA
280040 GTTATAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.08
21 34 0.87
22 2 0.05
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAACCTTAAATATAAATCT
Found at i:279999 original size:35 final size:35
Alignment explanation
Indices: 279960--280056 Score: 115
Period size: 35 Copynumber: 2.8 Consensus size: 35
279950 TATTACACTC
* ** *
279960 TAAACTTTAAATTATAAACCTTAAATTATAAATCT
1 TAAACCTTAAATTATAAACCTTAAACCATAAATCA
*
279995 TAAACCTTGAA-TATAAAACCTTAAACCATAAATCA
1 TAAACCTTAAATTAT-AAACCTTAAACCATAAATCA
* *
280030 TAAACCTTAAGTTATAAACCCTAAACC
1 TAAACCTTAAATTATAAACCTTAAACC
280057 CTTAATCTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
34 3 0.06
35 46 0.88
36 3 0.06
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (35 bp):
TAAACCTTAAATTATAAACCTTAAACCATAAATCA
Found at i:281023 original size:31 final size:31
Alignment explanation
Indices: 280985--281047 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
280975 AACATTTTTG
*
280985 AGTTCGAGTCGAGTTTCAATATTTTTTTTCA
1 AGTTCGAGTCGAGTTTCAATATTTTCTTTCA
281016 AGTTCGAGTCGAGTTTCAATATTTTCTTTCA
1 AGTTCGAGTCGAGTTTCAATATTTTCTTTCA
281047 A
1 A
281048 CTGAGTGCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (31 bp):
AGTTCGAGTCGAGTTTCAATATTTTCTTTCA
Found at i:288823 original size:2 final size:2
Alignment explanation
Indices: 288818--288854 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
288808 CAGACATCAA
288818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
288855 CATTGCCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:288938 original size:22 final size:22
Alignment explanation
Indices: 288910--288967 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
288900 ACCTCAGCAT
*
288910 TGATACAAAAGTGCATTCGTAC
1 TGATACAAAAGTGCATTCATAC
*
288932 TGATACAAAAGTCCATTCATAC
1 TGATACAAAAGTGCATTCATAC
*
288954 TGATACTAAAGTGC
1 TGATACAAAAGTGC
288968 CTTAGTATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (22 bp):
TGATACAAAAGTGCATTCATAC
Found at i:288979 original size:22 final size:22
Alignment explanation
Indices: 288874--288979 Score: 72
Period size: 22 Copynumber: 4.8 Consensus size: 22
288864 AAATTCACGG
* * *
288874 AAGTGCCTTAGTACTGGTGCTA
1 AAGTGCCTTAGTACTGATACAA
* * * * *
288896 AACTACCTCAGCATTGATACAA
1 AAGTGCCTTAGTACTGATACAA
* *
288918 AAGTGCATTCGTACTGATACAA
1 AAGTGCCTTAGTACTGATACAA
*
288940 AAGT-CCATTCA-TACTGATACTA
1 AAGTGCC-TT-AGTACTGATACAA
*
288962 AAGTGCCTTAGTATTGAT
1 AAGTGCCTTAGTACTGAT
288980 GGTATATATC
Statistics
Matches: 61, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
21 2 0.03
22 57 0.93
23 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (22 bp):
AAGTGCCTTAGTACTGATACAA
Found at i:290425 original size:13 final size:13
Alignment explanation
Indices: 290407--290436 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
290397 AAAACCCTCA
290407 TTAGGTCAACCAC
1 TTAGGTCAACCAC
290420 TTAGGTCAACCAC
1 TTAGGTCAACCAC
290433 TTAG
1 TTAG
290437 AAAACTCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (13 bp):
TTAGGTCAACCAC
Found at i:301042 original size:195 final size:185
Alignment explanation
Indices: 300693--301062 Score: 483
Period size: 195 Copynumber: 1.9 Consensus size: 185
300683 CACATGTATC
* **
300693 ATCACAACCAACACACAATCCCTCTCATCAACAGCATCAATTTTATTTTAAAAAAACTAGTCGAG
1 ATCACAACCAACACACAATCCCTCTCATCAACAGCATCAATTTTA-TTAAAAAAAACTAGTAAAG
* *
300758 GCAAAACATTTCCACCACATGCAATAAATGTCCTAAATGAAACTAAAATGCTATGACAATGGCTT
65 GCAAAACATTTCCACCACATGAAATAAATGTCATAAATGAAACTAAAATGCTATGACAATGGCTT
300823 TTAGATAATCAATAAATCAAGTAAAAAGAACCAAAATGTAGTCTTTTTACGGATTT
130 TTAGATAATCAATAAATCAAGTAAAAAGAACCAAAATGTAGTCTTTTTACGGATTT
* *
300879 ATCACAACCAACACACAA-CCCTTTTCATCAACATCATCAATTTTA-TAAAGAAAAACTAGTAAA
1 ATCACAACCAACACACAATCCC-TCTCATCAACAGCATCAATTTTATTAAA-AAAAACTAGTAAA
* * * *
300942 GGTAAAACTTTTCCACCACATGAAATAAATGTCATAAATGCAACTATATGCAACTAATATGTTAT
64 GGCAAAACATTTCCACCACATGAAATAAATGTCATAAATG-------A---AACTAAAATGCTAT
* * *
301007 GATAATGGCTTTTAGATAATCAATAACTCAAGTAAAAAGACCCAAAATGTAGTCTT
119 GACAATGGCTTTTAGATAATCAATAAATCAAGTAAAAAGAACCAAAATGTAGTCTT
301063 AGAGAGGGAA
Statistics
Matches: 158, Mismatches: 14, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
184 3 0.02
185 50 0.32
186 39 0.25
192 1 0.01
195 65 0.41
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (185 bp):
ATCACAACCAACACACAATCCCTCTCATCAACAGCATCAATTTTATTAAAAAAAACTAGTAAAGG
CAAAACATTTCCACCACATGAAATAAATGTCATAAATGAAACTAAAATGCTATGACAATGGCTTT
TAGATAATCAATAAATCAAGTAAAAAGAACCAAAATGTAGTCTTTTTACGGATTT
Found at i:304723 original size:60 final size:60
Alignment explanation
Indices: 304655--304777 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 60
304645 TTTGGATGAA
* * *
304655 TTTGGGGATAAAATTGAAA-GATCTAAAAGTTTAGGGACCAATTTAGAAA-AAGATTCATAG
1 TTTGGGGATAAAATTCAAATGATC-AAAAGTTTAAGGACCAATTT-GAAATAAGAGTCATAG
* * * *
304715 TTTGGGGATGAAATTCAAATGTTCAAAAGTTTAAGGACTAATTTGAAATGAGAGTCATAG
1 TTTGGGGATAAAATTCAAATGATCAAAAGTTTAAGGACCAATTTGAAATAAGAGTCATAG
304775 TTT
1 TTT
304778 AAGGACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.07
60 47 0.87
61 3 0.06
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (60 bp):
TTTGGGGATAAAATTCAAATGATCAAAAGTTTAAGGACCAATTTGAAATAAGAGTCATAG
Found at i:305778 original size:90 final size:90
Alignment explanation
Indices: 305634--305804 Score: 324
Period size: 90 Copynumber: 1.9 Consensus size: 90
305624 TTGATCCAAA
*
305634 TAAAATCGAAACTCGAAATGACCTGATCCGATCCTAACCTGACCCCGAATGTAAACCGAAATGAC
1 TAAAATCGAAACCCGAAATGACCTGATCCGATCCTAACCTGACCCCGAATGTAAACCGAAATGAC
305699 TCGAACTAAAATGATCTGATCGGGT
66 TCGAACTAAAATGATCTGATCGGGT
*
305724 TAAAATCGAAACCCGAAATGACCTGATCCGATCCTAACCTGACCCCGAATGTAAACCGAAATGAT
1 TAAAATCGAAACCCGAAATGACCTGATCCGATCCTAACCTGACCCCGAATGTAAACCGAAATGAC
305789 TCGAACTAAAATGATC
66 TCGAACTAAAATGATC
305805 CGAACCGAAC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (90 bp):
TAAAATCGAAACCCGAAATGACCTGATCCGATCCTAACCTGACCCCGAATGTAAACCGAAATGAC
TCGAACTAAAATGATCTGATCGGGT
Found at i:318976 original size:22 final size:22
Alignment explanation
Indices: 318948--318992 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
318938 TCAACTAACT
318948 TTGTATGTTTTGCTCATATTTC
1 TTGTATGTTTTGCTCATATTTC
318970 TTGTATGTTTTGCTCATATTTC
1 TTGTATGTTTTGCTCATATTTC
318992 T
1 T
318993 CTTATTTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (22 bp):
TTGTATGTTTTGCTCATATTTC
Found at i:319581 original size:24 final size:23
Alignment explanation
Indices: 319554--319600 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
319544 ATGTTCATTT
*
319554 TACATAACTTAGAAATAAAAAAAA
1 TACATAAC-TACAAATAAAAAAAA
* *
319578 TACATATCTACAAATATAAAAAA
1 TACATAACTACAAATAAAAAAAA
319601 CTTATATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (23 bp):
TACATAACTACAAATAAAAAAAA
Found at i:320619 original size:16 final size:16
Alignment explanation
Indices: 320598--320629 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
320588 TGAGAAAAAT
320598 TTAATTTAAATTTAAA
1 TTAATTTAAATTTAAA
*
320614 TTAATTTAATTTTAAA
1 TTAATTTAAATTTAAA
320630 AAAACGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTTAAATTTAAA
Found at i:328612 original size:625 final size:625
Alignment explanation
Indices: 327423--328969 Score: 2997
Period size: 625 Copynumber: 2.5 Consensus size: 625
327413 TCTTACATAT
* * * *
327423 GTTTAGGATGCTAAAATATTGTTAGCAAACGATTTTGTTGATCTGTCAAGAAGTACTGGCAGACT
1 GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
* * *
327488 CTAGACTACATATCCACAAATTCGCTTTGTACATGGATAAGTAAGAAGAACCTTAGGAAATCCAG
66 CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
327553 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
131 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
*
327618 ATAGAGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
196 ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
327683 CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTTAAAAATACACTGCTCATGTACTTCTAT
261 CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTTAAAAATACACTGCTCATGTACTTCTAT
327748 AAGTACAAAGTTAATTTATGTAAAATGAACACATGATTTTATTAAGATGATATACTAACCTTTGA
326 AAGTACAAAGTTAATTTATGTAAAATGAACACATGATTTTATTAAGATGATATACTAACCTTTGA
327813 AGCAAAGATACATATATGGAGAACTAAAATAATTGGTGTGGAAACCACTACTGGTGCTTTTTGTC
391 AGCAAAGATACATATATGGAGAACTAAAATAATTGGTGTGGAAACCACTACTGGTGCTTTTTGTC
327878 ATGATTAAACAAACTCTTAAAATACATCTTACGACTAACCCAAAATTTCAAAAGGAAAATAATGA
456 ATGATTAAACAAACTCTTAAAATACATCTTACGACTAACCCAAAATTTCAAAAGGAAAATAATGA
327943 AAAGGAATTCTGAAGCCATCCCATCACTACCTCACTTGTTTTATTTATTTTTAAATTGTGATAGG
521 AAAGGAATTCTGAAGCCATCCCATCACTACCTCACTTGTTTTATTTATTTTTAAATTGTGATAGG
328008 CTCTAAATATAATTTAAATTGACGTATCAAAAAGCTTGTA
586 CTCTAAATATAATTTAAATTGACGTATCAAAAAGCTTGTA
328048 GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
1 GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
328113 CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
66 CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
328178 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
131 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
328243 ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
196 ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
328308 CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTTAAAAATACACTGCTCATGTACTTCTAT
261 CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTTAAAAATACACTGCTCATGTACTTCTAT
*
328373 AAGTACGAAGTTAATTTATGTAAAATGAACACATGATTTTATTAAGATGATATACTAACCTTTGA
326 AAGTACAAAGTTAATTTATGTAAAATGAACACATGATTTTATTAAGATGATATACTAACCTTTGA
328438 AGCAAAGATACATATATGGAGAACTAAAATAATTGGTGTGGAAACCACTACTGGTGCTTTTTGTC
391 AGCAAAGATACATATATGGAGAACTAAAATAATTGGTGTGGAAACCACTACTGGTGCTTTTTGTC
328503 ATGATTAAACAAACTCTTAAAATACATCTTACGACTAACCCAAAATTTCAAAAGGAAAATAATGA
456 ATGATTAAACAAACTCTTAAAATACATCTTACGACTAACCCAAAATTTCAAAAGGAAAATAATGA
328568 AAAGGAATTCTGAAGCCATCCCATCACTACCTCACTTGTTTTATTTATTTTTAAATTGTGATAGG
521 AAAGGAATTCTGAAGCCATCCCATCACTACCTCACTTGTTTTATTTATTTTTAAATTGTGATAGG
328633 CTCTAAATATAATTTAAATTGACGTATCAAAAAGCTTGTA
586 CTCTAAATATAATTTAAATTGACGTATCAAAAAGCTTGTA
328673 GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
1 GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
328738 CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
66 CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
328803 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
131 CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
328868 ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
196 ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
*
328933 CAAGCATTTACTCATAAGCTCTAGATTTT-GCATCCTT
261 CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTT
328970 CAATTCAAAT
Statistics
Matches: 912, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
624 8 0.01
625 904 0.99
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (625 bp):
GTTTAGGATGCTAAAGTATTTTTAACAAACGATTTTATTGATCTGTCAAGAAGTACTGGCAGACT
CTAGACTATATATCCACAAATTCGCTTTGTACATGAATAAGTAAGAAGAACCTTAGGAAATCCAA
CAGCTCATTTTGCAACGTATAATTCTTTATATAATTCTAAAACCTACTTTTAGACACTACATCGT
ATAGTGTTGTGCAAATCTGGATTTCTATGTTTTCTTGTCTCCAGTCTAACCATTGGATTAGATTG
CAAGCATTTACTCATAGGCTCTAGATTTTGGCATCCTTAAAAATACACTGCTCATGTACTTCTAT
AAGTACAAAGTTAATTTATGTAAAATGAACACATGATTTTATTAAGATGATATACTAACCTTTGA
AGCAAAGATACATATATGGAGAACTAAAATAATTGGTGTGGAAACCACTACTGGTGCTTTTTGTC
ATGATTAAACAAACTCTTAAAATACATCTTACGACTAACCCAAAATTTCAAAAGGAAAATAATGA
AAAGGAATTCTGAAGCCATCCCATCACTACCTCACTTGTTTTATTTATTTTTAAATTGTGATAGG
CTCTAAATATAATTTAAATTGACGTATCAAAAAGCTTGTA
Found at i:334173 original size:20 final size:20
Alignment explanation
Indices: 334137--334174 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
334127 ATCCTATTAC
**
334137 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
334157 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
334175 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:334957 original size:44 final size:44
Alignment explanation
Indices: 334909--334993 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
334899 TTTGATAAAG
*
334909 TATTATTTAAAATATTATTTTTTATCAAAAATATTAATATTTGA
1 TATTACTTAAAATATTATTTTTTATCAAAAATATTAATATTTGA
* *
334953 TATTACTTAAAATATTATTTTTTTTCAGAAATATTAATATT
1 TATTACTTAAAATATTATTTTTTATCAAAAATATTAATATT
334994 GAGTTCAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (44 bp):
TATTACTTAAAATATTATTTTTTATCAAAAATATTAATATTTGA
Found at i:336965 original size:31 final size:31
Alignment explanation
Indices: 336930--336988 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
336920 TTAATGATCA
* *
336930 TTTTGTAATAACTTGATAAATTTAATGACTG
1 TTTTGCAATAACTTAATAAATTTAATGACTG
*
336961 TTTTGCAATAATTTAATAAATTTAATGA
1 TTTTGCAATAACTTAATAAATTTAATGA
336989 TTATTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTTGCAATAACTTAATAAATTTAATGACTG
Found at i:337014 original size:20 final size:20
Alignment explanation
Indices: 336971--337014 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
336961 TTTTGCAATA
* * *
336971 ATTTAATAAATTTAATGATT
1 ATTTAATAAATTCAATAATC
*
336991 ATTTGATAAATTCAATAATC
1 ATTTAATAAATTCAATAATC
337011 ATTT
1 ATTT
337015 TATGATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTTAATAAATTCAATAATC
Found at i:345850 original size:18 final size:18
Alignment explanation
Indices: 345824--345858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
345814 ATTAATTTTA
*
345824 AAATTTTATATTCGATTT
1 AAATATTATATTCGATTT
345842 AAATATTATATTCGATT
1 AAATATTATATTCGATT
345859 CAATTATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
AAATATTATATTCGATTT
Found at i:345866 original size:18 final size:18
Alignment explanation
Indices: 345825--345866 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
345815 TTAATTTTAA
*
345825 AATT-TTATATTCGATTT
1 AATTATTATATTCGATTC
*
345842 AAATATTATATTCGATTC
1 AATTATTATATTCGATTC
345860 AATTATT
1 AATTATT
345867 CGAATATCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (18 bp):
AATTATTATATTCGATTC
Found at i:352054 original size:42 final size:41
Alignment explanation
Indices: 351991--352103 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 41
351981 TTGTGCACTT
** *
351991 GGTATCGATACTACTCA-CATAGTATCGATAATACTCTTGCTA
1 GGTATCGATACTACT-AGCATAGTATCGATAATACTAGT-ATA
*
352033 GGTATCGATACTACTAGCATAGTATCGATACTACTAGTATA
1 GGTATCGATACTACTAGCATAGTATCGATAATACTAGTATA
* *
352074 -GTATCGATACTACTTGAATGAGTATCGATA
1 GGTATCGATACTACTAGCAT-AGTATCGATA
352104 TTGTTCATGC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 17 0.27
41 13 0.21
42 33 0.52
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (41 bp):
GGTATCGATACTACTAGCATAGTATCGATAATACTAGTATA
Found at i:352087 original size:23 final size:20
Alignment explanation
Indices: 351992--352103 Score: 120
Period size: 20 Copynumber: 5.5 Consensus size: 20
351982 TGTGCACTTG
351992 GTATCGATACTACTCA-CATA
1 GTATCGATACTACT-AGCATA
* *
352012 GTATCGATAATACTCTTGC-TA
1 GTATCGATACTA--CTAGCATA
352033 GGTATCGATACTACTAGCATA
1 -GTATCGATACTACTAGCATA
*
352054 GTATCGATACTACTAGTATA
1 GTATCGATACTACTAGCATA
* *
352074 GTATCGATACTACTTGAATGA
1 GTATCGATACTACTAGCAT-A
352095 GTATCGATA
1 GTATCGATA
352104 TTGTTCATGC
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
20 51 0.65
21 14 0.18
22 14 0.18
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACTACTAGCATA
Found at i:354568 original size:18 final size:18
Alignment explanation
Indices: 354545--354582 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
354535 TTTTAAGATT
354545 TTATATTCGATTTAAATA
1 TTATATTCGATTTAAATA
*
354563 TTATATTCGATTTAATTA
1 TTATATTCGATTTAAATA
354581 TT
1 TT
354583 CGAATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (18 bp):
TTATATTCGATTTAAATA
Found at i:357494 original size:64 final size:66
Alignment explanation
Indices: 357388--357563 Score: 211
Period size: 64 Copynumber: 2.7 Consensus size: 66
357378 ATTTGAAATT
* * * *
357388 GTTTCCCTTGAAACACA-AATCTTTGAGTCTTTTTCTCA---AAACAAATTTTGTCTCTCTTGAG
1 GTTTCTCTTGAAACA-ATCATCTTTGAGTCTATTTC-CATTGAAACAAATGTTGTCTCTCTTGAG
357449 ACA
64 ACA
* *
357452 GTTTCTCTTGAAAC-ATTATCTTTGGGTC-ATTTCCATTGAAACAAATGTTGTCTCTCTTGAGAC
1 GTTTCTCTTGAAACAATCATCTTTGAGTCTATTTCCATTGAAACAAATGTTGTCTCTCTTGAGAC
357515 A
66 A
* * *
357516 GTTTCTCTTGAAACAATCATCTTTGATTCTGTTTCCCTTGAAACAAAT
1 GTTTCTCTTGAAACAATCATCTTTGAGTCTATTTCCATTGAAACAAAT
357564 CCCTAAAGAT
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
61 2 0.02
62 5 0.05
63 10 0.10
64 52 0.54
65 11 0.11
66 16 0.17
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (66 bp):
GTTTCTCTTGAAACAATCATCTTTGAGTCTATTTCCATTGAAACAAATGTTGTCTCTCTTGAGAC
A
Done.