Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 224 of 240
Found at i:67436489 original size:120 final size:120
Alignment explanation
Indices: 67436274--67436490 Score: 326
Period size: 120 Copynumber: 1.8 Consensus size: 120
67436264 TTGATATCAC
* * * * *
67436274 TGATTAATTTTCTAACCGTGGATATTTTCTGAAAAGTTAAATGAGTGACAATAAAATGTGTTCCA
1 TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
*
67436339 TTTTCGTGAGCGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
66 TTTTCGTGAACGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
* * *
67436394 TGATTAATCTTCTAACTGTGGATGCTTTCCGAAAAGATAAATGATTGACAATAAAATGTATTCCA
1 TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
* *
67436459 TTTTCGTGAATGGAGATTAATAATTATTTTTT
66 TTTTCGTGAACGG-GATTAAAAATTATTTTTT
67436491 AATTATTTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 68 0.80
121 17 0.20
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (120 bp):
TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
TTTTCGTGAACGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
Found at i:67439403 original size:72 final size:72
Alignment explanation
Indices: 67439286--67439674 Score: 544
Period size: 72 Copynumber: 5.4 Consensus size: 72
67439276 GAGGAAAAGT
67439286 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
67439351 GAATTTG
66 GAATTTG
** * * * *
67439358 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACGAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
67439423 GAATTTG
66 GAATTTG
* * * *
67439430 GCCGTTTAACTGATTTTCTGAGACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
*
67439495 GAATTGG
66 GAATTTG
** * * * *
67439502 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
*
67439567 GAAATTG
66 GAATTTG
* * * * * *
67439574 GCCGTTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCATGTAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
67439639 GAATTTG
66 GAATTTG
* *
67439646 ACCATTTAATTGATTTACTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
67439675 GCTGAGTAAC
Statistics
Matches: 270, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 270 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:67439508 original size:144 final size:144
Alignment explanation
Indices: 67439290--67439674 Score: 662
Period size: 144 Copynumber: 2.7 Consensus size: 144
67439280 AAAAGTACCA
67439290 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
* *
67439355 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACG
66 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
*
67439420 AGGGAATTTGGCCG
131 AGGGAAATTGGCCG
* *
67439434 TTTAACTGATTTTCTGAGACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
*
67439499 TGGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
66 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
67439564 AGGGAAATTGGCCG
131 AGGGAAATTGGCCG
* * * *
67439578 TTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCATGTAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
* *
67439643 TTGACCATTTAATTGATTTACTGAAAGATCAA
66 TTGACCATTTAATTGATTTTCTGAAACATCAA
67439675 GCTGAGTAAC
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 226 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (144 bp):
TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
AGGGAAATTGGCCG
Found at i:67440959 original size:27 final size:26
Alignment explanation
Indices: 67440902--67440959 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
67440892 TTTAGGTCTT
*
67440902 AAAAGCTAATGGAGGAAAAAAGAAAG
1 AAAAGCTAAAGGAGGAAAAAAGAAAG
*
67440928 TAAAGCTAAAGGA-GAAAAAAGAGAAGG
1 AAAAGCTAAAGGAGGAAAAAAGA-AA-G
67440955 AAAAG
1 AAAAG
67440960 AAAATGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.07
Consensus pattern (26 bp):
AAAAGCTAAAGGAGGAAAAAAGAAAG
Found at i:67443974 original size:12 final size:13
Alignment explanation
Indices: 67443950--67443987 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
67443940 GAGGAGAGAG
67443950 AAATAATAATAAA
1 AAATAATAATAAA
67443963 AAATAA-AATAAA
1 AAATAATAATAAA
*
67443975 AACAAAATAATAA
1 AA-ATAATAATAA
67443988 CATATCCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 8 0.36
13 9 0.41
14 5 0.23
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAATAATAAA
Found at i:67447332 original size:19 final size:16
Alignment explanation
Indices: 67447291--67447341 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
67447281 TTTACAAATT
67447291 AAAAATAATTATAAAA
1 AAAAATAATTATAAAA
*
67447307 AAGAATAATTATATTAAA
1 AAAAATAATTATA--AAA
67447325 AATAAATAA-TATAAAA
1 AA-AAATAATTATAAAA
67447341 A
1 A
67447342 TATAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 16 0.53
18 9 0.30
19 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATAATTATAAAA
Found at i:67447348 original size:16 final size:17
Alignment explanation
Indices: 67447311--67447348 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
67447301 ATAAAAAAGA
*
67447311 ATAATTATATTAAAAAT
1 ATAATAATATTAAAAAT
67447328 A-AATAATA-TAAAAAT
1 ATAATAATATTAAAAAT
67447343 ATAATA
1 ATAATA
67447349 TGAATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATATTAAAAAT
Found at i:67449769 original size:24 final size:24
Alignment explanation
Indices: 67449742--67449787 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
67449732 AAGTTGAGAA
67449742 GCAAGTCTATGGAGTAAGTCCCCC
1 GCAAGTCTATGGAGTAAGTCCCCC
*
67449766 GCAAGTGTATGGAGTAAGTCCC
1 GCAAGTCTATGGAGTAAGTCCC
67449788 TCTCCCACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (24 bp):
GCAAGTCTATGGAGTAAGTCCCCC
Found at i:67449961 original size:23 final size:24
Alignment explanation
Indices: 67449919--67449970 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
67449909 TTCGTATAAA
*
67449919 ATATCAAATTATTCACATGT-ATT
1 ATATCAAATTATTCAAATGTCATT
* *
67449942 ATATTAAATTATTTAAATGTCATT
1 ATATCAAATTATTCAAATGTCATT
67449966 A-ATCA
1 ATATCA
67449971 TTATATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATCAAATTATTCAAATGTCATT
Found at i:67457509 original size:36 final size:36
Alignment explanation
Indices: 67457469--67457584 Score: 85
Period size: 36 Copynumber: 3.1 Consensus size: 36
67457459 TAAAGATCCG
67457469 CAGAACTCAAATCAAGGTACTGCAATGAAGAAAGTC
1 CAGAACTCAAATCAAGGTACTGCAATGAAGAAAGTC
* * * ** **
67457505 CAGAAAC-CCATTGAAGAGTTTTTGC--TTCAGAAAGATCC
1 CAG-AACTCAAATCAAG-G-TACTGCAATGAAGAAAG-T-C
*
67457543 GCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTC
1 -CAGAACTCAAATCAAGGTACTGCAATGAAGAAAGTC
67457580 CAGAA
1 CAGAA
67457585 ACCCATTGAA
Statistics
Matches: 56, Mismatches: 15, Indels: 18
0.63 0.17 0.20
Matches are distributed among these distances:
36 21 0.38
37 10 0.18
38 10 0.18
39 15 0.27
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (36 bp):
CAGAACTCAAATCAAGGTACTGCAATGAAGAAAGTC
Found at i:67457574 original size:75 final size:75
Alignment explanation
Indices: 67457450--67457603 Score: 272
Period size: 75 Copynumber: 2.1 Consensus size: 75
67457440 TACCCAATCA
* * *
67457450 TTTGCTTTATAAAGATCCGCAGAACTCAAATCAAGGTACTGCAATGAAGAAAGTCCAGAAACCCA
1 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
*
67457515 TTGAAGAGTT
66 TTGAAGACTT
67457525 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
1 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
67457590 TTGAAGACTT
66 TTGAAGACTT
67457600 TTTG
1 TTTG
67457604 ATTTGAGATC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (75 bp):
TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
TTGAAGACTT
Found at i:67460642 original size:3 final size:3
Alignment explanation
Indices: 67460634--67460670 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
67460624 TATCTTAAAA
67460634 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
67460671 TCGCTCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:67464450 original size:34 final size:34
Alignment explanation
Indices: 67464384--67464450 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
67464374 CTATATTGGA
* *
67464384 ATCACCATTCATTTACATTTACGAAATTAATTTT
1 ATCACCATTCATTTACATTTACAAAATCAATTTT
* *
67464418 ATCACCATTCATTTGCATTTGCAAAATCAATTT
1 ATCACCATTCATTTACATTTACAAAATCAATTT
67464451 CGTAGTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.42
Consensus pattern (34 bp):
ATCACCATTCATTTACATTTACAAAATCAATTTT
Found at i:67464962 original size:25 final size:25
Alignment explanation
Indices: 67464914--67464962 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
67464904 AATGTTATAT
* *
67464914 TAATAATATTAATATTAGATAAAAA
1 TAATAATATTAATATTAAACAAAAA
*
67464939 TAATTATATTAATATTAAACAAAA
1 TAATAATATTAATATTAAACAAAA
67464963 TAAAAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAATAATATTAATATTAAACAAAAA
Found at i:67465462 original size:24 final size:25
Alignment explanation
Indices: 67465411--67465469 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
67465401 GGAGTTTTTT
* **
67465411 TTTAATATTAATATAACTATTTTTA
1 TTTAATATTAATATAACAATTTAAA
*
67465436 TTTAATATTAATCTAA-AATTTAAA
1 TTTAATATTAATATAACAATTTAAA
*
67465460 TTTATTATTA
1 TTTAATATTA
67465470 TATTTTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAATATTAATATAACAATTTAAA
Found at i:67465504 original size:31 final size:32
Alignment explanation
Indices: 67465453--67465512 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
67465443 TTAATCTAAA
*
67465453 ATTTAAATTTATTATTATATTTTTTTGAAAAT
1 ATTTAAATTTATTATTATATTTCTTTGAAAAT
* *
67465485 ATTTATATTTTTTA-TATATTTCTTTGAA
1 ATTTAAATTTATTATTATATTTCTTTGAA
67465513 CTTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (32 bp):
ATTTAAATTTATTATTATATTTCTTTGAAAAT
Found at i:67468894 original size:72 final size:72
Alignment explanation
Indices: 67468803--67469279 Score: 638
Period size: 72 Copynumber: 6.6 Consensus size: 72
67468793 AAAGTACCAG
* *
67468803 TTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGATAGCTGCCCTATAGACAAGGGAAT
1 TTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAGGGAAT
67468867 TTGGCCGT
65 TTGGCCGT
* * ** * * *
67468875 TTAACTGATTTTTTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGG-AT
1 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAA-GGGAAT
* *
67468939 TTGACCAT
65 TTGGCCGT
67468947 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
1 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
67469012 TGGCCGT
66 TGGCCGT
* * *
67469019 TTAATTGATTTTCTGAAGCAACAAACTTCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
1 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
67469084 TGGCCGT
66 TGGCCGT
** ** * * * * *
67469091 TTAATTGATTGTT-TGAAACAAAAAACAACTTCAAAGACGATAACTCCCCCATAGACAATGGG-A
1 TTAATTGATT-TTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAA-GGGAA
* *
67469154 TTTGACCAT
64 TTTGGCCGT
*
67469163 TTAACTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
1 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
67469228 TGGCCGT
66 TGGCCGT
* *
67469235 TTAATTGATTTTCTGAAGCAACAAACTCCTCCAAAGATGACAACT
1 TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACT
67469280 CCTCCAAAGA
Statistics
Matches: 351, Mismatches: 47, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
71 8 0.02
72 335 0.95
73 8 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (72 bp):
TTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
TGGCCGT
Found at i:67469177 original size:216 final size:216
Alignment explanation
Indices: 67468803--67469279 Score: 830
Period size: 216 Copynumber: 2.2 Consensus size: 216
67468793 AAAGTACCAG
* * * *
67468803 TTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGATAGCTGCCCTATAGACAAGGGAAT
1 TTAATTGATTTTCTGAAGCAACAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAGGGAAT
* ** * *
67468867 TTGGCCGTTTAACTGATTTTTTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACA
65 TTGGCCGTTTAACTGATTGTTTGAAACAAAAAACAACTTCAAAGACGATAACTCCCCCATAGACA
*
67468932 ATGGGATTTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCT
130 ATGGGATTTGACCATTTAACTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCT
67468997 ATAGACAAGGGAATTTGGCCGT
195 ATAGACAAGGGAATTTGGCCGT
*
67469019 TTAATTGATTTTCTGAAGCAACAAACTTCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
1 TTAATTGATTTTCTGAAGCAACAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
*
67469084 TGGCCGTTTAATTGATTGTTTGAAACAAAAAACAACTTCAAAGACGATAACTCCCCCATAGACAA
66 TGGCCGTTTAACTGATTGTTTGAAACAAAAAACAACTTCAAAGACGATAACTCCCCCATAGACAA
67469149 TGGGATTTGACCATTTAACTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTA
131 TGGGATTTGACCATTTAACTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTA
67469214 TAGACAAGGGAATTTGGCCGT
196 TAGACAAGGGAATTTGGCCGT
67469235 TTAATTGATTTTCTGAAGCAACAAACTCCTCCAAAGATGACAACT
1 TTAATTGATTTTCTGAAGCAACAAACTCCTCCAAAGATGACAACT
67469280 CCTCCAAAGA
Statistics
Matches: 247, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
216 246 1.00
217 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (216 bp):
TTAATTGATTTTCTGAAGCAACAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGGGAATT
TGGCCGTTTAACTGATTGTTTGAAACAAAAAACAACTTCAAAGACGATAACTCCCCCATAGACAA
TGGGATTTGACCATTTAACTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTA
TAGACAAGGGAATTTGGCCGT
Found at i:67475118 original size:20 final size:20
Alignment explanation
Indices: 67475095--67475148 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
67475085 CATAGAACAC
** *
67475095 AATAATAATGACTTAATTAT
1 AATAATAATGACCAAATAAT
*
67475115 AATAATAATCACCAAATAAT
1 AATAATAATGACCAAATAAT
*
67475135 AATAACAATGACCA
1 AATAATAATGACCA
67475149 TATTAATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.28
Consensus pattern (20 bp):
AATAATAATGACCAAATAAT
Found at i:67475215 original size:3 final size:3
Alignment explanation
Indices: 67475196--67475243 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
67475186 AATTAAACAC
* * * *
67475196 TAA TAA AAA TGA TAA TAA TAA -AA TAA TAA TAA TAG TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
67475243 T
1 T
67475244 GAAATGTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:67475843 original size:15 final size:15
Alignment explanation
Indices: 67475818--67475852 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
67475808 GACTCTATTT
*
67475818 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
67475832 TAATTAATATTAAGA
1 TAATTAATATTAAGA
67475847 TAATTA
1 TAATTA
67475853 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:67475895 original size:10 final size:10
Alignment explanation
Indices: 67475877--67475924 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
67475867 ATTTTAGGAT
67475877 TTTAT-TTTA
1 TTTATCTTTA
67475886 TTTATCTTTA
1 TTTATCTTTA
67475896 TTTATCTTTA
1 TTTATCTTTA
* ** *
67475906 ATTAAATGTA
1 TTTATCTTTA
67475916 TTTATCTTT
1 TTTATCTTT
67475925 TAGGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:67485126 original size:18 final size:20
Alignment explanation
Indices: 67485095--67485137 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
67485085 TTTTTTGGAC
* *
67485095 ATTTTTAAATTTTTATATAT
1 ATTTTTAAATTTTTAAAAAT
67485115 ATTTTT-AA-TTTTAAAAAT
1 ATTTTTAAATTTTTAAAAAT
67485133 ATTTT
1 ATTTT
67485138 AGACTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 2 0.10
20 6 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTAAATTTTTAAAAAT
Found at i:67486187 original size:27 final size:28
Alignment explanation
Indices: 67486129--67486196 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
67486119 AAATAAAAAA
*
67486129 TAACTAAAAGTATTATAACTTTTTTTTATT
1 TAAC-AAAA-TATTATAACATTTTTTTATT
*
67486159 TACCAAAATATTATAA-ATTTTTTTATT
1 TAACAAAATATTATAACATTTTTTTATT
67486186 TAACAAAATAT
1 TAACAAAATAT
67486197 ACAAAAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.57
28 8 0.23
29 4 0.11
30 3 0.09
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (28 bp):
TAACAAAATATTATAACATTTTTTTATT
Found at i:67486606 original size:19 final size:19
Alignment explanation
Indices: 67486582--67486647 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
67486572 ATTAAAATAG
67486582 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
67486601 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
67486619 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
67486638 TTTAATTTAA
1 TTTAATTTAA
67486648 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:67486767 original size:82 final size:80
Alignment explanation
Indices: 67486659--67486807 Score: 262
Period size: 82 Copynumber: 1.8 Consensus size: 80
67486649 AAAATTAAAT
67486659 TAAACTATTTTAATTTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTACAC
1 TAAACTATTTTAATTTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTACAC
67486724 TAAATAATGGAAACA
66 TAAATAATGGAAACA
* *
67486739 TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
1 TAAACTATTTTA-AT-TTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAC
67486804 ACTA
64 ACTA
67486808 TTTTAATTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
80 12 0.18
81 1 0.02
82 52 0.80
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (80 bp):
TAAACTATTTTAATTTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTACAC
TAAATAATGGAAACA
Found at i:67487270 original size:24 final size:24
Alignment explanation
Indices: 67487237--67487285 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
67487227 TCATAATATT
* *
67487237 AAGTGATGTTTTAGAAAGGTCATA
1 AAGTGATGTTTCAAAAAGGTCATA
*
67487261 AAGTGTTGTTTCAAAAAGGTCATA
1 AAGTGATGTTTCAAAAAGGTCATA
67487285 A
1 A
67487286 TATTAAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (24 bp):
AAGTGATGTTTCAAAAAGGTCATA
Found at i:67488088 original size:25 final size:25
Alignment explanation
Indices: 67488040--67488088 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
67488030 AATTTTATAT
* *
67488040 TAATAATATTAATATTAGATAAAAA
1 TAATAATATTAATATTAAACAAAAA
*
67488065 TAATTATATTAATATTAAACAAAA
1 TAATAATATTAATATTAAACAAAA
67488089 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAATAATATTAATATTAAACAAAAA
Found at i:67488471 original size:17 final size:16
Alignment explanation
Indices: 67488452--67488482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67488442 GGGCTTCCTT
*
67488452 TTTTTTAGAAAGACGA
1 TTTTTGAGAAAGACGA
67488468 TTTTTGAGAAAGACG
1 TTTTTGAGAAAGACG
67488483 TGCATGCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (16 bp):
TTTTTGAGAAAGACGA
Found at i:67489132 original size:15 final size:16
Alignment explanation
Indices: 67489106--67489142 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
67489096 TTTAATTTTC
67489106 AAAATTTCAAAAAAAA
1 AAAATTTCAAAAAAAA
*
67489122 AAAATTT-AAAAAATA
1 AAAATTTCAAAAAAAA
67489137 AAAATT
1 AAAATT
67489143 GTATTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTTCAAAAAAAA
Found at i:67489179 original size:30 final size:30
Alignment explanation
Indices: 67489145--67489239 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 30
67489135 TAAAAATTGT
*
67489145 ATTTTGACCCCTAAACTTTTC-CTAAATTTC
1 ATTTTGACCCCTAAAC-TTTCATTAAATTTC
* *
67489175 ATTTTGACCCTTAAACTTTCTTTAAATTTC
1 ATTTTGACCCCTAAACTTTCATTAAATTTC
* *
67489205 ACTTAGACCCCTAAACTTTCATTAAATTTC
1 ATTTTGACCCCTAAACTTTCATTAAATTTC
67489235 ATTTT
1 ATTTT
67489240 AATCCTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.07
30 52 0.93
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.45
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTTCATTAAATTTC
Found at i:67489830 original size:21 final size:20
Alignment explanation
Indices: 67489804--67489842 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
67489794 GGTTTTTGAA
67489804 AAAACAAAGCAGCAAAAAAAC
1 AAAACAAAGCAG-AAAAAAAC
67489825 AAAACAAAGCAGAAAAAA
1 AAAACAAAGCAGAAAAAA
67489843 TAAAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.74, C:0.15, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAACAAAGCAGAAAAAAAC
Found at i:67489856 original size:20 final size:19
Alignment explanation
Indices: 67489804--67489847 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
67489794 GGTTTTTGAA
67489804 AAAACAAAGCAGCAAAAAAAC
1 AAAACAAAGCAG--AAAAAAC
*
67489825 AAAACAAAGCAGAAAAAAT
1 AAAACAAAGCAGAAAAAAC
67489844 AAAA
1 AAAA
67489848 TAGAAGCAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.75, C:0.14, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAACAAAGCAGAAAAAAC
Found at i:67490173 original size:15 final size:16
Alignment explanation
Indices: 67490155--67490184 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67490145 TAATTTAGTT
67490155 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
67490170 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
67490185 TTAACTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:67500816 original size:16 final size:16
Alignment explanation
Indices: 67500795--67500832 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
67500785 TTAATTTTTC
67500795 AAAATTTCAAAAAA-AA
1 AAAATTT-AAAAAATAA
67500811 AAAATTTAAAAAATAA
1 AAAATTTAAAAAATAA
67500827 AAAATT
1 AAAATT
67500833 GCATTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTTAAAAAATAA
Found at i:67500890 original size:29 final size:29
Alignment explanation
Indices: 67500828--67500928 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 29
67500818 AAAAAATAAA
* *
67500828 AAATTGCATTTTGACACCTAAACTTT-TCCT
1 AAATTTCATTTTGAC-CCTAAACTTTCT-TT
*
67500858 AAATTTCATTTTGACCCTTAACTTTCTTT
1 AAATTTCATTTTGACCCTAAACTTTCTTT
* * *
67500887 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCTTT
67500917 AAATTTCATTTT
1 AAATTTCATTTT
67500929 AATTCCTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 22 0.37
30 38 0.63
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:67500937 original size:30 final size:28
Alignment explanation
Indices: 67500828--67500944 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 28
67500818 AAAAAATAAA
* * *
67500828 AAATTGCATTTTGACACCTAAACTTTTCCT
1 AAATTTCATTTTAAC-CCTAAAC-TTTCTT
* *
67500858 AAATTTCATTTTGACCCTTAACTTTCTTT
1 AAATTTCATTTTAACCCTAAACTTTC-TT
*
67500887 AAATTTCA-CTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTA-A-CCCTAAACTTTC-TT
* *
67500917 AAATTTCATTTTAATTCCTAAATTTTCT
1 AAATTTCATTTTAA-CCCTAAACTTTCT
67500945 AAAAATTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.08
29 17 0.24
30 46 0.64
31 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATTTCATTTTAACCCTAAACTTTCTT
Found at i:67501208 original size:17 final size:17
Alignment explanation
Indices: 67501188--67501228 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
67501178 CGAAGAAGGA
67501188 AAAGAAGAA-AAGAGAAG
1 AAAG-AGAAGAAGAGAAG
*
67501205 AAAGAGAAGAGGAGAAG
1 AAAGAGAAGAAGAGAAG
67501222 AAA-AGAA
1 AAAGAGAA
67501229 AGAGTACCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAGAGAAGAAGAGAAG
Found at i:67501214 original size:22 final size:22
Alignment explanation
Indices: 67501179--67501232 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
67501169 GAGATTTTTC
* *
67501179 GAAGAAGGAAAAGAAGAAAAGA
1 GAAGAAAGAGAAGAAGAAAAGA
* *
67501201 GAAGAAAGAGAAGAGGAGAAGA
1 GAAGAAAGAGAAGAAGAAAAGA
*
67501223 AAAGAAAGAG
1 GAAGAAAGAG
67501233 TACCGGCGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (22 bp):
GAAGAAAGAGAAGAAGAAAAGA
Found at i:67501325 original size:20 final size:21
Alignment explanation
Indices: 67501288--67501338 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
67501278 CTAGACTTTG
*
67501288 AAAGAAGAAGAAGGAAGAAGA
1 AAAGAAGAAGAAGAAAGAAGA
*
67501309 AAAGAGGAAG-AGAAAGAAGA
1 AAAGAAGAAGAAGAAAGAAGA
67501329 AAA-AA-AAGAA
1 AAAGAAGAAGAA
67501339 ATAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 12 0.46
21 9 0.35
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAGAAGAAAGAAGA
Found at i:67501599 original size:7 final size:7
Alignment explanation
Indices: 67501587--67501634 Score: 87
Period size: 7 Copynumber: 6.7 Consensus size: 7
67501577 CCCAGCAGAA
67501587 AAAAAAG
1 AAAAAAG
67501594 AAAAAAG
1 AAAAAAG
67501601 AAAAAAG
1 AAAAAAG
67501608 AAAAAAGG
1 AAAAAA-G
67501616 AAAAAAG
1 AAAAAAG
67501623 AAAAAAG
1 AAAAAAG
67501630 AAAAA
1 AAAAA
67501635 GAAGAAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:67501644 original size:15 final size:15
Alignment explanation
Indices: 67501586--67501643 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
67501576 GCCCAGCAGA
67501586 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
67501601 -AAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
67501615 GAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
67501630 AAAAAGAAGAAAAA
1 AAAAA-AAGAAAAA
67501644 GGGGGTTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
14 14 0.35
15 18 0.45
16 8 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:67501644 original size:22 final size:22
Alignment explanation
Indices: 67501586--67501643 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
67501576 GCCCAGCAGA
67501586 AAAAAAAGAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAGAAAAAAG
*
67501608 AAAAAAGGAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAGAAAAAAG
67501630 AAAAAGAAGAAAAA
1 AAAAA-AAGAAAAA
67501644 GGGGGTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAAGAAAAAAG
Found at i:67502223 original size:36 final size:37
Alignment explanation
Indices: 67502176--67502248 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
67502166 GAAATTTTCG
* * * *
67502176 AATTTTCGCGTTTTCAAAGTTT-TCGTGTTTGAAAAA
1 AATTTTCGCGTTTTAAAAATTTCTCGTATTTCAAAAA
67502212 AATTTTCGCGTTTTAAAAATTTCTCGTATTTCAAAAA
1 AATTTTCGCGTTTTAAAAATTTCTCGTATTTCAAAAA
67502249 TTGTCGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 20 0.62
37 12 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (37 bp):
AATTTTCGCGTTTTAAAAATTTCTCGTATTTCAAAAA
Found at i:67502231 original size:17 final size:17
Alignment explanation
Indices: 67502176--67502233 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
67502166 GAAATTTTCG
*
67502176 AATTTTCGCGTTTTCAA
1 AATTTTCGCGTTTTAAA
* * *
67502193 AGTTTTCGTGTTTGAAAAA
1 AATTTTCGCGTTT--TAAA
67502212 AATTTTCGCGTTTTAAA
1 AATTTTCGCGTTTTAAA
67502229 AATTT
1 AATTT
67502234 CTCGTATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 19 0.59
19 13 0.41
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (17 bp):
AATTTTCGCGTTTTAAA
Found at i:67502288 original size:17 final size:17
Alignment explanation
Indices: 67502262--67502314 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
67502252 TCGTTTTTAT
*
67502262 AAATCTTCGTGCTTTCA
1 AAATCCTCGTGCTTTCA
67502279 AAATCCTCGTGCTTTCA
1 AAATCCTCGTGCTTTCA
*
67502296 ATAAT-CTCATG-TTTCA
1 A-AATCCTCGTGCTTTCA
67502312 AAA
1 AAA
67502315 ATCTTTCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 2 0.06
16 6 0.18
17 22 0.67
18 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATCCTCGTGCTTTCA
Found at i:67502339 original size:19 final size:19
Alignment explanation
Indices: 67502311--67502350 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
67502301 CTCATGTTTC
*
67502311 AAAAATCTTTCGTGTTAAA
1 AAAAAACTTTCGTGTTAAA
*
67502330 AAAAAACTTTCGTTTTAAA
1 AAAAAACTTTCGTGTTAAA
67502349 AA
1 AA
67502351 GAAATACGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAAAACTTTCGTGTTAAA
Found at i:67502400 original size:15 final size:16
Alignment explanation
Indices: 67502380--67502412 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
67502370 ATTTCGTGTA
67502380 TTTTAAAAAAAAA-TT
1 TTTTAAAAAAAAAGTT
67502395 TTTTAAAAAAAAAGTT
1 TTTTAAAAAAAAAGTT
67502411 TT
1 TT
67502413 GGGGGTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTTAAAAAAAAAGTT
Found at i:67510902 original size:72 final size:72
Alignment explanation
Indices: 67510628--67511257 Score: 969
Period size: 72 Copynumber: 8.7 Consensus size: 72
67510618 TAAGCCTTTT
* * * ** * *
67510628 AATTTTTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67510693 GTAATTTC
65 GTAATTTC
* * *
67510701 AATTTCTGTTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
1 AATTTCTG----TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
*
67510766 GAGGTATTTTC
62 GAGGTAATTTC
67510777 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67510842 GTAATTTC
65 GTAATTTC
67510850 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
67510915 TAATTTC
66 TAATTTC
67510922 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
67510987 TATTTTC
66 TAATTTC
*
67510994 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67511059 GTAATTTC
65 GTAATTTC
*
67511067 AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
67511132 TAATTTC
66 TAATTTC
*
67511139 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
67511204 TATTTTT
66 TAATTTC
* * * ** *
67511211 AGTTTATGTTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
67511258 TTTAATTTTT
Statistics
Matches: 528, Mismatches: 25, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
69 26 0.05
70 5 0.01
72 284 0.54
73 144 0.27
76 69 0.13
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:67511016 original size:217 final size:216
Alignment explanation
Indices: 67510628--67511599 Score: 1450
Period size: 217 Copynumber: 4.6 Consensus size: 216
67510618 TAAGCCTTTT
* * * ** * *
67510628 AATTTTTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* *
67510693 GTAATTTCAATTTCTGTTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
65 GTAATTTCAATTTCTG----TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
67510758 GACACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTG
126 GACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTG
67510823 AGCCTCAAGACACGTTGAGGTAATTTC
190 AGCCTCAAGACACGTTGAGGTAATTTC
67510850 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
67510915 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
67510980 GTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
131 GTTGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
67511045 CAAGACACGTTGAGGTAATTTC
195 CAAGACACGTTGAGGTAATTTC
*
67511067 AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
67511132 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* * * * * *
67511197 ATTGAGGTATTTTTAGTTTATGTTTT--AAATT-GACTCATATTGCGAG--A-G-G-TGAG--TT
131 GTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
*
67511252 AAG-C-C-TT---TTAA-TT-
196 AAGACACGTTGAGGTAATTTC
* *
67511265 --TTTGT-TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGGCACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
67511326 TAATTTCAATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
67511391 GTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
131 GTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
*
67511456 AAGACACGTTGAGGTATTTTC
196 AAGACACGTTGAGGTAATTTC
*
67511477 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* **
67511542 GTAATTTCAATCTT-TGTTTTCAAAATTCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
65 GTAATTTCAAT-TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
67511600 TTTAATTTCT
Statistics
Matches: 687, Mismatches: 39, Indels: 53
0.88 0.05 0.07
Matches are distributed among these distances:
194 131 0.19
195 9 0.01
196 9 0.01
197 14 0.02
199 3 0.00
200 4 0.01
201 1 0.00
202 4 0.01
203 2 0.00
204 5 0.01
205 2 0.00
206 5 0.01
207 2 0.00
208 4 0.01
209 1 0.00
210 3 0.00
211 3 0.00
213 14 0.02
214 9 0.01
216 11 0.02
217 376 0.55
218 2 0.00
221 66 0.10
222 7 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (216 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AAGACACGTTGAGGTAATTTC
Found at i:67511326 original size:411 final size:411
Alignment explanation
Indices: 67510850--67511599 Score: 1353
Period size: 411 Copynumber: 1.8 Consensus size: 411
67510840 AGGTAATTTC
67510850 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
67510915 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
67510980 GTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
131 GTTGAGGTAATTTCAATTTCTG-TTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
67511045 CAAGACACGTTGAGGTAATTTCAATTTCT-ATTTTCAAAATTCAACTCATATTGCGAGAAATGAG
195 CAAGACACGTTGAGGTAATTTCAATTTCTGATTCTCAAAATTCAACTCATATTGCGAGAAATGAG
67511109 TTGAGCCTCAAGACACGTTGAGGTAATTTCAAT-TTCTGTTTTCAAAATTCAACTCATATTGCGA
260 TTGAGCCTCAAGACACGTTGAGGTAATTTCAATCTT-TGTTTTCAAAATTCAACTCATATTGCGA
67511173 GAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATT
324 GAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATT
67511238 GCGAGAGGTGAGTTAAGCCTTTT
389 GCGAGAGGTGAGTTAAGCCTTTT
* *
67511261 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGGCACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67511325 GTAATTTCAATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
65 GTAATTTCAATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
67511390 CGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
130 CGTTGAGGTAATTTCAATTTCTGTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
67511455 CAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAG
195 CAAGACACGTTGAGGTAATTTCAATTTCTGATTCTCAAAATTCAACTCATATTGCGAGAAATGAG
*
67511520 TTGAGCCTCAAGACACGTTGAGGTAATTTCAATCTTTGTTTTCAAAATTCAGCTCATATTGCGAG
260 TTGAGCCTCAAGACACGTTGAGGTAATTTCAATCTTTGTTTTCAAAATTCAACTCATATTGCGAG
**
67511585 AGGTGAGTTGAGCCT
325 AAATGAGTTGAGCCT
67511600 TTTAATTTCT
Statistics
Matches: 325, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
410 69 0.21
411 245 0.75
412 11 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (411 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GTTGAGGTAATTTCAATTTCTGTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AAGACACGTTGAGGTAATTTCAATTTCTGATTCTCAAAATTCAACTCATATTGCGAGAAATGAGT
TGAGCCTCAAGACACGTTGAGGTAATTTCAATCTTTGTTTTCAAAATTCAACTCATATTGCGAGA
AATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGC
GAGAGGTGAGTTAAGCCTTTT
Found at i:67511378 original size:72 final size:72
Alignment explanation
Indices: 67511261--67511599 Score: 565
Period size: 72 Copynumber: 4.7 Consensus size: 72
67511251 TAAGCCTTTT
* *
67511261 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGGCACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67511325 GTAATTTC
65 GTAATTTC
*
67511333 AATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
67511398 TAATTTC
66 TAATTTC
67511405 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
67511470 TATTTTC
66 TAATTTC
*
67511477 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
67511542 GTAATTTC
65 GTAATTTC
* **
67511550 AATCTT-TGTTTTCAAAATTCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAT-TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
67511600 TTTAATTTCT
Statistics
Matches: 254, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
71 9 0.04
72 176 0.69
73 67 0.26
74 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:67511631 original size:53 final size:54
Alignment explanation
Indices: 67511558--67511812 Score: 369
Period size: 53 Copynumber: 4.8 Consensus size: 54
67511548 TCAATCTTTG
* * *
67511558 TTTTCAAAATTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTAT
*
67511612 TTTTCAAAAATCAAC-CATATTGCGAGAGGTAAGTTGAGCCTTTTAATTTCTAT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTAT
*
67511665 TTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCTAT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTAT
* *
67511715 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-G
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTAT
* *
67511770 TTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
67511813 GGCTCACGTG
Statistics
Matches: 183, Mismatches: 11, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
50 47 0.26
52 4 0.02
53 50 0.27
54 37 0.20
55 41 0.22
56 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTAT
Found at i:67512079 original size:14 final size:16
Alignment explanation
Indices: 67512054--67512089 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
67512044 TTTAATTTTC
67512054 AAAATTTCAAAAAA-A
1 AAAATTTCAAAAAATA
67512069 AAAATTT-AAAAAATA
1 AAAATTTCAAAAAATA
67512084 AAAATT
1 AAAATT
67512090 GCATTTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTTCAAAAAATA
Found at i:67512119 original size:30 final size:31
Alignment explanation
Indices: 67512085--67512186 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
67512075 TAAAAAATAA
*
67512085 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
67512115 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
67512145 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
67512175 AAATTTCATTTT
1 AAATTTCATTTT
67512187 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:67512798 original size:20 final size:19
Alignment explanation
Indices: 67512742--67512789 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
67512732 AGAGGTTTTT
*
67512742 GAAAAAACAAAGC--AGCA
1 GAAAAAACAAAACAAAGCA
*
67512759 AAAAAAACAAAACAAAGCA
1 GAAAAAACAAAACAAAGCA
*
67512778 GAAAAAATAAAA
1 GAAAAAACAAAA
67512790 TAGAAGCAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.75, C:0.12, G:0.10, T:0.02
Consensus pattern (19 bp):
GAAAAAACAAAACAAAGCA
Found at i:67513115 original size:15 final size:16
Alignment explanation
Indices: 67513097--67513126 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67513087 TAATTTAGTT
67513097 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
67513112 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
67513127 TTAACTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:67513537 original size:17 final size:17
Alignment explanation
Indices: 67513494--67513541 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
67513484 AGAAAAAAAT
67513494 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
67513513 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
67513529 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
67513542 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:67513643 original size:16 final size:16
Alignment explanation
Indices: 67513595--67513643 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
67513585 TTTCTTTCTA
*
67513595 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
67513611 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
67513628 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
67513644 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:67513691 original size:17 final size:18
Alignment explanation
Indices: 67513671--67513712 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
67513661 CTCGTGTTTC
*
67513671 AAAAAAATAA-AAATAAT
1 AAAAAAATAATAAAAAAT
67513688 -AAAAAATAATAAAAAAT
1 AAAAAAATAATAAAAAAT
67513705 AAAAAAAT
1 AAAAAAAT
67513713 TCTCGTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 6 0.27
18 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAATAATAAAAAAT
Found at i:67513694 original size:10 final size:10
Alignment explanation
Indices: 67513671--67513711 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
67513661 CTCGTGTTTC
67513671 AAAAA-AAT-
1 AAAAATAATA
67513679 AAAAATAATA
1 AAAAATAATA
67513689 AAAAATAATA
1 AAAAATAATA
67513699 AAAAATAA-A
1 AAAAATAATA
67513708 AAAA
1 AAAA
67513712 TTCTCGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 5 0.16
9 8 0.26
10 18 0.58
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAATAATA
Found at i:67513796 original size:18 final size:18
Alignment explanation
Indices: 67513775--67514207 Score: 186
Period size: 17 Copynumber: 25.0 Consensus size: 18
67513765 AAATTTAGTG
67513775 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
67513793 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
67513811 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
67513829 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
67513846 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT-TCAAAAA
*
67513865 TTTTTACGTGTTTTCACAAA
1 -TTTT-CGTGTTTTCAAAAA
*
67513885 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
67513902 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
67513920 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
67513936 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
67513954 TTCTCGCG--TTAAAAAA
1 TTTTCGTGTTTTCAAAAA
** *
67513970 AATTCGTG-CTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
67513988 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
67514002 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
67514017 ---TCGTG-TTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
* *
67514033 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
67514050 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
67514067 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
67514084 TTCCCGTG-TTTCAGAAAAAA
1 TTTTCGTGTTTTC---AAAAA
* *
67514104 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* * *
67514122 ATTTCGTTTTTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
67514140 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
67514157 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
67514173 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
67514191 TTCTCGTATTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
67514208 AAAACTTTCG
Statistics
Matches: 317, Mismatches: 60, Indels: 77
0.70 0.13 0.17
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 6 0.02
15 3 0.01
16 35 0.11
17 111 0.35
18 106 0.33
19 18 0.06
20 21 0.07
21 10 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:67513929 original size:74 final size:72
Alignment explanation
Indices: 67513788--67513930 Score: 166
Period size: 74 Copynumber: 2.0 Consensus size: 72
67513778 TCGTGTTTTC
* * *
67513788 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
67513853 GTTTAAA
66 GTTTAAA
* * *
67513860 AAAAATTTTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CT
1 AAAAA-TTTT-CGTGTTTTCAAAAATCTTT-GTGTTTTCAAAAATTCTCGCG-TTTCAAAAATCT
67513922 CCAGTGTTT
62 CC-GTGTTT
67513931 CAAAGTTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
72 5 0.08
73 23 0.38
74 32 0.53
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (72 bp):
AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAA
Found at i:67514208 original size:18 final size:18
Alignment explanation
Indices: 67514170--67514208 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
67514160 TCGTGTTTAC
* *
67514170 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTATTTTAAA
67514188 AAATTCTCGTATTTTAAA
1 AAATTCTCGTATTTTAAA
67514206 AAA
1 AAA
67514209 AAACTTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (18 bp):
AAATTCTCGTATTTTAAA
Found at i:67514218 original size:21 final size:19
Alignment explanation
Indices: 67514186--67514232 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 19
67514176 TCGTGTTTTC
67514186 AAAAATTCTCGTATTTTAAAA
1 AAAAATTCTCG--TTTTAAAA
67514207 AAAAACTT-TCGTTTTAAAA
1 AAAAA-TTCTCGTTTTAAAA
67514226 AAGAAAT
1 AA-AAAT
67514233 ACTGCGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 8 0.33
22 2 0.08
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (19 bp):
AAAAATTCTCGTTTTAAAA
Found at i:67514221 original size:90 final size:88
Alignment explanation
Indices: 67514027--67514209 Score: 219
Period size: 90 Copynumber: 2.1 Consensus size: 88
67514017 TCGTGTTTCA
* * *
67514027 AAAAAAATGTCGTGTTTT-AAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
1 AAAAAAATTTCGTTTTTTCTAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
* *
67514091 GTTTCAGAAAAAAATGTCGTGTTTT
66 GTTTC--AAAAAAATCTCGTATTTT
* * * * *
67514116 AAGAAAATTTCGTTTTTTCTAAAATTTTCGTGTTTCTAAAATTTTCGTG-TTTACAAATTCTCGT
1 AAAAAAATTTCGTTTTTTCTAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
*
67514180 GTTTTC-AAAAATTCTCGTATTTT
66 G-TTTCAAAAAAATCTCGTATTTT
67514203 AAAAAAA
1 AAAAAAA
67514210 AACTTTCGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
87 20 0.25
89 29 0.36
90 31 0.39
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (88 bp):
AAAAAAATTTCGTTTTTTCTAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
GTTTCAAAAAAATCTCGTATTTT
Found at i:67519498 original size:44 final size:44
Alignment explanation
Indices: 67519435--67519524 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
67519425 TCAAGGAAAA
67519435 TTCTAATTAATTGCACTTAGTTTTCCACAAAATGTAATATGAAT
1 TTCTAATTAATTGCACTTAGTTTTCCACAAAATGTAATATGAAT
67519479 TTCTAATTAATTGCACTTAGTTTTCCACAAAATGTAATATGAAT
1 TTCTAATTAATTGCACTTAGTTTTCCACAAAATGTAATATGAAT
67519523 TT
1 TT
67519525 GGATTATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (44 bp):
TTCTAATTAATTGCACTTAGTTTTCCACAAAATGTAATATGAAT
Found at i:67526721 original size:28 final size:28
Alignment explanation
Indices: 67526666--67526721 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
67526656 ACATATATTG
**
67526666 TTAAATTTATGTGTTTCTAGAATTTTTT
1 TTAAATTTATGTGTTTCTAGAAAATTTT
67526694 TTAAATTTATGTGTTTCTAGAAAATTTT
1 TTAAATTTATGTGTTTCTAGAAAATTTT
67526722 GTGAGGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (28 bp):
TTAAATTTATGTGTTTCTAGAAAATTTT
Found at i:67529130 original size:33 final size:34
Alignment explanation
Indices: 67529088--67529170 Score: 89
Period size: 36 Copynumber: 2.4 Consensus size: 34
67529078 TTTAAAATGT
*
67529088 GACATTTAATAGAT-CTTG-TTAACATTAATGGAA
1 GACAATTAATA-ATGCTTGCTTAACATTAATGGAA
* *
67529121 GACAATTAATAATGGTTGCCATTAACATTAATGGGA
1 GACAATTAATAATGCTTG-C-TTAACATTAATGGAA
*
67529157 GACAATCAATAATG
1 GACAATTAATAATG
67529171 ACAACCACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 2 0.05
33 13 0.31
36 27 0.64
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (34 bp):
GACAATTAATAATGCTTGCTTAACATTAATGGAA
Found at i:67535252 original size:21 final size:21
Alignment explanation
Indices: 67535226--67535266 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67535216 AGACGAGCAA
* *
67535226 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67535247 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67535267 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67538584 original size:10 final size:10
Alignment explanation
Indices: 67538569--67538628 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
67538559 TCAAAGTCAT
67538569 AAAAATTATA
1 AAAAATTATA
*
67538579 AAAAATTGT-
1 AAAAATTATA
67538588 AAAAATTATA
1 AAAAATTATA
*
67538598 AAATA-TAT-
1 AAAAATTATA
* *
67538606 AGAAATATAGA
1 AAAAAT-TATA
67538617 AAAAATTATA
1 AAAAATTATA
67538627 AA
1 AA
67538629 TTTTCATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
8 3 0.08
9 11 0.29
10 19 0.50
11 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:67538883 original size:22 final size:21
Alignment explanation
Indices: 67538858--67538906 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
67538848 TGGTTAAAGG
67538858 ATTTTTTTGATGCA-TTTTATAA
1 ATTTTTTT-ATG-ATTTTTATAA
67538880 ATTTTTTTATGATTTTTATAA
1 ATTTTTTTATGATTTTTATAA
*
67538901 AATTTT
1 ATTTTT
67538907 ACAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
ATTTTTTTATGATTTTTATAA
Found at i:67538906 original size:31 final size:31
Alignment explanation
Indices: 67538871--67538930 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
67538861 TTTTTGATGC
67538871 ATTTTATAAATTT-TTTTATGATTTTTATAAA
1 ATTTTA-AAATTTATTTTATGATTTTTATAAA
*
67538902 ATTTTACAATTTATTTTATGATTTTTATA
1 ATTTTAAAATTTATTTTATGATTTTTATA
67538931 TTTTTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTTAAAATTTATTTTATGATTTTTATAAA
Found at i:67538933 original size:20 final size:20
Alignment explanation
Indices: 67538910--67538948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67538900 AAATTTTACA
*
67538910 ATTTATTTTATGATTTTTAT
1 ATTTATTTTATAATTTTTAT
* *
67538930 ATTTTTTTTCTAATTTTTA
1 ATTTATTTTATAATTTTTA
67538949 ATAAATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTATTTTATAATTTTTAT
Found at i:67540199 original size:53 final size:53
Alignment explanation
Indices: 67540137--67540246 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
67540127 CAAATTAAGG
67540137 AAGTTAATTTGATTCATTGCAGCTCAAAAAATCAGCTTTCTGATATTTTAACT
1 AAGTTAATTTGATTCATTGCAGCTCAAAAAATCAGCTTTCTGATATTTTAACT
67540190 AAGTTAATTTGATTCATTGCAGCTCAAAAAATCAGCTTTCTGATATTTTAACT
1 AAGTTAATTTGATTCATTGCAGCTCAAAAAATCAGCTTTCTGATATTTTAACT
67540243 AAGT
1 AAGT
67540247 CTCTCGGTGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (53 bp):
AAGTTAATTTGATTCATTGCAGCTCAAAAAATCAGCTTTCTGATATTTTAACT
Found at i:67542164 original size:39 final size:40
Alignment explanation
Indices: 67542110--67542193 Score: 152
Period size: 39 Copynumber: 2.1 Consensus size: 40
67542100 CAAGGAAGGG
67542110 TGTGTTGTGATTGAATCCCAATGGTGGCCGAATCCAAGA-
1 TGTGTTGTGATTGAATCCCAATGGTGGCCGAATCCAAGAT
*
67542149 TGTGTTGTGATTGAATCCCAATGGTGGTCGAATCCAAGAT
1 TGTGTTGTGATTGAATCCCAATGGTGGCCGAATCCAAGAT
67542189 TGTGT
1 TGTGT
67542194 GTGCCGTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 38 0.88
40 5 0.12
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (40 bp):
TGTGTTGTGATTGAATCCCAATGGTGGCCGAATCCAAGAT
Found at i:67542183 original size:17 final size:17
Alignment explanation
Indices: 67542122--67542183 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
67542112 TGTTGTGATT
*
67542122 GAATCCCAATGGTGGCC
1 GAATCCCAATGGTGGTC
* *
67542139 GAATCCAAGATGTGTTGTGATT
1 GAATCCCA-ATG-G-TG-G-TC
67542161 GAATCCCAATGGTGGTC
1 GAATCCCAATGGTGGTC
67542178 GAATCC
1 GAATCC
67542184 AAGATTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
17 14 0.40
18 4 0.11
19 3 0.09
20 3 0.09
21 4 0.11
22 7 0.20
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (17 bp):
GAATCCCAATGGTGGTC
Found at i:67548611 original size:16 final size:16
Alignment explanation
Indices: 67548587--67548624 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
67548577 TTTGGTTCAC
* *
67548587 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
67548603 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
67548619 TGTAAT
1 TGTAAT
67548625 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:67548879 original size:18 final size:17
Alignment explanation
Indices: 67548858--67548892 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
67548848 TTATTATTAA
*
67548858 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
67548876 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67548893 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:67548946 original size:157 final size:157
Alignment explanation
Indices: 67548745--67549061 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
67548735 TAGAATACCC
* * *
67548745 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
67548810 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
67548875 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
67548902 TTAGCAGAAATTTATTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
67548967 ATATCAATATTAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
67549032 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
67549059 TTA
1 TTA
67549062 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:67549032 original size:16 final size:16
Alignment explanation
Indices: 67548995--67549036 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
67548985 TTAATCATAT
*
67548995 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
67549011 TT-AAATATATTATAA
1 TTAAAATATATTATAA
67549026 TTAAAATATAT
1 TTAAAATATAT
67549037 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:67549043 original size:14 final size:15
Alignment explanation
Indices: 67549004--67549045 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
67548994 TTTAAACATA
*
67549004 ATTATTATTAAATAT
1 ATTATAATTAAATAT
67549019 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
67549033 A-TATAATTTAATA
1 ATTATAATTAAATA
67549046 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:67549132 original size:120 final size:121
Alignment explanation
Indices: 67548993--67549290 Score: 503
Period size: 120 Copynumber: 2.5 Consensus size: 121
67548983 ATTTAATCAT
*
67548993 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
67549058 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
67549115 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
67549178 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * * *
67549234 ATTTGAA-ATAATTAATGTTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
67549291 TAAAATAATT
Statistics
Matches: 168, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 160 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:67549163 original size:14 final size:15
Alignment explanation
Indices: 67549114--67549165 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
67549104 GTAAAATATA
67549114 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
67549129 TATTAAATATATTAT
1 AATTAAATATATTAT
67549144 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
67549157 AATTTAATA
1 AATTAAATA
67549166 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:67549360 original size:26 final size:28
Alignment explanation
Indices: 67549331--67549391 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
67549321 TATGAATTTT
*
67549331 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
67549357 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
67549385 TAAAATT
1 TATAATT
67549392 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:67563048 original size:20 final size:21
Alignment explanation
Indices: 67563023--67563068 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
67563013 ATACATTGGG
67563023 AAATTA-AAATAAATT-TAAGA
1 AAATTATAAATAAATTATAA-A
*
67563043 AAATTATAATTAAATTATAAA
1 AAATTATAAATAAATTATAAA
67563064 AAATT
1 AAATT
67563069 TGTTGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTATAAATAAATTATAAA
Found at i:67566823 original size:9 final size:9
Alignment explanation
Indices: 67566788--67566853 Score: 71
Period size: 9 Copynumber: 7.3 Consensus size: 9
67566778 ATCTTTAAAA
67566788 TTTTAAA-T
1 TTTTAAATT
*
67566796 TTCTAAATT
1 TTTTAAATT
* *
67566805 TTATATATT
1 TTTTAAATT
67566814 TTTTAAATT
1 TTTTAAATT
*
67566823 TTTTAAAATA
1 TTTT-AAATT
*
67566833 TTTTAGATT
1 TTTTAAATT
67566842 TTTTAAATT
1 TTTTAAATT
67566851 TTT
1 TTT
67566854 AAAAAGTGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
8 6 0.13
9 33 0.70
10 8 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTAAATT
Found at i:67566824 original size:8 final size:8
Alignment explanation
Indices: 67566776--67566856 Score: 63
Period size: 8 Copynumber: 9.4 Consensus size: 8
67566766 ATTTTTTTGA
*
67566776 AAATCTTT
1 AAATTTTT
*
67566784 AAAATTTT
1 AAATTTTT
*
67566792 AAATTTCT
1 AAATTTTT
67566800 AAATTTTAT
1 AAATTTT-T
*
67566809 ATATTTTTT
1 A-AATTTTT
67566818 AAATTTTTT
1 AAA-TTTTT
67566827 AAAATATTTT
1 -AAAT-TTTT
*
67566837 AGATTTTTT
1 A-AATTTTT
67566846 AAATTTTT
1 AAATTTTT
67566854 AAA
1 AAA
67566857 AAGTGGCATA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
8 28 0.48
9 16 0.28
10 14 0.24
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (8 bp):
AAATTTTT
Found at i:67566836 original size:45 final size:46
Alignment explanation
Indices: 67566758--67566852 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 46
67566748 GAGCTTACTT
67566758 TTTTATATATTTTTTTGAAAATCTTTAAAATTTTA-AATTTCTAAA
1 TTTTATATATTTTTTTGAAAATCTTTAAAATTTTAGAATTTCTAAA
* * * *
67566803 TTTTATATA-TTTTTT-AAATTTTTTAAAATATTTTAGATTTTTTAAA
1 TTTTATATATTTTTTTGAAAATCTTT-AAA-ATTTTAGAATTTCTAAA
67566849 TTTT
1 TTTT
67566853 TAAAAAGTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
43 7 0.16
44 9 0.21
45 15 0.35
46 12 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (46 bp):
TTTTATATATTTTTTTGAAAATCTTTAAAATTTTAGAATTTCTAAA
Found at i:67574165 original size:14 final size:15
Alignment explanation
Indices: 67574146--67574174 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67574136 ATAAAGCCAA
67574146 TTCACT-TTACTTCC
1 TTCACTGTTACTTCC
67574160 TTCACTGTTACTTCC
1 TTCACTGTTACTTCC
67574175 ATTATTTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.34, G:0.03, T:0.48
Consensus pattern (15 bp):
TTCACTGTTACTTCC
Found at i:67578493 original size:21 final size:22
Alignment explanation
Indices: 67578467--67578513 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
67578457 CTCTGCTCAA
*
67578467 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
67578488 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
67578510 ACTC
1 ACTC
67578514 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:67584949 original size:18 final size:18
Alignment explanation
Indices: 67584926--67584962 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67584916 ATTTTTTTTG
*
67584926 TTAAATATATAATTTATT
1 TTAAATAAATAATTTATT
*
67584944 TTAAATAAATTATTTATT
1 TTAAATAAATAATTTATT
67584962 T
1 T
67584963 ATTTTAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATAAATAATTTATT
Found at i:67584952 original size:22 final size:22
Alignment explanation
Indices: 67584927--67584969 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67584917 TTTTTTTTGT
67584927 TAAA-TATATAATTTATTTTAAA
1 TAAATTAT-TAATTTATTTTAAA
*
67584949 TAAATTATTTATTTATTTTAA
1 TAAATTATTAATTTATTTTAA
67584970 TACCTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTATTAATTTATTTTAAA
Found at i:67588023 original size:13 final size:13
Alignment explanation
Indices: 67588007--67588040 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
67587997 TATGCTTTTA
67588007 TTTATATTTATAT
1 TTTATATTTATAT
67588020 TTTA-ACTTTATAT
1 TTTATA-TTTATAT
67588033 TTTATATT
1 TTTATATT
67588041 AGTATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATATTTATAT
Found at i:67588711 original size:5 final size:5
Alignment explanation
Indices: 67588701--67588730 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
67588691 AGAACTATAC
67588701 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
67588731 GAATAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:67592312 original size:72 final size:72
Alignment explanation
Indices: 67592165--67592312 Score: 197
Period size: 72 Copynumber: 2.1 Consensus size: 72
67592155 GAGGAAAAGT
* * **
67592165 ACCATTTAATTGATTTTCTGATACATCGAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
**
67592230 GAATTTG
66 GAATGGG
* * * **
67592237 ACCATTTAATTGATTTTTTGAAACATCAAAGAATTTCAAAGACCATAACTCCCCTATGGATGATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
67592302 GAATGGG
66 GAATGGG
67592309 ACCA
1 ACCA
67592313 GAAATTTTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGACCATAACTCCCCTATAGACAATG
GAATGGG
Found at i:67594102 original size:9 final size:8
Alignment explanation
Indices: 67594090--67594177 Score: 68
Period size: 9 Copynumber: 10.1 Consensus size: 8
67594080 ATTTAAAGAA
67594090 TTTACATTT
1 TTTA-ATTT
67594099 TTTAAATTT
1 TTT-AATTT
*
67594108 TTAAATTT
1 TTTAATTT
67594116 TTTAAATTT
1 TTT-AATTT
* *
67594125 CTAAATTT
1 TTTAATTT
67594133 TTATATATTT
1 TT-TA-ATTT
67594143 TTTGAATTT
1 TTT-AATTT
* *
67594152 TTAAATAT
1 TTTAATTT
67594160 TTTAGATTT
1 TTTA-ATTT
67594169 TTTAATTT
1 TTTAATTT
67594177 T
1 T
67594178 AAAATGTGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
8 25 0.40
9 30 0.48
10 8 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TTTAATTT
Found at i:67594110 original size:8 final size:8
Alignment explanation
Indices: 67594097--67594182 Score: 82
Period size: 8 Copynumber: 10.1 Consensus size: 8
67594087 GAATTTACAT
67594097 TTTTTAAA
1 TTTTTAAA
67594105 TTTTTAAA
1 TTTTTAAA
67594113 TTTTTTAAA
1 -TTTTTAAA
*
67594122 TTTCTAAA
1 TTTTTAAA
67594130 TTTTTATATA
1 TTTTTA-A-A
*
67594140 TTTTTTGAA
1 -TTTTTAAA
67594149 TTTTTAAA
1 TTTTTAAA
*
67594157 TATTTTAGA
1 T-TTTTAAA
*
67594166 TTTTTTAA
1 TTTTTAAA
*
67594174 TTTTAAAA
1 TTTTTAAA
67594182 T
1 T
67594183 GTGACATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
8 40 0.62
9 17 0.27
10 2 0.03
11 5 0.08
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:67594115 original size:17 final size:17
Alignment explanation
Indices: 67594090--67594182 Score: 91
Period size: 17 Copynumber: 5.4 Consensus size: 17
67594080 ATTTAAAGAA
*
67594090 TTTACATTTTTTAAATT
1 TTTAAATTTTTTAAATT
67594107 TTTAAATTTTTTAAATT
1 TTTAAATTTTTTAAATT
* *
67594124 TCTAAATTTTTATATATTT
1 TTTAAATTTTT-TA-AATT
*
67594143 TTTGAA-TTTTTAAATAT
1 TTTAAATTTTTTAAAT-T
*
67594160 TTTAGATTTTTT-AATT
1 TTTAAATTTTTTAAATT
*
67594176 TTAAAAT
1 TTTAAAT
67594183 GTGACATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
16 8 0.13
17 36 0.58
18 11 0.18
19 7 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTAAATTTTTTAAATT
Found at i:67597858 original size:14 final size:14
Alignment explanation
Indices: 67597841--67597869 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
67597831 TCATCATTTG
67597841 CCTATAACCAAAAC
1 CCTATAACCAAAAC
67597855 CCTATAACCAAAAC
1 CCTATAACCAAAAC
67597869 C
1 C
67597870 ATGCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:67597991 original size:23 final size:25
Alignment explanation
Indices: 67597954--67598006 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
67597944 GAAGCAGAAG
67597954 AGAATGAAAAATAAAA-AAAAT-AA
1 AGAATGAAAAATAAAAGAAAATAAA
** *
67597977 AGAATGAAAGTTAAAAGAACATAAA
1 AGAATGAAAAATAAAAGAAAATAAA
67598002 AGAAT
1 AGAAT
67598007 TAAATTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 4 0.16
25 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (25 bp):
AGAATGAAAAATAAAAGAAAATAAA
Found at i:67603858 original size:18 final size:18
Alignment explanation
Indices: 67603835--67603874 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67603825 TTTTTATTTG
*
67603835 TTAAATATATAATTGATT
1 TTAAATAAATAATTGATT
* *
67603853 TTAAATAAATTATTTATT
1 TTAAATAAATAATTGATT
67603871 TTAA
1 TTAA
67603875 TACCTTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAAATAAATAATTGATT
Found at i:67611225 original size:7 final size:6
Alignment explanation
Indices: 67611191--67611226 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
67611181 TATGCTTTTA
67611191 TTTATAT TTTAAT TTTAAT TTTAAT TTTAAAT TTTA
1 TTTA-AT TTTAAT TTTAAT TTTAAT TTT-AAT TTTA
67611227 TATTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:67611232 original size:18 final size:16
Alignment explanation
Indices: 67611186--67611233 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 16
67611176 TATGTTATGC
67611186 TTTTATTTATATTTTAA
1 TTTTATTTA-ATTTTAA
67611203 TTTTAATTTTAATTTTAAA
1 TTTT-A-TTTAATTTT-AA
67611222 TTTTATATTAAT
1 TTTTAT-TTAAT
67611234 ATAATATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 12 0.44
19 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTTAATTTTAA
Found at i:67616824 original size:2 final size:2
Alignment explanation
Indices: 67616817--67616846 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
67616807 CATCTTAGAA
*
67616817 AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
67616847 TTACAAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:67618048 original size:107 final size:107
Alignment explanation
Indices: 67617703--67618111 Score: 610
Period size: 106 Copynumber: 3.8 Consensus size: 107
67617693 GATTTAAGAG
* *
67617703 GATATTTGGCTATTTGGTCGAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAA-
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
* * * * * *
67617767 TTTCCAAACGCAAAATATTGCCTCACTTTGAAA-TTTTGAAAG
66 TTTCCAAACGCAAAATATTACCTTAC-TTCAAAGGTTTAAAAA
* *
67617809 GATATTTGGCTATTTGGTCGAACGAGAAGTCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
* * * *
67617874 TTT-CAAAAGCAAAATATTGCCTTACTTCGAAGGTTCAAAAA
66 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
* *
67617915 GATATTTGGCCATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
67617980 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
66 TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
*
67618022 GATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACG-TAGGGCACGTTTTCTCGAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
*
67618086 TTTCCAAACACAAAAATATTACCTTA
66 TTTCCAAACGC-AAAATATTACCTTA
67618112 TTTTGAATTT
Statistics
Matches: 275, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
105 4 0.01
106 178 0.65
107 93 0.34
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAAT
TTTCCAAACGCAAAATATTACCTTACTTCAAAGGTTTAAAAA
Found at i:67618579 original size:12 final size:12
Alignment explanation
Indices: 67618564--67618590 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67618554 AAAAGTAAAT
67618564 AATATTAAATAA
1 AATATTAAATAA
67618576 AATATTAAATAA
1 AATATTAAATAA
67618588 AAT
1 AAT
67618591 TGATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:67624565 original size:19 final size:19
Alignment explanation
Indices: 67624541--67624578 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67624531 CTTCGTGTTT
67624541 TGTCAATCTTAATGGCCTA
1 TGTCAATCTTAATGGCCTA
*
67624560 TGTCAATCTTGATGGCCTA
1 TGTCAATCTTAATGGCCTA
67624579 AGTAGAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTCAATCTTAATGGCCTA
Found at i:67628470 original size:72 final size:72
Alignment explanation
Indices: 67628348--67628488 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
67628338 GAGGAAAAGT
* *
67628348 ACCATTTAATTGATTATCTGTAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
67628413 GAATTTG
66 GAATTTG
* * *
67628420 ACCACTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATCGACACTG
1 ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
67628485 GAAT
66 GAAT
67628489 GGGACCAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (72 bp):
ACCACTTAATTGATTATCTGAAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:67630225 original size:26 final size:25
Alignment explanation
Indices: 67630188--67630273 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
67630178 AGACTGTATT
67630188 TTTTATAATTTCTGGAAATTTTTAAAG
1 TTTTA-AATTTCT-GAAATTTTTAAAG
*
67630215 TTTTAAATTTCTGAATTTTTTTAAA-
1 TTTTAAATTTCTGAA-ATTTTTAAAG
*
67630240 TTTTAAAATATT-TTAAATTTTTAAAAG
1 TTTT-AAAT-TTCTGAAATTTTT-AAAG
67630267 TTTTAAA
1 TTTTAAA
67630274 ATGTGACATA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 12 0.24
26 28 0.55
27 11 0.22
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTTAAATTTCTGAAATTTTTAAAG
Found at i:67630257 original size:9 final size:8
Alignment explanation
Indices: 67630203--67630264 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
67630193 TAATTTCTGG
67630203 AAATTTTT
1 AAATTTTT
*
67630211 AAAGTTTT
1 AAATTTTT
*
67630219 AAATTTCTG
1 AAATTT-TT
*
67630228 AATTTTTTT
1 AA-ATTTTT
*
67630237 AAATTTTA
1 AAATTTTT
67630245 AAATATTTT
1 AAAT-TTTT
67630254 AAATTTTT
1 AAATTTTT
67630262 AAA
1 AAA
67630265 AGTTTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
8 27 0.63
9 13 0.30
10 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (8 bp):
AAATTTTT
Found at i:67630270 original size:17 final size:17
Alignment explanation
Indices: 67630203--67630273 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
67630193 TAATTTCTGG
67630203 AAATTTTT-AAAGTTTT
1 AAATTTTTAAAAGTTTT
* ***
67630219 AAATTTCTGAATTTTTTT
1 AAATTT-TTAAAAGTTTT
*
67630237 AAA-TTTTAAAATATTTT
1 AAATTTTTAAAA-GTTTT
67630254 AAATTTTTAAAAGTTTT
1 AAATTTTTAAAAGTTTT
67630271 AAA
1 AAA
67630274 ATGTGACATA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
16 9 0.21
17 17 0.40
18 16 0.38
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (17 bp):
AAATTTTTAAAAGTTTT
Found at i:67630275 original size:18 final size:18
Alignment explanation
Indices: 67630203--67630275 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
67630193 TAATTTCTGG
67630203 AAATTTTT-AAAG-TTTT
1 AAATTTTTAAAAGTTTTT
* * **
67630219 AAATTTCTGAATTTTTTT
1 AAATTTTTAAAAGTTTTT
67630237 AAA-TTTTAAAA-TATTTT
1 AAATTTTTAAAAGT-TTTT
*
67630254 AAATTTTTAAAAGTTTTA
1 AAATTTTTAAAAGTTTTT
67630272 AAAT
1 AAAT
67630276 GTGACATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
16 8 0.18
17 14 0.31
18 22 0.49
19 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (18 bp):
AAATTTTTAAAAGTTTTT
Found at i:67634779 original size:19 final size:20
Alignment explanation
Indices: 67634755--67634792 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67634745 AGCTTTGCTG
67634755 AACAAA-TTACAATTGAACT
1 AACAAAGTTACAATTGAACT
*
67634774 AACAAAGTTACATTTGAAC
1 AACAAAGTTACAATTGAAC
67634793 AAAACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (20 bp):
AACAAAGTTACAATTGAACT
Found at i:67639225 original size:19 final size:20
Alignment explanation
Indices: 67639201--67639238 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67639191 AGCTTTGCTG
67639201 AACAAA-TTACAATTGAACT
1 AACAAAGTTACAATTGAACT
*
67639220 AACAAAGTTACATTTGAAC
1 AACAAAGTTACAATTGAAC
67639239 AAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (20 bp):
AACAAAGTTACAATTGAACT
Found at i:67643008 original size:18 final size:18
Alignment explanation
Indices: 67642982--67643017 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67642972 CATACATCCA
*
67642982 TAAATAATTACAAATTTT
1 TAAACAATTACAAATTTT
*
67643000 TAAACAATTACTAATTTT
1 TAAACAATTACAAATTTT
67643018 CTTTGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAACAATTACAAATTTT
Found at i:67647471 original size:14 final size:14
Alignment explanation
Indices: 67647452--67647479 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67647442 GAAAAGTTCA
67647452 TTTTAATTTTAATT
1 TTTTAATTTTAATT
67647466 TTTTAATTTTAATT
1 TTTTAATTTTAATT
67647480 CCCTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:67652284 original size:23 final size:21
Alignment explanation
Indices: 67652256--67652308 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
67652246 TTTTAGATTT
67652256 TTTTTAAAATTTTCTT-TATATA
1 TTTTTAAAATTTT-TTCTATA-A
*
67652278 TTCTTTAGAATTTTTTCTATAA
1 TT-TTTAAAATTTTTTCTATAA
67652300 TTTTTAAAA
1 TTTTTAAAA
67652309 AATATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.22
22 7 0.26
23 14 0.52
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTAAAATTTTTTCTATAA
Found at i:67665200 original size:21 final size:21
Alignment explanation
Indices: 67665166--67665206 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
67665156 AGACGAGCAA
* * *
67665166 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
67665187 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
67665207 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:67672876 original size:21 final size:21
Alignment explanation
Indices: 67672852--67672891 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67672842 TAACTCTAGC
67672852 ATTTATAAAA-TTTATAATTAA
1 ATTT-TAAAACTTTATAATTAA
*
67672873 ATTTTAAAACTTTTTAATT
1 ATTTTAAAACTTTATAATT
67672892 CTTAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTTAAAACTTTATAATTAA
Done.