Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 154 of 172
Found at i:44775969 original size:38 final size:38
Alignment explanation
Indices: 44775897--44775969 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
44775887 ACTAGATTGG
* *
44775897 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTAGA
1 CACCCAGTGCCTCATCGGATAGTACGAAACAAAGTAGA
* *
44775935 CACCCAGTGCCTCATCGGCCTAG-ACGAAATAAAGT
1 CACCCAGTGCCTCATCGG-ATAGTACGAAACAAAGT
44775970 GATACTCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTACGAAACAAAGTAGA
Found at i:44776168 original size:18 final size:17
Alignment explanation
Indices: 44776122--44776175 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
44776112 TTTCCAATTC
44776122 TCAATTCAAATTCACTT
1 TCAATTCAAATTCACTT
* *
44776139 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
44776157 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
44776175 T
1 T
44776176 TTCATTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:44776914 original size:25 final size:26
Alignment explanation
Indices: 44776880--44776941 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
44776870 TTTCTCCTTA
* *
44776880 CTTTTTTTCCCTTTTTCTTTTCT-TT
1 CTTTTTTTCCCTGTTTCGTTTCTATT
44776905 CTTTTTTTCCCTGTTTCGTTTCTATT
1 CTTTTTTTCCCTGTTTCGTTTCTATT
44776931 CTGTTTCTTTC
1 CT-TTT-TTTC
44776942 TATTTCCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 21 0.66
26 4 0.12
27 3 0.09
28 4 0.12
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (26 bp):
CTTTTTTTCCCTGTTTCGTTTCTATT
Found at i:44776943 original size:15 final size:16
Alignment explanation
Indices: 44776915--44776945 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
44776905 CTTTTTTTCC
44776915 CTGTTTCGTTTCTATT
1 CTGTTTCGTTTCTATT
44776931 CTGTTTC-TTTCTATT
1 CTGTTTCGTTTCTATT
44776946 TCCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.19, G:0.10, T:0.65
Consensus pattern (16 bp):
CTGTTTCGTTTCTATT
Found at i:44777435 original size:23 final size:23
Alignment explanation
Indices: 44777409--44777457 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
44777399 GTCTTTTCTT
*
44777409 AATTT-ATTTCATAATATAATATC
1 AATTTAATTT-ATAATATAATAAC
44777432 AATTTAATTTATAATATAATAAC
1 AATTTAATTTATAATATAATAAC
44777455 AAT
1 AAT
44777458 AATAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTTAATTTATAATATAATAAC
Found at i:44777461 original size:9 final size:9
Alignment explanation
Indices: 44777447--44777471 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44777437 AATTTATAAT
44777447 ATAATAACA
1 ATAATAACA
44777456 ATAATAACA
1 ATAATAACA
44777465 ATAATAA
1 ATAATAA
44777472 TATCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:44784732 original size:23 final size:23
Alignment explanation
Indices: 44784701--44784776 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
44784691 AGTGTTATTG
*
44784701 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
44784724 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
44784747 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44784770 ATCAGTG
1 ATCAGTG
44784777 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44786398 original size:30 final size:30
Alignment explanation
Indices: 44786362--44786419 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44786352 CCTCGACTCT
*
44786362 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
44786392 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
44786420 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:44786990 original size:45 final size:44
Alignment explanation
Indices: 44786915--44787018 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 44
44786905 TTTTCTTTTC
*
44786915 TTTCTTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCTTT-CTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
44786960 TTTCTTTCTTTCTCCCTTCTCTGT-TTTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTC-CT-TCTCTGTTTCGTTTTGCTCTCTG
44787005 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
44787019 TTCTTTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 7 0.13
45 36 0.68
46 10 0.19
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (44 bp):
TTTCTTTCTTTCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:44787047 original size:8 final size:8
Alignment explanation
Indices: 44787034--44787072 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
44787024 TGTCATATAT
44787034 ATATAATA
1 ATATAATA
44787042 ATATAATA
1 ATATAATA
44787050 ATATAAT-
1 ATATAATA
44787057 ATA-ATATA
1 ATATA-ATA
44787065 ATATAATA
1 ATATAATA
44787073 TAAAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.04
7 5 0.18
8 21 0.75
9 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:44787049 original size:5 final size:5
Alignment explanation
Indices: 44787028--44787075 Score: 62
Period size: 5 Copynumber: 9.2 Consensus size: 5
44787018 TTTCTTTGTC
44787028 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
44787075 A
1 A
44787076 AAACATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 1 0.03
5 29 0.74
6 8 0.21
7 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:44787722 original size:26 final size:24
Alignment explanation
Indices: 44787667--44787723 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
44787657 CACCATAAAT
* *
44787667 AGTATAAATGGAATTAAAGAATGA
1 AGTATATATGGAATTAAAGAATCA
* *
44787691 ATTATATATGGAATTAAAGCTTATCA
1 AGTATATATGGAATTAAAG--AATCA
44787717 AGTATAT
1 AGTATAT
44787724 TTTTATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 17 0.65
26 9 0.35
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (24 bp):
AGTATATATGGAATTAAAGAATCA
Found at i:44790230 original size:33 final size:33
Alignment explanation
Indices: 44790161--44790258 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
44790151 CTATACCCAT
* * *
44790161 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
44790198 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
44790231 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
44790259 ATACATATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:44790520 original size:41 final size:41
Alignment explanation
Indices: 44790475--44790630 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
44790465 ACCGGCTCTT
*
44790475 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
44790516 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
44790557 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
44790598 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
44790631 TAACGATAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 97 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:44790825 original size:2 final size:2
Alignment explanation
Indices: 44790818--44790842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44790808 ATACATCCGA
44790818 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 A
44790843 ACTTAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44793487 original size:98 final size:98
Alignment explanation
Indices: 44793315--44793509 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 98
44793305 ACAATAAAAT
*
44793315 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
*
44793380 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
44793413 TTTAAAAGAACATTCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTA-GAGCACAATTC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGA-CACAATTC
*
44793477 CTTTAAAATCCCAAACTCGGAATATTTCCTTTA
65 CTCTAAAATCCCAAACTCGGAATATTTCCTTTA
44793510 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 2 0.02
98 90 0.98
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:44794255 original size:5 final size:5
Alignment explanation
Indices: 44794245--44794277 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
44794235 AATTATATAT
44794245 AAATA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
44794278 ATAATTACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:44794433 original size:25 final size:22
Alignment explanation
Indices: 44794376--44794425 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
44794366 ATATATAGCT
**
44794376 AAAATAATAATAATTACATATG
1 AAAATAATAATAATTACATAAC
44794398 AAAATAATAATAATTACATTAAC
1 AAAATAATAATAATTACA-TAAC
44794421 AAAAT
1 AAAAT
44794426 TAACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAATAATTACATAAC
Found at i:44794998 original size:19 final size:19
Alignment explanation
Indices: 44794974--44795067 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
44794964 AATCATATAT
44794974 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
44794993 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
44795012 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
44795031 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
44795052 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
44795068 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 48 0.72
21 19 0.28
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44795022 original size:38 final size:39
Alignment explanation
Indices: 44794974--44795067 Score: 163
Period size: 38 Copynumber: 2.4 Consensus size: 39
44794964 AATCATATAT
44794974 TCTAAGATTGCATATCATATCTAAGATT-ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTCATATATCATA
*
44795012 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATT-CATATATCATA
44795052 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
44795068 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 27 0.52
40 25 0.48
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTCATATATCATA
Found at i:44797455 original size:23 final size:24
Alignment explanation
Indices: 44797421--44797473 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
44797411 TTGATGAAAT
*
44797421 TAAT-TTTTTAAATAAAAGAAA-AA
1 TAATATTTTTAAA-AAAAAAAATAA
44797444 T-ATATTTTTAAAAAAAAAAATAA
1 TAATATTTTTAAAAAAAAAAATAA
44797467 TAATATT
1 TAATATT
44797474 ATAAAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.35
23 12 0.46
24 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TAATATTTTTAAAAAAAAAAATAA
Found at i:44797479 original size:21 final size:21
Alignment explanation
Indices: 44797432--44797479 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
44797422 AATTTTTTAA
* *
44797432 ATAAAAGAAAAATATATTTTT
1 ATAAAAGAAAAATATAATATT
*
44797453 A-AAAAAAAAAATAATAATATT
1 ATAAAAGAAAAAT-ATAATATT
44797474 ATAAAA
1 ATAAAA
44797480 TTTCTTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAAAGAAAAATATAATATT
Found at i:44797761 original size:29 final size:30
Alignment explanation
Indices: 44797718--44797790 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
44797708 ATATTGTTTA
44797718 TAAA-TTTAAAATTTAGTT-TT-TATATTT
1 TAAATTTTAAAATTTAGTTATTCTATATTT
* * *
44797745 TTATTTTTAAGAATTTAGTTATTCTATGTTT
1 TAAATTTTAA-AATTTAGTTATTCTATATTT
44797776 TAAATTTTAAAATTT
1 TAAATTTTAAAATTT
44797791 GGGTTCAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 5 0.14
29 9 0.24
30 7 0.19
31 14 0.38
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (30 bp):
TAAATTTTAAAATTTAGTTATTCTATATTT
Found at i:44797844 original size:17 final size:16
Alignment explanation
Indices: 44797813--44797846 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44797803 TAACATTTTT
*
44797813 ATTATTTTTTGTTAAA
1 ATTATTTTTTATTAAA
44797829 ATTATTTTTTAATTAAA
1 ATTATTTTTT-ATTAAA
44797846 A
1 A
44797847 AATCATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTATTTTTTATTAAA
Found at i:44809993 original size:14 final size:14
Alignment explanation
Indices: 44809964--44809992 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44809954 TCACTAGAGC
44809964 TTAAGTTTTATATT
1 TTAAGTTTTATATT
44809978 TTAA-TTTTATATT
1 TTAAGTTTTATATT
44809991 TT
1 TT
44809993 TCAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTAAGTTTTATATT
Found at i:44814678 original size:21 final size:21
Alignment explanation
Indices: 44814652--44814691 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44814642 ATTTATTATT
* *
44814652 TCTTATTTGGATCTGTTATGA
1 TCTTATTCGAATCTGTTATGA
44814673 TCTTATTCGAATCTGTTAT
1 TCTTATTCGAATCTGTTAT
44814692 CAAATCCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (21 bp):
TCTTATTCGAATCTGTTATGA
Found at i:44823567 original size:23 final size:23
Alignment explanation
Indices: 44823537--44823601 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
44823527 CTGAATAAAT
* *
44823537 GGTAAGCTCTATTGAGCTGAAAC
1 GGTAAGCTCCATAGAGCTGAAAC
*
44823560 GGTAAGCTCCGTAGAGCTGAAAC
1 GGTAAGCTCCATAGAGCTGAAAC
44823583 GGTAAGCT-CATACGAGCTG
1 GGTAAGCTCCATA-GAGCTG
44823602 TGGTGAGTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (23 bp):
GGTAAGCTCCATAGAGCTGAAAC
Found at i:44824282 original size:27 final size:27
Alignment explanation
Indices: 44824252--44824305 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44824242 TCTTAATGAA
44824252 ATAAAAGCATAATTCACATATTTTAAG
1 ATAAAAGCATAATTCACATATTTTAAG
44824279 ATAAAAGCATAATTCACATATTTTAAG
1 ATAAAAGCATAATTCACATATTTTAAG
44824306 GTCATTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
ATAAAAGCATAATTCACATATTTTAAG
Found at i:44829119 original size:18 final size:19
Alignment explanation
Indices: 44829083--44829120 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
44829073 TACAAAAAAT
*
44829083 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTATAAA
*
44829102 ATTCCAAAT-ATTTATAAA
1 ATTCAAAATAATTTATAAA
44829120 A
1 A
44829121 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCAAAATAATTTATAAA
Found at i:44833555 original size:13 final size:13
Alignment explanation
Indices: 44833539--44833574 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
44833529 TTCATTTATT
44833539 ATTATTTTTTAAA
1 ATTATTTTTTAAA
44833552 ATTA--TTTTAAA
1 ATTATTTTTTAAA
44833563 A-TATTTTTTAAA
1 ATTATTTTTTAAA
44833575 TTGAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.10
11 8 0.38
12 7 0.33
13 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATTTTTTAAA
Found at i:44840851 original size:20 final size:20
Alignment explanation
Indices: 44840825--44840873 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
44840815 ATGTTTCGTC
*
44840825 AAAAAATAATTTAAAAATTC
1 AAAAAATAATTTAAAAATTA
*
44840845 TAAAAAT-ATTTAAAAATTA
1 AAAAAATAATTTAAAAATTA
44840864 AAAAAATAAT
1 AAAAAATAAT
44840874 GATGAAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATAATTTAAAAATTA
Found at i:44841501 original size:2 final size:2
Alignment explanation
Indices: 44841494--44841519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44841484 AAAGTCTATA
44841494 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
44841520 ATTATATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:44842792 original size:15 final size:16
Alignment explanation
Indices: 44842764--44842816 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
44842754 TTTTAGAGTT
* *
44842764 TTTTTAAGAATTATAA
1 TTTTTAATATTTATAA
44842780 TTTTTAA-ATTTATAA
1 TTTTTAATATTTATAA
* *
44842795 TTTATAATTTTTTATAA
1 TTTTTAA-TATTTATAA
44842812 TTTTT
1 TTTTT
44842817 TTAATTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 13 0.42
16 7 0.23
17 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTTAATATTTATAA
Found at i:44859032 original size:21 final size:20
Alignment explanation
Indices: 44858984--44859034 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
44858974 TCTCAAACTA
*
44858984 AAAACTCAAAACTTAAATTC
1 AAAATTCAAAACTTAAATTC
** *
44859004 AAGGTTCAAAATTTAAAATTC
1 AAAATTCAAAACTT-AAATTC
44859025 AAAATTCAAA
1 AAAATTCAAA
44859035 TTTGGGGGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATTCAAAACTTAAATTC
Found at i:44863431 original size:89 final size:89
Alignment explanation
Indices: 44863329--44863498 Score: 340
Period size: 89 Copynumber: 1.9 Consensus size: 89
44863319 AACACAACCC
44863329 AAGCCCATTTAATACAATTTACCAAATATTATACAATTTAAAAAATAAAAATAAATAAATCTAAT
1 AAGCCCATTTAATACAATTTACCAAATATTATACAATTTAAAAAATAAAAATAAATAAATCTAAT
44863394 CCCTAAAACACGCATGTGCGCGCG
66 CCCTAAAACACGCATGTGCGCGCG
44863418 AAGCCCATTTAATACAATTTACCAAATATTATACAATTTAAAAAATAAAAATAAATAAATCTAAT
1 AAGCCCATTTAATACAATTTACCAAATATTATACAATTTAAAAAATAAAAATAAATAAATCTAAT
44863483 CCCTAAAACACGCATG
66 CCCTAAAACACGCATG
44863499 CACGCGCGCG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.26
Consensus pattern (89 bp):
AAGCCCATTTAATACAATTTACCAAATATTATACAATTTAAAAAATAAAAATAAATAAATCTAAT
CCCTAAAACACGCATGTGCGCGCG
Found at i:44869867 original size:75 final size:74
Alignment explanation
Indices: 44869745--44869913 Score: 257
Period size: 75 Copynumber: 2.3 Consensus size: 74
44869735 ATCGATGGAT
*
44869745 TCAGCACTTAGCAACCCCTTCACATTTAAGATACGGTAGGATCAGCACTTAGCAACCACCAGTAA
1 TCAGCACTTAGCAACCCCTTCACATTTAAGATACGGTAGGATCAGCACTTAGCAACCACCAATAA
*
44869810 TTCGGGGAA
66 GTCGGGGAA
* * * *
44869819 TCAGCACTTAGCAGCCCATTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATG
1 TCAGCACTTAGCAACCC-CTTCACATTTAAGATACGGTAGGATCAGCACTTAGCAACCACCAATA
44869884 AGTCGGGGAA
65 AGTCGGGGAA
* *
44869894 TCGGTACTTAGCAACCCCTT
1 TCAGCACTTAGCAACCCCTT
44869914 GGGGGAATCA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 18 0.21
75 66 0.79
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (74 bp):
TCAGCACTTAGCAACCCCTTCACATTTAAGATACGGTAGGATCAGCACTTAGCAACCACCAATAA
GTCGGGGAA
Found at i:44869929 original size:27 final size:27
Alignment explanation
Indices: 44869888--44869968 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
44869878 CCAATGAGTC
* *
44869888 GGGGAATCGGTACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
44869915 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
44869942 GGGGAATCAGCACTTAGCAACCTCCTT
1 GGGGAATCAGCACTTAGCAACC-CCTT
44869969 CGTATTCAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 47 0.92
28 4 0.08
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:44874271 original size:19 final size:19
Alignment explanation
Indices: 44874244--44874281 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44874234 ACGTAATTTA
*
44874244 TATTTTAAAAAATATTAAT
1 TATTGTAAAAAATATTAAT
*
44874263 TATTGTAAAAATTATTAAT
1 TATTGTAAAAAATATTAAT
44874282 AGGATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TATTGTAAAAAATATTAAT
Found at i:44874292 original size:20 final size:20
Alignment explanation
Indices: 44874269--44874319 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
44874259 TAATTATTGT
*
44874269 AAAAATTATTAATAGGATAA-
1 AAAAATTATTAATA-AATAAC
* * *
44874289 AAAATTTCTAAATAAATAAC
1 AAAAATTATTAATAAATAAC
44874309 AAAAATTATTA
1 AAAAATTATTA
44874320 TCAAATCATT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATTATTAATAAATAAC
Found at i:44890046 original size:16 final size:17
Alignment explanation
Indices: 44890025--44890061 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
44890015 TTTGGTTCGC
44890025 TGTATT-GGATTAGAGG
1 TGTATTGGGATTAGAGG
44890041 TGTATTGGGATTAGAGG
1 TGTATTGGGATTAGAGG
44890058 TGTA
1 TGTA
44890062 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (17 bp):
TGTATTGGGATTAGAGG
Found at i:44890318 original size:18 final size:17
Alignment explanation
Indices: 44890297--44890331 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44890287 TTATTATTAA
*
44890297 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44890315 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44890332 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:44890378 original size:61 final size:61
Alignment explanation
Indices: 44890312--44890499 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
44890302 TTTTAATTAA
44890312 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
44890373 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
44890432 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
44890493 AATATAT
1 AATATAT
44890500 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:44890445 original size:14 final size:15
Alignment explanation
Indices: 44890396--44890447 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44890386 ATAAAATATA
44890396 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44890411 TATTAAATATATTAT
1 AATTAAATATATTAT
44890426 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44890439 AATTTAATA
1 AATTAAATA
44890448 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:44890493 original size:120 final size:121
Alignment explanation
Indices: 44890280--44890572 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
44890270 ATCATATTTA
44890280 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
44890345 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
44890400 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
44890465 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
44890521 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
44890573 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:44890619 original size:101 final size:93
Alignment explanation
Indices: 44890513--44890795 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
44890503 ACTATAAAAG
* * * *
44890513 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
44890577 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
44890614 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
44890677 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
44890705 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
44890768 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
44890796 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:44890642 original size:26 final size:28
Alignment explanation
Indices: 44890613--44890673 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
44890603 TATGAATTTG
*
44890613 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
44890639 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
44890667 TAAAATT
1 TATAATT
44890674 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:44890671 original size:47 final size:46
Alignment explanation
Indices: 44890620--44890763 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
44890610 TTGTATAATT
44890620 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
44890667 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
44890711 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
44890758 TAAAAT
1 TAAAAT
44890764 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:44890683 original size:91 final size:90
Alignment explanation
Indices: 44890588--44890795 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
44890578 TAATTATAAC
* * * *
44890588 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
44890653 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
44890679 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
44890744 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
44890770 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
44890796 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:44890755 original size:44 final size:43
Alignment explanation
Indices: 44890613--44890755 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
44890603 TATGAATTTG
* *
44890613 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
44890657 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
44890704 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
44890748 TATAATTT
1 TATAATTT
44890756 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:44890770 original size:47 final size:47
Alignment explanation
Indices: 44890638--44890776 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
44890628 TTATTATTAC
* *
44890638 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
44890685 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
44890729 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
44890776 A
1 A
44890777 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:44894502 original size:31 final size:32
Alignment explanation
Indices: 44894467--44894546 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
44894457 TATATTTCTA
44894467 ATTTATATTTTATACATT-ATTATATTAAATT
1 ATTTATATTTTATACATTCATTATATTAAATT
* * * *
44894498 ATTTAAATATTCTA-TTTCATTATATTAAATT
1 ATTTATATTTTATACATTCATTATATTAAATT
*
44894529 ATTT-TATTTAATAC-TTCA
1 ATTTATATTTTATACATTCA
44894547 AAATATTTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTTATATTTTATACATTCATTATATTAAATT
Found at i:44894531 original size:23 final size:21
Alignment explanation
Indices: 44894495--44894537 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
44894485 ATTATATTAA
44894495 ATTATTTAAATATTCTATTTC
1 ATTATTTAAATATTCTATTTC
*
44894516 ATTATATTAAATTATTTTATTT
1 ATTAT-TTAAA-TATTCTATTT
44894538 AATACTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 9 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTTAAATATTCTATTTC
Found at i:44894616 original size:21 final size:23
Alignment explanation
Indices: 44894578--44894630 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
44894568 ATTTATAAAT
44894578 AATTTA-TTAATATAATTATATA
1 AATTTATTTAATATAATTATATA
*
44894600 AATTTATTTAA-AT-ATTATCTA
1 AATTTATTTAATATAATTATATA
*
44894621 AATTAATTTA
1 AATTTATTTA
44894631 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.57
22 8 0.29
23 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTATTTAATATAATTATATA
Found at i:44895739 original size:30 final size:31
Alignment explanation
Indices: 44895705--44895773 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 31
44895695 GTGATTGAAT
*
44895705 TTTACTACTAAACTTTGAA-TTTT-ATTAAAA
1 TTTACTACTAAACTTT-AATTTTTAATCAAAA
* * *
44895735 TTTAC-AATTAACTTTAATTTTTAATCAAAT
1 TTTACTACTAAACTTTAATTTTTAATCAAAA
44895765 TTTACTACT
1 TTTACTACT
44895774 CGATAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 12 0.39
30 15 0.48
31 2 0.06
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (31 bp):
TTTACTACTAAACTTTAATTTTTAATCAAAA
Found at i:44898357 original size:22 final size:23
Alignment explanation
Indices: 44898332--44898374 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44898322 TAAAATGTTC
* *
44898332 TTATTTT-ACAAAATAAATTATA
1 TTATTTTGAAAAAAAAAATTATA
44898354 TTATTTTGAAAAAAAAAATTA
1 TTATTTTGAAAAAAAAAATTA
44898375 CATCTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTATTTTGAAAAAAAAAATTATA
Found at i:44901719 original size:61 final size:61
Alignment explanation
Indices: 44901650--44901769 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
44901640 GTAAATTGTA
*
44901650 AGGATCAAATAATTTAGTTCATTTGCTATCAAC-TTTGTGTTACTAAAAATTTTGTCACTCG
1 AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTTG-GTTACTAAAAATTTTGTCACTCG
*
44901711 AGGATCAAATAATTTAGTTCCTGTGCTATCAACTTTTGGTTACTAAAAATTTTGTCACT
1 AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTTGGTTACTAAAAATTTTGTCACT
44901770 TAACTGAGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
61 52 0.93
62 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (61 bp):
AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTTGGTTACTAAAAATTTTGTCACTCG
Found at i:44913956 original size:10 final size:11
Alignment explanation
Indices: 44913928--44913958 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44913918 TTAAAATTAT
*
44913928 TTTAAAAATTC
1 TTTAAAAACTC
44913939 TTTAAAAACTC
1 TTTAAAAACTC
44913950 TTTAAAAAC
1 TTTAAAAAC
44913959 ATCCCGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTAAAAACTC
Found at i:44919394 original size:15 final size:15
Alignment explanation
Indices: 44919374--44919402 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44919364 ATTTTATGTA
44919374 ATGTCTTTTGTATTC
1 ATGTCTTTTGTATTC
44919389 ATGTCTTTTGTATT
1 ATGTCTTTTGTATT
44919403 TTGCATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (15 bp):
ATGTCTTTTGTATTC
Found at i:44922300 original size:31 final size:32
Alignment explanation
Indices: 44922258--44922321 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
44922248 TGTAATTTTC
*
44922258 GCCCCTTGAACTTGGCAAATAGGTCCACATTG
1 GCCCCTTGAACTTAGCAAATAGGTCCACATTG
* * *
44922290 GCCCC-TGAACTTAGCAAGTAGGTTCACTTTG
1 GCCCCTTGAACTTAGCAAATAGGTCCACATTG
44922321 G
1 G
44922322 TCATGTACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (32 bp):
GCCCCTTGAACTTAGCAAATAGGTCCACATTG
Found at i:44925318 original size:34 final size:34
Alignment explanation
Indices: 44925277--44925344 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
44925267 TAAAGGGCAA
*
44925277 AGCATTAGGGTTTAATGAATTTATTATAAAGTTT
1 AGCATTAGGGTTTAATAAATTTATTATAAAGTTT
44925311 AGCATTAGGGTTTAATAAATTTATTATAAAGTTT
1 AGCATTAGGGTTTAATAAATTTATTATAAAGTTT
44925345 TGTAATGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.44
Consensus pattern (34 bp):
AGCATTAGGGTTTAATAAATTTATTATAAAGTTT
Found at i:44932240 original size:17 final size:17
Alignment explanation
Indices: 44932220--44932253 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44932210 ATAGAAGGTT
* *
44932220 AAATTTTAGTTTTAATC
1 AAATTTGAGATTTAATC
44932237 AAATTTGAGATTTAATC
1 AAATTTGAGATTTAATC
44932254 TTTATATTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
AAATTTGAGATTTAATC
Found at i:44949585 original size:14 final size:14
Alignment explanation
Indices: 44949548--44949590 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
44949538 ATTCAAGGCA
44949548 TAATTAATTTAAAATTT
1 TAATTAA-TT-AAA-TT
44949565 TAATTAATTAAATT
1 TAATTAATTAAATT
*
44949579 TATTTAATTAAA
1 TAATTAATTAAA
44949591 AACCTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 3 0.12
16 2 0.08
17 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTAATTAAATT
Found at i:44949846 original size:27 final size:27
Alignment explanation
Indices: 44949816--44949875 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
44949806 TACATAATAG
* *
44949816 TATTTAATTCATGAACGTATATTATGA
1 TATTCAATTCATGAACGTATATTATAA
* ** *
44949843 TATTCATTTTTTGAAGGTATATTATAA
1 TATTCAATTCATGAACGTATATTATAA
44949870 TATTCA
1 TATTCA
44949876 CGTATGTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (27 bp):
TATTCAATTCATGAACGTATATTATAA
Found at i:44952026 original size:34 final size:33
Alignment explanation
Indices: 44951997--44952060 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
44951987 TATAAAGACA
*
44951997 ATTA-AATTTATATTTATATTAAATAATAAAATTC
1 ATTATAATTGATA-TTATATTAAATAATAAAA-TC
*
44952031 ATTATAATTGATATTATGTTAAATAATAAA
1 ATTATAATTGATATTATATTAAATAATAAA
44952061 TAAAAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
34 20 0.74
35 7 0.26
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (33 bp):
ATTATAATTGATATTATATTAAATAATAAAATC
Found at i:44953357 original size:7 final size:7
Alignment explanation
Indices: 44953338--44953371 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
44953328 TTTTAAAATT
44953338 TTAAAAA
1 TTAAAAA
44953345 TATAAAAA
1 T-TAAAAA
44953353 TTAAAAA
1 TTAAAAA
*
44953360 TAAAAAA
1 TTAAAAA
44953367 TTAAA
1 TTAAA
44953372 GTATATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TTAAAAA
Found at i:44953358 original size:15 final size:14
Alignment explanation
Indices: 44953338--44953371 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44953328 TTTTAAAATT
44953338 TTAAAAATATAAAAA
1 TTAAAAATA-AAAAA
44953353 TTAAAAATAAAAAA
1 TTAAAAATAAAAAA
44953367 TTAAA
1 TTAAA
44953372 GTATATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TTAAAAATAAAAAA
Found at i:44961235 original size:18 final size:19
Alignment explanation
Indices: 44961202--44961238 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44961192 TTAATGAATT
*
44961202 TTTTAATATTTAAATTTTA
1 TTTTAATATGTAAATTTTA
44961221 TTTTAATA-GTAAATTTTA
1 TTTTAATATGTAAATTTTA
44961239 AAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTAATATGTAAATTTTA
Found at i:44961835 original size:14 final size:14
Alignment explanation
Indices: 44961816--44961851 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
44961806 GAAAAGTAAG
44961816 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
**
44961830 TCATTTTCCGGAAA
1 TCATTTTCCAAAAA
44961844 TCATTTTC
1 TCATTTTC
44961852 AGTGAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:44965325 original size:13 final size:13
Alignment explanation
Indices: 44965309--44965338 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44965299 ATTGTCATGT
44965309 AATTGTTTTTCTG
1 AATTGTTTTTCTG
44965322 AATTGTTTTTCTG
1 AATTGTTTTTCTG
44965335 AATT
1 AATT
44965339 TAGCTTTTAA
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:44966116 original size:18 final size:17
Alignment explanation
Indices: 44966088--44966122 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44966078 ATTATTAAGA
*
44966088 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44966105 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44966123 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44966385 original size:16 final size:16
Alignment explanation
Indices: 44966358--44966425 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
44966348 GATTTGCTAT
44966358 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
44966374 TACACTTTTAATCCAA
1 TACACCTCTAATCCAA
44966390 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
44966406 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
44966422 TACA
1 TACA
44966426 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44966626 original size:15 final size:17
Alignment explanation
Indices: 44966592--44966628 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
44966582 GTGAGTTCAG
44966592 TTATTAATTAAATCAAA
1 TTATTAATTAAATCAAA
*
44966609 TTATT-ATT-AATTAAA
1 TTATTAATTAAATCAAA
44966624 TTATT
1 TTATT
44966629 TAAAATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 3 0.16
17 5 0.26
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATTAAATCAAA
Found at i:44966946 original size:46 final size:44
Alignment explanation
Indices: 44966890--44966980 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 44
44966880 ACATGATTTT
* *
44966890 ATATTGAATTAACTGATAATTAAAATTTTAAAAAAAATTATTAATC
1 ATATTAAATTAACTAATAATTAAAATTTT--AAAAAATTATTAATC
44966936 ATATTAAATTAACTAATAATTAAAATTTTAAAAAATTATTAATC
1 ATATTAAATTAACTAATAATTAAAATTTTAAAAAATTATTAATC
44966980 A
1 A
44966981 ACTTTCAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 16 0.37
46 27 0.63
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (44 bp):
ATATTAAATTAACTAATAATTAAAATTTTAAAAAATTATTAATC
Found at i:44967676 original size:51 final size:51
Alignment explanation
Indices: 44967600--44967699 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
44967590 ATCTGAAAAG
44967600 CTCCGATAAGAACTAGGAGAGAGAGACTGGAGAAGTAAGAGATAAGGCAAT
1 CTCCGATAAGAACTAGGAGAGAGAGACTGGAGAAGTAAGAGATAAGGCAAT
* * *
44967651 CTCCGATAAGAACTAGGGGAGAGAGATTGGAGAAGTAAGAGATACGGCA
1 CTCCGATAAGAACTAGGAGAGAGAGACTGGAGAAGTAAGAGATAAGGCA
44967700 GTGGCTAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.33, T:0.14
Consensus pattern (51 bp):
CTCCGATAAGAACTAGGAGAGAGAGACTGGAGAAGTAAGAGATAAGGCAAT
Found at i:44974780 original size:27 final size:26
Alignment explanation
Indices: 44974750--44974812 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
44974740 TTGAAAGCTA
44974750 AATTTTATTTGT-TGAATTTTGTTGTTC
1 AATTTT-TTTGTATGAA-TTTGTTGTTC
* *
44974777 AATTTTTTTTTACTGCATTTGTTGTTC
1 AATTTTTTTGTA-TGAATTTGTTGTTC
44974804 AATTTTTTT
1 AATTTTTTT
44974813 TTTCAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.12
27 25 0.78
28 3 0.09
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.65
Consensus pattern (26 bp):
AATTTTTTTGTATGAATTTGTTGTTC
Found at i:44975314 original size:16 final size:17
Alignment explanation
Indices: 44975293--44975326 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44975283 GATTGAATCG
*
44975293 AATTTTTAT-TTTTTTA
1 AATTTTAATATTTTTTA
44975309 AATTTTAATATTTTTTA
1 AATTTTAATATTTTTTA
44975326 A
1 A
44975327 TCGAATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTAATATTTTTTA
Found at i:44986168 original size:16 final size:17
Alignment explanation
Indices: 44986147--44986178 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44986137 TTTATTTTAA
44986147 TAAAAAT-TAATAAAAG
1 TAAAAATATAATAAAAG
44986163 TAAAAATATAATAAAA
1 TAAAAATATAATAAAA
44986179 TTTAAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAAAATATAATAAAAG
Found at i:44996599 original size:47 final size:47
Alignment explanation
Indices: 44996530--44996627 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
44996520 ACAGACATGC
* *
44996530 CAATTCATGACAAAATATGATTAATTCTTTTGTTTAAAGGGGAACTG
1 CAATTCATGACAAAATATGATTAATTCTCTTGTTTAAAAGGGAACTG
44996577 CAATTCATGACAAAATATGATTAATTCTCTTGTTTAAAAGGGAACTG
1 CAATTCATGACAAAATATGATTAATTCTCTTGTTTAAAAGGGAACTG
44996624 CAAT
1 CAAT
44996628 GCTTTAGTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (47 bp):
CAATTCATGACAAAATATGATTAATTCTCTTGTTTAAAAGGGAACTG
Found at i:45000825 original size:18 final size:17
Alignment explanation
Indices: 45000794--45000828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45000784 TTTGAGTCGG
*
45000794 TTTTTTATACTATAATT
1 TTTTTTATAATATAATT
45000811 TTTTTTACTAATATAATT
1 TTTTTTA-TAATATAATT
45000829 GGTTGACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTTATAATATAATT
Found at i:45002266 original size:9 final size:10
Alignment explanation
Indices: 45002253--45002299 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45002243 AGTTTTTATC
45002253 AATTTTTAAT
1 AATTTTTAAT
*
45002263 -ATTTTTTAT
1 AATTTTTAAT
*
45002272 AATTTCTAAT
1 AATTTTTAAT
45002282 AATTTTTTAAAT
1 AA-TTTTT-AAT
45002294 AATTTT
1 AATTTT
45002300 GTATAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 8 0.27
12 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:45002275 original size:19 final size:21
Alignment explanation
Indices: 45002233--45002290 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
45002223 TTTAGACATT
* *
45002233 ATTTCTAATCAGTTTTTATCA
1 ATTTCTAATAATTTTTTATCA
*
45002254 ATTTTTAAT-ATTTTTTAT-A
1 ATTTCTAATAATTTTTTATCA
45002273 ATTTCTAATAATTTTTTA
1 ATTTCTAATAATTTTTTA
45002291 AATAATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.27
20 16 0.48
21 8 0.24
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTCTAATAATTTTTTATCA
Found at i:45002351 original size:23 final size:23
Alignment explanation
Indices: 45002286--45002352 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
45002276 TCTAATAATT
45002286 TTTTAAATA-ATTTTGTATAAATA
1 TTTTAAATATA-TTTGTATAAATA
** * *
45002309 TATACAAAAATA-TTGAATAAATA
1 T-TTTAAATATATTTGTATAAATA
45002332 TTTTAAATATATTTGTATAAA
1 TTTTAAATATATTTGTATAAA
45002353 AAATTATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 7 0.21
23 20 0.61
24 5 0.15
25 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (23 bp):
TTTTAAATATATTTGTATAAATA
Found at i:45007723 original size:14 final size:13
Alignment explanation
Indices: 45007701--45007734 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
45007691 AAAGTATTTT
*
45007701 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
45007715 AAAAATAAAAATA
1 AAAAATAAAAATA
45007728 AAAAATA
1 AAAAATA
45007735 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:45007892 original size:5 final size:5
Alignment explanation
Indices: 45007882--45007908 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45007872 GGCGGACCGT
45007882 CGGGC CGGGC CGGGC CGGGC CGGGC CG
1 CGGGC CGGGC CGGGC CGGGC CGGGC CG
45007909 CCCGACCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.59, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:45021366 original size:3 final size:3
Alignment explanation
Indices: 45021358--45021392 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
45021348 GTTCTCTGAG
45021358 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
45021393 TTATTGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45022008 original size:15 final size:15
Alignment explanation
Indices: 45021988--45022017 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45021978 AAAACAACAT
45021988 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45022003 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45022018 CCTTACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:45024771 original size:5 final size:5
Alignment explanation
Indices: 45024761--45024790 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45024751 GATTGGATTG
*
45024761 GATGC GGTGC GATGC GATGC GATGC GATGC
1 GATGC GATGC GATGC GATGC GATGC GATGC
45024791 ATTTAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.20, G:0.43, T:0.20
Consensus pattern (5 bp):
GATGC
Found at i:45027998 original size:15 final size:17
Alignment explanation
Indices: 45027959--45027998 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
45027949 TGATCTGTAT
45027959 ATATTAATATTTTTTTA
1 ATATTAATATTTTTTTA
45027976 ATAGTTAAT-TTTTTTTA
1 ATA-TTAATATTTTTTTA
45027993 AT-TTAA
1 ATATTAA
45027999 CACACATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATATTAATATTTTTTTA
Found at i:45031303 original size:21 final size:19
Alignment explanation
Indices: 45031266--45031307 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
45031256 TAGAAATTAG
*
45031266 AAATATAAAAAATAATTTT
1 AAATAAAAAAAATAATTTT
45031285 AAATAAAATAAAATAAATTTT
1 AAATAAAA-AAAAT-AATTTT
45031306 AA
1 AA
45031308 TTTAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAAAAAAATAATTTT
Found at i:45032960 original size:39 final size:39
Alignment explanation
Indices: 45032906--45032983 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
45032896 TGAGTTCATC
45032906 AACGATGTCGCTGTACATCTTGTGTTAACTAATCATATT
1 AACGATGTCGCTGTACATCTTGTGTTAACTAATCATATT
*
45032945 AACGATGTCGCTGTACGTCTTGTGTTAACTAATCATATT
1 AACGATGTCGCTGTACATCTTGTGTTAACTAATCATATT
45032984 CTCTTGTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (39 bp):
AACGATGTCGCTGTACATCTTGTGTTAACTAATCATATT
Found at i:45034518 original size:21 final size:21
Alignment explanation
Indices: 45034494--45034565 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
45034484 TTTAACTCAT
45034494 ATGAGTTTCCGTTCAACCCTA
1 ATGAGTTTCCGTTCAACCCTA
* *
45034515 ATGAGTTTCCGTTCAGCTCTA
1 ATGAGTTTCCGTTCAACCCTA
* * * * *
45034536 TTGAGCTTCTGTTTAACCCTT
1 ATGAGTTTCCGTTCAACCCTA
*
45034557 ATGGGTTTC
1 ATGAGTTTC
45034566 TATTTAGCTC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (21 bp):
ATGAGTTTCCGTTCAACCCTA
Found at i:45034575 original size:42 final size:43
Alignment explanation
Indices: 45034473--45034576 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 43
45034463 TTTAGTTATC
* * *
45034473 ATGAGCTTCTATTTAACTC-ATATGAGTTTCCGTTCAACCCTA
1 ATGAGTTTCTATTTAGCTCTATATGAGCTTCCGTTCAACCCTA
** * * * *
45034515 ATGAGTTTCCGTTCAGCTCTAT-TGAGCTTCTGTTTAACCCTT
1 ATGAGTTTCTATTTAGCTCTATATGAGCTTCCGTTCAACCCTA
*
45034557 ATGGGTTTCTATTTAGCTCT
1 ATGAGTTTCTATTTAGCTCT
45034577 TACTAACTTC
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (43 bp):
ATGAGTTTCTATTTAGCTCTATATGAGCTTCCGTTCAACCCTA
Found at i:45037367 original size:2 final size:2
Alignment explanation
Indices: 45037360--45037385 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45037350 CCAGATTTGT
45037360 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
45037386 CCCAATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:45044116 original size:7 final size:7
Alignment explanation
Indices: 45044106--45044133 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
45044096 TTCGCTGCTG
45044106 GTGTTGC
1 GTGTTGC
45044113 GTGTTGC
1 GTGTTGC
45044120 GTGTTGC
1 GTGTTGC
45044127 GTGTTGC
1 GTGTTGC
45044134 AAGTAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.43, T:0.43
Consensus pattern (7 bp):
GTGTTGC
Found at i:45047922 original size:34 final size:32
Alignment explanation
Indices: 45047826--45047923 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 32
45047816 GTTTAGGATT
45047826 TTTTAAAAAAA-TAATTAAATTAGGTTTTTAGGG
1 TTTTAAAAAAATTAATTAAATTAGG--TTTAGGG
* *
45047859 TTTTAAATAAATTAATTAAATTAGAGTTTATGG
1 TTTTAAAAAAATTAATTAAATTAG-GTTTAGGG
45047892 TTTTAAAGAAAATTAATTAAATTATGGTTTAG
1 TTTTAAA-AAAATTAATTAAATTA-GGTTTAG
45047924 TTTTTTTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 23 0.40
34 32 0.56
35 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (32 bp):
TTTTAAAAAAATTAATTAAATTAGGTTTAGGG
Found at i:45048290 original size:125 final size:125
Alignment explanation
Indices: 45047988--45048375 Score: 443
Period size: 125 Copynumber: 3.1 Consensus size: 125
45047978 TTTTTGTTTT
* *
45047988 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTC-AGAA-AAGATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTA-AACAA-ATAGTGTAAA
* * * * * * *
45048051 AGACACTTTAAGGAGGATGCACTGTCAGAAAAATTATTGAAAAAAGCTCCCACGTGAACG--C
64 AAACGCTTCAAGCAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTG-ACGCTC
* * * *
45048112 ----TCTACAGTAGGTCCTGAAAAAATAATTTTGAGAAGACAGTTATGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAA
* * * * **
45048173 ACGCTTCAAGCAAGATACACTGTGAGCAAAATTACTG-AAAAAGCTCCTATATAGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGT-GACGCTC
* * * *
45048233 TTTTTCTATAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGGTTCTAAACATATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAA
*
45048298 ACGCTTCAAGTAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGT-GACGCTC
*
45048359 TTTTTCTACAATAGTTC
1 TTTTTCTACAGTAGTTC
45048376 ATGTTTGGCC
Statistics
Matches: 218, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
119 15 0.07
120 80 0.37
121 3 0.01
125 86 0.39
126 34 0.16
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGACGCTC
Found at i:45051416 original size:9 final size:9
Alignment explanation
Indices: 45051393--45051422 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45051383 ATTTCTATTT
45051393 TATTAAAAA
1 TATTAAAAA
45051402 TA-TAAAAA
1 TATTAAAAA
45051410 TATTAAAAA
1 TATTAAAAA
45051419 TATT
1 TATT
45051423 GCATTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:45051577 original size:90 final size:91
Alignment explanation
Indices: 45051448--45051613 Score: 246
Period size: 90 Copynumber: 1.8 Consensus size: 91
45051438 ACTAGTATTT
* * *
45051448 TATTAAAAATATAAAAATAAATTACTATTAAAGTATTAAAAATAAC-TT-TTTTATTAAATGAAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTATTTTATTAAATAAAA
45051511 CAATATAAAAACAGTTTGTAAAAATA
66 CAATATAAAAACAGTTTGTAAAAATA
* *
45051537 TATTAAAAGTATAAAAAATAAATTACTATTAAAATTTTAAAAACAACTTTTATTTTATTAAATAA
1 TATTAAAAATAT-AAAAATAAATTACTATTAAAATATTAAAAACAAC-TTTATTTTATTAAATAA
*
45051602 AATAATATAAAA
64 AACAATATAAAA
45051614 TTAGTTTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 11 0.16
90 31 0.46
92 2 0.03
93 23 0.34
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (91 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTATTTTATTAAATAAAA
CAATATAAAAACAGTTTGTAAAAATA
Found at i:45051637 original size:93 final size:89
Alignment explanation
Indices: 45051451--45051638 Score: 234
Period size: 93 Copynumber: 2.1 Consensus size: 89
45051441 AGTATTTTAT
* * *
45051451 TAAAAATATAAAAATAAATTACTATTAAAGTATTAAAAATAACTTTTTTATTAAATGAAACAATA
1 TAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTTTATTAAATAAAACAATA
* *
45051516 TAAAAACAGTTTGTAAAAATATAT
66 TAAAAACAGTTTGAAAAAATATAG
* * *
45051540 TAAAAGTATAAAAAATAAATTACTATTAAAATTTTAAAAACAACTTTTATTTTATTAAATAAAAT
1 TAAAAATAT-AAAAATAAATTACTATTAAAATATTAAAAACAAC--TT-TTTTATTAAATAAAAC
**
45051605 AATATAAAATTAGTTT-AAACAAATATAG
62 AATATAAAAACAGTTTGAAA-AAATATAG
45051633 TAAAAA
1 TAAAAA
45051639 AATCAATGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 8 0.10
90 31 0.37
92 4 0.05
93 40 0.48
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (89 bp):
TAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTTTATTAAATAAAACAATA
TAAAAACAGTTTGAAAAAATATAG
Found at i:45057148 original size:314 final size:314
Alignment explanation
Indices: 45056574--45057204 Score: 1154
Period size: 314 Copynumber: 2.0 Consensus size: 314
45056564 TGCCCGAGCA
* *
45056574 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCGGCTCTAAGAATGTGTTTCGTAACCAACC
1 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAGCTCTAAGAATGTGTTTCATAACCAACC
*
45056639 TATCTCAATTCGACCTCTGTAATTATTATCTAGAATCGCATCTAAAAGATCGTAACATATGGCTC
66 TATCTCAATTCGACCTCTGTAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
45056704 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
131 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
*
45056769 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTTGGGTCT
196 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
45056834 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
261 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
*
45056888 TATCGTATTCTTTGTACTTTAGTCGAATCATTCCCCAGCTCTAAGAATGTGTTTCATAACCAACC
1 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAGCTCTAAGAATGTGTTTCATAACCAACC
*
45056953 TATCTCGATTCGACCTCTGTAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
66 TATCTCAATTCGACCTCTGTAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
* * *
45057018 CCCAATCAGCAGATTGAATGGATGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
131 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
* * *
45057083 TGCATGTCTTCCAAAGTGATGGTACACTCTCCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
196 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
45057148 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
261 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
45057202 TAT
1 TAT
45057205 AGTTGCCACG
Statistics
Matches: 305, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
314 305 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (314 bp):
TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAGCTCTAAGAATGTGTTTCATAACCAACC
TATCTCAATTCGACCTCTGTAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
Found at i:45057583 original size:11 final size:11
Alignment explanation
Indices: 45057557--45057596 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
45057547 ATAGAGCTTT
45057557 GAGAAATTTAGA
1 GAGAAATTT-GA
45057569 GAGAAATTTGA
1 GAGAAATTTGA
*
45057580 GAGAAAATTGA
1 GAGAAATTTGA
45057591 -AGAAAT
1 GAGAAAT
45057597 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:45058778 original size:20 final size:20
Alignment explanation
Indices: 45058755--45058793 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45058745 ATAAATATGG
45058755 TAAAATATAAAAAATATATA
1 TAAAATATAAAAAATATATA
**
45058775 TAAAATATGTAAAATATAT
1 TAAAATATAAAAAATATAT
45058794 TTAATATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAATATAAAAAATATATA
Found at i:45059826 original size:17 final size:17
Alignment explanation
Indices: 45059804--45059837 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45059794 TCACTTTAAT
45059804 AATCGGTCTTCCAATAA
1 AATCGGTCTTCCAATAA
45059821 AATCGGTCTTCCAATAA
1 AATCGGTCTTCCAATAA
45059838 CGGAAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
AATCGGTCTTCCAATAA
Found at i:45063526 original size:49 final size:49
Alignment explanation
Indices: 45063429--45063584 Score: 278
Period size: 49 Copynumber: 3.2 Consensus size: 49
45063419 GTTTATATTA
45063429 ATGTAATAAAATACAAAATAGTTTA-TTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
45063477 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGAGATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
45063526 ATGTAATAAAATACTAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
45063575 ATGTAATAAA
1 ATGTAATAAA
45063585 GTATCTTGCT
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
48 25 0.24
49 78 0.76
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:45071286 original size:22 final size:24
Alignment explanation
Indices: 45071252--45071295 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
45071242 TTTTCTTTTT
45071252 AATTATACATTAA-TA-AAAATAA
1 AATTATACATTAACTACAAAATAA
**
45071274 AATTATATTTTAACTACAAAAT
1 AATTATACATTAACTACAAAAT
45071296 TATAAACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 2 0.11
24 5 0.28
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTATACATTAACTACAAAATAA
Found at i:45072602 original size:9 final size:9
Alignment explanation
Indices: 45072545--45072609 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
45072535 AGTTACTTAT
45072545 AAATTACTAA
1 AAATTA-TAA
*
45072555 AAATGATAA
1 AAATTATAA
45072564 GAAATTATAA
1 -AAATTATAA
* *
45072574 ATATT-TTA
1 AAATTATAA
45072582 AAATTAATTAA
1 AAATT-A-TAA
45072593 AAATTATAA
1 AAATTATAA
45072602 AAATTATA
1 AAATTATA
45072610 TTAAAGAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 6 0.13
9 18 0.40
10 14 0.31
11 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:45073881 original size:38 final size:38
Alignment explanation
Indices: 45073761--45073882 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
45073751 TATCATGTAA
* **
45073761 AATAGTAGACATGTTTAACATGTATTCAGTTCAACAGT
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
** * **
45073799 AGCATTAGACATGCTTAACATGTATTTGGTTCAACAAC
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
* *
45073837 AATAGTAAACATGCTTAACATGTATTTGGTTTAACAGT
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
*
45073875 ATTAGTAG
1 AATAGTAG
45073883 GCATATTGAA
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (38 bp):
AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
Found at i:45077031 original size:13 final size:13
Alignment explanation
Indices: 45077013--45077050 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
45077003 TCTAAACCAA
45077013 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
45077026 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
45077039 ACTTTTCAAAAG
1 ACTTTTCAAAAG
45077051 TAATGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:45078603 original size:23 final size:23
Alignment explanation
Indices: 45078577--45078624 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45078567 ATTTTAGCAC
*
45078577 ATCAAAGCATTAATATCTTCTCA
1 ATCAAAGCATTAATATCTTCCCA
*
45078600 ATCAAAGCATTAATGTCTTCCCA
1 ATCAAAGCATTAATATCTTCCCA
45078623 AT
1 AT
45078625 TTGTGACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (23 bp):
ATCAAAGCATTAATATCTTCCCA
Found at i:45086761 original size:121 final size:121
Alignment explanation
Indices: 45086547--45086794 Score: 478
Period size: 121 Copynumber: 2.0 Consensus size: 121
45086537 AGGGAGAGAG
45086547 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
1 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
*
45086612 AGAACCATGGCTTTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
66 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
45086668 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
1 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
*
45086733 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGGTGAGCTATTTTGC
66 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
45086789 TTGTTT
1 TTGTTT
45086795 CTGGTTAGAA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 125 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (121 bp):
TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
Found at i:45097911 original size:18 final size:18
Alignment explanation
Indices: 45097879--45097913 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45097869 AACGAATAAA
45097879 ATAACAAATTAAAAATAT
1 ATAACAAATTAAAAATAT
45097897 ATAA-AAATTATAAAATA
1 ATAACAAATTA-AAAATA
45097914 ATTTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAACAAATTAAAAATAT
Found at i:45104077 original size:15 final size:17
Alignment explanation
Indices: 45104050--45104084 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45104040 AATTTCAGTA
45104050 ATTATTGTTATTTC-TC
1 ATTATTGTTATTTCTTC
45104066 ATTATT-TTATTTCTTC
1 ATTATTGTTATTTCTTC
45104082 ATT
1 ATT
45104085 TATCTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTATTGTTATTTCTTC
Found at i:45122576 original size:13 final size:13
Alignment explanation
Indices: 45122558--45122587 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45122548 AGCCCAAACT
*
45122558 CAATTATCCAACC
1 CAATTACCCAACC
45122571 CAATTACCCAACC
1 CAATTACCCAACC
45122584 CAAT
1 CAAT
45122588 AAAACTAAAA
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:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:45122739 original size:9 final size:9
Alignment explanation
Indices: 45122727--45122794 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
45122717 AAAATAAAAA
45122727 AATTCGGGT
1 AATTCGGGT
45122736 AATTCGGGT
1 AATTCGGGT
*
45122745 ATTTTTC-GGT
1 A--ATTCGGGT
**
45122755 AATTCGCTT
1 AATTCGGGT
*
45122764 AATTCGGTT
1 AATTCGGGT
45122773 AATTCGGGT
1 AATTCGGGT
45122782 AATTCGGGT
1 AATTCGGGT
45122791 AATT
1 AATT
45122795 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:45140818 original size:25 final size:26
Alignment explanation
Indices: 45140786--45140840 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
45140776 TTATTAAATT
*
45140786 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
45140811 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
45140836 A-ATAT
1 ATATAT
45140841 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:45141027 original size:44 final size:45
Alignment explanation
Indices: 45140978--45141072 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
45140968 TTACACCTCT
* *
45140978 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
45141022 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
45141067 ATTACA
1 ATTACA
45141073 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:45141072 original size:16 final size:16
Alignment explanation
Indices: 45141053--45141104 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
45141043 GATTTGCTAT
* *
45141053 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
45141069 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45141085 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45141101 TACA
1 TACA
45141105 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45142974 original size:5 final size:5
Alignment explanation
Indices: 45142964--45142994 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
45142954 AAGAATTAAG
45142964 TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
45142995 GTGTTGATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:45143338 original size:40 final size:39
Alignment explanation
Indices: 45143221--45143349 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 39
45143211 TGAGACATTG
*
45143221 GGTGTCAAATTATTACTTCGAATATATTCGATGAGGCACT
1 GGTGTCAAATTATTACTTCGAAT-TATCCGATGAGGCACT
* ** * * *
45143261 AGGTG-CCAA-T-TTACTTCGGTTTAGCTGATGAGACACT
1 -GGTGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
*
45143298 GGATGTCAAATTATTACTTCGAATTATCCGATAAGGCACT
1 GG-TGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
*
45143338 GGGTGCCAAATT
1 -GGTGTCAAATT
45143350 GGTGTGTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
36 2 0.03
37 14 0.21
38 12 0.18
39 2 0.03
40 32 0.47
41 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
GGTGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
Found at i:45143994 original size:13 final size:13
Alignment explanation
Indices: 45143976--45144000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45143966 TTGAATGATA
45143976 TTTTGATGATATG
1 TTTTGATGATATG
45143989 TTTTGATGATAT
1 TTTTGATGATAT
45144001 AATTGTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
TTTTGATGATATG
Done.