Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 202 of 250
Found at i:62875722 original size:78 final size:78
Alignment explanation
Indices: 62875584--62875964 Score: 615
Period size: 78 Copynumber: 4.9 Consensus size: 78
62875574 AAAACATCCA
* *
62875584 AAGGTTAGATCTGATATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
62875648 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
62875661 AAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
62875725 GATCTGCTTCAATG
65 GATCTGCTTCAATG
* *
62875739 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
62875804 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * *
62875817 AAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
62875882 ATCTGCTTCAATG
66 ATCTGCTTCAATG
*
62875895 AAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
62875959 GATCTG
65 GATCTG
62875965 ATTCGATGTG
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
77 28 0.10
78 250 0.89
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:62884136 original size:18 final size:19
Alignment explanation
Indices: 62884103--62884138 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62884093 GATATGATAC
*
62884103 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
62884122 TAAAA-TATATAAAAAAA
1 TAAAATTATATAAAAAAA
62884139 ATCAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:62884427 original size:22 final size:21
Alignment explanation
Indices: 62884392--62884486 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
62884382 AAAAGGTATC
* *
62884392 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
62884413 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
62884436 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
62884455 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
62884474 TGC-AATCATATCT
1 TACAAATCATATCT
62884487 AAGATTGTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
18 6 0.09
19 30 0.46
20 1 0.02
21 3 0.05
22 15 0.23
23 10 0.15
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:62884435 original size:23 final size:22
Alignment explanation
Indices: 62884392--62884449 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
62884382 AAAAGGTATC
* *
62884392 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
62884413 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
62884436 TGCATATCATATCT
1 TACAAATCATATCT
62884450 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:62884452 original size:19 final size:19
Alignment explanation
Indices: 62884428--62884537 Score: 199
Period size: 19 Copynumber: 5.9 Consensus size: 19
62884418 AATCATATCT
62884428 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62884447 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62884466 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62884484 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
62884501 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62884520 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62884538 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
17 16 0.18
18 16 0.18
19 56 0.64
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62884509 original size:54 final size:56
Alignment explanation
Indices: 62884421--62884537 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 56
62884411 ATTACAAAAT
62884421 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTGCATATCATATCTAAGATTG
62884476 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
62884530 CATATCAT
1 CATATCAT
62884538 TGAAGATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
54 41 0.69
55 8 0.14
56 10 0.17
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (56 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:62886533 original size:26 final size:26
Alignment explanation
Indices: 62886504--62886566 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
62886494 ATTTAAATAT
*
62886504 TTTTAATAAAAA-TAAAAAATATTTTA
1 TTTTAA-AAAAACAAAAAAATATTTTA
62886530 TTTTAAAAAAACAAAAAAATATTTTA
1 TTTTAAAAAAACAAAAAAATATTTTA
* *
62886556 ATATAAAAAAA
1 TTTTAAAAAAA
62886567 AGAGTTGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTTAAAAAAACAAAAAAATATTTTA
Found at i:62888565 original size:26 final size:24
Alignment explanation
Indices: 62888507--62888566 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
62888497 AGCATGATTT
*
62888507 TTGGAGATAATTTATTCAAAATAC
1 TTGGAGATAATTTATTCAAAAGAC
**
62888531 TTAAAGATAATTTATTCGAAAACGAC
1 TTGGAGATAATTTATTC-AAAA-GAC
62888557 TTGGAGATAA
1 TTGGAGATAA
62888567 AACTTCAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 15 0.52
25 4 0.14
26 10 0.34
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (24 bp):
TTGGAGATAATTTATTCAAAAGAC
Found at i:62889355 original size:11 final size:10
Alignment explanation
Indices: 62889339--62889381 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
62889329 CATATTTACA
62889339 TTTTATGTTAT
1 TTTTA-GTTAT
* *
62889350 TTTTATTTGT
1 TTTTAGTTAT
62889360 TTTTAGTTAAT
1 TTTTAGTT-AT
62889371 TTTTAGTTAT
1 TTTTAGTTAT
62889381 T
1 T
62889382 CTGAGTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (10 bp):
TTTTAGTTAT
Found at i:62891514 original size:46 final size:46
Alignment explanation
Indices: 62891432--62891523 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
62891422 AGTGATATGA
* *
62891432 ACAAAATATGTTTAACTAAATATAGTAGAAAGTGTAAGAATAGTTG
1 ACAAAATATGTTTAACTAAAGATAGTACAAAGTGTAAGAATAGTTG
* * *
62891478 ACAAAATGTGTTTAACTCAAGATATTACACAA-TGTAAGAATAGTTG
1 ACAAAATATGTTTAACTAAAGATAGTACA-AAGTGTAAGAATAGTTG
62891524 GCATATCTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 38 0.95
47 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (46 bp):
ACAAAATATGTTTAACTAAAGATAGTACAAAGTGTAAGAATAGTTG
Found at i:62912738 original size:15 final size:15
Alignment explanation
Indices: 62912718--62912753 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
62912708 TCTTCGATCT
62912718 ACGATGACGATGATG
1 ACGATGACGATGATG
62912733 ACGATGACGATGATG
1 ACGATGACGATGATG
*
62912748 ATGATG
1 ACGATG
62912754 TTGAGAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (15 bp):
ACGATGACGATGATG
Found at i:62924789 original size:60 final size:60
Alignment explanation
Indices: 62924716--62924836 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
62924706 CGATATGCGC
62924716 GTTCAATTTAATGTTTTAAGTTTGTTTGTATATTGCTTGTGAAAAGACAATTTCACCCCT
1 GTTCAATTTAATGTTTTAAGTTTGTTTGTATATTGCTTGTGAAAAGACAATTTCACCCCT
*
62924776 GTTCAATTTAATGTTTTAAGTTTGTTTGTATTTTGCTTGTGAAAAGACAATTTCACCCCT
1 GTTCAATTTAATGTTTTAAGTTTGTTTGTATATTGCTTGTGAAAAGACAATTTCACCCCT
62924836 G
1 G
62924837 ATGTTGTGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (60 bp):
GTTCAATTTAATGTTTTAAGTTTGTTTGTATATTGCTTGTGAAAAGACAATTTCACCCCT
Found at i:62929041 original size:16 final size:17
Alignment explanation
Indices: 62929010--62929042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62929000 TTTAAACTCG
62929010 AAAAAGTTGAAGTTCAA
1 AAAAAGTTGAAGTTCAA
*
62929027 AAAAATTTGAA-TTCAA
1 AAAAAGTTGAAGTTCAA
62929043 GACAACTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAAAGTTGAAGTTCAA
Found at i:62931768 original size:26 final size:27
Alignment explanation
Indices: 62931739--62931814 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
62931729 TCAATTTAAC
*
62931739 CCTAGGGGTATTTTAGTAATTTTGC-A
1 CCTAGGGGTATTATAGTAATTTTGCAA
* * *
62931765 CCTAGGGGTATAACAGTAATTTTTCATA
1 CCTAGGGGTATTATAGTAATTTTGCA-A
*
62931793 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTATAGTAATTT
62931815 AGCTATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
CCTAGGGGTATTATAGTAATTTTGCAA
Found at i:62933297 original size:26 final size:26
Alignment explanation
Indices: 62933261--62933318 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
62933251 CATGAAATTC
62933261 TTATCATGGAACATTTACCTAAACCA
1 TTATCATGGAACATTTACCTAAACCA
*
62933287 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAAACCA
62933313 TTATCA
1 TTATCA
62933319 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAAACCA
Found at i:62935590 original size:17 final size:17
Alignment explanation
Indices: 62935568--62935625 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
62935558 CAAATATTAA
*
62935568 ATTATTTATATAATTTT
1 ATTATTTATATATTTTT
62935585 ATTATTTATTATATTTTT
1 ATTATTTA-TATATTTTT
** *
62935603 AAAATTTGTAT-TTTTT
1 ATTATTTATATATTTTT
62935619 ATTATTT
1 ATTATTT
62935626 TTAATGGTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.29
17 11 0.32
18 13 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTATTTATATATTTTT
Found at i:62935621 original size:27 final size:26
Alignment explanation
Indices: 62935570--62935627 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
62935560 AATATTAAAT
* *
62935570 TATTTATATAATTTTATTATTTATTA
1 TATTTTTAAAATTTTATTATTTATTA
*
62935596 TATTTTTAAAATTTGTATTTTTTATTA
1 TATTTTTAAAATTT-TATTATTTATTA
62935623 T-TTTT
1 TATTTT
62935628 AATGGTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTTTTAAAATTTTATTATTTATTA
Found at i:62935626 original size:24 final size:23
Alignment explanation
Indices: 62935568--62935626 Score: 55
Period size: 27 Copynumber: 2.3 Consensus size: 23
62935558 CAAATATTAA
*
62935568 ATTATTTATATAATTTTATTATTT
1 ATTATTT-TAAAATTTTATTATTT
*
62935592 ATTATATTTTTAAAATTTGTATTTTTT
1 A-T-TA-TTTTAAAATTT-TATTATTT
62935619 ATTATTTT
1 ATTATTTT
62935627 TAATGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 10 0.34
27 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTATTTTAAAATTTTATTATTT
Found at i:62936099 original size:19 final size:18
Alignment explanation
Indices: 62936051--62936109 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
62936041 CTCAACAAAA
*
62936051 TTTAC-ATTTTATAAATT
1 TTTACAATTTTTTAAATT
* *
62936068 TTTACAAATTTTTAATTT
1 TTTACAATTTTTTAAATT
62936086 TTTAACAATTTTTTTAAAATT
1 TTT-ACAA-TTTTTT-AAATT
62936107 TTT
1 TTT
62936110 TAAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 12 0.36
19 4 0.12
20 5 0.15
21 7 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTACAATTTTTTAAATT
Found at i:62936108 original size:10 final size:10
Alignment explanation
Indices: 62936057--62936113 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
62936047 AAAATTTACA
62936057 TTTTATAAA-T
1 TTTTA-AAATT
62936067 TTTTACAAA-T
1 TTTTA-AAATT
62936077 TTTT--AATT
1 TTTTAAAATT
62936085 TTTTAACAATTT
1 TTTTAA-AA-TT
62936097 TTTTAAAATT
1 TTTTAAAATT
62936107 TTTTAAA
1 TTTTAAA
62936114 TAAAATTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
10 22 0.54
11 4 0.10
12 8 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:62936143 original size:21 final size:21
Alignment explanation
Indices: 62936096--62936144 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62936086 TTTAACAATT
*
62936096 TTTTTAAAATTTTTTAAATAA
1 TTTTTAAAATTTATTAAATAA
** *
62936117 AATTTAAAATTTATTAACTAA
1 TTTTTAAAATTTATTAAATAA
62936138 TTTTTAA
1 TTTTTAA
62936145 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTAAAATTTATTAAATAA
Found at i:62936276 original size:20 final size:20
Alignment explanation
Indices: 62936239--62936318 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
62936229 GACAATCAAC
* *
62936239 TTGATCAACGTGCTATGTCA
1 TTGATCAACCTGCCATGTCA
*
62936259 TTGATGAACCTGCCATGTCA
1 TTGATCAACCTGCCATGTCA
* * ** *
62936279 -CGGTCAATGTGTCATGTCA
1 TTGATCAACCTGCCATGTCA
* **
62936298 TTGGTCAACCTATCATGTCA
1 TTGATCAACCTGCCATGTCA
62936318 T
1 T
62936319 CAATCACATG
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (20 bp):
TTGATCAACCTGCCATGTCA
Found at i:62940971 original size:20 final size:20
Alignment explanation
Indices: 62940932--62940969 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
62940922 GTCATGTTTG
62940932 GGTTTTCTTTTGGTTCTTTT
1 GGTTTTCTTTTGGTTCTTTT
62940952 GGTTTTC-TTTGGTT-TTTT
1 GGTTTTCTTTTGGTTCTTTT
62940970 TTTTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.00, C:0.08, G:0.21, T:0.71
Consensus pattern (20 bp):
GGTTTTCTTTTGGTTCTTTT
Found at i:62946594 original size:18 final size:18
Alignment explanation
Indices: 62946570--62946605 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
62946560 ATATCATCCA
*
62946570 AAAAAAAAAGAAAAAATAC
1 AAAAAAAAA-TAAAAATAC
62946589 AAAAAAAAATAAAAATA
1 AAAAAAAAATAAAAATA
62946606 AGTTACACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (18 bp):
AAAAAAAAATAAAAATAC
Found at i:62947046 original size:30 final size:30
Alignment explanation
Indices: 62947012--62947068 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62947002 GTATATTATT
*
62947012 AATATTTTGATA-AATTAAATATAAATTTTA
1 AATATTTTGAAATAATT-AATATAAATTTTA
62947042 AATATTTTGAAATAATTAATATAAATT
1 AATATTTTGAAATAATTAATATAAATT
62947069 ATTTGTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
AATATTTTGAAATAATTAATATAAATTTTA
Found at i:62948403 original size:16 final size:16
Alignment explanation
Indices: 62948382--62948413 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62948372 ACGTTTGTTC
62948382 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
62948398 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
62948414 ATTGTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:62948419 original size:16 final size:16
Alignment explanation
Indices: 62948383--62948421 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62948373 CGTTTGTTCG
*
62948383 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAA
62948399 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
*
62948415 TTGTAAT
1 CTGTAAT
62948422 CAGTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:62950807 original size:53 final size:53
Alignment explanation
Indices: 62950735--62950849 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 53
62950725 AAAAAAGAAA
* * * * * *
62950735 GAAAGAAAAAGGTTGCAACTCTGCAA-CTAAAGGGTTTTGTTGGCTTAAAGGGT
1 GAAAAAAAAAAGTTACAACTCTACAATC-AAAGGATCTTGTTGGCTTAAAGGGT
*
62950788 GAAAAAAAAAAGTTACAACTCTACAATCAAATGATCTTGTTGGCTTAAAGGGT
1 GAAAAAAAAAAGTTACAACTCTACAATCAAAGGATCTTGTTGGCTTAAAGGGT
*
62950841 GAAGAAAAA
1 GAAAAAAAA
62950850 TGTAACACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 52 0.98
54 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (53 bp):
GAAAAAAAAAAGTTACAACTCTACAATCAAAGGATCTTGTTGGCTTAAAGGGT
Found at i:62954898 original size:6 final size:6
Alignment explanation
Indices: 62954855--62954920 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
62954845 AGAAACAACC
* * * * *
62954855 ATAAAA ATAGAAA GAGAAAA ACAACA AGAAAG ATAAAA ATAAAA AT-AAA
1 ATAAAA ATA-AAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
62954904 ATAAAA ATAAAG ATAAA
1 ATAAAA ATAAAA ATAAA
62954921 TAGACTCAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 5 0.10
6 35 0.73
7 6 0.12
8 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (6 bp):
ATAAAA
Found at i:62954906 original size:11 final size:11
Alignment explanation
Indices: 62954890--62954920 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
62954880 AAGAAAGATA
62954890 AAAATAAAAAT
1 AAAATAAAAAT
62954901 AAAATAAAAAT
1 AAAATAAAAAT
62954912 AAAGATAAA
1 AAA-ATAAA
62954921 TAGACTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:62954907 original size:17 final size:17
Alignment explanation
Indices: 62954887--62954920 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62954877 AACAAGAAAG
62954887 ATAAAAATAAAAATAAA
1 ATAAAAATAAAAATAAA
*
62954904 ATAAAAATAAAGATAAA
1 ATAAAAATAAAAATAAA
62954921 TAGACTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAAAATAAAAATAAA
Found at i:62955691 original size:40 final size:39
Alignment explanation
Indices: 62955606--62955715 Score: 84
Period size: 40 Copynumber: 2.8 Consensus size: 39
62955596 CCTTTGGTGG
* *
62955606 CTTTACCGGCGCTTTCTAAAAACGCCGCTA-AAG-ATCGA-
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAAGTA-C-AC
* * *
62955644 GTATTAGCGGCACTTTTCTAAAAACGCCGCTATATGTACAC
1 CT-TTAGCGGCGCTTTT-TAAAAACGCCGCTATAAGTACAC
*
62955685 CTTTAGCGGCG-TTTTCTAAAAAGCGTCGCTA
1 CTTTAGCGGCGCTTTT-TAAAAA-CGCCGCTA
62955716 AAGAATTTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.02
39 22 0.38
40 30 0.52
41 4 0.07
42 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAAGTACAC
Found at i:62955784 original size:133 final size:130
Alignment explanation
Indices: 62955602--62955849 Score: 315
Period size: 133 Copynumber: 1.9 Consensus size: 130
62955592 TGAGCCTTTG
* *
62955602 GTGGCTTTACCGGCGCTTTCTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCACTTTTCT-AAA
1 GTGGCTTTACCGGCGCTTTCTAAAAACGCCGCTAAAGATC-ACTATTAGCGACACTTTT-TAAAA
* * *
62955666 AACGCCGCTATATGTACACCTTTAGCGGCG-TTTTCTAAAAAGCGTCGCTAAAGAATTTTGTAAT
64 AACGCCGCTATAAGTACACCTTTAGCGGCGCTTTT-TAAAAAACGCCGCTAAAGAATTTTGTAAT
62955730 TTA
128 TTA
* * *
62955733 GTGGCTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTAT-ACCT-TTAGCGACGCTTTTTA
1 GTGGCTTTACCGGCGC-TTTCTAA-AAACGCCGCTA-AAG-ATCA-CTATTAGCGACACTTTTTA
*
62955796 AAAAATGCCGCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCTAA
61 AAAAACGCCGCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCTAA
62955850 TGCTCGATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
131 15 0.15
132 7 0.07
133 69 0.68
134 8 0.08
135 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (130 bp):
GTGGCTTTACCGGCGCTTTCTAAAAACGCCGCTAAAGATCACTATTAGCGACACTTTTTAAAAAA
CGCCGCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGAATTTTGTAATTTA
Found at i:62955806 original size:40 final size:40
Alignment explanation
Indices: 62955737--62955848 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 40
62955727 AATTTAGTGG
* *
62955737 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTATAC
1 CTTTAGCGGCGC-TTTTTAAAAAACGCCGCTATAAGTACAC
* *
62955778 CTTTAGCGACGCTTTTTAAAAAATGCCGCTATAAGTACAC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATAAGTACAC
62955818 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTA
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTA
62955849 ATGCTCGATT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
40 54 0.83
41 11 0.17
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATAAGTACAC
Found at i:62955863 original size:40 final size:39
Alignment explanation
Indices: 62955737--62955884 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
62955727 AATTTAGTGG
* *
62955737 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTATAC
1 CTTTAGCGGCGC-TTTTTAAAAAACGCCGCTATAAGT-CAC
* *
62955778 CTTTAGCGACGCTTTTTAAAAAATGCCGCTATAAGTACAC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATAAGT-CAC
* *
62955818 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTA-ATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATAAG-TC-AC
* * *
62955858 TTTTAGCGGCGTTTTTTGAAAAACGCC
1 CTTTAGCGGCGCTTTTTAAAAAACGCC
62955885 ACAAAAATAG
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 80 0.85
41 11 0.12
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATAAGTCAC
Found at i:62956156 original size:35 final size:35
Alignment explanation
Indices: 62956114--62956202 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
62956104 TGTATTATGG
* *
62956114 GGTTAGGGATTATGGTTTATGGT-TTATGGGTTAAA
1 GGTTAGGGATTAAGGTTTAGGGTATTA-GGGTTAAA
* * *
62956149 GGTTAGGGTTTAAGTTTTAGGGTATTAGGGTTTAA
1 GGTTAGGGATTAAGGTTTAGGGTATTAGGGTTAAA
*
62956184 GGTTTAGGGGTTAAAGGTT
1 GG-TTAGGGATT-AAGGTT
62956203 AAAGGTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 28 0.64
36 11 0.25
37 5 0.11
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (35 bp):
GGTTAGGGATTAAGGTTTAGGGTATTAGGGTTAAA
Found at i:62956178 original size:22 final size:22
Alignment explanation
Indices: 62956151--62956192 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
62956141 GGGTTAAAGG
*
62956151 TTAGGGTTTAAGTTTTAGGGTA
1 TTAGGGTTTAAGGTTTAGGGTA
62956173 TTAGGGTTTAAGGTTTAGGG
1 TTAGGGTTTAAGGTTTAGGG
62956193 GTTAAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (22 bp):
TTAGGGTTTAAGGTTTAGGGTA
Found at i:62956192 original size:14 final size:14
Alignment explanation
Indices: 62956127--62956189 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
62956117 TAGGGATTAT
*
62956127 GGTTTATGGTTTATG
1 GGTTTAAGGTTTA-G
*
62956142 GGTTAAAGG-TTAG
1 GGTTTAAGGTTTAG
*
62956155 GGTTTAAGTTTTAG
1 GGTTTAAGGTTTAG
* *
62956169 GGTATTAGGGTTTAA
1 GGT-TTAAGGTTTAG
62956184 GGTTTA
1 GGTTTA
62956190 GGGGTTAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 8 0.21
14 13 0.33
15 18 0.46
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:62956195 original size:8 final size:7
Alignment explanation
Indices: 62956116--62956192 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
62956106 TATTATGGGG
*
62956116 TTAGGGA
1 TTAGGGT
*
62956123 TTATGGT
1 TTAGGGT
*
62956130 TTATGGT
1 TTAGGGT
62956137 TTATGGGT
1 TTA-GGGT
* *
62956145 TAAAGG-
1 TTAGGGT
62956151 TTAGGGT
1 TTAGGGT
* *
62956158 TTAAGTT
1 TTAGGGT
62956165 TTAGGGT
1 TTAGGGT
62956172 ATTAGGGT
1 -TTAGGGT
*
62956180 TTAAGGT
1 TTAGGGT
62956187 TTAGGG
1 TTAGGG
62956193 GTTAAAGGTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.07
7 38 0.70
8 12 0.22
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:62956202 original size:22 final size:22
Alignment explanation
Indices: 62956155--62956211 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
62956145 TAAAGGTTAG
* * *
62956155 GGTTTAAGTTTTAGGGTATTAG
1 GGTTTAAGGTTTAGGGTATAAA
62956177 GGTTTAAGGTTTAGGGGT-TAAA
1 GGTTTAAGGTTTA-GGGTATAAA
*
62956199 GGTTAAAGGTTTA
1 GGTTTAAGGTTTA
62956212 TGTTTTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (22 bp):
GGTTTAAGGTTTAGGGTATAAA
Found at i:62957430 original size:43 final size:43
Alignment explanation
Indices: 62957396--62957534 Score: 197
Period size: 43 Copynumber: 3.2 Consensus size: 43
62957386 AGGTCATATT
* * *
62957396 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* * *
62957439 TCTAGCGGCATTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* * *
62957482 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCTTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
62957525 TTTAGCGGCG
1 TTTAGCGGCG
62957535 GTGTATATAG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
Found at i:62968577 original size:23 final size:23
Alignment explanation
Indices: 62968544--62968611 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
62968534 TGAACTGATG
62968544 AACAGTAAGCTCTATCGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
62968567 AATAGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
*
62968589 AACAGTAAGCTCTTTCGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
62968612 TATATATGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.49
23 21 0.51
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:62968598 original size:22 final size:22
Alignment explanation
Indices: 62968542--62968611 Score: 113
Period size: 22 Copynumber: 3.1 Consensus size: 22
62968532 CCTGAACTGA
62968542 TGAACAGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATCGAGC
*
62968564 TGAAATAGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
*
62968587 TGAACAGTAAGCTCTTTCGAGC
1 TGAACAGTAAGCTCTATCGAGC
62968609 TGA
1 TGA
62968612 TATATATGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 23 0.52
23 21 0.48
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:62970551 original size:169 final size:169
Alignment explanation
Indices: 62970272--62970602 Score: 662
Period size: 169 Copynumber: 2.0 Consensus size: 169
62970262 TGTTTCCAAG
62970272 CTCGAACCTTGGCTTGCTTAGAGTATGAGCTCTAATTCACGAACCAATGAATACTATGAAAACTT
1 CTCGAACCTTGGCTTGCTTAGAGTATGAGCTCTAATTCACGAACCAATGAATACTATGAAAACTT
62970337 TCTATCAATACTTAGTGAGAATATCAATATCTCTGAAGGGCTAGAAACTGAAAACGAACTCCCTT
66 TCTATCAATACTTAGTGAGAATATCAATATCTCTGAAGGGCTAGAAACTGAAAACGAACTCCCTT
62970402 AAAATTAGAATTTATTTGGAAAAATAAATCTCTTGTATT
131 AAAATTAGAATTTATTTGGAAAAATAAATCTCTTGTATT
62970441 CTCGAACCTTGGCTTGCTTAGAGTATGAGCTCTAATTCACGAACCAATGAATACTATGAAAACTT
1 CTCGAACCTTGGCTTGCTTAGAGTATGAGCTCTAATTCACGAACCAATGAATACTATGAAAACTT
62970506 TCTATCAATACTTAGTGAGAATATCAATATCTCTGAAGGGCTAGAAACTGAAAACGAACTCCCTT
66 TCTATCAATACTTAGTGAGAATATCAATATCTCTGAAGGGCTAGAAACTGAAAACGAACTCCCTT
62970571 AAAATTAGAATTTATTTGGAAAAATAAATCTC
131 AAAATTAGAATTTATTTGGAAAAATAAATCTC
62970603 AGTAAATTTT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 162 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (169 bp):
CTCGAACCTTGGCTTGCTTAGAGTATGAGCTCTAATTCACGAACCAATGAATACTATGAAAACTT
TCTATCAATACTTAGTGAGAATATCAATATCTCTGAAGGGCTAGAAACTGAAAACGAACTCCCTT
AAAATTAGAATTTATTTGGAAAAATAAATCTCTTGTATT
Found at i:62970952 original size:19 final size:20
Alignment explanation
Indices: 62970919--62970960 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
62970909 TTTTTTATTC
* *
62970919 ATTAAAATATTATTTATTTA
1 ATTAAAATATAATTTAATTA
62970939 ATTAAAAT-TAATTTAATTA
1 ATTAAAATATAATTTAATTA
62970958 ATT
1 ATT
62970961 TTCTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAAATATAATTTAATTA
Found at i:62970978 original size:17 final size:17
Alignment explanation
Indices: 62970946--62970993 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
62970936 TTAATTAAAA
62970946 TTAATTTAATTAATTTTC
1 TTAATTTAATT-ATTTTC
*
62970964 TTAATTAAATTATTTTC
1 TTAATTTAATTATTTTC
*
62970981 TCAATTTAATTAT
1 TTAATTTAATTAT
62970994 AATTTCGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTTAATTATTTTC
Found at i:62974157 original size:3 final size:3
Alignment explanation
Indices: 62974149--62974195 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
62974139 AAGGCCTGGG
62974149 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
62974196 ATGCTTTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:62977887 original size:22 final size:22
Alignment explanation
Indices: 62977859--62977905 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
62977849 TGCAATAGAA
62977859 TTGATATCCATTATTTCTTGAT
1 TTGATATCCATTATTTCTTGAT
*
62977881 TTGATATCCATTATTTCTTTAT
1 TTGATATCCATTATTTCTTGAT
62977903 TTG
1 TTG
62977906 CTTTTTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (22 bp):
TTGATATCCATTATTTCTTGAT
Found at i:62985458 original size:40 final size:39
Alignment explanation
Indices: 62985370--62985448 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
62985360 ATTTGATGTG
*
62985370 TATCTG-GGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCTGAGTTTAAATCCCGCAGGCCTAGTGCTGGTATTA
* * * *
62985408 TATCTGAGTTTAAAGTCCCGTAGGCTTTGTGCTGGTGTTA
1 TATCTGAGTTTAAA-TCCCGCAGGCCTAGTGCTGGTATTA
62985448 T
1 T
62985449 GTTCGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 6 0.18
39 6 0.18
40 22 0.65
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (39 bp):
TATCTGAGTTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:62988033 original size:64 final size:64
Alignment explanation
Indices: 62987960--62988170 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
62987950 CTGGGCCAGA
*
62987960 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
62988024 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
62988086 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
62988097 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
62988161 GCCCATTTCA
1 GCCCATTTCA
62988171 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:62988172 original size:137 final size:137
Alignment explanation
Indices: 62987926--62988212 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
62987916 TATTGGGCCT
**
62987926 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
62987991 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
62988056 CATATGC
131 CATATGC
62988063 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
62988128 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
62988193 CATATGC
131 CATATGC
62988200 AAGCCCATTTGGG
1 AAGCCCATTTGGG
62988213 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:62990034 original size:26 final size:26
Alignment explanation
Indices: 62989998--62990107 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
62989988 CATGAAATTC
62989998 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
62990024 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62990050 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
62990076 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62990102 TTATCA
1 TTATCA
62990108 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62991930 original size:10 final size:10
Alignment explanation
Indices: 62991917--62991950 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
62991907 TTGTTTTCAT
*
62991917 TTATCTTTTA
1 TTATCTTTAA
62991927 TTATCTTTAA
1 TTATCTTTAA
*
62991937 TTATCTTTAT
1 TTATCTTTAA
62991947 TTAT
1 TTAT
62991951 TTGTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:62996126 original size:23 final size:25
Alignment explanation
Indices: 62996100--62996146 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62996090 TATCATTCAT
*
62996100 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
62996123 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
62996147 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:62996467 original size:46 final size:47
Alignment explanation
Indices: 62996407--62996658 Score: 269
Period size: 46 Copynumber: 5.6 Consensus size: 47
62996397 TTTGACGTGA
* * * * *
62996407 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
62996453 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * *
62996499 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
62996545 TGCCATGGTATCTTTCAACCATGGTCTTA--CA----CA--T-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * * *
62996583 TGCTATGATATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
62996629 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
62996659 ACACAGGTTG
Statistics
Matches: 181, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 31 0.17
39 1 0.01
40 2 0.01
41 2 0.01
43 2 0.01
44 2 0.01
45 6 0.03
46 135 0.75
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:62996595 original size:38 final size:38
Alignment explanation
Indices: 62996541--62996700 Score: 221
Period size: 38 Copynumber: 4.0 Consensus size: 38
62996531 ATCTCATATC
62996541 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
* *
62996579 AGGTTGCTATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT
*
62996624 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
62996663 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
62996701 TTCATATCAG
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
38 67 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 2 0.02
46 30 0.28
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:62996638 original size:84 final size:84
Alignment explanation
Indices: 62996497--62996710 Score: 392
Period size: 84 Copynumber: 2.5 Consensus size: 84
62996487 TTCATGTCAC
*
62996497 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
*
62996562 ACCATGGTCTTACACATAG
66 ACCATGGTCTTACACACAG
* *
62996581 GTTGCTATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
62996646 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
62996665 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
62996711 AGAGCACACT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 124 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:63002432 original size:18 final size:19
Alignment explanation
Indices: 63002396--63002450 Score: 103
Period size: 18 Copynumber: 2.9 Consensus size: 19
63002386 AAATTAAATC
63002396 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
63002415 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
63002433 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
63002451 TGAAGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:63004036 original size:32 final size:32
Alignment explanation
Indices: 63004000--63004063 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
63003990 AGTGAAAAAA
63004000 ATACTTTTCACTCATACACAAGAGTTGAGATT
1 ATACTTTTCACTCATACACAAGAGTTGAGATT
63004032 ATACTTTTCACTCATACACAAGAGTTGAGATT
1 ATACTTTTCACTCATACACAAGAGTTGAGATT
63004064 TAGATGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
ATACTTTTCACTCATACACAAGAGTTGAGATT
Found at i:63006904 original size:17 final size:18
Alignment explanation
Indices: 63006868--63006913 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
63006858 TATTGTTTGG
63006868 ATATTGTATAACTCTTGTT
1 ATATTGT-TAACTCTTGTT
*
63006887 ATATTGTTAA-TTTTGTT
1 ATATTGTTAACTCTTGTT
63006904 ACTATT-TTAA
1 A-TATTGTTAA
63006914 AGGCATCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
18 7 0.28
19 7 0.28
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (18 bp):
ATATTGTTAACTCTTGTT
Found at i:63011191 original size:32 final size:32
Alignment explanation
Indices: 63011150--63011214 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
63011140 GGACTGCCCC
63011150 AGCTGGCACAATTGAGGACAATAATAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
*
63011182 AGCTGGCACAATTGAGGACAATATTAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
63011214 A
1 A
63011215 CTTCGAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.20
Consensus pattern (32 bp):
AGCTGGCACAATTGAGGACAATAATAAAACTA
Found at i:63023713 original size:30 final size:30
Alignment explanation
Indices: 63023677--63023739 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
63023667 TCAAAATATA
63023677 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
63023707 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
63023737 AGA
1 AGA
63023740 ATGTTTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (30 bp):
AGATAGTCAGCATAAAAGAAACTAAAAAGT
Found at i:63031466 original size:24 final size:23
Alignment explanation
Indices: 63031397--63031466 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
63031387 ATAATGTTAA
*
63031397 AATTA-AATTATAACTATTTTTA-
1 AATTATAATTAT-ACAATTTTTAT
* *
63031419 ACTAATAATTATA-AATTATATTAT
1 AATTATAATTATACAATT-T-TTAT
63031443 AATTATAATTATCACAATTTTTAT
1 AATTATAATTAT-ACAATTTTTAT
63031467 TATATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.08
22 5 0.14
23 9 0.24
24 14 0.38
25 2 0.05
26 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATAATTATACAATTTTTAT
Found at i:63035952 original size:25 final size:28
Alignment explanation
Indices: 63035902--63035953 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
63035892 CAATATTTTT
*
63035902 GCATGAAAATTGATATGATAGGAAAATC
1 GCATGAAAATTGATATGATAGAAAAATC
63035930 GCATGAAAA-T-AT-TGATAGAAAAAT
1 GCATGAAAATTGATATGATAGAAAAAT
63035954 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
GCATGAAAATTGATATGATAGAAAAATC
Found at i:63051801 original size:30 final size:30
Alignment explanation
Indices: 63051765--63051821 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
63051755 CACAGACTGG
*
63051765 CACATGGGCGTATGGCCAGCTCGTGTGACT
1 CACATGGGCGTATGGCCAGCCCGTGTGACT
*
63051795 CACATGGGCGTGTGGCCAGCCCGTGTG
1 CACATGGGCGTATGGCCAGCCCGTGTG
63051822 GAAATGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (30 bp):
CACATGGGCGTATGGCCAGCCCGTGTGACT
Found at i:63053664 original size:6 final size:6
Alignment explanation
Indices: 63053653--63053691 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
63053643 AATAGACATA
63053653 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-T AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
63053692 GATAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:63053702 original size:6 final size:6
Alignment explanation
Indices: 63053650--63053722 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
63053640 CAAAATAGAC
* * * * *
63053650 ATAAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATAAAA GATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA
*
63053699 ATAAAAAA ATAAAC ATAAAA ATAA
1 AT--AAAA ATAAAA ATAAAA ATAA
63053723 TCAGACTCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
6 48 0.80
7 6 0.10
8 6 0.10
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:63053716 original size:20 final size:21
Alignment explanation
Indices: 63053683--63053722 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
63053673 AATTAAAATT
*
63053683 AAAATAAAAGATAAAAATAAA
1 AAAATAAAACATAAAAATAAA
63053704 AAAAT-AAACATAAAAATAA
1 AAAATAAAACATAAAAATAA
63053723 TCAGACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAACATAAAAATAAA
Found at i:63055405 original size:28 final size:28
Alignment explanation
Indices: 63055357--63055411 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
63055347 ATGGAAAGAC
* * *
63055357 AATAATAATGATATATAAAGAATAAATA
1 AATAATAAAGATACATAAAGAAAAAATA
63055385 AATAATAAAGA-ACATAGAAGAAAAAAT
1 AATAATAAAGATACATA-AAGAAAAAAT
63055412 CGACTGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (28 bp):
AATAATAAAGATACATAAAGAAAAAATA
Found at i:63055804 original size:29 final size:29
Alignment explanation
Indices: 63055746--63055809 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
63055736 TTAAATGGGG
* * * *
63055746 ACACGATTGTGTGAGCCTCGTGTTGAGCC
1 ACACGATAGTGTGAGCCTCCTATGGAGCC
* *
63055775 ATACGATAGTGTGAGCCTCCTATGGGGCC
1 ACACGATAGTGTGAGCCTCCTATGGAGCC
63055804 ACACGA
1 ACACGA
63055810 CCGTGTGGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (29 bp):
ACACGATAGTGTGAGCCTCCTATGGAGCC
Found at i:63069134 original size:19 final size:16
Alignment explanation
Indices: 63069104--63069153 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
63069094 TAGTAATTGA
*
63069104 TTATTTTTTTAAAATT
1 TTATATTTTTAAAATT
63069120 TTAATATAGTTTTAATAATT
1 TT-ATAT--TTTTAA-AATT
63069140 TTATATTTTTAAAA
1 TTATATTTTTAAAA
63069154 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
19 10 0.34
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTTTTAAAATT
Found at i:63073434 original size:10 final size:10
Alignment explanation
Indices: 63073419--63073443 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63073409 CACTGATGAT
63073419 GAACAATAAA
1 GAACAATAAA
63073429 GAACAATAAA
1 GAACAATAAA
63073439 GAACA
1 GAACA
63073444 CAACAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACAATAAA
Found at i:63075012 original size:985 final size:984
Alignment explanation
Indices: 63072720--63075847 Score: 4116
Period size: 985 Copynumber: 3.2 Consensus size: 984
63072710 ACACTTGTGC
63072720 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* ** *
63072785 CTTCCAAC-AAAACAACAAGATAATAAGCTAAAACAATAATGAATTCGGATTCTTTTTAATTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * *
63072849 AAATTTTATGTACTTTTAATTATAAAAATCATTCAAAAAATAATTTTAATA-TTTTT-AAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
63072912 AATTATATTTAATATATCTATATAACAATAATAACAATTGATTAGTGCAATACATAAACAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * ** *
63072977 ACAAGTACGATTGATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTCATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* * * *
63073042 TAGACATATTAATAATCAACGTATATACATATATGGAACGCACGTGTTAAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATATA-GT-T-T---A-GAAC-TGTTAAGA--TAAAT--AAAA
* * *
63073107 AAAACTACGTATTGGAAACGCACAAATGATATTTATGCATGGTGGGAGTCAACCTGGTATCACAA
379 AAAACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAA
* *
63073172 AATTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAACATTAAAATAAACAT
444 AGTTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACAT
*
63073237 CAAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTT-TTTTAATACAA
509 CAAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAA
* * * *
63073301 ACGTTGAATAATTCTATTAGTAAAATATAAGTTAAATATTATGTATTATATTTTGAAAGTTCTAA
574 TCGTTGAATAATTCTACTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCT-A
* *
63073366 AATGATATTTGCAAGCAAATTGAATAAG-ACCAACTATTTTCGACACTGATGATGAACAATAAAG
638 AATGATACTTGCAAGCAAATTGAGT-AGTACCAACTATTTTCGACACT-A--ATG-------AAG
* * **
63073430 AACAATAAAGAACACAACAATATGTTTGCGTATTTTAGTTTCCATACATCAGCAAAGCCTTAGTT
692 AATAATAAAG-ACACAACAATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCA
* * * * ** *
63073495 CTGATATAATCTATTTTCTTAATACTTTGTAC--AAGTAGTTACAAACACTAAA-TCTCATAAAA
755 ATGAGATAATCCATTATCTTAGCACTTTGTACAAAAGTAGTTACAAACAC-AAACTCTCAAAAAA
* * *
63073557 ATAGGATTACACTTTTGTTCCTAAGATCTAGACAAGCCCTCTCTAAATTTCCTCCCTGAAAATAT
819 ATAGGATTTCACTTTTGTACCTAAGATCTAGACAAGTCC-CTCTAAATTTCCTCCCTGAAAATAT
*
63073622 AGGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCATCACT
883 AGGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCCTCACT
63073687 AAACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
948 AAACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
* * * *
63073724 ATACAAGTCTTCTCAATTTATAATAAAATTAGACTTGCTAACATACTAGATCAGTGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * * * *
63073789 CTTCCAACTAAAACAATAAGATAATCAGCTCTAAGAATAATGGATTCGGATTCTTTCTAGTTTAA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * * *
63073854 AATTTTTATTTACTTTTAATTATAAAAATGACTCTAAATATCATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
63073919 AACTATAATTAATATA-CTTATATACCAATAATCACAATTAATTAGTGTAATACATAAACAAAAT
196 AATTATAATTAATATATC-TATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAAT
*
63073983 CACAAA-TAT-AATCAATACATCCGTACAATTATGACTAGAATCAACCAAAGCAATTTAATGCAC
260 CA-AAAGT-TCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCAC
* * *
63074046 AAACAAACATATTAATAAT-AACGCATAT-GTTTTG-A-T-TTAA-ATAAATAAATAAATAACTA
323 AAACAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAA-AAA-AACTA
* * * *
63074105 CGTATTGAAAACCCACAAATAATATTTATGCATGGTGGCAGTTGACCTGGAATCACAAAGTTTCT
386 CGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCT
* *
63074170 ACTTTGCCATCAAACCAAAACCACATTGACAAAAGAATTTTAATATTAAAATAAACATTAAAGGT
451 ACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGT
* *
63074235 TAAGCGACTTAGACATAAGCAAGAAATTCTTTTATTATCTAAATTTGTTTCAATACAATCGTGGA
516 TAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGA
* * * *
63074300 CTAATTTTACTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTCCTACAATAATA
581 ATAATTCTACTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTA-AATGATA
* * *
63074365 CTTGCAAGCAAATTGAGTAGTATCAACTATTTTCGGCACTAATGAAGAATAATAAAGAGCATAAC
645 CTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGA-CACAAC
* * * * **
63074430 AATACGTTTGTGTATTTTAGTTTGCATACATCAACAAGGCCTTTGCAATGAGATAATCCATCGTC
709 AATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATC
* * *
63074495 TTAGCACTTTGTACAAAAAATAGTTACAAATACAAACTTTCAAAAAAATAGGATTTCACTTTTGT
773 TTAGCACTTTGTAC-AAAAGTAGTTACAAACACAAACTCTCAAAAAAATAGGATTTCACTTTTGT
** * * * *
63074560 ACCTAAGATGAAGACAAGTACCCTCTAAATTTCATCACTAAAAATATAAGATAAAAATCAAGTAA
837 ACCTAAGATCTAGACAAGT-CCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAA
* * * * *
63074625 CACACTAGATTTTACACTAAGTGCATAT-TAAATAAACATTCCTTAATAAACAGAAATAAGTGTT
901 CACACTTGATTTTACACTTAGTGCA-ATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCT
* *
63074689 CTCAAATCAGTACATAACTT
965 CTCAAATCAGTATATAACCT
63074709 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * **
63074774 CTTCCAACTAAAACAACAAGATAATTAGCTCTAAGAATAATGGATTCGGATTCTTTTTTGTTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
63074839 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
63074904 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * *
63074969 AAAAGTTCAATCAAAACATCCGTACAATTATGGCTACAATCAACCAATGGAATTTAATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* *
63075034 CAGACATATTAATAATCAACGAATATACAGATATAGAACACACGTGTTGAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATAT--AG-TTTAG---A-AC-TGTTAAGA--TAAATAAAAAA
* * * *
63075099 AATTACGTATTAAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCAGTTATCACAAAG
381 AACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAG
* * *
63075164 TTTCTATTTTACCATCTAACCAAGA-C-CATTGACAAAAGAATTTTAATATTAAAATAAACATCA
446 TTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCA
* * * * *
63075227 AAGGTTAAGCTACTTAGACATAACCAAGAAATTCTTCCATTACCTAAATTTGTTTCACTACAATC
511 AAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATC
* *
63075292 GTTGAATAATTCTACTGGTAAAATTTAATTTAAATATTATATATTATATTTTGAAAGTTCTAAAC
576 GTTGAATAATTCTACTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAA-
* * * * * * *
63075357 CGGTAGTCGCAAGCAAATTGAGTAGTGCCAACTATTTTCGACAATGATGAAGAATAA-AAA-ACA
640 TGATACTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACA
* * * * * *
63075420 CAACAATATGTTTGCGCAGTTTAGTTTCATACATTAGCGAGGTCTTAGCAGTGAGATAATCCATT
705 CAACAATATGTTTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATT
* * **
63075485 ATCTTAGCACTTTATACAACAAGTAGTTACAAACACTAACTCTCACGAAAATAGGA--TCACTTT
770 ATCTTAGCACTTTGTACAA-AAGTAGTTACAAACACAAACTCTCAAAAAAATAGGATTTCACTTT
* * *
63075548 TGTACCTGAGATCTAGACAAATCTCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAACCAAG
834 TGTACCTAAGATCTAGACAAGTC-CCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAG
* * * * * *
63075613 TAACATACTTGATTCTACACTTAGTG-AACTCTAAATAAGCTTTCCTCACTAAATAAAAATAAGT
898 TAACACACTTGATTTTACACTTAGTGCAA-TCTAAATAAACATTCCTCACTAAACAGAAATAAGT
*
63075677 GCTCTCAAATTAGTATATAACCT
962 GCTCTCAAATCAGTATATAACCT
* * * * *
63075700 ATACAAGTATTTTCAATTTATAATGAAATAAGACTTGTTAACATACTAGATCAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* *
63075765 CTTCCAACTAAAACAACAAG---ATCAGCTCTAACAATAATGGGATTCGGAATCTTTTTTATTTT
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAAT-GGATTCGGATTCTTTTTAATTTT
63075827 AAATTTTTATTTACTTTTAAT
130 AAATTTTTATTTACTTTTAAT
63075848 CTGAACACAG
Statistics
Matches: 1866, Mismatches: 215, Indels: 101
0.86 0.10 0.05
Matches are distributed among these distances:
981 1 0.00
982 81 0.04
984 7 0.00
985 477 0.26
986 13 0.01
988 16 0.01
989 50 0.03
990 9 0.00
991 387 0.21
992 106 0.06
993 77 0.04
994 28 0.02
995 3 0.00
996 5 0.00
997 200 0.11
998 5 0.00
999 79 0.04
1000 3 0.00
1001 8 0.00
1002 1 0.00
1003 1 0.00
1004 70 0.04
1005 91 0.05
1006 14 0.01
1007 132 0.07
1008 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (984 bp):
ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
CAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAAAAAAACTACGTAT
TGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCTACTTT
GCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGTTAAGC
GACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGAATAAT
TCTACTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAATGATACTTGCA
AGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACACAACAATATGT
TTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATCTTAGCACT
TTGTACAAAAGTAGTTACAAACACAAACTCTCAAAAAAATAGGATTTCACTTTTGTACCTAAGAT
CTAGACAAGTCCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAACACACTTGAT
TTTACACTTAGTGCAATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCTCTCAAATCAGT
ATATAACCT
Found at i:63077718 original size:60 final size:60
Alignment explanation
Indices: 63077652--63077772 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
63077642 GATCAAGAAA
63077652 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
1 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
63077712 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
1 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
63077772 A
1 A
63077773 ATGCCATGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (60 bp):
ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
Found at i:63097489 original size:39 final size:39
Alignment explanation
Indices: 63097431--63097508 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
63097421 CCTAAACCAA
* * * *
63097431 AATCCACAAGAAAGCATCCTTCGAGTTTCAAGCC-AACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAA-CCTAACCT
63097470 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
63097509 TGAATCACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 32 0.94
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (39 bp):
AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
Found at i:63101126 original size:16 final size:16
Alignment explanation
Indices: 63101105--63101138 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63101095 AATTTGCTTG
63101105 AGAATAACCCAAGAGT
1 AGAATAACCCAAGAGT
*
63101121 AGAATAAGCCAAGAGT
1 AGAATAACCCAAGAGT
63101137 AG
1 AG
63101139 GCAAACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.24, T:0.12
Consensus pattern (16 bp):
AGAATAACCCAAGAGT
Found at i:63107363 original size:19 final size:19
Alignment explanation
Indices: 63107328--63107368 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
63107318 TCCACGTAAA
63107328 AATTTGTATGTTTTTTTTT
1 AATTTGTATGTTTTTTTTT
* *
63107347 AATTTTTATTTTATTTTTTT
1 AATTTGTATGTT-TTTTTTT
63107367 AA
1 AA
63107369 GTAAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
AATTTGTATGTTTTTTTTT
Found at i:63115805 original size:33 final size:33
Alignment explanation
Indices: 63115760--63115825 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
63115750 TATCCAGAAA
*
63115760 GAGTAAATTAGCACTTAGAACTTCAACAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
*
63115793 GAGTAAAGTAGCACTTAGAACTTCTACAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
63115826 TTGGGCTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (33 bp):
GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
Found at i:63120270 original size:21 final size:20
Alignment explanation
Indices: 63120232--63120270 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63120222 ACATATACGA
*
63120232 AAACAACTTAAAACACTAGT
1 AAACAACTTAAAAAACTAGT
*
63120252 AAACCACTTGAAAAAACTA
1 AAACAACTT-AAAAAACTA
63120271 AAACACCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (20 bp):
AAACAACTTAAAAAACTAGT
Found at i:63122036 original size:20 final size:20
Alignment explanation
Indices: 63122011--63122048 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63122001 AAATTTTATT
63122011 TTATTTTTATATTTTGAAAA
1 TTATTTTTATATTTTGAAAA
*
63122031 TTATTTTTATTTTTTGAA
1 TTATTTTTATATTTTGAA
63122049 TTTTAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTTTATATTTTGAAAA
Found at i:63122109 original size:20 final size:21
Alignment explanation
Indices: 63122059--63122109 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
63122049 TTTTAAAGAG
*
63122059 TTTTAA-TTTTAATCATAATT
1 TTTTAATTTTTAATAATAATT
* *
63122079 TTTTATTTTTTTAA-AATATTT
1 TTTTA-ATTTTTAATAATAATT
63122100 TTTTAATTTT
1 TTTTAATTTT
63122110 AAAGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.36
21 10 0.40
22 6 0.24
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTAATTTTTAATAATAATT
Found at i:63122124 original size:20 final size:20
Alignment explanation
Indices: 63122075--63122125 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
63122065 TTTTAATCAT
63122075 AATTTTTTATTT--TTTTAA
1 AATTTTTTATTTAATTTTAA
*
63122093 AATATTTT-TTTAATTTTAA
1 AATTTTTTATTTAATTTTAA
*
63122112 AGTTTTTTATTTAA
1 AATTTTTTATTTAA
63122126 AATACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 12 0.44
20 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
AATTTTTTATTTAATTTTAA
Found at i:63124533 original size:18 final size:18
Alignment explanation
Indices: 63124497--63124532 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
63124487 ATTAAAGGAG
*
63124497 GGAAGAAGAAAGGTAAAA
1 GGAAGAAGAAAGATAAAA
63124515 GGAAGAAGAAAAGATAAA
1 GGAAGAAG-AAAGATAAA
63124533 GTACTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAAGATAAAA
Found at i:63138225 original size:21 final size:21
Alignment explanation
Indices: 63138199--63138238 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63138189 TACTGGAAAA
*
63138199 TGACCAATATAAAAATAATTG
1 TGACCAAAATAAAAATAATTG
*
63138220 TGACCAAAATAGAAATAAT
1 TGACCAAAATAAAAATAAT
63138239 AAAAAAATTG
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:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
TGACCAAAATAAAAATAATTG
Found at i:63140687 original size:15 final size:15
Alignment explanation
Indices: 63140656--63140690 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
63140646 ATCATAATTT
*
63140656 TATATCTTAAGATTA
1 TATATCTTAAGACTA
*
63140671 TATATCTTAAGGCTA
1 TATATCTTAAGACTA
63140686 TATAT
1 TATAT
63140691 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (15 bp):
TATATCTTAAGACTA
Found at i:63140708 original size:2 final size:2
Alignment explanation
Indices: 63140703--63140727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63140693 ATATATATAT
63140703 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
63140728 TAGGAGGGAG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63150803 original size:18 final size:18
Alignment explanation
Indices: 63150782--63150816 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63150772 TTTTGAAAAT
63150782 ATTTAAAATATTAATATA
1 ATTTAAAATATTAATATA
**
63150800 ATTTATTATATTAATAT
1 ATTTAAAATATTAATAT
63150817 TCCAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATATTAATATA
Found at i:63150922 original size:17 final size:18
Alignment explanation
Indices: 63150895--63150942 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
63150885 ATTCAATATT
*
63150895 AAATATTTTAATAA-TAA
1 AAATATATTAATAATTAA
* *
63150912 AAATTTATTAA-AATTAT
1 AAATATATTAATAATTAA
63150929 AAATATATTAATAA
1 AAATATATTAATAA
63150943 ATGTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATTAATAATTAA
Found at i:63151749 original size:23 final size:24
Alignment explanation
Indices: 63151705--63151749 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
63151695 TTGGGAATAT
*
63151705 CAAAAGTTGACTTCTTAGGGTTCC
1 CAAAAATTGACTTCTTAGGGTTCC
63151729 CAAAAATTGACTT-TTAGGGTT
1 CAAAAATTGACTTCTTAGGGTT
63151750 TTGAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (24 bp):
CAAAAATTGACTTCTTAGGGTTCC
Found at i:63155463 original size:43 final size:43
Alignment explanation
Indices: 63155402--63155767 Score: 214
Period size: 43 Copynumber: 8.6 Consensus size: 43
63155392 TCATTCCATG
* * *
63155402 CCGATGGTGTCCGAGGCTCCCGCACCTCCTAGCCACCGAGGTA
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCCACCGAGGTA
* * * *
63155445 CCGATGCTGCCCGAGGCTCCCGCACATCCGAGCCACCAAGGTG
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCCACCGAGGTA
**
63155488 CCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCGAGGTA
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCCACCGAGGTA
* * ** * ** *
63155530 CCGATGGTGGCCGAGGCCCCCGCACGA-CCAAG-GGCCTATTTTG
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCCACCGA-GGTA
* * *** * *
63155573 CCGATGGTGCCCGAGCCTCTCGCACGA-CCAAG-GGTCTAGGTTG
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCCACCGAGG-TA
* * * *
63155616 CCGATGGTGCCCGAGGTTCCGGCACATCCAAG-CACCAAGGTG
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCCACCGAGGTA
* * * ** * * *
63155658 TCGATGATGCTCGAGGCTCCCGCACGA-CCAAG-GGCCTAGTTTG
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCCACCGAG-GTA
* * *
63155701 CCGATGGTGTCCGAGGCTCCCGCACATCCCAG-CACCTAGG-A
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCCACCGAGGTA
* *
63155742 GTCGATGGTGGCCGAGGCTCCCGCAC
1 -CCGATGGTGCCCGAGGCTCCCGCAC
63155768 GACCAAGGGC
Statistics
Matches: 262, Mismatches: 53, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
42 97 0.37
43 164 0.63
44 1 0.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (43 bp):
CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCCACCGAGGTA
Found at i:63155552 original size:85 final size:84
Alignment explanation
Indices: 63155400--63155778 Score: 391
Period size: 85 Copynumber: 4.5 Consensus size: 84
63155390 CTTCATTCCA
* ** * ** *
63155400 TGCCGATGGTGTCCGAGGCTCCCGCACCTCCTAGCCACCGAGGTACCGATGCTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-GGCCGAGGTACCGATGGTGCCCGAGGCTCC
*
63155465 CGCACATCCGAGCCACCAAGG
65 CGCACATCCAAG-CACCAAGG
* *
63155486 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTACCGATGGTGGCCGAGGCCCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTACCGATGGTGCCCGAGGCTCCC
** ***
63155551 GCACGA-CCAAGGGCCTATTT
66 GCAC-ATCCAAGCACC-AAGG
* * * * * *
63155571 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG-TACCGATGGTGCCCGAGGCTCC
*
63155636 GGCACATCCAAGCACCAAGG
65 CGCACATCCAAGCACCAAGG
* * * * * * *
63155656 TGTCGATGATGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAG-GTACCGATGGTGCCCGAGGCTCC
* *
63155721 CGCACATCCCAGCACCTAGG
65 CGCACATCCAAGCACCAAGG
* * *
63155741 AGTCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCC
63155779 TATTTTGCCG
Statistics
Matches: 243, Mismatches: 45, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
84 2 0.01
85 181 0.74
86 60 0.25
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (84 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTACCGATGGTGCCCGAGGCTCCC
GCACATCCAAGCACCAAGG
Found at i:63155779 original size:85 final size:85
Alignment explanation
Indices: 63155445--63155793 Score: 405
Period size: 85 Copynumber: 4.1 Consensus size: 85
63155435 CACCGAGGTA
* *
63155445 CCGATGCTGCCCGAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCG
* * *
63155510 CACGACCAAGGGCCGAG-GTA
65 CACGACCAAGGGCCTAGTTTG
* * ** *** * *
63155530 CCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCTC
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCTCCC
* *
63155594 GCACGACCAAGGGTCTAGGTTG
64 GCACGACCAAGGGCCTAGTTTG
* * * * *
63155616 CCGATGGTGCCCGAGGTTCCGGCACATCCAAGCACCAAGGTGTCGATGATGCTCGAGGCTCCCGC
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGC
63155681 ACGACCAAGGGCCTAGTTTG
66 ACGACCAAGGGCCTAGTTTG
* * * * * *
63155701 CCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGTCGATGGTGGCCGAGGCTCCCGC
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGC
*
63155766 ACGACCAAGGGCCTATTTTG
66 ACGACCAAGGGCCTAGTTTG
63155786 CCGATGGT
1 CCGATGGT
63155794 ATAGTTTATC
Statistics
Matches: 219, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.01
85 187 0.85
86 30 0.14
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (85 bp):
CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGC
ACGACCAAGGGCCTAGTTTG
Found at i:63155791 original size:128 final size:126
Alignment explanation
Indices: 63155445--63155778 Score: 386
Period size: 128 Copynumber: 2.6 Consensus size: 126
63155435 CACCGAGGTA
* * *
63155445 CCGATGCTGCCCGAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAG-CACCTAGGTGCCGATGGTGCCCGAGGCTCCCG
* * *
63155510 CACGACCAAGGGCCGAGGTACCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTG
65 CACGACCAAGGGCC-AGGTGCCGATGATGGCCGAGGCCCCCGCACGACCAAGGGCCTAGTTTG
* * *** * *
63155573 CCGATGGTGCCCGAGCCTCTCGCACGA-CCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
1 CCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAGG-TGCCGATGGTGCCCGAGGCTCCC
** * *
63155637 GCAC-ATCCAAGCACCAAGGTGTCGATGAT-GCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTT
64 GCACGA-CCAAGGGCC-AGGTGCCGATGATGGC-CGAGGCCCCCGCACGACCAAGGGCCTAGTTT
63155700 G
126 G
* * * * *
63155701 CCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGTCGATGGTGGCCGAGGCTCCCGC
1 CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGC
63155766 ACGACCAAGGGCC
66 ACGACCAAGGGCC
63155779 TATTTTGCCG
Statistics
Matches: 168, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
127 37 0.22
128 130 0.77
129 1 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (126 bp):
CCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGC
ACGACCAAGGGCCAGGTGCCGATGATGGCCGAGGCCCCCGCACGACCAAGGGCCTAGTTTG
Found at i:63175341 original size:2 final size:2
Alignment explanation
Indices: 63175336--63175360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63175326 ATATATAAAT
63175336 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
63175361 AGTTTTTTGG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63177947 original size:6 final size:6
Alignment explanation
Indices: 63177938--63177974 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
63177928 AGAGAAAGAT
63177938 GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC G
1 GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC G
63177975 ATGGTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.51, T:0.00
Consensus pattern (6 bp):
GGAGAC
Found at i:63183674 original size:13 final size:13
Alignment explanation
Indices: 63183668--63183695 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63183658 TTAAAAATGT
63183668 AAATTAATAAATA
1 AAATTAATAAATA
63183681 AAATTAATAAATA
1 AAATTAATAAATA
63183694 AA
1 AA
63183696 TAAAGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATAAATA
Found at i:63184893 original size:15 final size:14
Alignment explanation
Indices: 63184873--63184906 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
63184863 AGCTAATGTA
63184873 AGGGTTTAGGGCTTT
1 AGGGTTTAGGG-TTT
63184888 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
63184902 AGGGT
1 AGGGT
63184907 ATTGGTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:63184895 original size:7 final size:7
Alignment explanation
Indices: 63184873--63184906 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
63184863 AGCTAATGTA
63184873 AGGGTTT
1 AGGGTTT
63184880 AGGGCTTT
1 AGGG-TTT
63184888 AGGGTTT
1 AGGGTTT
63184895 AGGGTTT
1 AGGGTTT
63184902 AGGGT
1 AGGGT
63184907 ATTGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:63190549 original size:13 final size:14
Alignment explanation
Indices: 63190532--63190593 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
63190522 GTATATCTAT
63190532 TTTCATATAACTGA
1 TTTCATATAACTGA
*
63190546 -TTCATATAAC-CA
1 TTTCATATAACTGA
*
63190558 TTTCATGT--CT-A
1 TTTCATATAACTGA
63190569 TTTTCATATAACTGA
1 -TTTCATATAACTGA
63190584 -TTCATATAAC
1 TTTCATATAAC
63190594 CATTTAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
13 26 0.67
14 2 0.05
15 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (14 bp):
TTTCATATAACTGA
Found at i:63190613 original size:27 final size:27
Alignment explanation
Indices: 63190583--63190634 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
63190573 CATATAACTG
63190583 ATTCATATAACCATTTAACATATCTGT
1 ATTCATATAACCATTTAACATATCTGT
* * *
63190610 ATTCATCTAACCATTTCATATATCT
1 ATTCATATAACCATTTAACATATCT
63190635 ATTTTTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTCATATAACCATTTAACATATCTGT
Found at i:63190628 original size:40 final size:38
Alignment explanation
Indices: 63190515--63190631 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 38
63190505 ATCCAATGAT
* *
63190515 CCATTTCGTATATCTATTTTCATATAACTGATTCATATAA
1 CCATTTC--ATATCTATATTCATATAACTCATTCATATAA
* * *
63190555 CCATTTCATGTCTATTTTCATATAACTGATTCATATAA
1 CCATTTCATATCTATATTCATATAACTCATTCATATAA
* *
63190593 CCATTTAACATATCTGTATTCATCTAAC-CATTTCATATA
1 CCATTT--CATATCTATATTCATATAACTCA-TTCATATA
63190632 TCTATTTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 36 0.53
39 1 0.01
40 31 0.46
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (38 bp):
CCATTTCATATCTATATTCATATAACTCATTCATATAA
Found at i:63190638 original size:13 final size:13
Alignment explanation
Indices: 63190489--63190653 Score: 52
Period size: 13 Copynumber: 12.4 Consensus size: 13
63190479 ACTCACATTT
*
63190489 TATTTCAAATATC
1 TATTTCATATATC
*
63190502 TATATCCA-ATGATC
1 TAT-TTCATAT-ATC
* *
63190516 CATTTCGTATATC
1 TATTTCATATATC
*
63190529 TATTTTCATATAAC
1 TA-TTTCATATATC
*
63190543 TGA-TTCATATAAC
1 T-ATTTCATATATC
* *
63190556 CATTTC--ATGTC
1 TATTTCATATATC
*
63190567 TATTTTCATATAAC
1 TA-TTTCATATATC
*
63190581 TGA-TTCATATAAC
1 T-ATTTCATATATC
* * *
63190594 CATTTAACATATC
1 TATTTCATATATC
* * *
63190607 TGTATTCATCTAAC
1 TAT-TTCATATATC
*
63190621 CATTTCATATATC
1 TATTTCATATATC
*
63190634 TATTTTTCATATATT
1 TA--TTTCATATATC
63190649 TATTT
1 TATTT
63190654 TTCACCCAAT
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
11 4 0.04
12 6 0.06
13 54 0.50
14 31 0.28
15 14 0.13
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (13 bp):
TATTTCATATATC
Found at i:63190647 original size:17 final size:15
Alignment explanation
Indices: 63190623--63190657 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
63190613 CATCTAACCA
*
63190623 TTTCATATATCTATT
1 TTTCATATATTTATT
63190638 TTTCATATATTTATT
1 TTTCATATATTTATT
63190653 TTTCA
1 TTTCA
63190658 CCCAATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATATATTTATT
Found at i:63191782 original size:14 final size:14
Alignment explanation
Indices: 63191763--63191791 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63191753 CGATCTAAGG
63191763 ATAAAGATGATGAA
1 ATAAAGATGATGAA
63191777 ATAAAGATGATGAA
1 ATAAAGATGATGAA
63191791 A
1 A
63191792 AATGCCAATG
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:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
ATAAAGATGATGAA
Found at i:63207334 original size:6 final size:6
Alignment explanation
Indices: 63207298--63207358 Score: 70
Period size: 6 Copynumber: 9.8 Consensus size: 6
63207288 AATATAAGAG
* *
63207298 AAAAAT AAACAT AAAAAA AAGACACAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AA-A-A-AT AAAAAT AAAAAT AAAAAT AAAAAT
63207349 -AAAAT AAAAA
1 AAAAAT AAAAA
63207359 CAAGCGGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 5 0.11
6 35 0.74
7 2 0.04
8 2 0.04
9 3 0.06
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:63214097 original size:3 final size:3
Alignment explanation
Indices: 63214089--63214154 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
63214079 TTATGTTGTA
* ** *
63214089 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ACC ATT CTTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
63214135 ATT ATT -TT CTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
63214155 CTTTTCATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:63215718 original size:6 final size:6
Alignment explanation
Indices: 63215703--63215758 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
63215693 ATTGAGTCCA
* * * *
63215703 TTTATC TTTATG TTTATT TTTATT TCTATT TTTATT TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
63215751 TTTATT TT
1 TTTATT TT
63215759 GTTTTCCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:63215736 original size:18 final size:18
Alignment explanation
Indices: 63215715--63215771 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
63215705 TATCTTTATG
63215715 TTTATTTTTATTTCTATT
1 TTTATTTTTATTTCTATT
* *
63215733 TTTATTTTTATTTTTATG
1 TTTATTTTTATTTCTATT
63215751 TTTATTTTGT-TTTCCTATT
1 TTTATTTT-TATTT-CTATT
63215770 TT
1 TT
63215772 GAACTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTATTTTTATTTCTATT
Found at i:63215784 original size:36 final size:35
Alignment explanation
Indices: 63215703--63215784 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
63215693 ATTGAGTCCA
* **
63215703 TTTATCTTTATGTTTATTTTTATTTCTATTTTTATT
1 TTTAT-TTTATGTTTATTTTTATTTCTATTTTGAAC
63215739 TTTATTTTTATGTTTATTTTGT-TTTCCTATTTTGAAC
1 TTTA-TTTTATGTTTATTTT-TATTT-CTATTTTGAAC
63215776 TTTATTTTA
1 TTTATTTTA
63215785 ATTATTATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 26 0.65
37 14 0.35
ACGTcount: A:0.17, C:0.06, G:0.05, T:0.72
Consensus pattern (35 bp):
TTTATTTTATGTTTATTTTTATTTCTATTTTGAAC
Found at i:63221377 original size:21 final size:21
Alignment explanation
Indices: 63221329--63221377 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
63221319 ATTAAGGAAC
* *
63221329 CTTTA-AAAATATTGGTGAAT
1 CTTTAGAAAATATTGCTAAAT
*
63221349 CCTT-GAAAATATTGCTAAAT
1 CTTTAGAAAATATTGCTAAAT
63221369 CTTTAGAAA
1 CTTTAGAAA
63221378 TTTTGATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
CTTTAGAAAATATTGCTAAAT
Found at i:63222242 original size:25 final size:25
Alignment explanation
Indices: 63222209--63222262 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
63222199 TATATTTTAG
63222209 TAAAAATATTTTAATATATGAAATA
1 TAAAAATATTTTAATATATGAAATA
63222234 TAAAAATATTTTAATATATGAAATA
1 TAAAAATATTTTAATATATGAAATA
63222259 TAAA
1 TAAA
63222263 TTTTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAAAATATTTTAATATATGAAATA
Found at i:63222309 original size:24 final size:24
Alignment explanation
Indices: 63222254--63222311 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
63222244 TTAATATATG
* *
63222254 AAATATAAATTTTAAATATTTTTA
1 AAATATAAATATTAAATATTTATA
* *
63222278 AGCA-ATAAATATTAATTATTTATA
1 A-AATATAAATATTAAATATTTATA
63222302 AAATATAAAT
1 AAATATAAAT
63222312 TAGAATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATAAATATTAAATATTTATA
Found at i:63225717 original size:17 final size:18
Alignment explanation
Indices: 63225695--63225731 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63225685 ATTTTGGATA
*
63225695 TAATTT-TTTAGGTATTT
1 TAATTTATTTAGGCATTT
63225712 TAATTTATTTAGGCATTT
1 TAATTTATTTAGGCATTT
63225730 TA
1 TA
63225732 TGTTTGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (18 bp):
TAATTTATTTAGGCATTT
Found at i:63226142 original size:17 final size:15
Alignment explanation
Indices: 63226093--63226142 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
63226083 GAGAACAAAG
63226093 AATAAATAAAAATAACA
1 AATAAATAAAAA-AA-A
*
63226110 AATAAATAAAAGAAA
1 AATAAATAAAAAAAA
*
63226125 ATTGAAATAAAAAAAA
1 AAT-AAATAAAAAAAA
63226141 AA
1 AA
63226143 CAAAGTGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.11
16 14 0.50
17 11 0.39
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (15 bp):
AATAAATAAAAAAAA
Found at i:63234930 original size:23 final size:23
Alignment explanation
Indices: 63234901--63234966 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
63234891 CTGATTAATT
63234901 AATTAATAATTTAATTTAATTTC
1 AATTAATAATTTAATTTAATTTC
63234924 AATTAAT-ATTT--TTTCAAATTTC
1 AATTAATAATTTAATTT--AATTTC
63234946 AATT-ATCAA-TTAATTTAATTT
1 AATTAAT-AATTTAATTTAATTT
63234967 AAAATTAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 21 0.57
23 8 0.22
24 3 0.08
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTAATAATTTAATTTAATTTC
Found at i:63235960 original size:15 final size:16
Alignment explanation
Indices: 63235940--63235972 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
63235930 ATATATTTTT
63235940 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
63235955 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
63235972 T
1 T
63235973 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:63236045 original size:21 final size:22
Alignment explanation
Indices: 63236019--63236077 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
63236009 GTTTTAAGAA
*
63236019 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
63236040 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
63236062 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
63236078 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:63236092 original size:26 final size:24
Alignment explanation
Indices: 63236048--63236096 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
63236038 ATTTGTTTTA
*
63236048 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
63236072 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
63236097 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:63236358 original size:41 final size:41
Alignment explanation
Indices: 63236301--63236387 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
63236291 ATCACCTCTA
63236301 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
1 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
63236342 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
1 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
63236383 T-TATG
1 TATATG
63236388 TATGAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 42 0.91
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (41 bp):
TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
Found at i:63244521 original size:13 final size:13
Alignment explanation
Indices: 63244505--63244537 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
63244495 TTTAATTAAA
*
63244505 TTAGTTAATTAGT
1 TTAGATAATTAGT
63244518 TTAGATAATTAGT
1 TTAGATAATTAGT
63244531 TTA-ATAA
1 TTAGATAA
63244538 ACAAACCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Done.