Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 210 of 240
Found at i:63586376 original size:21 final size:21
Alignment explanation
Indices: 63586352--63586401 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
63586342 TTTGCCTAAG
*
63586352 ATGTGAATTGGATTAAATTGA
1 ATGTAAATTGGATTAAATTGA
*
63586373 ATGTAAATTGTATTAAATTG-
1 ATGTAAATTGGATTAAATTGA
63586393 ATGTTAAAT
1 ATG-TAAAT
63586402 CCATTCGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:63594572 original size:18 final size:18
Alignment explanation
Indices: 63594549--63594614 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 18
63594539 TCTTTAGAAT
63594549 TTTTTGAATTTTTTATAA
1 TTTTTGAATTTTTTATAA
***
63594567 TTTTTGAA--AAGTATAA
1 TTTTTGAATTTTTTATAA
* *
63594583 ATTTTGAAATTTTTATAAA
1 TTTTTGAATTTTTTAT-AA
63594602 TGTTTTGAATTTT
1 T-TTTTGAATTTT
63594615 AAAAATTATT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
16 12 0.34
18 11 0.31
19 2 0.06
20 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (18 bp):
TTTTTGAATTTTTTATAA
Found at i:63594615 original size:18 final size:17
Alignment explanation
Indices: 63594549--63594621 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
63594539 TCTTTAGAAT
*
63594549 TTTTTGAATTTTTTATAA
1 TTTTTGAATTTTATA-AA
***
63594567 TTTTTGAAAAGTATAAA
1 TTTTTGAATTTTATAAA
63594584 -TTTTGAAATTTTTATAAA
1 TTTTTG-AA-TTTTATAAA
*
63594602 TGTTTTGAATTTTAAAAA
1 T-TTTTGAATTTTATAAA
63594620 TT
1 TT
63594622 ATTTTGATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 26 0.60
19 2 0.05
20 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (17 bp):
TTTTTGAATTTTATAAA
Found at i:63594633 original size:19 final size:18
Alignment explanation
Indices: 63594591--63594633 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
63594581 AAATTTTGAA
* *
63594591 ATTTTTATAAATGTTTTG
1 ATTTTTAAAAATATTTTG
*
63594609 AATTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTTG
63594628 ATTTTT
1 ATTTTT
63594634 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:63598075 original size:25 final size:25
Alignment explanation
Indices: 63598041--63598091 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
63598031 CAATTTTAGC
*
63598041 AAGAAAAAGAGAAATCATAAAACAT
1 AAGAAAAAGAAAAATCATAAAACAT
63598066 AAGAAAAAGAAAAATCATAAAACAT
1 AAGAAAAAGAAAAATCATAAAACAT
63598091 A
1 A
63598092 CTTTCGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.12
Consensus pattern (25 bp):
AAGAAAAAGAAAAATCATAAAACAT
Found at i:63601951 original size:42 final size:42
Alignment explanation
Indices: 63601866--63601956 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
63601856 AATTGGGAAG
* * **
63601866 ATAATTCCCTTATTCTAATCAACTACTAAAACATAAGCGAAA
1 ATAATTCCCTGATTCTAATAAACTACTAAAACATAAAAGAAA
* *
63601908 ATAATTCCCTGATTCTAATAAACTACTAAAAGATAAAATAAA
1 ATAATTCCCTGATTCTAATAAACTACTAAAACATAAAAGAAA
63601950 AT-ATTCC
1 ATAATTCC
63601957 TAGAATATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 5 0.12
42 38 0.88
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (42 bp):
ATAATTCCCTGATTCTAATAAACTACTAAAACATAAAAGAAA
Found at i:63601996 original size:19 final size:18
Alignment explanation
Indices: 63601974--63602013 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
63601964 TGAATAAAAC
63601974 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
63601993 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
63602011 TTA
1 TTA
63602014 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:63622483 original size:23 final size:22
Alignment explanation
Indices: 63622440--63622556 Score: 113
Period size: 22 Copynumber: 5.5 Consensus size: 22
63622430 TAAATATATT
*
63622440 TATTTTTTAAA-A-TTTTAAAA
1 TATTTTTTAAATACTTTTTAAA
*
63622460 TATTTTTTACATACTTTTTTAAA
1 TATTTTTTAAATAC-TTTTTAAA
*
63622483 T-TTTTTT-AA-A-TTTTAAAA
1 TATTTTTTAAATACTTTTTAAA
*
63622501 TATTTTTAAAATACTTTTTAAA
1 TATTTTTTAAATACTTTTTAAA
*
63622523 TTTTTTTTAAAATACTTTTTTAAA
1 TATTTTTT-AAATAC-TTTTTAAA
63622547 -ATTTTTTAAA
1 TATTTTTTAAA
63622557 ATTTTAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.10
19 5 0.06
20 13 0.16
21 3 0.04
22 22 0.28
23 20 0.25
24 8 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTTAAATACTTTTTAAA
Found at i:63622488 original size:11 final size:11
Alignment explanation
Indices: 63622474--63622561 Score: 58
Period size: 11 Copynumber: 8.2 Consensus size: 11
63622464 TTTTACATAC
63622474 TTTTTTAAA-T
1 TTTTTTAAATT
63622484 TTTTTTAAA--
1 TTTTTTAAATT
* *
63622493 -TTTTAAAATA
1 TTTTTTAAATT
* *
63622503 TTTTTAAAATA
1 TTTTTTAAATT
*
63622514 CTTTTTAAATT
1 TTTTTTAAATT
*
63622525 TTTTTTAAAATAC
1 TTTTTT-AAAT-T
*
63622538 TTTTTTAAAAT
1 TTTTTTAAATT
*
63622549 TTTTTAAAATT
1 TTTTTTAAATT
63622560 TT
1 TT
63622562 AAAATAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
8 7 0.11
10 9 0.14
11 34 0.54
12 7 0.11
13 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTTAAATT
Found at i:63622533 original size:41 final size:41
Alignment explanation
Indices: 63622441--63622529 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
63622431 AAATATATTT
* * *
63622441 ATTTTTTAAAATTTTAAAATATTTTTTACATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
63622482 ATTTTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
63622522 ATTTTTTT
1 ATTTTTTT
63622530 TAAAATACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 15 0.33
41 30 0.67
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (41 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:63622557 original size:23 final size:22
Alignment explanation
Indices: 63622452--63622558 Score: 105
Period size: 23 Copynumber: 4.9 Consensus size: 22
63622442 TTTTTTAAAA
* *
63622452 TTTTAAAATATTTTTTACATACT
1 TTTTAAAAT-TTTTTAAAATACT
* *
63622475 TTTTTAAATTTTTT-TAA-A--
1 TTTTAAAATTTTTTAAAATACT
63622493 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAAT-TTTTTAAAATACT
*
63622516 TTTTAAATTTTTTTTAAAATACTT
1 TTTTAAA-ATTTTTTAAAATAC-T
63622540 TTTTAAAATTTTTTAAAAT
1 TTTTAAAATTTTTTAAAAT
63622559 TTTAAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.11
19 5 0.07
20 3 0.04
21 2 0.03
22 5 0.07
23 38 0.54
24 9 0.13
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTAAAATTTTTTAAAATACT
Found at i:63629991 original size:12 final size:11
Alignment explanation
Indices: 63629964--63630062 Score: 54
Period size: 11 Copynumber: 9.5 Consensus size: 11
63629954 TAATTTTTTA
*
63629964 ATTTTAAAAAT
1 ATTTTTAAAAT
63629975 ATTTTTAAAAT
1 ATTTTTAAAAT
*
63629986 ACTTTTT---TT
1 A-TTTTTAAAAT
* *
63629995 AATTTAAAAAT
1 ATTTTTAAAAT
63630006 A-TTTTAAAAT
1 ATTTTTAAAAT
*
63630016 ACTTTTTTTAAAT
1 A--TTTTTAAAAT
63630029 -TTTTT----T
1 ATTTTTAAAAT
*
63630035 AATTTTAAAAT
1 ATTTTTAAAAT
63630046 ATTTTTAAAAT
1 ATTTTTAAAAT
63630057 ATTTTT
1 ATTTTT
63630063 TTTAATTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 3 0.04
9 2 0.03
10 14 0.21
11 30 0.45
12 5 0.07
13 8 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:63629993 original size:40 final size:40
Alignment explanation
Indices: 63629949--63630072 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 40
63629939 AATATATTTA
63629949 TTTTTTAATTTTTTAATTTTAAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTTTAATTTTAAAAATATTTTTAAAATACT
63629988 -----T--TTTTTTAA-TTTAAAAATA-TTTTAAAATACT
1 TTTTTTAATTTTTTAATTTTAAAAATATTTTTAAAATACT
*
63630019 TTTTTTAAATTTTTTTAATTTT-AAAATATTTTTAAAATATT
1 TTTTTT-AA-TTTTTTAATTTTAAAAATATTTTTAAAATACT
63630060 TTTTTTAATTTTT
1 TTTTTTAATTTTT
63630073 AAAATAAAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 24
0.74 0.01 0.25
Matches are distributed among these distances:
30 11 0.15
31 10 0.14
32 8 0.11
34 1 0.01
36 1 0.01
39 5 0.07
40 16 0.22
41 20 0.28
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTTTAATTTTAAAAATATTTTTAAAATACT
Found at i:63630011 original size:30 final size:32
Alignment explanation
Indices: 63629957--63630031 Score: 127
Period size: 30 Copynumber: 2.4 Consensus size: 32
63629947 TATTTTTTAA
63629957 TTTTTTAATTTTAAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAAATATTTTTAAAATACT
63629989 TTTTTTAA-TTTAAAAATA-TTTTAAAATACT
1 TTTTTTAATTTTAAAAATATTTTTAAAATACT
63630019 TTTTTTAAATTTT
1 TTTTTT-AATTTT
63630032 TTTAATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
30 18 0.44
31 12 0.29
32 11 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTTTAATTTTAAAAATATTTTTAAAATACT
Found at i:63630045 original size:17 final size:17
Alignment explanation
Indices: 63630020--63630053 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63630010 TAAAATACTT
* *
63630020 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
63630037 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
63630054 AATATTTTTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:63630085 original size:21 final size:22
Alignment explanation
Indices: 63630043--63630099 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
63630033 TTAATTTTAA
***
63630043 AATATTTTTAAAATATTTTTTT
1 AATATTTTTAAAATAAAATTTT
*
63630065 TA-ATTTTTAAAATAAAATTTT
1 AATATTTTTAAAATAAAATTTT
63630086 AATATTTATTAAAA
1 AATATTT-TTAAAA
63630100 ATGGGCCGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 17 0.61
22 5 0.18
23 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTTTTAAAATAAAATTTT
Found at i:63630090 original size:32 final size:29
Alignment explanation
Indices: 63630021--63630092 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 29
63630011 AAAATACTTT
*
63630021 TTTTAA-A-TTTTTTTAATTTTAAAATAT
1 TTTTAATATTTTTTTTAATTTTAAAATAA
63630048 TTTTAAAATATTTTTTTTAATTTTTAAAATAAAA
1 TTTT--AATATTTTTTTTAA-TTTTAAAAT--AA
63630082 TTTTAATATTT
1 TTTTAATATTT
63630093 ATTAAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.11
29 2 0.05
30 1 0.03
31 9 0.24
32 16 0.43
34 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAATATTTTTTTTAATTTTAAAATAA
Found at i:63630604 original size:27 final size:27
Alignment explanation
Indices: 63630551--63630604 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
63630541 TTTTTTTGTC
* *
63630551 TTTTTAAATTATTTAAAAATTTTATTT
1 TTTTTAAATTATTTAAAAAATTAATTT
*
63630578 TTTTTAATTTATTTAAAAAATTAATTT
1 TTTTTAAATTATTTAAAAAATTAATTT
63630605 GCAAAATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTTAAATTATTTAAAAAATTAATTT
Found at i:63640276 original size:22 final size:24
Alignment explanation
Indices: 63640245--63640293 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
63640235 TGTTTTGATG
63640245 TTGTTCTTGATTTGT-T-CTGGAAA
1 TTGTTCTTGA-TTGTCTGCTGGAAA
63640268 TTGTT-TTGATTGTCTGCTGGAAA
1 TTGTTCTTGATTGTCTGCTGGAAA
63640291 TTG
1 TTG
63640294 AATTTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 15 0.62
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.51
Consensus pattern (24 bp):
TTGTTCTTGATTGTCTGCTGGAAA
Found at i:63641523 original size:25 final size:25
Alignment explanation
Indices: 63641487--63641683 Score: 169
Period size: 25 Copynumber: 8.0 Consensus size: 25
63641477 ATTACATCAA
*
63641487 TAATTAAAATAAGGGCTTTAATATT
1 TAATTAAAATAAGGACTTTAATATT
* * *
63641512 TCATTAATATAAGGAC--TAATCA-A
1 TAATTAAAATAAGGACTTTAAT-ATT
63641535 TAATTAAAATAAGGACTTTAATATT
1 TAATTAAAATAAGGACTTTAATATT
* *
63641560 TTATTAAAATAAGGAC--TAATCA-A
1 TAATTAAAATAAGGACTTTAAT-ATT
*
63641583 TAATTAAATTAAGGACTTTAATATT
1 TAATTAAAATAAGGACTTTAATATT
* *
63641608 TTATTAAAATAAGGAC--TAATCA-A
1 TAATTAAAATAAGGACTTTAAT-ATT
*
63641631 TATTTAAAATAAGGACTTTAATATT
1 TAATTAAAATAAGGACTTTAATATT
* * *
63641656 TTATTAAAAATCAAGAAATTTAATATT
1 TAATT-AAAAT-AAGGACTTTAATATT
63641683 T
1 T
63641684 TAATAAAGAA
Statistics
Matches: 136, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
23 54 0.40
24 6 0.04
25 57 0.42
26 5 0.04
27 14 0.10
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
TAATTAAAATAAGGACTTTAATATT
Found at i:63641537 original size:48 final size:48
Alignment explanation
Indices: 63641482--63641664 Score: 321
Period size: 48 Copynumber: 3.8 Consensus size: 48
63641472 AAATAATTAC
* * *
63641482 ATCAATAATTAAAATAAGGGCTTTAATATTTCATTAATATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
63641530 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
63641578 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
63641626 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
63641665 ATCAAGAAAT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:63641699 original size:96 final size:95
Alignment explanation
Indices: 63641503--63641703 Score: 264
Period size: 96 Copynumber: 2.1 Consensus size: 95
63641493 AAATAAGGGC
*
63641503 TTTAATATTTCATTAATATAAGGACTAATCAATAATTAAAATAAGGACTTTAATATTTTATTAAA
1 TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAAGGACTTTAATATTTTATTAAA
* * *
63641568 ATAAGGACTAATCAATAATTAAATTAAGGAC
66 ATAAGGAC-AATCAATAATTAAATAAAGAAA
* *
63641599 TTTAATATTTTATTAAAATAAGGACTAATCAATATTTAAAATAAGGACTTTAATATTTTATTAAA
1 TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAAGGACTTTAATATTTTATT-AA
* * *
63641664 AATCAA-GA-AATTTAATATTTTAATAAAGAAA
65 AAT-AAGGACAA-TCAATAATTAAATAAAGAAA
63641695 TTTAA-ATTT
1 TTTAATATTT
63641704 AAAATGTTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
95 6 0.06
96 78 0.84
97 7 0.08
98 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (95 bp):
TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAAGGACTTTAATATTTTATTAAA
ATAAGGACAATCAATAATTAAATAAAGAAA
Found at i:63645428 original size:92 final size:91
Alignment explanation
Indices: 63645271--63645479 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
63645261 TTGATTTTAG
* * *
63645271 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTAATAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTAATAAATTAT
* *
63645336 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
63645363 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTAATAAATTA
63645427 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
63645455 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
63645480 GTTACAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTAATAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:63645442 original size:24 final size:25
Alignment explanation
Indices: 63645407--63645454 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
63645397 TTATGAAATT
63645407 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
63645431 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
63645455 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:63645608 original size:66 final size:63
Alignment explanation
Indices: 63645533--63645755 Score: 195
Period size: 66 Copynumber: 3.6 Consensus size: 63
63645523 AAATATATTT
63645533 AATATTAATTATTTCAAATTTTCATTTATAGTATTATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATTATATATTATGATTTGAGTAAATTCATATAA
63645598 G
63 G
* * * **
63645599 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATTATATATTATGATTTGAGTAAATTCATATAAG
* *
63645653 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATTATATATTATGATTTGAGTAAATTCATATA
63645717 AG
62 AG
*
63645719 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT
1 AATATTAATTATTTA-AATTTTATTTAAGTATTATATATT
63645756 TTAATTATAA
Statistics
Matches: 125, Mismatches: 15, Indels: 39
0.70 0.08 0.22
Matches are distributed among these distances:
53 5 0.04
54 13 0.10
55 5 0.04
56 4 0.03
57 3 0.02
58 1 0.01
59 10 0.08
60 8 0.06
61 20 0.16
62 1 0.01
63 4 0.03
64 7 0.06
65 7 0.06
66 32 0.26
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATTATATATTATGATTTGAGTAAATTCATATAAG
Found at i:63645633 original size:120 final size:120
Alignment explanation
Indices: 63645495--63645784 Score: 478
Period size: 120 Copynumber: 2.4 Consensus size: 120
63645485 AATTATTTTA
* * *
63645495 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
63645557 TTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63645615 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
63645680 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
63645735 AATTTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
63645785 CTTTAAATAT
Statistics
Matches: 161, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 153 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:63645655 original size:15 final size:15
Alignment explanation
Indices: 63645620--63645671 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
63645610 TTAAGAATTT
*
63645620 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63645634 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63645648 TATTTAATAATAAT-
1 TATTTAATTATAATA
63645662 TATGTTAATT
1 TAT-TTAATT
63645672 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63645740 original size:61 final size:61
Alignment explanation
Indices: 63645557--63645755 Score: 189
Period size: 61 Copynumber: 3.3 Consensus size: 61
63645547 CAAATTTTCA
63645557 TTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* * * * * * * *
63645618 TTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TA
1 TTTA-TAGTATTATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAA
63645676 T
61 T
* *
63645677 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
*
63645738 TTTATTA-AATTATATATT
1 TTTA-TAGTATTATATATT
63645756 TTAATTATAA
Statistics
Matches: 104, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 7 0.07
59 18 0.17
60 16 0.15
61 32 0.31
62 9 0.09
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
TTTATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
Found at i:63645879 original size:151 final size:154
Alignment explanation
Indices: 63645724--63646034 Score: 529
Period size: 151 Copynumber: 2.0 Consensus size: 154
63645714 ATAAGAATAT
* *
63645724 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTATCTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTT
*
63645789 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAAT-AAT-
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
*
63645852 A-ATTTACCAAAACAAATTTCTGC
131 ACATTTACCAAAACAAATTTATGC
*
63645875 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTT
63645940 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAAAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT--AAA
63646005 TAATCATTTACCAAAACAAATTTATGC
129 TAA-CATTTACCAAAACAAATTTATGC
63646032 TAA
1 TAA
63646035 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
151 121 0.81
154 3 0.02
155 1 0.01
157 24 0.16
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
ACATTTACCAAAACAAATTTATGC
Found at i:63645915 original size:18 final size:17
Alignment explanation
Indices: 63645887--63645921 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63645877 ATTATTAAGA
*
63645887 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
63645904 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
63645922 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:63645955 original size:75 final size:75
Alignment explanation
Indices: 63645725--63645957 Score: 190
Period size: 75 Copynumber: 3.1 Consensus size: 75
63645715 TAAGAATATT
* *
63645725 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTATCTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTTA
63645790 AATATGATTA
66 AATATGATTA
* ** * * * ** * * *
63645800 AATTATTTATTATTGATATT-AATAATCTTATTAAAATTTAAATA-A--CAATAATAATT-TACC
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTAAAATATATTTAATAATAATTAT-CT
** * * *
63645860 AAAACAAAT-TTCTGCT
63 TTAA-ATATGAT-T--A
*
63645876 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTTA
63645941 AATATGATTA
66 AATATGATTA
63645951 AATTATT
1 AATTATT
63645958 TATTATTGAT
Statistics
Matches: 110, Mismatches: 35, Indels: 26
0.64 0.20 0.15
Matches are distributed among these distances:
72 1 0.01
73 13 0.12
74 4 0.04
75 41 0.37
76 33 0.30
77 4 0.04
78 13 0.12
79 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATCTTTA
AATATGATTA
Found at i:63646174 original size:16 final size:16
Alignment explanation
Indices: 63646153--63646198 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
63646143 AGTTGATTTG
63646153 CTATTACACCTCTATT
1 CTATTACACCTCTATT
63646169 CTATTACACCTCTATT
1 CTATTACACCTCTATT
*
63646185 CCATTACACCTCTA
1 CTATTACACCTCTA
63646199 ATTCAATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:63646208 original size:16 final size:15
Alignment explanation
Indices: 63646155--63646208 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 15
63646145 TTGATTTGCT
63646155 ATTACACCTCTATTC
1 ATTACACCTCTATTC
63646170 TATTACACCTCTATTCC
1 -ATTACACCTCTATT-C
63646187 ATTACACCTCTAATTC
1 ATTACACCTCT-ATTC
*
63646203 AATACA
1 ATTACA
63646209 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 31 0.89
17 4 0.11
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTACACCTCTATTC
Found at i:63646994 original size:27 final size:28
Alignment explanation
Indices: 63646936--63647001 Score: 125
Period size: 27 Copynumber: 2.4 Consensus size: 28
63646926 AAATAAAAAA
63646936 TACCAAAATATTATATATATTTTTTATT
1 TACCAAAATATTATATATATTTTTTATT
63646964 TACCAAAATATTATATATA-TTTTTATT
1 TACCAAAATATTATATATATTTTTTATT
63646991 TACCAAAATAT
1 TACCAAAATAT
63647002 ACCAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (28 bp):
TACCAAAATATTATATATATTTTTTATT
Found at i:63647069 original size:27 final size:27
Alignment explanation
Indices: 63647027--63647089 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
63647017 CAGGACTGAA
63647027 TGGCGGCACCAATGGTGCCATTCTCAT
1 TGGCGGCACCAATGGTGCCATTCTCAT
* *
63647054 TGGCAGCACCAGTGGTGCCATTCTCAT
1 TGGCGGCACCAATGGTGCCATTCTCAT
63647081 TGGCGGCAC
1 TGGCGGCAC
63647090 ATGACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.17, C:0.30, G:0.29, T:0.24
Consensus pattern (27 bp):
TGGCGGCACCAATGGTGCCATTCTCAT
Found at i:63647887 original size:28 final size:28
Alignment explanation
Indices: 63647856--63647910 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
63647846 TATGACCAAA
63647856 TTAATTAAT-TTCACATTATATTATTATT
1 TTAATTAATCTT-ACATTATATTATTATT
* *
63647884 TTAATTAATCTTACTTTTTATTATTAT
1 TTAATTAATCTTACATTATATTATTAT
63647911 ATAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (28 bp):
TTAATTAATCTTACATTATATTATTATT
Found at i:63650159 original size:15 final size:15
Alignment explanation
Indices: 63650141--63650170 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63650131 ACAAACAAGT
63650141 GGGCCGAATGGTGGA
1 GGGCCGAATGGTGGA
*
63650156 GGGCCTAATGGTGGA
1 GGGCCGAATGGTGGA
63650171 TTTAATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGGCCGAATGGTGGA
Found at i:63651004 original size:15 final size:15
Alignment explanation
Indices: 63650984--63651014 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63650974 ATTCAAATTC
63650984 AATAAAATTGCTATG
1 AATAAAATTGCTATG
*
63650999 AATAAAGTTGCTATG
1 AATAAAATTGCTATG
63651014 A
1 A
63651015 GTGATGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (15 bp):
AATAAAATTGCTATG
Found at i:63669962 original size:21 final size:20
Alignment explanation
Indices: 63669938--63669976 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
63669928 TTTGGTCTAT
*
63669938 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
63669959 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
63669977 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:63672722 original size:13 final size:13
Alignment explanation
Indices: 63672704--63672740 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
63672694 TTGAATGTTT
63672704 ATTAAAATATGTA
1 ATTAAAATATGTA
63672717 ATTAAAATATGTA
1 ATTAAAATATGTA
63672730 ATTAAAA-ATGT
1 ATTAAAATATGT
63672741 TTCCATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTAAAATATGTA
Found at i:63683381 original size:41 final size:41
Alignment explanation
Indices: 63683320--63683536 Score: 344
Period size: 41 Copynumber: 5.3 Consensus size: 41
63683310 AATTTAACAT
* * *
63683320 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
63683361 ATTCATATCACCGGCACTTAGCCTACTAGGCTAATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
63683402 ATTCAGATCACCAGCAGTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
63683443 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
63683484 ATTCAGATCACCGGCACTTATCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
63683525 ATTCAGATCACC
1 ATTCAGATCACC
63683537 AATTTCAAAC
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:63685082 original size:13 final size:13
Alignment explanation
Indices: 63685064--63685088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63685054 CAATCAAATG
63685064 CACACAAAATAAA
1 CACACAAAATAAA
63685077 CACACAAAATAA
1 CACACAAAATAA
63685089 TATTAAATTA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:63687994 original size:41 final size:41
Alignment explanation
Indices: 63687948--63688141 Score: 325
Period size: 41 Copynumber: 4.7 Consensus size: 41
63687938 CAGGCTTAGC
63687948 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
63687989 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
* *
63688030 GCCTAGTAGGCTAAGTGCCGGTGATCCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGCTATAA
* * *
63688072 GCCTAGCAGGCTAAGTGCTGGTGATCTAAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
63688113 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
63688142 TTTAAATTAA
Statistics
Matches: 144, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
41 102 0.71
42 42 0.29
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:63688088 original size:83 final size:82
Alignment explanation
Indices: 63687948--63688141 Score: 325
Period size: 83 Copynumber: 2.3 Consensus size: 82
63687938 CAGGCTTAGC
63687948 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
*
63688013 TCTGAATCAGGCTATAA
66 TCTAAATCAGGCTATAA
* * *
63688030 GCCTAGTAGGCTAAGTGCCGGTGATCCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCTGGTG
1 GCCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTG
*
63688095 ATCTAAATCAGGTTATAA
65 ATCTAAATCAGGCTATAA
63688113 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
63688142 TTTAAATTAA
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
82 24 0.23
83 78 0.75
84 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (82 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
TCTAAATCAGGCTATAA
Found at i:63696961 original size:96 final size:96
Alignment explanation
Indices: 63696843--63697121 Score: 263
Period size: 96 Copynumber: 2.9 Consensus size: 96
63696833 GATTAAAGCC
* * * * * *
63696843 ACAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGAGTAAATATAGTATATATCATTTCCCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATATCATTTCCCTAAA
* *
63696908 GTTGTAGTGGAACATATTAAAGCTATAAGTT
66 GTTGTAATGGAACAGATTAAAGCTATAAGTT
* * * * * * ** *
63696939 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGTAGATTGAAGATAGCAAATCTTATTTCTTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATATCATTTCCCTAAA
* * *
63697004 GTTGTAATGGAACAGATTACAGGTATGAGTT
66 GTTGTAATGGAACAGATTAAAGCTATAAGTT
* * * * * * * * *
63697035 ATAAATCTTATCTCCCGGAAGTTACAGTGGAGCAGATTAAAGCTA-CTAATCTTATCTCCCCAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATATCATTTCCCTAAA
* * *
63697099 GTTGCAATGGAGCAGATTGAAGC
66 GTTGTAATGGAACAGATTAAAGC
63697122 GACAAAACCT
Statistics
Matches: 144, Mismatches: 39, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
95 31 0.22
96 113 0.78
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (96 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATATCATTTCCCTAAA
GTTGTAATGGAACAGATTAAAGCTATAAGTT
Found at i:63697101 original size:44 final size:44
Alignment explanation
Indices: 63697038--63697121 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
63697028 ATGAGTTATA
** *
63697038 AATCTTATCTCCCGGAAGTTACAGTGGAGCAGATTAAAGCTACT
1 AATCTTATCTCCCCAAAGTTACAATGGAGCAGATTAAAGCTACT
* *
63697082 AATCTTATCTCCCCAAAGTTGCAATGGAGCAGATTGAAGC
1 AATCTTATCTCCCCAAAGTTACAATGGAGCAGATTAAAGC
63697122 GACAAAACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCCAAAGTTACAATGGAGCAGATTAAAGCTACT
Found at i:63698592 original size:69 final size:67
Alignment explanation
Indices: 63698507--63698720 Score: 271
Period size: 69 Copynumber: 3.2 Consensus size: 67
63698497 ATTTCATCCT
*
63698507 TTTATATTTTTTTATCTATTTATTTATTTATTATTATTTTACTTTTCAAATACCTAAATTTAATA
1 TTTATA-TTTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAATA
63698572 TTA
65 TTA
* * * * *
63698575 TTCATATTTGTTATATCTATTTATTTGTTTATCATTCTTTTACTTTTCAAATACTTAAATCTAAT
1 TTTATATTT-TT-TATCTATTTATTTATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAAT
63698640 -TT-
64 ATTA
*
63698642 TTTATATTTTTTATC----TATTTATTTATTATTCTTTTACTCTTT-AAATATCTAAATTTAATA
1 TTTATATTTTTTATCTATTTATTTATTTATTATTCTTTTACT-TTTCAAATACCTAAATTTAATA
63698702 TTA
65 TTA
63698705 TTTATATTTGTTTATC
1 TTTATATTT-TTTATC
63698721 ATTCTTTAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
61 35 0.27
62 5 0.04
63 9 0.07
64 6 0.05
65 4 0.03
66 2 0.02
67 11 0.09
68 9 0.07
69 47 0.37
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (67 bp):
TTTATATTTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAATAT
TA
Found at i:63698596 original size:61 final size:61
Alignment explanation
Indices: 63698531--63698855 Score: 197
Period size: 69 Copynumber: 5.2 Consensus size: 61
63698521 TCTATTTATT
* *
63698531 TATTTATTATTATTTTACTTTTCAAATACCTAAATTTAATATTATTCATATTTGTTATATC
1 TATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATATTTGTTATATC
* * *
63698592 TATTTATTTGTTTATCATTCTTTTACTTTTCAAATACTTAAATCTAAT-TT-TTTATATTTTTTA
1 TATTTA------T-T-ATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATATTTGTTA
*
63698655 TCTATT
58 --TATC
*
63698661 TATTTATTATTCTTTTACTCTTT-AAATATCTAAATTTAATATTATTTATATTTGTT-TATC
1 TATTTATTATTCTTTTACT-TTTCAAATACCTAAATTTAATATTATTTATATTTGTTATATC
* * * * * *
63698721 --------ATTCTTTAAATTTTTAAATACTTAAATTTAATATTTTTTATATTTTTTATCAATTTA
1 TATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATA-TTTGT-T--A--TA
*
63698778 TT
60 TC
* * * * * *
63698780 TATTTATTTATATTCTTTTACTTCTAAAATACTTAAATATAATATTATGTATATTTGTTTTATC
1 TATTTA--T-TATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATATTTGTTATATC
63698844 TATTTATCTATT
1 TATTTAT-TATT
63698856 TATTTATTAT
Statistics
Matches: 203, Mismatches: 29, Indels: 63
0.69 0.10 0.21
Matches are distributed among these distances:
51 3 0.01
52 33 0.16
53 4 0.02
54 1 0.00
59 3 0.01
60 3 0.01
61 31 0.15
62 11 0.05
63 12 0.06
64 9 0.04
67 12 0.06
68 4 0.02
69 42 0.21
70 35 0.17
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (61 bp):
TATTTATTATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATATTTGTTATATC
Found at i:63698657 original size:21 final size:23
Alignment explanation
Indices: 63698633--63698677 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
63698623 AAATACTTAA
63698633 ATCTAATTT-TTTA-TATT-TTTT
1 ATCT-ATTTATTTATTATTCTTTT
63698654 ATCTATTTATTTATTATTCTTTT
1 ATCTATTTATTTATTATTCTTTT
63698677 A
1 A
63698678 CTCTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 4 0.19
23 5 0.24
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (23 bp):
ATCTATTTATTTATTATTCTTTT
Found at i:63698725 original size:52 final size:51
Alignment explanation
Indices: 63698657--63698772 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 51
63698647 ATTTTTTATC
* * *
63698657 TATTTATTTATTATTCTTTTACTCTTTAAATA-TCTAAATTTAATATTATTTA
1 TATTT-TTTATCATTCTTTAAATCTTTAAATACT-TAAATTTAATATTATTTA
* *
63698709 TATTTGTTTATCATTCTTTAAATTTTTAAATACTTAAATTTAATATTTTTTA
1 TATTT-TTTATCATTCTTTAAATCTTTAAATACTTAAATTTAATATTATTTA
63698761 TATTTTTTATCA
1 TATTTTTTATCA
63698773 ATTTATTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 7 0.12
52 49 0.86
53 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (51 bp):
TATTTTTTATCATTCTTTAAATCTTTAAATACTTAAATTTAATATTATTTA
Found at i:63698810 original size:70 final size:72
Alignment explanation
Indices: 63698709--63698873 Score: 208
Period size: 70 Copynumber: 2.3 Consensus size: 72
63698699 ATATTATTTA
* * * * * * * *
63698709 TATTTGTTTATCATTCTTTAAATTTTTAAATACTTAAATTTAATATTTTTTATA-TT-TTTTATC
1 TATTTATTTAT-ATTCTTTTACTTCTAAAATACTTAAATATAATATTATGTATATTTGTTTTATC
*
63698772 AATTTATT
65 AATTTATC
*
63698780 TATTTATTTATATTCTTTTACTTCTAAAATACTTAAATATAATATTATGTATATTTGTTTTATCT
1 TATTTATTTATATTCTTTTACTTCTAAAATACTTAAATATAATATTATGTATATTTGTTTTATCA
63698845 ATTTATC
66 ATTTATC
63698852 TATTTATTTATTATTCTTTTAC
1 TATTTATTTA-TATTCTTTTAC
63698874 CTTTTTAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
70 35 0.43
71 12 0.15
72 23 0.28
73 11 0.14
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (72 bp):
TATTTATTTATATTCTTTTACTTCTAAAATACTTAAATATAATATTATGTATATTTGTTTTATCA
ATTTATC
Found at i:63703074 original size:16 final size:16
Alignment explanation
Indices: 63703053--63703083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63703043 CTTCTCATCC
63703053 AACAAAAACCATCAAA
1 AACAAAAACCATCAAA
*
63703069 AACAAAAAGCATCAA
1 AACAAAAACCATCAA
63703084 CTTTTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.23, G:0.03, T:0.06
Consensus pattern (16 bp):
AACAAAAACCATCAAA
Found at i:63707611 original size:18 final size:18
Alignment explanation
Indices: 63707577--63707618 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
63707567 TCTCAAATCA
*
63707577 ATATTAAAGTATCTTTTT
1 ATATTAAAGTATCTTTTC
*
63707595 ATATTAAA-TAATTTTTTC
1 ATATTAAAGT-ATCTTTTC
63707613 ATATTA
1 ATATTA
63707619 TTTACATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTAAAGTATCTTTTC
Found at i:63720388 original size:1 final size:1
Alignment explanation
Indices: 63720384--63720451 Score: 118
Period size: 1 Copynumber: 68.0 Consensus size: 1
63720374 TAAAAATAAT
* *
63720384 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAATAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
63720449 AAA
1 AAA
63720452 CATAGATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:63720426 original size:40 final size:40
Alignment explanation
Indices: 63720375--63720451 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
63720365 TCGCTTACTT
*
63720375 AAAAATAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
63720415 AAAAAAAATAAAAAAAAATAAAAAAAAAAAAAAAAAA
1 AAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAA
63720452 CATAGATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (40 bp):
AAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:63722160 original size:15 final size:15
Alignment explanation
Indices: 63722142--63722171 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63722132 ACAAACAAGT
63722142 GGGCCGAATGGTGGA
1 GGGCCGAATGGTGGA
*
63722157 GGGCCTAATGGTGGA
1 GGGCCGAATGGTGGA
63722172 TTTAATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGGCCGAATGGTGGA
Found at i:63723002 original size:15 final size:15
Alignment explanation
Indices: 63722982--63723012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63722972 ATTCAAATTC
63722982 AATAAAATTGCTATG
1 AATAAAATTGCTATG
*
63722997 AATAAAGTTGCTATG
1 AATAAAATTGCTATG
63723012 A
1 A
63723013 GTGATGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (15 bp):
AATAAAATTGCTATG
Found at i:63740958 original size:41 final size:41
Alignment explanation
Indices: 63740878--63740959 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
63740868 ACTTTTTGAA
* *
63740878 ATTAAATATTTTAGTCACTCTCTCGTTATTTGCCGTTAGAT
1 ATTAAATATTTTAGCCACTCTCTCGTTATTTGCCATTAGAT
63740919 ATTAAATATTTTAGCCACTCTC-CTGTTAGTTT-CCATTAGAT
1 ATTAAATATTTTAGCCACTCTCTC-GTTA-TTTGCCATTAGAT
63740960 GAGTGTCGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 1 0.03
41 33 0.89
42 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (41 bp):
ATTAAATATTTTAGCCACTCTCTCGTTATTTGCCATTAGAT
Found at i:63742161 original size:21 final size:20
Alignment explanation
Indices: 63742137--63742175 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
63742127 TTTGGTCTAT
*
63742137 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
63742158 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
63742176 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:63744933 original size:13 final size:13
Alignment explanation
Indices: 63744915--63744951 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
63744905 TTGAATGTTT
63744915 ATTAAAATATGTA
1 ATTAAAATATGTA
63744928 ATTAAAATATGTA
1 ATTAAAATATGTA
63744941 ATTAAAA-ATGT
1 ATTAAAATATGT
63744952 TTCCATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTAAAATATGTA
Found at i:63745588 original size:9 final size:9
Alignment explanation
Indices: 63745574--63746106 Score: 362
Period size: 9 Copynumber: 59.9 Consensus size: 9
63745564 ATTTGGTTAA
63745574 TTACATAAC
1 TTACATAAC
*
63745583 TTACATAAA
1 TTACATAAC
*
63745592 TTAAATAAC
1 TTACATAAC
63745601 TTACATAAC
1 TTACATAAC
*
63745610 TTACATAAA
1 TTACATAAC
*
63745619 TTA-AGTAAT
1 TTACA-TAAC
63745628 TTACATAAC
1 TTACATAAC
*
63745637 TTACATAAA
1 TTACATAAC
* *
63745646 TTAAATATC
1 TTACATAAC
*
63745655 TTGCATAAC
1 TTACATAAC
* *
63745664 TTACGTAAA
1 TTACATAAC
63745673 TTA-AGTTAA-
1 TTACA--TAAC
*
63745682 TTAAATAAC
1 TTACATAAC
*
63745691 TTACATAAA
1 TTACATAAC
*
63745700 TTA-AGTAAA
1 TTACA-TAAC
* *
63745709 TTAAATATC
1 TTACATAAC
63745718 TTACATAAC
1 TTACATAAC
*
63745727 TTACATAAA
1 TTACATAAC
*
63745736 TTA-AGTAAT
1 TTACA-TAAC
63745745 TTACATAAC
1 TTACATAAC
*
63745754 TTACATAAA
1 TTACATAAC
* *
63745763 TTAAATATC
1 TTACATAAC
*
63745772 TTGCATAAC
1 TTACATAAC
* *
63745781 TTACGTAAA
1 TTACATAAC
63745790 TTA-AGTAA-
1 TTACA-TAAC
63745798 TTA-ATAAC
1 TTACATAAC
63745806 TTACATAA-
1 TTACATAAC
*
63745814 -TA-AGTAAA
1 TTACA-TAAC
* *
63745822 TTAAATATC
1 TTACATAAC
*
63745831 TTGCATAAC
1 TTACATAAC
*
63745840 TTACATAAA
1 TTACATAAC
*
63745849 TTA-AGTAAT
1 TTACA-TAAC
63745858 TTACATAAC
1 TTACATAAC
*
63745867 TTACATAAA
1 TTACATAAC
* *
63745876 TTAAATATC
1 TTACATAAC
*
63745885 TTGCATAAC
1 TTACATAAC
*
63745894 TTACATAAA
1 TTACATAAC
* *
63745903 TTAAATATC
1 TTACATAAC
63745912 TTACATAAC
1 TTACATAAC
*
63745921 TTACATAAA
1 TTACATAAC
* *
63745930 TTAAATATC
1 TTACATAAC
63745939 TTACATAAC
1 TTACATAAC
*
63745948 TTACATAAA
1 TTACATAAC
*
63745957 TTA-AGTAAA
1 TTACA-TAAC
*
63745966 TTAAATAAC
1 TTACATAAC
63745975 TTACATAAC
1 TTACATAAC
*
63745984 TTACATAAA
1 TTACATAAC
63745993 TTACATAAC
1 TTACATAAC
63746002 TTACATAAC
1 TTACATAAC
*
63746011 TTACATAAA
1 TTACATAAC
* *
63746020 TTAAATATC
1 TTACATAAC
*
63746029 TTACATTAC
1 TTACATAAC
* *
63746038 TTATATAGC
1 TTACATAAC
*
63746047 TTACATTAC
1 TTACATAAC
**
63746056 TTACATGGGGC
1 TTACAT--AAC
*
63746067 ATACATAA-
1 TTACATAAC
63746075 -TACATAA-
1 TTACATAAC
*
63746082 -TACAGAAC
1 TTACATAAC
63746090 TTACATAAC
1 TTACATAAC
63746099 TTACATAA
1 TTACATAA
63746107 TACATAAAAA
Statistics
Matches: 407, Mismatches: 92, Indels: 50
0.74 0.17 0.09
Matches are distributed among these distances:
6 1 0.00
7 21 0.05
8 15 0.04
9 354 0.87
10 10 0.02
11 6 0.01
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:63745604 original size:27 final size:27
Alignment explanation
Indices: 63745574--63746061 Score: 478
Period size: 27 Copynumber: 17.6 Consensus size: 27
63745564 ATTTGGTTAA
63745574 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
63745601 TTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATAAC
*
63745628 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
63745655 TTGCATAACTTACGTAAATTAAGTTAATTAAATAAC
1 TTACATAACTTAC----A-T-A---AATTAAATAAC
* *
63745691 TTACATAAATTA-AGTAAATTAAATATC
1 TTACATAACTTACA-TAAATTAAATAAC
* *
63745718 TTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATAAC
*
63745745 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
* * *
63745772 TTGCATAACTTACGTAAATTAAGTAA-
1 TTACATAACTTACATAAATTAAATAAC
*
63745798 TTA-ATAACTTACATAATAAGTAAATTAAATATC
1 TTACATAACTTAC------A-TAAATTAAATAAC
* * *
63745831 TTGCATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATAAC
*
63745858 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
* *
63745885 TTGCATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
63745912 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
* *
63745939 TTACATAACTTACATAAATTAAGTAAA
1 TTACATAACTTACATAAATTAAATAAC
* * * *
63745966 TTAAATAACTTACATAACTTACATAAA
1 TTACATAACTTACATAAATTAAATAAC
* * *
63745993 TTACATAACTTACATAACTTACATAAA
1 TTACATAACTTACATAAATTAAATAAC
* * * * * *
63746020 TTAAATATCTTACATTACTTATATAGC
1 TTACATAACTTACATAAATTAAATAAC
*
63746047 TTACATTACTTACAT
1 TTACATAACTTACAT
63746062 GGGGCATACA
Statistics
Matches: 389, Mismatches: 53, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.02
26 2 0.01
27 329 0.85
28 2 0.01
30 1 0.00
31 3 0.01
32 11 0.03
33 3 0.01
34 9 0.02
36 20 0.05
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:63745643 original size:54 final size:54
Alignment explanation
Indices: 63745574--63746061 Score: 554
Period size: 54 Copynumber: 8.8 Consensus size: 54
63745564 ATTTGGTTAA
*
63745574 TTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
* *
63745628 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACGTAAATTAAGTTAA-
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAG-TAAT
*
63745682 TTAAATAACTTACATAAATTAAGTAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTAC--------A-TAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
* *
63745745 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACGTAAATTAAGTAA-
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
*
63745798 TTA-ATAACTTACATAATAAGTAAATTAAATATCTTGCATAACTTACATAAATTAAGTAAT
1 TTACATAACTTAC------A-TAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
* *
63745858 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAAT-AT
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
*
63745911 CTTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAA
1 -TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
* * * ** * *
63745966 TTAAATAACTTACATAACTTACATAAATTACATAACTTACATAACTTACA-TAAA
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTA-AGTAAT
* * * * * * *
63746020 TTAAATATCTTACATTACTTATATAGCTTACATTACTTACAT
1 TTACATAACTTACATAAATTAAATATCTTACATAACTTACAT
63746062 GGGGCATACA
Statistics
Matches: 385, Mismatches: 26, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
52 9 0.02
53 5 0.01
54 263 0.68
55 7 0.02
58 1 0.00
59 38 0.10
60 3 0.01
61 9 0.02
62 4 0.01
63 46 0.12
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (54 bp):
TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAAATTAAGTAAT
Found at i:63751636 original size:21 final size:21
Alignment explanation
Indices: 63751611--63751706 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
63751601 CAGCAACTTA
** *
63751611 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCAACAGCGAGAG
* *
63751632 AAGCAGAGGCTACAGCAAGAG
1 AAGCAGAGGCAACAGCGAGAG
* *
63751653 AAGCAGATGCCACAGCGAGAG
1 AAGCAGAGGCAACAGCGAGAG
63751674 AAGCAGCGAGAG-AAGCAGCGAGAG
1 AAGCA--GAG-GCAA-CAGCGAGAG
63751698 AAGCAGAGG
1 AAGCAGAGG
63751707 TTCAAAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
21 41 0.66
22 3 0.05
23 3 0.05
24 15 0.24
ACGTcount: A:0.39, C:0.19, G:0.41, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAACAGCGAGAG
Found at i:63751682 original size:12 final size:12
Alignment explanation
Indices: 63751665--63751703 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
63751655 GCAGATGCCA
63751665 CAGCGAGAGAAG
1 CAGCGAGAGAAG
63751677 CAGCGAGAGAAG
1 CAGCGAGAGAAG
63751689 CAGCGAGAGAAG
1 CAGCGAGAGAAG
63751701 CAG
1 CAG
63751704 AGGTTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.41, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:63752225 original size:43 final size:41
Alignment explanation
Indices: 63752122--63752410 Score: 325
Period size: 41 Copynumber: 6.9 Consensus size: 41
63752112 GTTTGTGAAA
**
63752122 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TC
* * * *
63752164 GAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TT-C
* *
63752207 AAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTATTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTC
63752248 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTC
* * *
63752291 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCCTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
*
63752332 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC
* * *
63752374 TAAGCACCGCTAAAGAACATGAGCCTTAGCGGCGTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
63752411 CTTTATGTAA
Statistics
Matches: 218, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
41 75 0.34
42 72 0.33
43 69 0.32
44 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:63752265 original size:41 final size:42
Alignment explanation
Indices: 63752122--63752432 Score: 353
Period size: 42 Copynumber: 7.4 Consensus size: 42
63752112 GTTTGTGAAA
***
63752122 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * * *
63752164 GAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* * *
63752207 AAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTATTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
63752248 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTC
* *
63752291 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCCTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
63752332 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * * *
63752374 TAAGCACCGCTAAAGAACATGAGCCTTAGCGGCGTTTCTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-TC
*
63752418 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
63752433 TTAGCGACGT
Statistics
Matches: 236, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 73 0.31
42 81 0.34
43 67 0.28
44 15 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:63760788 original size:18 final size:18
Alignment explanation
Indices: 63760742--63760788 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
63760732 GCTTGCTTAA
*
63760742 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
63760759 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
63760777 TAATTTT-TTTAT
1 T-ATTTTATTTAT
63760789 CTGACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:63761184 original size:16 final size:16
Alignment explanation
Indices: 63761139--63761186 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
63761129 AAAGTTATCA
63761139 AAAAAAGTACAAAAAAAT
1 AAAAAA-TA-AAAAAAAT
* **
63761157 AAAACACGAAAAAAAT
1 AAAAAATAAAAAAAAT
63761173 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
63761187 TATTATGTGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 19 0.79
18 5 0.21
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.08
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:63806744 original size:87 final size:86
Alignment explanation
Indices: 63806612--63806780 Score: 259
Period size: 87 Copynumber: 2.0 Consensus size: 86
63806602 TGGGTTTTGG
*
63806612 TCAAGTTGCAATTATCCTAGTAAACAATTTGCAAGCTTCTCTTTTTCCCTAATTGGAGTTTATAT
1 TCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCTCTTTTTCCCTAATTGGAGTTTATAT
*
63806677 TGTTTAGAGATTTGGATGAGTGA
66 TATTT--AGATTTGGATGAGTGA
* * * *
63806700 TCAAGTTGCAATTATCCAAGTACAGAA-TTGCAAGTTTCTCTTTTTCCCTATTTGGAGTTTATAT
1 TCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCTCTTTTTCCCTAATTGGAGTTTATAT
63806764 TATTTAGATTTGGATGA
66 TATTTAGATTTGGATGA
63806781 TTGGGGGATT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 12 0.16
87 39 0.52
88 24 0.32
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (86 bp):
TCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCTCTTTTTCCCTAATTGGAGTTTATAT
TATTTAGATTTGGATGAGTGA
Found at i:63812993 original size:22 final size:22
Alignment explanation
Indices: 63812968--63813012 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
63812958 TTTAATAAAG
63812968 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
63812990 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
63813012 A
1 A
63813013 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:63816770 original size:22 final size:22
Alignment explanation
Indices: 63816745--63816789 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
63816735 TTTAATAAAG
63816745 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
63816767 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
63816789 A
1 A
63816790 CATGAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:63821400 original size:31 final size:31
Alignment explanation
Indices: 63821365--63821435 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
63821355 GAATATAGGA
* *
63821365 TGCCGAATTTGATTTATGTATGATTATACAT
1 TGCCGAATTTGATTCATGAATGATTATACAT
* * *
63821396 TGCCGAACTTGATTCGTGAATGGTTATACAT
1 TGCCGAATTTGATTCATGAATGATTATACAT
63821427 TGCCGAATT
1 TGCCGAATT
63821436 GTTGGGTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (31 bp):
TGCCGAATTTGATTCATGAATGATTATACAT
Found at i:63821427 original size:184 final size:185
Alignment explanation
Indices: 63821118--63821474 Score: 504
Period size: 184 Copynumber: 1.9 Consensus size: 185
63821108 GTTTTATACC
* * * * *
63821118 TTGCTGAAATTAAATTGTACATGGTTATATATTTTCGATATTGAATTGTTTATGTATATATGATG
1 TTGCTGAAATTAAATTATACATGGTTATATATTGTCAATATTGAATTGTTTATGAATATAGGATG
* * * *
63821183 CCGAATTGGATTTGTATTTGATTATACATTATCAAACTTGATTCGTGTATGGCTATACATTGCCA
66 CCGAATTGGATTTATATATGATTATACATTACCAAACTTGATTCGTGAATGGCTATACATTGCCA
* **
63821248 AATTGTTTGGTATATGGATA-TAAGTTGCTGAATT-GATTCGTACAGGGTTGTACA
131 AATTGTTGGGTATATCAATATTAA-TTGCTGAATTGGATTCGTACAGGGTTGTACA
63821302 TTGCTGAAATT-AATTCATACATGGTTATATATTGTCAATATTGAATTGTTTATGAATATAGGAT
1 TTGCTGAAATTAAATT-ATACATGGTTATATATTGTCAATATTGAATTGTTTATGAATATAGGAT
* * * * *
63821366 GCCGAATTTGATTTATGTATGATTATACATTGCCGAACTTGATTCGTGAATGGTTATACATTGCC
65 GCCGAATTGGATTTATATATGATTATACATTACCAAACTTGATTCGTGAATGGCTATACATTGCC
* *
63821431 GAATTGTTGGGTATATCAATATTCATTGCTGAATTGGATTCGTA
130 AAATTGTTGGGTATATCAATATTAATTGCTGAATTGGATTCGTA
63821475 TATGAATATA
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
183 4 0.03
184 137 0.91
185 10 0.07
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (185 bp):
TTGCTGAAATTAAATTATACATGGTTATATATTGTCAATATTGAATTGTTTATGAATATAGGATG
CCGAATTGGATTTATATATGATTATACATTACCAAACTTGATTCGTGAATGGCTATACATTGCCA
AATTGTTGGGTATATCAATATTAATTGCTGAATTGGATTCGTACAGGGTTGTACA
Found at i:63824095 original size:20 final size:21
Alignment explanation
Indices: 63824070--63824109 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
63824060 AATATATATA
63824070 TATAATTTGTTTTTA-AAAAG
1 TATAATTTGTTTTTATAAAAG
63824090 TATAATTTGTTTTTATAAAA
1 TATAATTTGTTTTTATAAAA
63824110 TTAACCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TATAATTTGTTTTTATAAAAG
Found at i:63829407 original size:11 final size:12
Alignment explanation
Indices: 63829381--63829411 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63829371 CATTGCCTTA
63829381 TTTTAAAATTAT
1 TTTTAAAATTAT
*
63829393 TTTTAAAATTTT
1 TTTTAAAATTAT
63829405 TTTTAAA
1 TTTTAAA
63829412 GGATATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:63829531 original size:10 final size:11
Alignment explanation
Indices: 63829502--63829532 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
63829492 AAACATTGCC
63829502 TTATTTTAAAA
1 TTATTTTAAAA
63829513 TTATTTTAAAA
1 TTATTTTAAAA
63829524 TT-TTTTAAA
1 TTATTTTAAA
63829533 GGATATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:63829602 original size:121 final size:123
Alignment explanation
Indices: 63829313--63829610 Score: 557
Period size: 121 Copynumber: 2.4 Consensus size: 123
63829303 CGGTTAAATA
63829313 AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCC
1 AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCC
63829378 TTATTTTAAAATTATTTTTAAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTAAGCG
66 TTATTTTAAAATTATTTTTAAAA-TTTTTTTAAAGGATATTAAGCCATTTGGTTAAGCG
*
63829437 AGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCC
1 AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCC
63829502 TTATTTTAAAATTA-TTTTAAAA-TTTTTTAAAGGATATTAAGCCATTTGGTTAAGCG
66 TTATTTTAAAATTATTTTTAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTAAGCG
63829558 AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTT-CCAAACGC
1 AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGC
63829611 TAAGTATTGC
Statistics
Matches: 172, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
120 8 0.05
121 78 0.45
123 8 0.05
124 78 0.45
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (123 bp):
AGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCC
TTATTTTAAAATTATTTTTAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTAAGCG
Found at i:63830091 original size:40 final size:38
Alignment explanation
Indices: 63830015--63830094 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
63830005 TATCATAAAA
* *
63830015 AAGTATATATATATATAAAATATAAAAAGTATATATAT
1 AAGTATATATATATATAAAATATAAAAAGAACATATAT
*
63830053 AAGTATATATATGAATCATAAAA-ATATAAAGAACATATAT
1 AAGTATATATAT--AT-ATAAAATATAAAAAGAACATATAT
63830093 AA
1 AA
63830095 AATACGTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 12 0.33
40 18 0.50
41 6 0.17
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (38 bp):
AAGTATATATATATATAAAATATAAAAAGAACATATAT
Found at i:63830091 original size:42 final size:38
Alignment explanation
Indices: 63830015--63830093 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 38
63830005 TATCATAAAA
*
63830015 AAGTATATATATATATAAAATATAAAAAGTATATATAT
1 AAGTATATATATATATAAAATATAAAAAGCATATATAT
63830053 AAGTATATATATGAATCATAAAAATATAAAGAA-CATATATA
1 AAGTATATATAT--AT-AT-AAAATATAAA-AAGCATATATA
63830094 AAATACGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
38 12 0.34
40 2 0.06
41 2 0.06
42 17 0.49
43 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (38 bp):
AAGTATATATATATATAAAATATAAAAAGCATATATAT
Found at i:63830385 original size:3 final size:3
Alignment explanation
Indices: 63830371--63830426 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
63830361 AAATACGATG
* * * *
63830371 ATA ATA AAA ATA ATA TTAA ATA ATA ATA ATA ATA ATA CTA ATGA ACA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
63830418 A-A ATA ATA A
1 ATA ATA ATA A
63830427 AAATGCTACA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
2 2 0.05
3 37 0.86
4 4 0.09
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:63832670 original size:48 final size:48
Alignment explanation
Indices: 63832598--63832693 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
63832588 TTTCTTTGCT
* **
63832598 TAAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAAGATTCAACAG
1 TAAAAAAGCCTAAGTCAGCCTAACTCACAATGATAAAAGATTCAACAG
* *
63832646 TAAAAAAGCCTAAGTCAGCTTAACTCACAATGATAAAGGATTCAACAG
1 TAAAAAAGCCTAAGTCAGCCTAACTCACAATGATAAAAGATTCAACAG
63832694 AATTCCCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.21
Consensus pattern (48 bp):
TAAAAAAGCCTAAGTCAGCCTAACTCACAATGATAAAAGATTCAACAG
Found at i:63837804 original size:48 final size:48
Alignment explanation
Indices: 63837732--63837827 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
63837722 TTTCTTTGCT
* *
63837732 TAAAAATGCCTAAGTCAGCCTAACTTGCAATGATAAAAGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAG
* *
63837780 TAAAAACGCCTAAGTCAGCTTAACTCGCAATGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAG
63837828 AATTCCTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAG
Found at i:63841668 original size:18 final size:17
Alignment explanation
Indices: 63841629--63841871 Score: 139
Period size: 17 Copynumber: 13.6 Consensus size: 17
63841619 CGAGATTTTT
63841629 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
63841647 TTTTCAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* **
63841664 TTTTTAAAAATACGAGGA
1 TTTTT-AAAACACGAAAA
* *
63841682 TTTTTGAAATACGCAAAA
1 TTTTTAAAACACG-AAAA
* *
63841700 TTTTGAAAACACAAAAA
1 TTTTTAAAACACGAAAA
* * *
63841717 TTTTTGAAATACGAACA
1 TTTTTAAAACACGAAAA
*
63841734 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
*
63841751 TTTTTAAAACACGACAA
1 TTTTTAAAACACGAAAA
*
63841768 TTTTTGAAACACGAGAAAAA
1 TTTTTAAAACAC--G-AAAA
** * * *
63841788 AGTTTAGAAATATGGAAA
1 TTTTTA-AAACACGAAAA
63841806 TTTTTAGAAAACACGAAAAA
1 TTTTT--AAAACACG-AAAA
* * * *
63841826 TTTTGAAAA-ATGGAAT
1 TTTTTAAAACACGAAAA
*
63841842 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
63841860 TTTTTGAAAACA
1 TTTTT-AAAACA
63841872 TGAATTTTTT
Statistics
Matches: 167, Mismatches: 45, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
16 10 0.06
17 73 0.44
18 59 0.35
19 7 0.04
20 14 0.08
21 4 0.02
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:63841723 original size:35 final size:34
Alignment explanation
Indices: 63841630--63841868 Score: 158
Period size: 35 Copynumber: 6.8 Consensus size: 34
63841620 GAGATTTTTT
** *
63841630 TTTTGAAAACACGAAAATTTTCAAAACACGAAAA
1 TTTTGAAAACACGAAAATTTTTGAAATACGAAAA
* * **
63841664 TTTTTAAAAATACGAGGATTTTTGAAATACGCAAAA
1 -TTTTGAAAACACGAAAATTTTTGAAATACG-AAAA
* *
63841700 TTTTGAAAACACAAAAATTTTTGAAATACGAACA
1 TTTTGAAAACACGAAAATTTTTGAAATACGAAAA
* * * *
63841734 TTTT-AGAAACATGAAAATTTTTAAAACACGACAAT
1 TTTTGA-AAACACGAAAATTTTTGAAATACGA-AAA
* * * *
63841769 TTTTG-AAACACGAGAAAAAAGTTTAGAAATATGGAAAT
1 TTTTGAAAACAC--G--AAAATTTTTGAAATA-CGAAAA
* * * **
63841807 TTTTAGAAAACACGAAAAATTTTGAAAAATGGAATT
1 TTTT-GAAAACACGAAAATTTTTGAAATA-CGAAAA
*
63841843 TTTTGAAAACACGAGAATTTTTGAAA
1 TTTTGAAAACACGAAAATTTTTGAAA
63841869 ACATGAATTT
Statistics
Matches: 162, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
33 1 0.01
34 33 0.20
35 73 0.45
36 27 0.17
38 19 0.12
39 3 0.02
40 6 0.04
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAATACGAAAA
Found at i:63841869 original size:35 final size:35
Alignment explanation
Indices: 63841784--63841881 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 35
63841774 AAACACGAGA
* * *
63841784 AAAAAGTTTAGAAATATGGAAATTTTTAGAAAACACG
1 AAAAA-TTTTGAAAAATGG-AATTTTTTGAAAACACG
63841821 AAAAATTTTGAAAAATGGAATTTTTTGAAAACACG
1 AAAAATTTTGAAAAATGGAATTTTTTGAAAACACG
* *
63841856 AGAATTTTTGAAAACAT-GAATTTTTT
1 AAAAATTTTGAAAA-ATGGAATTTTTT
63841882 TTTGATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 37 0.67
36 13 0.24
37 5 0.09
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (35 bp):
AAAAATTTTGAAAAATGGAATTTTTTGAAAACACG
Found at i:63841882 original size:18 final size:17
Alignment explanation
Indices: 63841826--63841881 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
63841816 ACACGAAAAA
63841826 TTTTGAAAA-ATGGAATT
1 TTTTGAAAACAT-GAATT
* *
63841843 TTTTGAAAACACGAGAAT
1 TTTTGAAAACATGA-ATT
63841861 TTTTGAAAACATGAATT
1 TTTTGAAAACATGAATT
63841878 TTTT
1 TTTT
63841882 TTTGATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (17 bp):
TTTTGAAAACATGAATT
Found at i:63842010 original size:19 final size:18
Alignment explanation
Indices: 63841986--63842046 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 18
63841976 TCGTTACCTT
63841986 ATTTTTGAAAACACGAGAA
1 ATTTTTGAAAACACGAG-A
*
63842005 ATTTTTTTGAAGACACGAGA
1 A--TTTTTGAAAACACGAGA
* *
63842025 A-TTTTG-AAACCCGAGG
1 ATTTTTGAAAACACGAGA
63842041 ATTTTT
1 ATTTTT
63842047 TTTGAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.23
17 9 0.26
19 1 0.03
20 2 0.06
21 15 0.43
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (18 bp):
ATTTTTGAAAACACGAGA
Found at i:63842027 original size:20 final size:21
Alignment explanation
Indices: 63841987--63842029 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
63841977 CGTTACCTTA
63841987 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGAGAAATT
*
63842008 TTTTTGAAGACACGAG-AATT
1 TTTTTGAAAACACGAGAAATT
63842028 TT
1 TT
63842030 GAAACCCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (21 bp):
TTTTTGAAAACACGAGAAATT
Found at i:63842215 original size:17 final size:16
Alignment explanation
Indices: 63842193--63842230 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
63842183 TTAAAAGTAT
63842193 TTAAAATAGAATTAAAA
1 TTAAAATAGAATT-AAA
*
63842210 TTAAAATTGAATTAAA
1 TTAAAATAGAATTAAA
63842226 TTAAA
1 TTAAA
63842231 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
TTAAAATAGAATTAAA
Found at i:63842394 original size:10 final size:10
Alignment explanation
Indices: 63842380--63842499 Score: 75
Period size: 9 Copynumber: 12.7 Consensus size: 10
63842370 CAAATTAGAG
*
63842380 TCTTTTTTTG
1 TCTTTTTTTC
63842390 TC--TTTTTC
1 TCTTTTTTTC
63842398 TCTTTTTTT-
1 TCTTTTTTTC
63842407 TCTTTTTTTC
1 TCTTTTTTTC
63842417 TCTTTTTTT-
1 TCTTTTTTTC
63842426 T-TTCTTTTTC
1 TCTT-TTTTTC
*
63842436 -CTTCTTTT-
1 TCTTTTTTTC
63842444 TC-TTTTTTC
1 TCTTTTTTTC
63842453 T-TTTTTGCTT-
1 TCTTTTT--TTC
*
63842463 TCTTTCTCTTTT
1 TCTTT-T-TTTC
*
63842475 TCTTTCTTTC
1 TCTTTTTTTC
63842485 T-TTTTTTT-
1 TCTTTTTTTC
63842493 TCTTTTT
1 TCTTTTT
63842500 GGCCTGTTGG
Statistics
Matches: 88, Mismatches: 6, Indels: 33
0.69 0.05 0.26
Matches are distributed among these distances:
8 15 0.17
9 36 0.41
10 23 0.26
11 7 0.08
12 6 0.07
13 1 0.01
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:63842401 original size:8 final size:8
Alignment explanation
Indices: 63842384--63842499 Score: 75
Period size: 8 Copynumber: 14.6 Consensus size: 8
63842374 TTAGAGTCTT
*
63842384 TTTTTGTC
1 TTTTTCTC
63842392 TTTTTCTC
1 TTTTTCTC
*
63842400 TTTTTTTTC
1 -TTTTTCTC
*
63842409 TTTTTTTC
1 TTTTTCTC
63842417 TCTTTT-T-
1 T-TTTTCTC
63842424 TTTTTCT-
1 TTTTTCTC
*
63842431 TTTTCCTTC
1 TTTTTC-TC
63842440 TTTTTCT-
1 TTTTTCTC
63842447 TTTTTCT-
1 TTTTTCTC
63842454 TTTTTGCT-
1 TTTTT-CTC
63842462 TTCTTTCTC
1 TT-TTTCTC
63842471 TTTTTCT-
1 TTTTTCTC
*
63842478 TTCTTTCTT
1 TT-TTTCTC
*
63842487 TTTTTTTC
1 TTTTTCTC
63842495 TTTTT
1 TTTTT
63842500 GGCCTGTTGG
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
6 4 0.04
7 21 0.23
8 44 0.48
9 23 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTCTC
Found at i:63842405 original size:17 final size:17
Alignment explanation
Indices: 63842383--63842475 Score: 77
Period size: 17 Copynumber: 5.3 Consensus size: 17
63842373 ATTAGAGTCT
63842383 TTTTTTGTCTTTTTCTC
1 TTTTTTGTCTTTTTCTC
*
63842400 TTTTTTTTCTTTTTTTCTC
1 TTTTTTGTC--TTTTTCTC
*
63842419 TTTTTTTTTTCTTTTTC-C
1 --TTTTTTGTCTTTTTCTC
63842437 TTCTTTT-TCTTTTT-TC
1 TT-TTTTGTCTTTTTCTC
63842453 TTTTTTG-CTTTCTTTCTC
1 TTTTTTGTC-TT-TTTCTC
63842471 TTTTT
1 TTTTT
63842476 CTTTCTTTCT
Statistics
Matches: 65, Mismatches: 1, Indels: 19
0.76 0.01 0.22
Matches are distributed among these distances:
15 5 0.08
16 14 0.22
17 15 0.23
18 8 0.12
19 14 0.22
21 9 0.14
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTGTCTTTTTCTC
Found at i:63842406 original size:19 final size:18
Alignment explanation
Indices: 63842380--63842499 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 18
63842370 CAAATTAGAG
*
63842380 TCTTTTTTTGTCTTTTTC
1 TCTTTTTTTTTCTTTTTC
*
63842398 TCTTTTTTTTCTTTTTTTC
1 TCTTTTTTTT-TCTTTTTC
63842417 TCTTTTTTTTTTCTTTTTC
1 TC-TTTTTTTTTCTTTTTC
*
63842436 -C-TTCTTTTTCTTTTT-
1 TCTTTTTTTTTCTTTTTC
63842451 TCTTTTTTGCTTTC--TTTC
1 TCTTTTTT--TTTCTTTTTC
*
63842469 TCTTTTTCTTTC---TT-
1 TCTTTTTTTTTCTTTTTC
63842483 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
63842500 GGCCTGTTGG
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
14 11 0.13
15 2 0.02
16 18 0.21
17 9 0.11
18 17 0.20
19 20 0.24
20 8 0.09
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TCTTTTTTTTTCTTTTTC
Found at i:63842412 original size:16 final size:16
Alignment explanation
Indices: 63842380--63842498 Score: 84
Period size: 18 Copynumber: 6.9 Consensus size: 16
63842370 CAAATTAGAG
63842380 TCTTTTTTTGTCTTTTTC
1 TCTTTTTTT-TC-TTTTC
63842398 TCTTTTTTTTCTTTTTTTC
1 TCTTTTTTTTC---TTTTC
63842417 TCTTTTTTTTTTCTTTT-
1 TC--TTTTTTTTCTTTTC
* *
63842434 TCCTTCTTTTTCTTTTT
1 T-CTTTTTTTTCTTTTC
63842451 TCTTTTTTGCTT-TCTTTC
1 TCTTTTTT--TTCT-TTTC
63842469 TCTTTTTCTTTC-TTTC
1 TCTTTTT-TTTCTTTTC
63842485 T-TTTTTTTTCTTTT
1 TCTTTTTTTTCTTTT
63842499 TGGCCTGTTG
Statistics
Matches: 86, Mismatches: 3, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
14 4 0.05
15 8 0.09
16 23 0.27
17 7 0.08
18 26 0.30
19 9 0.10
21 9 0.10
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (16 bp):
TCTTTTTTTTCTTTTC
Found at i:63842654 original size:19 final size:17
Alignment explanation
Indices: 63842614--63842657 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
63842604 TCTTTTCCCT
63842614 CTTTTTTTTGCTGTTTA
1 CTTTTTTTTGCTGTTTA
* *
63842631 TTTTTTTTTGCTTTGTTTG
1 CTTTTTTTTGC--TGTTTA
63842650 CTTTTTTT
1 CTTTTTTT
63842658 GAGTTGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.77
Consensus pattern (17 bp):
CTTTTTTTTGCTGTTTA
Found at i:63842735 original size:21 final size:18
Alignment explanation
Indices: 63842690--63842740 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
63842680 TGGGCTTGCT
*
63842690 GGGTCGGGTTGGGTCACC
1 GGGTCGGGTCGGGTCACC
*
63842708 GGATCGGGTCGGGTCAGACCC
1 GGGTCGGGTCGGGTC--A-CC
63842729 GGGTCGGGTCGG
1 GGGTCGGGTCGG
63842741 TTTGACCCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.48
20 1 0.04
21 13 0.48
ACGTcount: A:0.08, C:0.24, G:0.51, T:0.18
Consensus pattern (18 bp):
GGGTCGGGTCGGGTCACC
Found at i:63842802 original size:3 final size:3
Alignment explanation
Indices: 63842790--63842841 Score: 59
Period size: 3 Copynumber: 15.7 Consensus size: 3
63842780 TTCCTTTCCC
63842790 TCT TCTT TCT TCT TCT CTCTT TCTT TCT TCT TCT TCT TCT ATCT TCT
1 TCT TC-T TCT TCT TCT -TC-T TC-T TCT TCT TCT TCT TCT -TCT TCT
63842837 TCT TC
1 TCT TC
63842842 AAAACCGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 30 0.67
4 14 0.31
5 1 0.02
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:63842805 original size:10 final size:10
Alignment explanation
Indices: 63842790--63842841 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
63842780 TTCCTTTCCC
63842790 TCTTCTTTCT
1 TCTTCTTTCT
*
63842800 TCTTCTCTC-
1 TCTTCTTTCT
63842809 T-TTCTTTCT
1 TCTTCTTTCT
63842818 TCTTC-TTCT
1 TCTTCTTTCT
63842827 TCTATC-TTCT
1 TCT-TCTTTCT
63842837 TCTTC
1 TCTTC
63842842 AAAACCGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 6 0.16
9 11 0.30
10 20 0.54
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:63842834 original size:13 final size:13
Alignment explanation
Indices: 63842790--63842841 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 13
63842780 TTCCTTTCCC
63842790 TCTTCTTTCTTCT
1 TCTTCTTTCTTCT
63842803 TCTCTCTTTCTTTCT
1 TCT-TCTTTC-TTCT
63842818 TCTTC-TTCTTCT
1 TCTTCTTTCTTCT
63842830 ATCTTC-TTCTTC
1 -TCTTCTTTCTTC
63842842 AAAACCGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.11
13 17 0.47
14 8 0.22
15 7 0.19
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (13 bp):
TCTTCTTTCTTCT
Found at i:63843238 original size:29 final size:28
Alignment explanation
Indices: 63843197--63843276 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 28
63843187 GAATTTTGAG
*
63843197 AAAATTTAGGGGTCAAAATGTAATTTCA
1 AAAAGTTAGGGGTCAAAATGTAATTTCA
63843225 AAAAGTTAGTGGGTCAAAATGTAATTTCA
1 AAAAGTTAG-GGGTCAAAATGTAATTTCA
63843254 AAAAGTTTAGGGGTCAAAATGTA
1 AAAAG-TTAGGGGTCAAAATGTA
63843277 TTTTTTGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 8 0.16
29 37 0.76
30 4 0.08
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (28 bp):
AAAAGTTAGGGGTCAAAATGTAATTTCA
Found at i:63843303 original size:16 final size:15
Alignment explanation
Indices: 63843275--63843317 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
63843265 GGTCAAAATG
63843275 TATTTTTTGAATTTT
1 TATTTTTTGAATTTT
*
63843290 TATTTTTTGAA--AT
1 TATTTTTTGAATTTT
63843303 T-TTTTTTGAATTTT
1 TATTTTTTGAATTTT
63843317 T
1 T
63843318 TTTAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 2 0.08
15 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TATTTTTTGAATTTT
Found at i:63843309 original size:12 final size:12
Alignment explanation
Indices: 63843292--63843324 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
63843282 TGAATTTTTA
63843292 TTTTTTGAAATT
1 TTTTTTGAAATT
63843304 TTTTTTG-AATT
1 TTTTTTGAAATT
63843315 TTTTTT-AAAT
1 TTTTTTGAAAT
63843325 ATATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTTTTTGAAATT
Found at i:63845718 original size:41 final size:41
Alignment explanation
Indices: 63845671--63845753 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
63845661 CAAATTTATG
*
63845671 AAAAAATATCAATATAAAAAGATAATACACTAGAAAGATAA
1 AAAAAATATCAATACAAAAAGATAATACACTAGAAAGATAA
* * *
63845712 AAAAAATATCAATACAAAGAGATAGTACACTTGAAAGATAA
1 AAAAAATATCAATACAAAAAGATAATACACTAGAAAGATAA
63845753 A
1 A
63845754 TGAGAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.19
Consensus pattern (41 bp):
AAAAAATATCAATACAAAAAGATAATACACTAGAAAGATAA
Found at i:63851151 original size:15 final size:15
Alignment explanation
Indices: 63851116--63851167 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
63851106 ATTAAGAATT
*
63851116 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63851130 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63851144 TATTTAATAATAAT-
1 TATTTAATTATAATA
63851158 TATGTTAATT
1 TAT-TTAATT
63851168 TAAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63851189 original size:119 final size:120
Alignment explanation
Indices: 63851066--63851283 Score: 411
Period size: 120 Copynumber: 1.8 Consensus size: 120
63851056 AACACGATTT
*
63851066 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA-TTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
63851130 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
66 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
*
63851185 TATATTATGATTTGAGTAAATTCATATAAGAATACTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
63851250 TTTTAATTATAATATATTTAATAATAATTATGTT
66 TTTTAATTATAATATATTTAATAATAATTATGTT
63851284 TAAATATGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 46 0.48
120 50 0.52
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATACTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTTATAGTATCA
Found at i:63851266 original size:16 final size:16
Alignment explanation
Indices: 63851245--63851286 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63851235 TTATTAAATT
*
63851245 ATATATTTTAATTATA
1 ATATATTTTAATAATA
63851261 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
63851276 AT-TATGTTTAA
1 ATATAT-TTTAA
63851287 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:63851271 original size:15 final size:15
Alignment explanation
Indices: 63851236--63851277 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
63851226 TTAAGAATTT
*
63851236 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63851250 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63851264 TATTTAATAATAAT
1 TATTTAATTATAAT
63851278 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63851512 original size:45 final size:43
Alignment explanation
Indices: 63851412--63851521 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 43
63851402 TTTTCCATTA
63851412 TGCTATTACACCTCTATT-C---CATTCAACCAAACATAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACATAAGAT
* * *
63851451 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGT-TGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACA-TAAGA-T
63851496 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
63851522 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.41
46 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACATAAGAT
Found at i:63851523 original size:16 final size:16
Alignment explanation
Indices: 63851502--63851569 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
63851492 GATTTGCTAT
*
63851502 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
63851518 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
63851534 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63851550 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63851566 TACA
1 TACA
63851570 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63854372 original size:18 final size:19
Alignment explanation
Indices: 63854349--63854390 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
63854339 TTTTTAAAAT
63854349 TAATTAATTTCA-ATA-ATG
1 TAATTAATTT-ATATATATG
63854367 TAATT-ATTTATATATATG
1 TAATTAATTTATATATATG
63854385 TAATTA
1 TAATTA
63854391 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 7 0.33
18 13 0.62
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (19 bp):
TAATTAATTTATATATATG
Found at i:63854432 original size:27 final size:27
Alignment explanation
Indices: 63854370--63854432 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
63854360 AATAATGTAA
63854370 TTATTTATATATATGTAATTATTATTT
1 TTATTTATATATATGTAATTATTATTT
*
63854397 TTATCTATATATATGT-ATATATTTATTT
1 TTATTTATATATATGTAAT-TA-TTATTT
63854425 TT-TTTATA
1 TTATTTATA
63854433 AGTGTACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 22 0.69
28 8 0.25
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (27 bp):
TTATTTATATATATGTAATTATTATTT
Found at i:63857336 original size:18 final size:19
Alignment explanation
Indices: 63857315--63857366 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
63857305 ATTATTATCG
63857315 TTATTATTATATT-TATTT
1 TTATTATTATATTATATTT
63857333 TTA-TA-TATATGTATATTT
1 TTATTATTATAT-TATATTT
*
63857351 TTATGATTACTATTAT
1 TTATTATTA-TATTAT
63857367 TATGCCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 11 0.39
19 1 0.04
20 5 0.18
21 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTATTATTATATTATATTT
Found at i:63857365 original size:42 final size:42
Alignment explanation
Indices: 63857274--63857366 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
63857264 GTCTTATTAC
63857274 TACTATTATATTATATCATTAATATAGTATTATTATTATCGT
1 TACTATTATATTATATCATTAATATAGTATTATTATTATCGT
* ** *
63857316 TATTATTATATT-TATTTTTATATATATGTA-TATTTTTAT-GAT
1 TACTATTATATTATATCATTA-ATATA-GTATTATTATTATCG-T
63857358 TACTATTAT
1 TACTATTAT
63857367 TATGCCATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 7 0.16
42 33 0.77
43 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (42 bp):
TACTATTATATTATATCATTAATATAGTATTATTATTATCGT
Found at i:63857789 original size:15 final size:17
Alignment explanation
Indices: 63857755--63857790 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
63857745 AAATTATTGA
*
63857755 ATAACATATATATATTT
1 ATAACATATATATATAT
*
63857772 ATAACATATATAAATAT
1 ATAACATATATATATAT
63857789 AT
1 AT
63857791 CATAAATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAACATATATATATAT
Found at i:63859217 original size:68 final size:64
Alignment explanation
Indices: 63859101--63859247 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 64
63859091 ATTGCTTACC
63859101 TATAAAAACGCCGCTAAATATTTTCCTATATTTTTTAAAGTAAAATTA-TTTTTGTGGCGTTTTT
1 TATAAAAACGCCGCTAAATATTTTCCTATATTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTT
*
63859165 TATAAAAACGCCGCTAAATGTTTTGCTGCGCTAT-TTTTTTAAAGTAAAATTATTTTTTGTGGCG
1 TATAAAAACGCCGCTAAAT-ATTT--T-C-CTATATTTTTTAAAGTAAAATTATTTTTTGTGGCG
63859229 TTTT
61 TTTT
*
63859233 TATTTAAAACGCCGC
1 TA-TAAAAACGCCGC
63859248 AAAAAATTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
64 19 0.26
65 3 0.04
67 1 0.01
68 25 0.34
69 26 0.35
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (64 bp):
TATAAAAACGCCGCTAAATATTTTCCTATATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTT
Found at i:63860158 original size:28 final size:29
Alignment explanation
Indices: 63860116--63860170 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
63860106 CCGAATCTCT
* * *
63860116 AAACCCTAAATCACTAA-CTCTTAACCCC
1 AAACCCCAAACCACTAACCTCTAAACCCC
63860144 AAACCCCAAACCACTAACCTCTAAACC
1 AAACCCCAAACCACTAACCTCTAAACC
63860171 TTATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (29 bp):
AAACCCCAAACCACTAACCTCTAAACCCC
Found at i:63860250 original size:89 final size:89
Alignment explanation
Indices: 63860139--63860313 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 89
63860129 CTAACTCTTA
* *
63860139 ACCCCAAACCCCAAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTA
1 ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
*
63860204 ATCTAAATCATAAACCCTAACCCG
66 ATCTAAACCATAAACCCTAACCCG
* * * * *
63860228 ACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTA
1 ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
* *
63860293 ATCTAAACCCTAAACTCTAAC
66 ATCTAAACCATAAACCCTAAC
63860314 TTGACACCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (89 bp):
ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCTAACCCG
Found at i:63860337 original size:89 final size:89
Alignment explanation
Indices: 63860151--63860338 Score: 250
Period size: 89 Copynumber: 2.1 Consensus size: 89
63860141 CCCAAACCCC
* * *
63860151 AAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATA
1 AAACC-CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATA
* *
63860216 AACCCTAACCCGACCCCAAATCCCT
65 AACCCTAACCCGACACCAAATCCAT
* * * *
63860241 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAA
1 AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
* ** *
63860306 ACTCTAACTTGACACCAAATCTAT
66 ACCCTAACCCGACACCAAATCCAT
63860330 AAACCCTAA
1 AAACCCTAA
63860339 ATCTCTAACT
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 80 0.95
90 4 0.05
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.26
Consensus pattern (89 bp):
AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCGACACCAAATCCAT
Found at i:63860360 original size:14 final size:14
Alignment explanation
Indices: 63860331--63860391 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
63860321 CAAATCTATA
* *
63860331 AACCCTAAATCTCT
1 AACCCTTAACCTCT
*
63860345 AACTCTTAACCTCT
1 AACCCTTAACCTCT
63860359 AACCCTTAACAC-CT
1 AACCCTTAAC-CTCT
* *
63860373 AACCCCTAACCCCT
1 AACCCTTAACCTCT
63860387 AACCC
1 AACCC
63860392 ATAAACCTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 1 0.03
14 38 0.95
15 1 0.03
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCTCT
Done.