Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 159 of 297
Found at i:53969755 original size:5 final size:5
Alignment explanation
Indices: 53969745--53969769 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
53969735 TTAAGACTTT
53969745 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
53969770 TATTTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:53969935 original size:23 final size:24
Alignment explanation
Indices: 53969908--53969954 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
53969898 GAAAGGATAG
*
53969908 TTTTAA-AACTTTTTTAGTTTTAT
1 TTTTAAGAACTTTTTTAGATTTAT
*
53969931 TTTTAAGAATTTTTTTAGATTTAT
1 TTTTAAGAACTTTTTTAGATTTAT
53969955 ACATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTTAAGAACTTTTTTAGATTTAT
Found at i:53972465 original size:37 final size:37
Alignment explanation
Indices: 53972404--53972549 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
53972394 TACGTATGAT
* *
53972404 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
53972439 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
53972476 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
53972513 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
53972550 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:53972566 original size:46 final size:46
Alignment explanation
Indices: 53972513--53972781 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
53972503 TAAGTGTAGC
* **
53972513 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
53972559 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
53972605 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
53972657 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
53972703 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
53972755 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
53972782 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:53972632 original size:52 final size:52
Alignment explanation
Indices: 53972556--53972775 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
53972546 TAGCTAAAGC
* *
53972556 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
53972609 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
53972661 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
53972707 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
53972759 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
53972776 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:53972678 original size:98 final size:98
Alignment explanation
Indices: 53972513--53972781 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
53972503 TAAGTGTAGC
* * *
53972513 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
53972578 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
53972612 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
53972677 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
53972710 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
53972775 GATCAGA
66 GATCAGA
53972782 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:53978586 original size:16 final size:16
Alignment explanation
Indices: 53978565--53978633 Score: 59
Period size: 16 Copynumber: 4.0 Consensus size: 16
53978555 GACCCTCCCA
53978565 TTTTAATTTTTTATTT
1 TTTTAATTTTTTATTT
53978581 TTTTAAATTTATATTATATT
1 TTTT-AATTT-T-TTAT-TT
* *
53978601 ATTTTAATATTTTA-TA
1 -TTTTAATTTTTTATTT
53978617 TTTTAATATTTTTATTT
1 TTTTAAT-TTTTTATTT
53978634 ATTGAAAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
15 7 0.17
16 10 0.24
17 6 0.14
18 4 0.10
19 5 0.12
20 6 0.14
21 4 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTTATTT
Found at i:53978600 original size:21 final size:23
Alignment explanation
Indices: 53978576--53978628 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
53978566 TTTAATTTTT
*
53978576 TATTTTTTTAA-A-TTTATATTA
1 TATTATTTTAATATTTTATATTA
*
53978597 TATTATTTTAATATTTTATATTT
1 TATTATTTTAATATTTTATATTA
*
53978620 TAATATTTT
1 TATTATTTT
53978629 TATTTATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 1 0.04
23 16 0.59
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTATTTTAATATTTTATATTA
Found at i:53978614 original size:37 final size:36
Alignment explanation
Indices: 53978564--53978636 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
53978554 AGACCCTCCC
* *
53978564 ATTTTAATTTTTTATTTTTTTAA-ATTTATATTATATT
1 ATTTTAATATTTTA-TATTTTAATATTTATATT-TATT
*
53978601 ATTTTAATATTTTATATTTTAATATTTTTATTTATT
1 ATTTTAATATTTTATATTTTAATATTTATATTTATT
53978637 GAAAGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (36 bp):
ATTTTAATATTTTATATTTTAATATTTATATTTATT
Found at i:53980339 original size:28 final size:29
Alignment explanation
Indices: 53980281--53980342 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
53980271 TTAAATTAAT
*
53980281 AATAATAAAATTATATTTTAACCTCTAAA
1 AATAATAAAATTATATTTTAACCTATAAA
53980310 AATAATAAAAATTA-A-TTTAATCCTATAAA
1 AATAAT-AAAATTATATTTTAA-CCTATAAA
53980339 AATA
1 AATA
53980343 TAGAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.17
29 18 0.60
30 7 0.23
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (29 bp):
AATAATAAAATTATATTTTAACCTATAAA
Found at i:53980398 original size:24 final size:23
Alignment explanation
Indices: 53980311--53980400 Score: 64
Period size: 24 Copynumber: 4.0 Consensus size: 23
53980301 ACCTCTAAAA
53980311 ATAAT-AAAA-AT-TAATTTAAT
1 ATAATAAAAATATATAATTTAAT
* * *
53980331 CCT-ATAAAAATATAGAATATTAAA
1 -ATAATAAAAATATATAAT-TTAAT
* *
53980355 ATAATAAAATTATAT-TTTTAAT
1 ATAATAAAAATATATAATTTAAT
*
53980377 ATCATAAAAAATATATAATTTAAT
1 ATAAT-AAAAATATATAATTTAAT
53980401 TCTGGCCTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.04
21 5 0.10
22 10 0.20
23 14 0.27
24 20 0.39
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (23 bp):
ATAATAAAAATATATAATTTAAT
Found at i:53982081 original size:7 final size:7
Alignment explanation
Indices: 53982069--53982098 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
53982059 ACATAAGACT
53982069 TTGAATC
1 TTGAATC
53982076 TTGAATC
1 TTGAATC
53982083 TTGAATC
1 TTGAATC
53982090 TTGAATC
1 TTGAATC
53982097 TT
1 TT
53982099 AGACTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (7 bp):
TTGAATC
Found at i:53985787 original size:18 final size:20
Alignment explanation
Indices: 53985766--53985803 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
53985756 TCATAAAAAA
53985766 ATAAAAAATC-TAAA-AATT
1 ATAAAAAATCATAAATAATT
*
53985784 ATAAATAATCATAAATAATT
1 ATAAAAAATCATAAATAATT
53985804 TATACATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAAAAAATCATAAATAATT
Found at i:53987347 original size:31 final size:31
Alignment explanation
Indices: 53987312--53987374 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
53987302 TCAATACATG
*
53987312 AACTTTGATTATGATTCAA-GTATATATATTA
1 AACTTTGATTATAATTCAATGTATATAT-TTA
*
53987343 AACTTTGATTTTAATTCAATGTATATATTTA
1 AACTTTGATTATAATTCAATGTATATATTTA
53987374 A
1 A
53987375 TATAATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (31 bp):
AACTTTGATTATAATTCAATGTATATATTTA
Found at i:53991853 original size:16 final size:16
Alignment explanation
Indices: 53991832--53991862 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53991822 TATGATGAAG
53991832 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
53991848 CATATATATTTGAAA
1 CATATAAATTTGAAA
53991863 AAAAAATTCA
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:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:53992062 original size:18 final size:19
Alignment explanation
Indices: 53992027--53992083 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
53992017 TTTTAAAAAA
*
53992027 TATAAAT-TTTAGATATTT
1 TATAAATATTTTGATATTT
53992045 TATAAATATTTTGA-ATTT
1 TATAAATATTTTGATATTT
* *
53992063 CAAAAATTATTTTGATATTT
1 TATAAA-TATTTTGATATTT
53992083 T
1 T
53992084 TTTTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 15 0.47
19 13 0.41
20 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGATATTT
Found at i:54000968 original size:6 final size:6
Alignment explanation
Indices: 54000957--54000981 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
54000947 ACTAAATTTT
54000957 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
54000982 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:54004853 original size:15 final size:15
Alignment explanation
Indices: 54004833--54004861 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54004823 TTCGGAGTTC
54004833 GATGACGATGAAGAA
1 GATGACGATGAAGAA
54004848 GATGACGATGAAGA
1 GATGACGATGAAGA
54004862 GGAAGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.34, T:0.14
Consensus pattern (15 bp):
GATGACGATGAAGAA
Found at i:54004856 original size:21 final size:21
Alignment explanation
Indices: 54004832--54004871 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54004822 CTTCGGAGTT
* *
54004832 CGATGACGATGAAGAAGATGA
1 CGATGAAGAGGAAGAAGATGA
54004853 CGATGAAGAGGAAGAAGAT
1 CGATGAAGAGGAAGAAGAT
54004872 AGGAGCTTGG
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:0.45, C:0.07, G:0.35, T:0.12
Consensus pattern (21 bp):
CGATGAAGAGGAAGAAGATGA
Found at i:54016964 original size:16 final size:16
Alignment explanation
Indices: 54016945--54016977 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
54016935 TTGTATTTTT
54016945 TTTAAAATAGTGAAAA
1 TTTAAAATAGTGAAAA
54016961 TTTAAAATAGTGAAAA
1 TTTAAAATAGTGAAAA
54016977 T
1 T
54016978 GCAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTAAAATAGTGAAAA
Found at i:54021921 original size:22 final size:22
Alignment explanation
Indices: 54021895--54021939 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
54021885 AAAAACCCGA
54021895 AAACA-AAGAATCCTCAAAATGT
1 AAACACAA-AATCCTCAAAATGT
* *
54021917 AAACACAAAATTCTCTAAATGT
1 AAACACAAAATCCTCAAAATGT
54021939 A
1 A
54021940 TTATGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (22 bp):
AAACACAAAATCCTCAAAATGT
Found at i:54026612 original size:24 final size:26
Alignment explanation
Indices: 54026585--54026632 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
54026575 TGATAATTTT
*
54026585 TTAAAACTACT-T-GTAAAAAAAAAA
1 TTAAAACTAATGTGGTAAAAAAAAAA
*
54026609 TTAAAGCTAATGTGGTAAAAAAAA
1 TTAAAACTAATGTGGTAAAAAAAA
54026633 GTGAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 1 0.05
26 10 0.50
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (26 bp):
TTAAAACTAATGTGGTAAAAAAAAAA
Found at i:54032590 original size:135 final size:135
Alignment explanation
Indices: 54032348--54032619 Score: 517
Period size: 135 Copynumber: 2.0 Consensus size: 135
54032338 ATTTTGGCCC
54032348 TTCAATTTCCTTTGTATGCTGCTGGATCCAAATAATTGAATTACAGGTTTCATGTTATGTGTAGC
1 TTCAATTTCCTTTGTATGCTGCTGGATCCAAATAATTGAATTACAGGTTTCATGTTATGTGTAGC
*
54032413 ATGAATTTTAGTGGATTATCATTAAACTACAGGCAGTTAATATGCATATCCACGAATACTGGAAT
66 ATGAATTTTAGTGGATTATCATTAAACTACAGGCAGTTAATATGCATATCCACAAATACTGGAAT
54032478 TAACT
131 TAACT
* *
54032483 TTCAATTTCCTTTGTATGCTGTTGGATCCAAATGATTGAATTACAGGTTTCATGTTATGTGTAGC
1 TTCAATTTCCTTTGTATGCTGCTGGATCCAAATAATTGAATTACAGGTTTCATGTTATGTGTAGC
54032548 ATGAATTTTAGTGGATTATCATTAAACTACAGGCAGTTAATATGCATATCCACAAATACTGGAAT
66 ATGAATTTTAGTGGATTATCATTAAACTACAGGCAGTTAATATGCATATCCACAAATACTGGAAT
54032613 TAACT
131 TAACT
54032618 TT
1 TT
54032620 GATTTGATCT
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (135 bp):
TTCAATTTCCTTTGTATGCTGCTGGATCCAAATAATTGAATTACAGGTTTCATGTTATGTGTAGC
ATGAATTTTAGTGGATTATCATTAAACTACAGGCAGTTAATATGCATATCCACAAATACTGGAAT
TAACT
Found at i:54032783 original size:130 final size:130
Alignment explanation
Indices: 54032616--54032877 Score: 497
Period size: 130 Copynumber: 2.0 Consensus size: 130
54032606 CTGGAATTAA
*
54032616 CTTTGATTTGATCTCATACTTCTCAACCAAGCAACCAGAGCCTAAGGAACTGTGAAGAAAAAAAG
1 CTTTCATTTGATCTCATACTTCTCAACCAAGCAACCAGAGCCTAAGGAACTGTGAAGAAAAAAAG
54032681 AATTGAAAGCTAAGAGTGCTATTCAAAGTTATGAAAAGAACAATGAATAATAGTACAATTAAGTC
66 AATTGAAAGCTAAGAGTGCTATTCAAAGTTATGAAAAGAACAATGAATAATAGTACAATTAAGTC
54032746 CTTTCATTTGATCTCATACTTCTCAACCAAGCAACCAGAGCCTAAGGAACTGTGAAGAAAAAAAG
1 CTTTCATTTGATCTCATACTTCTCAACCAAGCAACCAGAGCCTAAGGAACTGTGAAGAAAAAAAG
* *
54032811 AATTGAAAGCTAAGAGTGTTATTCAAAGTTATGAGAAGAACAATGAATAATAGTACAATTAAGTC
66 AATTGAAAGCTAAGAGTGCTATTCAAAGTTATGAAAAGAACAATGAATAATAGTACAATTAAGTC
54032876 CT
1 CT
54032878 AATCTAATGT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (130 bp):
CTTTCATTTGATCTCATACTTCTCAACCAAGCAACCAGAGCCTAAGGAACTGTGAAGAAAAAAAG
AATTGAAAGCTAAGAGTGCTATTCAAAGTTATGAAAAGAACAATGAATAATAGTACAATTAAGTC
Found at i:54033342 original size:277 final size:277
Alignment explanation
Indices: 54032848--54033405 Score: 1107
Period size: 277 Copynumber: 2.0 Consensus size: 277
54032838 GTTATGAGAA
54032848 GAACAATGAATAATAGTACAATTAAGTCCTAATCTAATGTCTGCATCCAACAACAGTGGTTCATT
1 GAACAATGAATAATAGTACAATTAAGTCCTAATCTAATGTCTGCATCCAACAACAGTGGTTCATT
54032913 CACATTAGAATTGCACAGTAGTGCTACTGTTACACACATAAGATGTAACTTGTCAATCGTCACGG
66 CACATTAGAATTGCACAGTAGTGCTACTGTTACACACATAAGATGTAACTTGTCAATCGTCACGG
54032978 AGATGTAACTTGGTTTCTAATTCTGCTGGAACGCCTAACTGGAGTAACTATCTCTTAAACTACAC
131 AGATGTAACTTGGTTTCTAATTCTGCTGGAACGCCTAACTGGAGTAACTATCTCTTAAACTACAC
54033043 GCAGTTAATATGCATATCCACAAATACTGGAATTAACTTTCATTTGATCTCATACTTCTCAACCA
196 GCAGTTAATATGCATATCCACAAATACTGGAATTAACTTTCATTTGATCTCATACTTCTCAACCA
54033108 AGCAACCAGAACCTAAG
261 AGCAACCAGAACCTAAG
54033125 GAACAATGAATAATAGTACAATTAAGTCCTAATCTAATGTCTGCATCCAACAACAGTGGTTCATT
1 GAACAATGAATAATAGTACAATTAAGTCCTAATCTAATGTCTGCATCCAACAACAGTGGTTCATT
*
54033190 CACATTAGAATTGCACAGTAGTGCTACTGTTACACACTTAAGATGTAACTTGTCAATCGTCACGG
66 CACATTAGAATTGCACAGTAGTGCTACTGTTACACACATAAGATGTAACTTGTCAATCGTCACGG
54033255 AGATGTAACTTGGTTTCTAATTCTGCTGGAACGCCTAACTGGAGTAACTATCTCTTAAACTACAC
131 AGATGTAACTTGGTTTCTAATTCTGCTGGAACGCCTAACTGGAGTAACTATCTCTTAAACTACAC
54033320 GCAGTTAATATGCATATCCACAAATACTGGAATTAACTTTCATTTGATCTCATACTTCTCAACCA
196 GCAGTTAATATGCATATCCACAAATACTGGAATTAACTTTCATTTGATCTCATACTTCTCAACCA
54033385 AGCAACCAGAACCTAAG
261 AGCAACCAGAACCTAAG
54033402 GAAC
1 GAAC
54033406 TGTGAAGAAA
Statistics
Matches: 280, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
277 280 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (277 bp):
GAACAATGAATAATAGTACAATTAAGTCCTAATCTAATGTCTGCATCCAACAACAGTGGTTCATT
CACATTAGAATTGCACAGTAGTGCTACTGTTACACACATAAGATGTAACTTGTCAATCGTCACGG
AGATGTAACTTGGTTTCTAATTCTGCTGGAACGCCTAACTGGAGTAACTATCTCTTAAACTACAC
GCAGTTAATATGCATATCCACAAATACTGGAATTAACTTTCATTTGATCTCATACTTCTCAACCA
AGCAACCAGAACCTAAG
Found at i:54037110 original size:33 final size:33
Alignment explanation
Indices: 54037073--54037136 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
54037063 TCTCAAAACC
54037073 TTACATGACCAAATTTAGTTAAAATTGACATTG
1 TTACATGACCAAATTTAGTTAAAATTGACATTG
*
54037106 TTACATGACCAAATTTAGTTAATATTGACAT
1 TTACATGACCAAATTTAGTTAAAATTGACAT
54037137 CATTGCCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (33 bp):
TTACATGACCAAATTTAGTTAAAATTGACATTG
Found at i:54042812 original size:21 final size:22
Alignment explanation
Indices: 54042783--54042829 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
54042773 CAGAAGGAGT
*
54042783 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
54042805 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
54042826 GAGT
1 GAGT
54042830 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:54047295 original size:30 final size:30
Alignment explanation
Indices: 54047254--54047335 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
54047244 CATATTTATG
* *
54047254 GAAAATCAAAGATATGAGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
54047284 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
54047314 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
54047336 GAGATATTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:54051941 original size:15 final size:15
Alignment explanation
Indices: 54051921--54051998 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
54051911 TTTATGGAAA
54051921 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
54051936 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
54051950 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
54051966 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
54051980 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
54051996 ATC
1 ATC
54051999 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:54051958 original size:30 final size:30
Alignment explanation
Indices: 54051917--54051998 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
54051907 CATATTTATG
*
54051917 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
54051947 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
54051977 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
54051999 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:54052983 original size:6 final size:6
Alignment explanation
Indices: 54052972--54053004 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
54052962 TATTGAAGCC
54052972 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
54053005 GATAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:54067526 original size:19 final size:19
Alignment explanation
Indices: 54067493--54067548 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
54067483 AAAAAAGTTA
*
54067493 AAAATAATTTTTTAAAAATC
1 AAAAT-ATTTATTAAAAATC
* * *
54067513 CAAATATTTATTAAAATTT
1 AAAATATTTATTAAAAATC
54067532 AAAATATTTA-TAAAAAT
1 AAAATATTTATTAAAAAT
54067549 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 6 0.20
19 20 0.67
20 4 0.13
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATTTATTAAAAATC
Found at i:54067554 original size:20 final size:20
Alignment explanation
Indices: 54067514--54067577 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 20
54067504 TTAAAAATCC
*
54067514 AAATATTTATTAAAA-TTTA
1 AAATATTTATAAAAATTTTA
54067533 AAATATTTATAAAAATTTTA
1 AAATATTTATAAAAATTTTA
54067553 AAATA--TATAAAAATATTCTA
1 AAATATTTATAAAAAT-TT-TA
54067573 AAATA
1 AAATA
54067578 ATAATTTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
18 9 0.22
19 16 0.39
20 16 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTATAAAAATTTTA
Found at i:54068952 original size:29 final size:29
Alignment explanation
Indices: 54068920--54068977 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
54068910 ATTTAAATAA
*
54068920 TAAAA-TTATATTTTTACTATCATAAAAAT
1 TAAAATTTA-ATTTCTACTATCATAAAAAT
* *
54068949 TAAAATTTAATTTCTACTCTCCTAAAAAT
1 TAAAATTTAATTTCTACTATCATAAAAAT
54068978 AATTTCTACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAATTTAATTTCTACTATCATAAAAAT
Found at i:54070721 original size:13 final size:13
Alignment explanation
Indices: 54070703--54070727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54070693 AATTTAATAA
54070703 TTTAAAAAATATT
1 TTTAAAAAATATT
54070716 TTTAAAAAATAT
1 TTTAAAAAATAT
54070728 AAATATGTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAAAATATT
Found at i:54073813 original size:8 final size:8
Alignment explanation
Indices: 54073802--54073831 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
54073792 TTATATTAAT
*
54073802 ATAATATA
1 ATAATAAA
54073810 ATAATAAA
1 ATAATAAA
54073818 ATAATAAA
1 ATAATAAA
54073826 ATAATA
1 ATAATA
54073832 TTTACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
ATAATAAA
Found at i:54075724 original size:43 final size:43
Alignment explanation
Indices: 54075676--54075765 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
54075666 GTCCCAGCCT
54075676 GTGTAACTCACTGACTTGGGTAGCACGGCCAAGCCACACACCC
1 GTGTAACTCACTGACTTGGGTAGCACGGCCAAGCCACACACCC
54075719 GTGTAACTCACTGACTTGGGTAGCACGGCCAAGCCACACACCC
1 GTGTAACTCACTGACTTGGGTAGCACGGCCAAGCCACACACCC
54075762 GTGT
1 GTGT
54075766 GCTAGGCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (43 bp):
GTGTAACTCACTGACTTGGGTAGCACGGCCAAGCCACACACCC
Found at i:54086210 original size:56 final size:55
Alignment explanation
Indices: 54086150--54086263 Score: 124
Period size: 56 Copynumber: 2.0 Consensus size: 55
54086140 ATTATACCAT
* * * *
54086150 TTAAAACATATTA-AAAAAATAAATTTATATTAAATA-ATAATACTCTAATATAAATA
1 TTAAAACA-ATTATAAAAAATAAA-AT-TATTAAATATAAAATAATATAATATAAATA
* *
54086206 TTAAAATAATTATATAAAATAAAATTATTAAATATTAAAATAATATAATATAAATA
1 TTAAAACAATTATAAAAAATAAAATTATTAAATA-TAAAATAATATAATATAAATA
54086262 TT
1 TT
54086264 TTTTAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
54 9 0.18
55 5 0.10
56 35 0.71
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (55 bp):
TTAAAACAATTATAAAAAATAAAATTATTAAATATAAAATAATATAATATAAATA
Found at i:54086233 original size:15 final size:15
Alignment explanation
Indices: 54086213--54086259 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
54086203 ATATTAAAAT
54086213 AATTATATAAAATAA
1 AATTATATAAAATAA
54086228 AATTAT-TAAATATTAA
1 AATTATATAAA-A-TAA
* *
54086244 AATAATATAATATAA
1 AATTATATAAAATAA
54086259 A
1 A
54086260 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 9 0.33
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTATATAAAATAA
Found at i:54086281 original size:35 final size:33
Alignment explanation
Indices: 54086200--54086287 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 33
54086190 TACTCTAATA
*
54086200 TAAATATTAAAATAATTATATAAAATAAAATTAT
1 TAAATATTAAAA-AATAATATAAAATAAAATTAT
* *
54086234 TAAATATT--AAAATAATATAATATAAATATTTTT
1 TAAATATTAAAAAATAATATAAAATAAA-A-TTAT
*
54086267 TAAAAATTAAAAAATAATATA
1 TAAATATTAAAAAATAATATA
54086288 GGTAAGCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 14 0.30
32 3 0.07
33 10 0.22
34 8 0.17
35 11 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAATATTAAAAAATAATATAAAATAAAATTAT
Found at i:54087344 original size:51 final size:50
Alignment explanation
Indices: 54087185--54087341 Score: 260
Period size: 51 Copynumber: 3.1 Consensus size: 50
54087175 ACTTCTGATC
* *
54087185 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
*
54087236 AGTGACAAGTGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
54087286 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
54087337 AGTGA
1 AGTGA
54087342 TAAATGTGAT
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.47
51 53 0.53
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:54088491 original size:29 final size:28
Alignment explanation
Indices: 54088457--54088520 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
54088447 TTGGTCATCC
*
54088457 AACTATGAAAAGTTACAAAATGATCACCT
1 AACTATGAAAAATTACAAAATGATC-CCT
* *
54088486 AACTATGAAAAATTATAAAATGGTCCCT
1 AACTATGAAAAATTACAAAATGATCCCT
*
54088514 AATTATG
1 AACTATG
54088521 TAATACCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (28 bp):
AACTATGAAAAATTACAAAATGATCCCT
Found at i:54088700 original size:22 final size:23
Alignment explanation
Indices: 54088675--54088720 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
54088665 CAACCAAATC
54088675 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
54088697 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
54088720 A
1 A
54088721 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:54088726 original size:23 final size:23
Alignment explanation
Indices: 54088682--54088726 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
54088672 ATCAATTCAA
*
54088682 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
54088705 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
54088727 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:54090614 original size:22 final size:22
Alignment explanation
Indices: 54090574--54090615 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
54090564 TAAGAAATTT
* *
54090574 AAATAGTAGCAATATAATAGCG
1 AAATAGTAGCAAAACAATAGCG
*
54090596 AAATGGTAGCAAAACAATAG
1 AAATAGTAGCAAAACAATAG
54090616 TATCCTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (22 bp):
AAATAGTAGCAAAACAATAGCG
Found at i:54098758 original size:4 final size:4
Alignment explanation
Indices: 54098749--54098782 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
54098739 AAGTTTTATT
54098749 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
54098783 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:54098790 original size:22 final size:22
Alignment explanation
Indices: 54098732--54098791 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
54098722 AAGTGGCCCA
*
54098732 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
54098756 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
54098777 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
54098792 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:54100006 original size:15 final size:15
Alignment explanation
Indices: 54099984--54100021 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
54099974 AAATTTTAAG
54099984 AAAAAAAT-GAATATT
1 AAAAAAATAG-ATATT
*
54099999 ATAAAAATAGATATT
1 AAAAAAATAGATATT
54100014 AAAAAAAT
1 AAAAAAAT
54100022 TTAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAAAAATAGATATT
Found at i:54100439 original size:3 final size:3
Alignment explanation
Indices: 54100433--54100457 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54100423 AAAAAAATTG
54100433 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
54100458 GAATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:54106197 original size:27 final size:27
Alignment explanation
Indices: 54106163--54106217 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
54106153 GGGAAATTGG
54106163 AAAATATGTGAAAATTAATTATTAATA
1 AAAATATGTGAAAATTAATTATTAATA
*
54106190 AAAATATGTGAAATTTAATTATTAATA
1 AAAATATGTGAAAATTAATTATTAATA
54106217 A
1 A
54106218 CGTTGTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (27 bp):
AAAATATGTGAAAATTAATTATTAATA
Found at i:54108814 original size:27 final size:27
Alignment explanation
Indices: 54108784--54108847 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
54108774 CATAAGCTAT
54108784 TATTTTTAAAAAAA-TATATAATTTTTA
1 TATTTTTAAAAAAATTA-ATAATTTTTA
* *
54108811 TATTTTTAATAATATTAATAATTTTTA
1 TATTTTTAAAAAAATTAATAATTTTTA
*
54108838 AATTTTTAAA
1 TATTTTTAAA
54108848 TATTAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTTAAAAAAATTAATAATTTTTA
Found at i:54108817 original size:9 final size:9
Alignment explanation
Indices: 54108800--54108845 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
54108790 TAAAAAAATA
54108800 TATAATTTT
1 TATAATTTT
54108809 TAT-ATTTT
1 TATAATTTT
*
54108817 TAATAATATT
1 T-ATAATTTT
*
54108827 AATAATTTT
1 TATAATTTT
54108836 TA-AATTTT
1 TATAATTTT
54108844 TA
1 TA
54108846 AATATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
8 14 0.45
9 13 0.42
10 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:54116859 original size:14 final size:14
Alignment explanation
Indices: 54116840--54116866 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54116830 TATAATAATA
54116840 GTAAAAAAATTTAT
1 GTAAAAAAATTTAT
54116854 GTAAAAAAATTTA
1 GTAAAAAAATTTA
54116867 AAATCATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
GTAAAAAAATTTAT
Found at i:54127072 original size:30 final size:30
Alignment explanation
Indices: 54127038--54127097 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
54127028 TTCGAGTTAA
* *
54127038 GTCCTCCTTCGATTACGAATTGGCTTTAGT
1 GTCCTCCTTCGATTACCAATTGGATTTAGT
*
54127068 GTCCTCCTTCTATTACCAATTGGATTTAGT
1 GTCCTCCTTCGATTACCAATTGGATTTAGT
54127098 TTGGATACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (30 bp):
GTCCTCCTTCGATTACCAATTGGATTTAGT
Found at i:54128192 original size:4 final size:4
Alignment explanation
Indices: 54128183--54128210 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
54128173 AGTAATTAGC
54128183 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
54128211 CTTCTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:54131477 original size:1 final size:1
Alignment explanation
Indices: 54131416--54131458 Score: 86
Period size: 1 Copynumber: 43.0 Consensus size: 1
54131406 GATTAACCTC
54131416 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
54131459 GCTTCCCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:54137013 original size:168 final size:167
Alignment explanation
Indices: 54136736--54137070 Score: 589
Period size: 168 Copynumber: 2.0 Consensus size: 167
54136726 GTATCTAAGC
** *
54136736 AAAAACTGAAACGATCAATCTTAAGTTTTTTACTAAGGGGCAAAAAACAATTTTAAGATAATTTG
1 AAAAACTGAAAAAATCAATCTTAAGTTTTTTACTAAGGGACAAAAAACAATTTTAAGATAATTTG
*
54136801 CTGAACTTAAGTGTTGAGATTCTGGAAACCAGGACATGCAAGTCATTGACTTTCCCAGAATGAAT
66 CTGAACTAAAGTGTTGAGATTCTGGAAACCAGGACATGCAAGTCATTGACTTTCCCAGAATGAAT
54136866 CAAAAGAAAAAGAACTAAAAAGGTTTAGGTTGAAAGT
131 CAAAAGAAAAAGAACTAAAAAGGTTTAGGTTGAAAGT
* *
54136903 AAAAACTGAAAAAATTAATCTTAAGTTTTTTACTAAGGGACAAAAACCAATTTTAAGAATAATTT
1 AAAAACTGAAAAAATCAATCTTAAGTTTTTTACTAAGGGACAAAAAACAATTTTAAG-ATAATTT
* *
54136968 GCTGAAGTAAAGTGTTGAGATTTTGGAAACCAGGACATGCAAGTCATTGACTTTCCCAGAATGAA
65 GCTGAACTAAAGTGTTGAGATTCTGGAAACCAGGACATGCAAGTCATTGACTTTCCCAGAATGAA
54137033 TCAAAAGAAAAAGAACTAAAAAGGTTTAGGTTGAAAGT
130 TCAAAAGAAAAAGAACTAAAAAGGTTTAGGTTGAAAGT
54137071 GAATGAGAGT
Statistics
Matches: 159, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
167 52 0.33
168 107 0.67
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (167 bp):
AAAAACTGAAAAAATCAATCTTAAGTTTTTTACTAAGGGACAAAAAACAATTTTAAGATAATTTG
CTGAACTAAAGTGTTGAGATTCTGGAAACCAGGACATGCAAGTCATTGACTTTCCCAGAATGAAT
CAAAAGAAAAAGAACTAAAAAGGTTTAGGTTGAAAGT
Found at i:54149350 original size:22 final size:19
Alignment explanation
Indices: 54149299--54149350 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 19
54149289 TTCAACAATA
54149299 ATAAAAATATAATTAAATT
1 ATAAAAATATAATTAAATT
54149318 ATTTAATAAATATAGATTTCAAATT
1 A--TAA-AAATATA-A-TT-AAATT
54149343 ATAAAAAT
1 ATAAAAAT
54149351 TATATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
19 1 0.04
21 3 0.11
22 11 0.41
23 4 0.15
24 2 0.07
25 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
ATAAAAATATAATTAAATT
Found at i:54149447 original size:17 final size:18
Alignment explanation
Indices: 54149422--54149468 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
54149412 TTTAAAGAAT
*
54149422 AATATAATATTAAAA-TA
1 AATAAAATATTAAAAGTA
54149439 AATAAAATA--AAAAGTA
1 AATAAAATATTAAAAGTA
54149455 AATAAAA-ATTAAAA
1 AATAAAATATTAAAA
54149469 ATATATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 12 0.46
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAAAATATTAAAAGTA
Found at i:54149476 original size:17 final size:16
Alignment explanation
Indices: 54149433--54149477 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
54149423 ATATAATATT
54149433 AAAATAAAT-AAAATA
1 AAAATAAATAAAAATA
54149448 AAAAGTAAATAAAAATTA
1 AAAA-TAAATAAAAA-TA
*
54149466 AAAATATATAAA
1 AAAATAAATAAA
54149478 CTTTAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 11 0.42
18 6 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:54153321 original size:31 final size:32
Alignment explanation
Indices: 54153280--54153339 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
54153270 TATTGAAATT
*
54153280 TATTTTAAATATGTGATATTAT-ATATTTTAA
1 TATTTAAAATATGTGATATTATAATATTTTAA
* *
54153311 TATTTAAAATATGTTATATTTTAATATTT
1 TATTTAAAATATGTGATATTATAATATTT
54153340 AAAATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (32 bp):
TATTTAAAATATGTGATATTATAATATTTTAA
Found at i:54153328 original size:24 final size:26
Alignment explanation
Indices: 54153301--54153355 Score: 96
Period size: 24 Copynumber: 2.2 Consensus size: 26
54153291 TGTGATATTA
54153301 TATATTTTAATATTTAAAATAT-G-T
1 TATATTTTAATATTTAAAATATAGTT
54153325 TATATTTTAATATTTAAAATATAGTT
1 TATATTTTAATATTTAAAATATAGTT
54153351 TATAT
1 TATAT
54153356 ATTTGAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 22 0.76
25 1 0.03
26 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATTTTAATATTTAAAATATAGTT
Found at i:54170748 original size:46 final size:46
Alignment explanation
Indices: 54170681--54170774 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
54170671 CTACTATCGA
54170681 ACATGACATAGAAAATTATAATGTAATTACATTAGGTTAACCAAAT
1 ACATGACATAGAAAATTATAATGTAATTACATTAGGTTAACCAAAT
*
54170727 ACATGACATAGAAAATTATAATGTAATTACATTCGGTTAACCAAAT
1 ACATGACATAGAAAATTATAATGTAATTACATTAGGTTAACCAAAT
54170773 AC
1 AC
54170775 GTCTAGAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (46 bp):
ACATGACATAGAAAATTATAATGTAATTACATTAGGTTAACCAAAT
Found at i:54174642 original size:13 final size:13
Alignment explanation
Indices: 54174624--54174667 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
54174614 TATGTACATA
54174624 ACATATAAAATAT
1 ACATATAAAATAT
*
54174637 ACATAT-ATATA-
1 ACATATAAAATAT
*
54174648 AGATATAAAATAT
1 ACATATAAAATAT
54174661 ACATATA
1 ACATATA
54174668 TAAGATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.20
12 8 0.32
13 12 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (13 bp):
ACATATAAAATAT
Found at i:54174669 original size:22 final size:23
Alignment explanation
Indices: 54174621--54174677 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 23
54174611 GAGTATGTAC
*
54174621 ATAACATATAAAATATACATATAT
1 ATAAGATATAAAATATACA-ATAT
54174645 ATAAGATATAAAATATAC-ATAT
1 ATAAGATATAAAATATACAATAT
54174667 ATAAGATATAA
1 ATAAGATATAA
54174678 GATGTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 15 0.47
24 17 0.53
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAAGATATAAAATATACAATAT
Found at i:54174690 original size:22 final size:22
Alignment explanation
Indices: 54174621--54174692 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
54174611 GAGTATGTAC
* *
54174621 ATAACATATAAAATATACATATAT
1 ATAAGATATAAAATATA-A-AAAT
* *
54174645 ATAAGATATAAAATATACATAT
1 ATAAGATATAAAATATAAAAAT
* *
54174667 ATAAGATATAAGATGTAAAAAT
1 ATAAGATATAAAATATAAAAAT
54174689 ATAA
1 ATAA
54174693 CATAGTAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 26 0.62
24 16 0.38
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (22 bp):
ATAAGATATAAAATATAAAAAT
Found at i:54174794 original size:15 final size:15
Alignment explanation
Indices: 54174761--54174794 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54174751 ATGTATAATA
*
54174761 ATACTAAATATATAC
1 ATACTAAATACATAC
*
54174776 ATACTAAATACATAT
1 ATACTAAATACATAC
54174791 ATAC
1 ATAC
54174795 ATAGTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
ATACTAAATACATAC
Found at i:54174804 original size:21 final size:20
Alignment explanation
Indices: 54174755--54174814 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 20
54174745 ATACATATGT
54174755 ATAATAATACTAA-ATATATAC
1 ATAATAA-A-TAACATATATAC
*
54174776 ATACTAAAT-ACATATATAC
1 ATAATAAATAACATATATAC
54174795 ATAGTATAAATGAACATATA
1 ATA--ATAAAT-AACATATA
54174815 CAATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 1 0.03
21 11 0.34
23 7 0.22
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAATAAATAACATATATAC
Found at i:54174983 original size:16 final size:16
Alignment explanation
Indices: 54174964--54175003 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
54174954 ATTAATGAGT
* *
54174964 ATAATATTATATGAAA
1 ATAATACTATATAAAA
54174980 ATAATACTATATAAAA
1 ATAATACTATATAAAA
54174996 ATATATAC
1 ATA-ATAC
54175004 ACGTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (16 bp):
ATAATACTATATAAAA
Found at i:54175697 original size:3 final size:3
Alignment explanation
Indices: 54175689--54175734 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
54175679 AATATATGAA
* * *
54175689 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT GAT AAT ATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
54175735 GATACAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:54178337 original size:21 final size:21
Alignment explanation
Indices: 54178278--54178338 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
54178268 TTTAGACTTG
* *
54178278 AATTTTAATATATTATCTAAA
1 AATTTTAATAAATTATATAAA
* *
54178299 ACTTTT-A-AAATGA-ATAAA
1 AATTTTAATAAATTATATAAA
*
54178317 AATTTTAATAAATTATTTAAA
1 AATTTTAATAAATTATATAAA
54178338 A
1 A
54178339 TTGTATTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
20 6 0.20
21 10 0.33
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTTAATAAATTATATAAA
Found at i:54178338 original size:20 final size:20
Alignment explanation
Indices: 54178278--54178340 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
54178268 TTTAGACTTG
* *
54178278 AATTTTAATATATTATCTAA
1 AATTTTAATAAATTATTTAA
* * *
54178298 AACTTTT-A-AAATGAATAAA
1 AA-TTTTAATAAATTATTTAA
54178317 AATTTTAATAAATTATTTAA
1 AATTTTAATAAATTATTTAA
54178337 AATT
1 AATT
54178341 GTATTTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 4 0.12
19 9 0.28
20 15 0.47
21 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTTTAATAAATTATTTAA
Found at i:54178866 original size:13 final size:13
Alignment explanation
Indices: 54178848--54178872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54178838 TGATTTAAAA
54178848 ATATTTAAAAATT
1 ATATTTAAAAATT
54178861 ATATTTAAAAAT
1 ATATTTAAAAAT
54178873 AAAGTATATT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTAAAAATT
Found at i:54180674 original size:25 final size:23
Alignment explanation
Indices: 54180632--54180691 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
54180622 TGGAGAAGGG
* **
54180632 AAGAAAACAAATGGAGAAGCAGAA
1 AAGAAAAAAAATAAAGAA-CAGAA
* *
54180656 GAGAATAAAAAATAAAGAACATAA
1 AAGAA-AAAAAATAAAGAACAGAA
54180680 AAGAAAAAAAAT
1 AAGAAAAAAAAT
54180692 TGCTCAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 7 0.24
24 12 0.41
25 10 0.34
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGAAAAAAAATAAAGAACAGAA
Found at i:54184139 original size:17 final size:17
Alignment explanation
Indices: 54184117--54184150 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54184107 ATCCACTAAT
*
54184117 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
54184134 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
54184151 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:54188778 original size:17 final size:17
Alignment explanation
Indices: 54188756--54188789 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54188746 ATCCACTAAT
*
54188756 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
54188773 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
54188790 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:54200177 original size:52 final size:53
Alignment explanation
Indices: 54200043--54200214 Score: 176
Period size: 52 Copynumber: 3.2 Consensus size: 53
54200033 CATGGTCTTA
* * * * *
54200043 CACAGATCACATAACATGCCGATGTCATATCCCAGATATGGTCTTATAC-GGAAT
1 CACATATCACATCACA--CCGATGCCATAGCCCAGCTATGGTCTTATACGGGAAT
54200097 CACATTATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACT
1 CACA-TATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-T
* * *
54200152 C-GA-ATCACATTC-TACCGATGCCATAGCCCAACTATGGTCTTATAC-GGAAGT
1 CACATATCACA-TCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-T
54200203 -ACATATCACATC
1 CACATATCACATC
54200215 TTTTCCGTCA
Statistics
Matches: 102, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
51 8 0.08
52 43 0.42
53 30 0.29
54 9 0.09
55 12 0.12
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (53 bp):
CACATATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAAT
Found at i:54203013 original size:3 final size:3
Alignment explanation
Indices: 54203005--54203101 Score: 56
Period size: 3 Copynumber: 31.3 Consensus size: 3
54202995 AATATTTATA
* * *
54203005 AAT AAT AAT AGT AA- ATAT AAT AAT AAT AAT ATT AAGT -AT AGT -AT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * *
54203049 AAAT AAT ATGT ACAT AAC AGT AAT AAT AAT AAGT AAC AAT AAT AAT AAT
1 -AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
54203098 AAT A
1 AAT A
54203102 TAGAAATTCA
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
2 3 0.04
3 57 0.80
4 11 0.15
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:54203091 original size:19 final size:19
Alignment explanation
Indices: 54203063--54203099 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54203053 AATATGTACA
*
54203063 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
54203082 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
54203100 TATAGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:54205504 original size:40 final size:40
Alignment explanation
Indices: 54205449--54205528 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
54205439 CGTAGAAAAG
54205449 TCAGTTTAACTTTTATCCCAACTAGAAGTGAACCATCATC
1 TCAGTTTAACTTTTATCCCAACTAGAAGTGAACCATCATC
*
54205489 TCAGTTTAACTTTTATCCCAACTAGAATTGAACCATCATC
1 TCAGTTTAACTTTTATCCCAACTAGAAGTGAACCATCATC
54205529 AAGTGATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (40 bp):
TCAGTTTAACTTTTATCCCAACTAGAAGTGAACCATCATC
Found at i:54212543 original size:29 final size:29
Alignment explanation
Indices: 54212487--54212548 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
54212477 ATCAACTACG
*
54212487 ATTTTTGTAATTATATATATCAA-CTTTT
1 ATTTTTGTAATTATATATATAAATCTTTT
* * *
54212515 ATTTTATGTAATTTTATATGTAAATTTTTT
1 ATTTT-TGTAATTATATATATAAATCTTTT
54212545 ATTT
1 ATTT
54212549 AATTCAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.18
29 15 0.54
30 8 0.29
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (29 bp):
ATTTTTGTAATTATATATATAAATCTTTT
Found at i:54213516 original size:33 final size:32
Alignment explanation
Indices: 54213455--54213516 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
54213445 TAAATAAGTT
* * **
54213455 ATTATGCCTGTTTAAATCATTAGGCTAATAAA
1 ATTATGCCTATTTAAACCATTAAACTAATAAA
54213487 ATTATGCCTAATTTAAACCATTAAACTAAT
1 ATTATGCCT-ATTTAAACCATTAAACTAAT
54213517 CCAAAGTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 9 0.36
33 16 0.64
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (32 bp):
ATTATGCCTATTTAAACCATTAAACTAATAAA
Found at i:54215870 original size:47 final size:48
Alignment explanation
Indices: 54215810--54216017 Score: 156
Period size: 47 Copynumber: 4.3 Consensus size: 48
54215800 TCTTACACGG
*
54215810 ATCACATATCACACTGATGTCATATCCCAGATATGGTCTTATAAAG-A
1 ATCACATATCACACCGATGTCATATCCCAGATATGGTCTTATAAAGAA
* * **
54215857 ATCACATATCACACCGATGTCATATCTCATATATAATCTTATATGGAAGCACATA
1 ATCACATATCACACCGATGTCATATCCCAGATATGGTCTTATA---AAG---A-A
* * * * * *
54215912 ATCACAT-T-ACACTGATGTCATAACCCAGTTATTGTCTTAT-ATGGA
1 ATCACATATCACACCGATGTCATATCCCAGATATGGTCTTATAAAGAA
* * * * **
54215957 AGCACATATCACACCGATGCCATAGCCCA-ACTACGGTCTTATACGGAA
1 ATCACATATCACACCGATGTCATATCCCAGA-TATGGTCTTATAAAGAA
54216005 ATCACATATCACA
1 ATCACATATCACA
54216018 TGTTGCCATG
Statistics
Matches: 124, Mismatches: 25, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
45 7 0.06
46 1 0.01
47 63 0.51
48 14 0.11
49 2 0.02
50 3 0.02
53 25 0.20
54 1 0.01
55 8 0.06
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (48 bp):
ATCACATATCACACCGATGTCATATCCCAGATATGGTCTTATAAAGAA
Found at i:54215932 original size:53 final size:55
Alignment explanation
Indices: 54215856--54215969 Score: 146
Period size: 53 Copynumber: 2.1 Consensus size: 55
54215846 TCTTATAAAG
* *
54215856 AATCACATATCACACCGATGTCATATCTCA-TATATAATCTTATATGGAAGCACAT
1 AATCACATATCACACCGATGTCATAACCCAGT-TATAATCTTATATGGAAGCACAT
* **
54215911 AATCACAT-T-ACACTGATGTCATAACCCAGTTATTGTCTTATATGGAAGCACAT
1 AATCACATATCACACCGATGTCATAACCCAGTTATAATCTTATATGGAAGCACAT
54215964 -ATCACA
1 AATCACA
54215970 CCGATGCCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 6 0.11
53 37 0.70
54 2 0.04
55 8 0.15
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (55 bp):
AATCACATATCACACCGATGTCATAACCCAGTTATAATCTTATATGGAAGCACAT
Found at i:54215997 original size:100 final size:102
Alignment explanation
Indices: 54215810--54216018 Score: 246
Period size: 100 Copynumber: 2.1 Consensus size: 102
54215800 TCTTACACGG
* *
54215810 ATCACATATCACACTGATGTCATATCCCAGATATGGTCTTATAAAGAATCACATATCACACCGAT
1 ATCACATATCACACTGATGTCATAACCCAGATATGGTCTTATAAAGAAGCACATATCACACCGAT
* * * * *
54215875 GTCATATCTCATATATAATCTTATATGG-AAGCACAT
66 GCCATAGCCCATATACAATCTTATACGGAAAGCACAT
* * **
54215911 AATCACAT-T-ACACTGATGTCATAACCCAGTTATTGTCTTATATGGAAGCACATATCACACCGA
1 -ATCACATATCACACTGATGTCATAACCCAGATATGGTCTTATAAAGAAGCACATATCACACCGA
** *
54215974 TGCCATAGCCCA-ACTACGGTCTTATACGGAAATCACAT
65 TGCCATAGCCCATA-TACAATCTTATACGGAAAGCACAT
54216012 ATCACAT
1 ATCACAT
54216019 GTTGCCATGG
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
99 1 0.01
100 75 0.82
101 8 0.09
102 7 0.08
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (102 bp):
ATCACATATCACACTGATGTCATAACCCAGATATGGTCTTATAAAGAAGCACATATCACACCGAT
GCCATAGCCCATATACAATCTTATACGGAAAGCACAT
Found at i:54225156 original size:73 final size:73
Alignment explanation
Indices: 54225072--54225276 Score: 322
Period size: 73 Copynumber: 2.8 Consensus size: 73
54225062 TATTTCTGTT
* * *
54225072 TCAAAATTCAACTCATATTGTGAGATGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATT
54225137 ACTATTTG
66 ACTATTTG
* *
54225145 TCAAAAATCAACTCATATTGCGGGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATT
54225210 ACTATTTG
66 ACTATTTG
* * * *
54225218 TC-AAAATCAACTCATACTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTT
1 TCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTT
54225277 TGATTTTTGT
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 51 0.42
73 70 0.58
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATT
ACTATTTG
Found at i:54225408 original size:74 final size:73
Alignment explanation
Indices: 54225287--54225515 Score: 302
Period size: 74 Copynumber: 3.1 Consensus size: 73
54225277 TGATTTTTGT
* *
54225287 TTTTCAATATATGTTTTCAAAAATCAATTCATAGTGCTAAAGGTGAATTGAGCCTCGGGTCGCAT
1 TTTTCAATTTA-GTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCAT
54225352 AGCGAGGTA
65 AGCGAGGTA
*
54225361 TTTTCAATTTACGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCATCGGGTCGCAT
1 TTTTCAATTTA-GTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCAT
54225426 AGCGAGGTA
65 AGCGAGGTA
* * * * * * *
54225435 TTTTCAATTTA-TATTTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGT--CAT
1 TTTTCAATTTAGT-TTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCAT
54225497 ACGCTGAGGTA
65 A-GC-GAGGTA
54225508 TTTTCAAT
1 TTTTCAAT
54225516 AGATATTTTT
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
71 4 0.03
72 3 0.02
73 52 0.37
74 81 0.58
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTAGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCATA
GCGAGGTA
Found at i:54227935 original size:21 final size:21
Alignment explanation
Indices: 54227906--54227945 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54227896 ATTCATGCAT
*
54227906 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
54227927 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
54227946 AGTATATCTT
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:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:54228045 original size:24 final size:25
Alignment explanation
Indices: 54228018--54228068 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
54228008 ATGTGTGTAC
*
54228018 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATATAAATGTTTTATATATT
**
54228042 ATATTATATGTATGTTTTATATATT
1 ATATTATATAAATGTTTTATATATT
54228067 AT
1 AT
54228069 GAACATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (25 bp):
ATATTATATAAATGTTTTATATATT
Found at i:54229916 original size:17 final size:18
Alignment explanation
Indices: 54229891--54229939 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
54229881 ACCAATTTTA
54229891 TTCATTTTAATTTATCTAT
1 TTCA-TTTAATTTATCTAT
*
54229910 TT-ATTTAATTT-TTTAT
1 TTCATTTAATTTATCTAT
54229926 TTCATTTAAATTTA
1 TTCATTT-AATTTA
54229940 ATTTTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 6 0.23
19 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCATTTAATTTATCTAT
Found at i:54233128 original size:18 final size:18
Alignment explanation
Indices: 54233080--54233138 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
54233070 AAATAGTACA
* *
54233080 AAAAAAATATCATTATATT
1 AAAAATATATTATT-TATT
*
54233099 AATAAT-TATTATTTATT
1 AAAAATATATTATTTATT
54233116 AAAAATATATTATTTATTT
1 AAAAATATATTATTTA-TT
54233135 AAAA
1 AAAA
54233139 CAAATATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.26
18 15 0.44
19 10 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATATATTATTTATT
Found at i:54239914 original size:18 final size:18
Alignment explanation
Indices: 54239891--54239928 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
54239881 ATTCGGGTAA
54239891 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
54239909 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
54239927 AA
1 AA
54239929 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:54240274 original size:9 final size:9
Alignment explanation
Indices: 54240258--54240336 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
54240248 GGTATTTTTC
54240258 GGTAATTCG
1 GGTAATTCG
*
54240267 GTTAATTCG
1 GGTAATTCG
*
54240276 GTTAATTCG
1 GGTAATTCG
*
54240285 GTTAATTCG
1 GGTAATTCG
54240294 GGTAATTCG
1 GGTAATTCG
54240303 GGTAATTCG
1 GGTAATTCG
54240312 GGTAATTCG
1 GGTAATTCG
54240321 GGTAATTCG
1 GGTAATTCG
54240330 GGTAATT
1 GGTAATT
54240337 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:54240514 original size:12 final size:12
Alignment explanation
Indices: 54240497--54240521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54240487 AGTAATTTCG
54240497 GGTCGGTTAACC
1 GGTCGGTTAACC
54240509 GGTCGGTTAACC
1 GGTCGGTTAACC
54240521 G
1 G
54240522 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:54247101 original size:21 final size:20
Alignment explanation
Indices: 54247063--54247101 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
54247053 TGTCGTGGTT
**
54247063 TTTTTTATTAAATTTTATGA
1 TTTTTTATTAAACATTATGA
54247083 TTTTTTATTTAAACATTAT
1 TTTTTTA-TTAAACATTAT
54247102 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTTATTAAACATTATGA
Found at i:54247566 original size:21 final size:20
Alignment explanation
Indices: 54247542--54247580 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54247532 AAATAATAAA
54247542 ATTTTGATAACTTTTAAATTT
1 ATTTTGATAA-TTTTAAATTT
* *
54247563 ATTTTTATTATTTTAAAT
1 ATTTTGATAATTTTAAAT
54247581 ATAAAAATAT
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:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTGATAATTTTAAATTT
Found at i:54247618 original size:30 final size:30
Alignment explanation
Indices: 54247559--54247618 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54247549 TAACTTTTAA
* *
54247559 ATTTATTTTTATTATTTTAAATATAAAAAT
1 ATTTATTTTTATTATTTAAAAAATAAAAAT
*
54247589 ATTTATTTTTA-TATTATAAAAAATTAAAAT
1 ATTTATTTTTATTATT-TAAAAAATAAAAAT
54247619 TAAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTTATTTTTATTATTTAAAAAATAAAAAT
Found at i:54249734 original size:13 final size:13
Alignment explanation
Indices: 54249716--54249740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54249706 AGAACTGGCC
54249716 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
54249729 AAGAAAAAAAAA
1 AAGAAAAAAAAA
54249741 GACAGCTGTC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:54260132 original size:28 final size:28
Alignment explanation
Indices: 54260101--54260154 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
54260091 TACACATAGG
54260101 ATTATTACATTGTAAAGAACTTGATAAC
1 ATTATTACATTGTAAAGAACTTGATAAC
54260129 ATTATTACATTGTAAAGAACTTGATA
1 ATTATTACATTGTAAAGAACTTGATA
54260155 CTCTACACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (28 bp):
ATTATTACATTGTAAAGAACTTGATAAC
Found at i:54268653 original size:110 final size:110
Alignment explanation
Indices: 54268460--54268679 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
54268450 TACTTTTTCA
54268460 AACAATCAAGCACACTCTAAGAGAGGAATTATCTTCGCTTCTTCTGCTCATGTTTTTGTTACAAT
1 AACAATCAAGCACACTCTAAGAGAGGAATTATCTTCGCTTCTTCTGCTCATGTTTTTGTTACAAT
54268525 GATTTAGAATCGATTCAACACTTATTCTTCACATGTGATAGGGCT
66 GATTTAGAATCGATTCAACACTTATTCTTCACATGTGATAGGGCT
54268570 AACAATCAAGCACACTCTAAGAGAGGAATTATCTTCGCTTCTTCTGCTCATGTTTTTGTTACAAT
1 AACAATCAAGCACACTCTAAGAGAGGAATTATCTTCGCTTCTTCTGCTCATGTTTTTGTTACAAT
54268635 GATTTAGAATCGATTCAACACTTATTCTTCACATGTGATAGGGCT
66 GATTTAGAATCGATTCAACACTTATTCTTCACATGTGATAGGGCT
54268680 TGGAGGAGAC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (110 bp):
AACAATCAAGCACACTCTAAGAGAGGAATTATCTTCGCTTCTTCTGCTCATGTTTTTGTTACAAT
GATTTAGAATCGATTCAACACTTATTCTTCACATGTGATAGGGCT
Found at i:54270110 original size:22 final size:21
Alignment explanation
Indices: 54270068--54270110 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
54270058 TTTAAAATTT
*
54270068 ATTAAAAATATTCAAATAATA
1 ATTAAAAAAATTCAAATAATA
54270089 ATTAAAATAAATTCGAAA-AATA
1 ATTAAAA-AAATTC-AAATAATA
54270111 TAAGAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
ATTAAAAAAATTCAAATAATA
Found at i:54274615 original size:7 final size:7
Alignment explanation
Indices: 54274603--54274628 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
54274593 CATATAATCT
54274603 ATTTTCC
1 ATTTTCC
54274610 ATTTTCC
1 ATTTTCC
54274617 ATTTTCC
1 ATTTTCC
54274624 ATTTT
1 ATTTT
54274629 TTTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCC
Found at i:54274632 original size:25 final size:25
Alignment explanation
Indices: 54274604--54274654 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
54274594 ATATAATCTA
54274604 TTTTCCATTTTCCAT-TTTCCATTTT
1 TTTTCCATTTTCCATGTTT-CATTTT
* *
54274629 TTTTTCATTTTTCATGTTTCATTTT
1 TTTTCCATTTTCCATGTTTCATTTT
54274654 T
1 T
54274655 CAAGTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCCATTTTCCATGTTTCATTTT
Found at i:54274639 original size:7 final size:7
Alignment explanation
Indices: 54274603--54274656 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
54274593 CATATAATCT
*
54274603 ATTTTCC
1 ATTTTTC
*
54274610 ATTTTCC
1 ATTTTTC
*
54274617 ATTTTCC
1 ATTTTTC
54274624 A-TTTT-
1 ATTTTTC
54274629 -TTTTTC
1 ATTTTTC
54274635 ATTTTTC
1 ATTTTTC
*
54274642 ATGTTTC
1 ATTTTTC
54274649 ATTTTTC
1 ATTTTTC
54274656 A
1 A
54274657 AGTTTAAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.10
6 3 0.07
7 34 0.83
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.65
Consensus pattern (7 bp):
ATTTTTC
Found at i:54274650 original size:14 final size:14
Alignment explanation
Indices: 54274631--54274661 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
54274621 TCCATTTTTT
*
54274631 TTTCATTTTTCATG
1 TTTCATTTTTCAAG
54274645 TTTCATTTTTCAAG
1 TTTCATTTTTCAAG
54274659 TTT
1 TTT
54274662 AAGTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTCATTTTTCAAG
Found at i:54286993 original size:28 final size:28
Alignment explanation
Indices: 54286955--54287061 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
54286945 GAATCATTCG
*
54286955 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
54286983 ATATCTCGCACACTAAGTGACATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
54287011 ATATTTCGTACACCAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
54287039 ATATTTCGTACACTAAGTATCAT
1 ATATTTCGCACACTAAGTGTCAT
54287062 ATTTGATTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:54295170 original size:28 final size:28
Alignment explanation
Indices: 54295136--54295347 Score: 208
Period size: 28 Copynumber: 7.5 Consensus size: 28
54295126 AACCGATCTT
* * *
54295136 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATAACGGAACTC
* * * *
54295164 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATAACGGAACTC
*
54295193 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATAACGGAACTC
* * * * *
54295221 ACACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATAACGGAACTC
* *
54295250 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATAACGGAACTC
* * * *
54295278 GCACACACAGTGCCTCAACAACAGATCTC
1 GCACACACAGTG-CTCGATAACGGAACTC
*
54295307 GCACACACAGTGCTCGGTAACGGAACTC
1 GCACACACAGTGCTCGATAACGGAACTC
*
54295335 ACACACACAGTGC
1 GCACACACAGTGC
54295348 CTATGTTCAC
Statistics
Matches: 144, Mismatches: 37, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
28 79 0.55
29 65 0.45
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGATAACGGAACTC
Found at i:54295197 original size:57 final size:57
Alignment explanation
Indices: 54295105--54295349 Score: 400
Period size: 57 Copynumber: 4.3 Consensus size: 57
54295095 TGATCTCATT
** * * *
54295105 TCACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* *
54295162 TCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
54295219 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
54295276 TCGCACACACAGTGCCTCAACAACAGATCTCGCACACACAGTGCTCGGTAACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
54295333 TCACACACACAGTGCCT
1 TCACACACACAGTGCCT
54295350 ATGTTCACTT
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 175 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
Found at i:54295202 original size:29 final size:29
Alignment explanation
Indices: 54295106--54295319 Score: 191
Period size: 29 Copynumber: 7.4 Consensus size: 29
54295096 GATCTCATTT
* *
54295106 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
54295137 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
54295165 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* ** * * *
54295194 CACACACAGTG-CTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
54295222 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
54295251 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
54295279 CACACACAGTGCCTCAACAACAGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
54295308 CACACACAGTGC
1 CACACACAGTGC
54295320 TCGGTAACGG
Statistics
Matches: 140, Mismatches: 40, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
28 63 0.45
29 70 0.50
31 7 0.05
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.16
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:54297360 original size:28 final size:28
Alignment explanation
Indices: 54297322--54297428 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
54297312 GAATCATTCG
* *
54297322 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
54297350 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
54297378 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
54297406 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
54297429 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:54302210 original size:54 final size:54
Alignment explanation
Indices: 54302128--54302238 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
54302118 AAATAGACTA
54302128 AATTAATTTTCTTTTGAATTTTTAGGGTAGATAAAAGTCACTGTCAGTTTACCC
1 AATTAATTTTCTTTTGAATTTTTAGGGTAGATAAAAGTCACTGTCAGTTTACCC
*
54302182 AATTAATTTTCTTTTTAATTTTTAGGGTAGATAAAAGTCACTGTCAGTTTACCC
1 AATTAATTTTCTTTTGAATTTTTAGGGTAGATAAAAGTCACTGTCAGTTTACCC
54302236 AAT
1 AAT
54302239 ACATAACTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (54 bp):
AATTAATTTTCTTTTGAATTTTTAGGGTAGATAAAAGTCACTGTCAGTTTACCC
Found at i:54303343 original size:28 final size:28
Alignment explanation
Indices: 54303273--54303345 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
54303263 GCTCTTTGTA
* **
54303273 ATTTATAAAATTTTAAATTTGATTTAATC
1 ATTTA-AAAATTATAAATTCAATTTAATC
*
54303302 ATTT-AAATTATATAAATTCAATTTAATC
1 ATTTAAAAAT-TATAAATTCAATTTAATC
54303330 ATTTAAAAATTATAAA
1 ATTTAAAAATTATAAA
54303346 AAAATAGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 4 0.11
28 25 0.68
29 8 0.22
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTTAAAAATTATAAATTCAATTTAATC
Found at i:54307926 original size:13 final size:13
Alignment explanation
Indices: 54307908--54307946 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
54307898 CACATTCCCG
54307908 TGTGGCTCGAC-CA
1 TGTGGCTC-ACACA
54307921 TGTGGCTCACACA
1 TGTGGCTCACACA
54307934 TGTGGCTCACACA
1 TGTGGCTCACACA
54307947 GCCAAGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (13 bp):
TGTGGCTCACACA
Found at i:54309859 original size:40 final size:38
Alignment explanation
Indices: 54309792--54309924 Score: 152
Period size: 35 Copynumber: 3.6 Consensus size: 38
54309782 CCATGGTAAA
54309792 TTGTGAAATGTAGGTATGG---TATCATCCATACTGAG
1 TTGTGAAATGTAGGTATGGTATTATCATCCATACTGAG
54309827 TTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAG
1 TTGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAG
** * *
54309867 TTAAGAAATGTAGGTATGGCATT-TC--CCATACCGAG
1 TTGTGAAATGTAGGTATGGTATTATCATCCATACTGAG
* *
54309902 TTGTAAAATGTAGGTATAGTATT
1 TTGTGAAATGTAGGTATGGTATT
54309925 TTAATTAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
35 46 0.55
38 4 0.05
39 2 0.02
40 32 0.38
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (38 bp):
TTGTGAAATGTAGGTATGGTATTATCATCCATACTGAG
Found at i:54309883 original size:35 final size:34
Alignment explanation
Indices: 54309796--54309884 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 34
54309786 GGTAAATTGT
**
54309796 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTAT-GTATCATCCATACTGAGTTAA
54309831 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTAT-G---TATC--ATCCATACTGAGTTAA
54309871 GAAATGTAGGTATG
1 GAAATGTAGGTATG
54309885 GCATTTCCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 15 0.32
38 4 0.09
39 1 0.02
40 27 0.57
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (34 bp):
GAAATGTAGGTATGTATCATCCATACTGAGTTAA
Found at i:54312248 original size:74 final size:75
Alignment explanation
Indices: 54312123--54312326 Score: 261
Period size: 74 Copynumber: 2.7 Consensus size: 75
54312113 ATTCGGATTA
* * * *
54312123 ACCGACGATATTGAA-TGTGAGCCCAACTCTAGTTGGATAAACCAGCAATATTTGCACCCAGTAC
1 ACCGACGATAAT-AATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTAC
*
54312187 TAGTCGGATAT
65 TAGTCGAATAT
* * *
54312198 ACCGATGATAATAATTGTGAGCCCAGC-CTAGTTGGATAAACCAACGATATTTGCACCTAGTGCT
1 ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTACT
*
54312262 AGTTGAATAT
66 AGTCGAATAT
* * *
54312272 ATCGACGATAATAATTGT-AGGCCCAGCTCTAGTTGGATAAACTAACGATAATTGC
1 ACCGACGATAATAATTGTGA-GCCCAGCTCTAGTTGGATAAACCAACGATATTTGC
54312327 GCTTAGCGCT
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
73 1 0.01
74 66 0.58
75 46 0.41
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (75 bp):
ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTACT
AGTCGAATAT
Found at i:54312320 original size:40 final size:40
Alignment explanation
Indices: 54312204--54312323 Score: 96
Period size: 40 Copynumber: 3.1 Consensus size: 40
54312194 ATATACCGAT
*
54312204 GATAATAATTGT-GAGCCCAGC-CTAGTTGGATAAACCAAC
1 GATAATAATTGTAG-GCCCAGCTCTAGTTGGATAAACTAAC
* * * * *
54312243 GAT-AT--TTGCA--CCTAG-TGCTAGTTGAATATA-TCGAC
1 GATAATAATTGTAGGCCCAGCT-CTAGTTGGATAAACT-AAC
54312278 GATAATAATTGTAGGCCCAGCTCTAGTTGGATAAACTAAC
1 GATAATAATTGTAGGCCCAGCTCTAGTTGGATAAACTAAC
54312318 GATAAT
1 GATAAT
54312324 TGCGCTTAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 21
0.65 0.12 0.23
Matches are distributed among these distances:
34 4 0.07
35 16 0.27
36 5 0.08
38 6 0.10
39 3 0.05
40 23 0.39
41 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (40 bp):
GATAATAATTGTAGGCCCAGCTCTAGTTGGATAAACTAAC
Found at i:54312338 original size:75 final size:74
Alignment explanation
Indices: 54312123--54312358 Score: 242
Period size: 75 Copynumber: 3.2 Consensus size: 74
54312113 ATTCGGATTA
* * * * * * **
54312123 ACCGACGATATTGAA-TGTGAGCCCAACTCTAGTTGGATAAACCAGCAATATTTGCACCCAGTAC
1 ACCGACGATAAT-AATTGTGAGCCCAGC-CTAGTTGGATAAACCAACGATAATTGCACCTAGCGC
* *
54312187 TAGTCGGATAT
64 TAGTTGAATAT
* * *
54312198 ACCGATGATAATAATTGTGAGCCCAGCCTAGTTGGATAAACCAACGATATTTGCACCTAGTGCTA
1 ACCGACGATAATAATTGTGAGCCCAGCCTAGTTGGATAAACCAACGATAATTGCACCTAGCGCTA
54312263 GTTGAATAT
66 GTTGAATAT
* * * *
54312272 ATCGACGATAATAATTGT-AGGCCCAGCTCTAGTTGGATAAACTAACGATAATTGCGCTTAGCGC
1 ACCGACGATAATAATTGTGA-GCCCAGC-CTAGTTGGATAAACCAACGATAATTGCACCTAGCGC
* *
54312336 TAGTTGGATAA
64 TAGTTGAATAT
*
54312347 ACCAACGATAAT
1 ACCGACGATAAT
54312359 TGCGCCCAGT
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
73 1 0.01
74 66 0.48
75 71 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (74 bp):
ACCGACGATAATAATTGTGAGCCCAGCCTAGTTGGATAAACCAACGATAATTGCACCTAGCGCTA
GTTGAATAT
Found at i:54312341 original size:35 final size:35
Alignment explanation
Indices: 54312218--54312387 Score: 153
Period size: 35 Copynumber: 4.7 Consensus size: 35
54312208 ATAATTGTGA
*
54312218 GCCCAGC-CTAGTTGGATAAACCAACGATATTTGC
1 GCCCAGCGCTAGTTGGATAAACCAACGATAATTGC
* * * * * * * *
54312252 ACCTAGTGCTAGTTGAATATATCGACGATAATAATTGTAG
1 GCCCAGCGCTAGTTGGATAAACCAACG---ATAATTG--C
* *
54312292 GCCCAGCTCTAGTTGGATAAACTAACGATAATTGC
1 GCCCAGCGCTAGTTGGATAAACCAACGATAATTGC
**
54312327 GCTTAGCGCTAGTTGGATAAACCAACGATAATTGC
1 GCCCAGCGCTAGTTGGATAAACCAACGATAATTGC
* *
54312362 GCCCAGTGCTAGTCGGATAAACCAAC
1 GCCCAGCGCTAGTTGGATAAACCAAC
54312388 AATTGTGTAC
Statistics
Matches: 103, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
34 4 0.04
35 68 0.66
37 7 0.07
38 6 0.06
40 18 0.17
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (35 bp):
GCCCAGCGCTAGTTGGATAAACCAACGATAATTGC
Found at i:54315560 original size:46 final size:46
Alignment explanation
Indices: 54315492--54315858 Score: 468
Period size: 46 Copynumber: 8.0 Consensus size: 46
54315482 TTATCTTCGA
* * * *
54315492 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* * * ***
54315538 CATGTTTCCATGATATCTTTCAACCATGGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATAT
* *
54315585 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
54315631 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
54315677 CACGTTTCCATGGTATCTTTCAACCATGGTCTCACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
54315723 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATAT
*
54315769 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
** * * *
54315815 CATGTTGTAATGGTATCTTTTAACGATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
54315859 TTCAAAAAGC
Statistics
Matches: 289, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 3 0.01
46 246 0.85
47 40 0.14
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Done.