Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 168 of 250
Found at i:54095276 original size:23 final size:23
Alignment explanation
Indices: 54095250--54095294 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
54095240 ATTATCATTC
54095250 ATCATAAACATACTCTACAACTT
1 ATCATAAACATACTCTACAACTT
54095273 ATCATAAACATACTCTACAACT
1 ATCATAAACATACTCTACAACT
54095295 GAGTTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCATAAACATACTCTACAACTT
Found at i:54095761 original size:31 final size:31
Alignment explanation
Indices: 54095712--54095786 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
54095702 AAAAAAAGTT
* *
54095712 AACAATTTAGTAAATTAAAT-AAAACTTTTTG
1 AACAATTTAATAAATTAAATGAAAA-TTTTTA
** *
54095743 AACAATTTAATATCTTAAATGATAATTTTTA
1 AACAATTTAATAAATTAAATGAAAATTTTTA
*
54095774 AATAATTTAATAA
1 AACAATTTAATAA
54095787 CTATTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (31 bp):
AACAATTTAATAAATTAAATGAAAATTTTTA
Found at i:54096468 original size:27 final size:27
Alignment explanation
Indices: 54096406--54096468 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
54096396 GTAATGGTTT
54096406 TATA-AAAATAAAATATTAAATTAAAC
1 TATATAAAATAAAATATTAAATTAAAC
* * * *
54096432 TATATCAAAT-AAATCTTAAATTTAAG
1 TATATAAAATAAAATATTAAATTAAAC
54096458 TATAATAAAAT
1 TAT-ATAAAAT
54096469 GATTAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (27 bp):
TATATAAAATAAAATATTAAATTAAAC
Found at i:54102789 original size:10 final size:10
Alignment explanation
Indices: 54102776--54102889 Score: 54
Period size: 9 Copynumber: 12.0 Consensus size: 10
54102766 GGCTTATAAC
54102776 TTTTTATATA
1 TTTTTATATA
54102786 TTTTTAGT-T-
1 TTTTTA-TATA
54102795 TGTTTTATA-A
1 T-TTTTATATA
54102805 -TTTTACTAT-
1 TTTTTA-TATA
54102814 TTTTTATAATA
1 TTTTTAT-ATA
54102825 TTTTGTA-AT-
1 TTTT-TATATA
* *
54102834 TTTTTTTGACA
1 TTTTTAT-ATA
*
54102845 TTTTTA-ACA
1 TTTTTATATA
*
54102854 TTTTTAAATA
1 TTTTTATATA
54102864 -TTTT-TATA
1 TTTTTATATA
54102872 TTTTTATA-A
1 TTTTTATATA
54102881 -TTTTATATA
1 TTTTTATATA
54102890 AATATATCTA
Statistics
Matches: 82, Mismatches: 5, Indels: 35
0.67 0.04 0.29
Matches are distributed among these distances:
8 16 0.20
9 28 0.34
10 26 0.32
11 10 0.12
12 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (10 bp):
TTTTTATATA
Found at i:54107347 original size:16 final size:16
Alignment explanation
Indices: 54107326--54107358 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54107316 AAGAATTAAG
54107326 AATTATATTTGTATAT
1 AATTATATTTGTATAT
*
54107342 AATTATATTTTTATAT
1 AATTATATTTGTATAT
54107358 A
1 A
54107359 TATACATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATATTTGTATAT
Found at i:54115713 original size:21 final size:21
Alignment explanation
Indices: 54115689--54115761 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
54115679 TTCGATGCTT
*
54115689 CTGAGAGATCTGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
54115710 CTGAGAGATCCGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
*
54115731 CTGAGAGATCCAAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
54115752 CT-AGGAGATC
1 CTGA-GAGATC
54115762 AAAGAGGCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (21 bp):
CTGAGAGATCCGAGGAATTGC
Found at i:54119316 original size:10 final size:10
Alignment explanation
Indices: 54119301--54119401 Score: 86
Period size: 10 Copynumber: 10.5 Consensus size: 10
54119291 AATATGGCCA
54119301 AAAAAATTAT
1 AAAAAATTAT
54119311 AAAAAATTAT
1 AAAAAATTAT
* *
54119321 TAAAAATCAT
1 AAAAAATTAT
54119331 -AAAAATTAT
1 AAAAAATTAT
* *
54119340 TAAAATTTAGT
1 AAAAAATTA-T
54119351 AAAAAA--AT
1 AAAAAATTAT
54119359 AAAAAATT-T
1 AAAAAATTAT
* *
54119368 -TAAATTTAT
1 AAAAAATTAT
* *
54119377 TAAAAATTAG
1 AAAAAATTAT
54119387 AAAAAATTAT
1 AAAAAATTAT
54119397 AAAAA
1 AAAAA
54119402 TCGTAAAAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
8 12 0.17
9 11 0.15
10 44 0.61
11 5 0.07
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:54119411 original size:19 final size:20
Alignment explanation
Indices: 54119310--54119411 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 20
54119300 AAAAAAATTA
54119310 TAAAAAATTATTAAAAATCA-
1 TAAAAAATTATTAAAAAT-AG
*
54119330 T-AAAAATTATTAAAATTTAG
1 TAAAAAATTATTAAAA-ATAG
*
54119350 TAAAAAA--A-TAAAAA-AT
1 TAAAAAATTATTAAAAATAG
** *
54119366 TTTAAATTTATTAAAAATTAG
1 TAAAAAATTATTAAAAA-TAG
*
54119387 -AAAAAATTA-TAAAAATCG
1 TAAAAAATTATTAAAAATAG
54119405 TAAAAAA
1 TAAAAAA
54119412 AATAAGGACA
Statistics
Matches: 62, Mismatches: 11, Indels: 19
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.08
18 8 0.13
19 34 0.55
20 9 0.15
21 6 0.10
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAAAATTATTAAAAATAG
Found at i:54120167 original size:24 final size:24
Alignment explanation
Indices: 54120140--54120185 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
54120130 ATAAGTTGTT
*
54120140 TATATTTAAAAAATATTAAACATA
1 TATAATTAAAAAATATTAAACATA
**
54120164 TATAATTATTAAATATTAAACA
1 TATAATTAAAAAATATTAAACA
54120186 AATAACACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATTAAAAAATATTAAACATA
Found at i:54122124 original size:3 final size:3
Alignment explanation
Indices: 54122116--54122142 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
54122106 TTACTTCTTT
54122116 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
54122143 ATTCATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:54125729 original size:3 final size:3
Alignment explanation
Indices: 54125717--54125760 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
54125707 ATTTTTTTTC
*
54125717 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T
54125761 TAAAATAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:54136599 original size:15 final size:16
Alignment explanation
Indices: 54136576--54136605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54136566 GGTTGAATCG
54136576 AATT-TTTTTATTTTA
1 AATTGTTTTTATTTTA
54136591 AATTGTTTTTATTTT
1 AATTGTTTTTATTTT
54136606 TAAAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTGTTTTTATTTTA
Found at i:54140790 original size:63 final size:61
Alignment explanation
Indices: 54140690--54140807 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 61
54140680 ATCCATGTAT
* * * *
54140690 GAGAGCGTTAACGATTGAAACCATCAATGGTGAGGAAGAGTAAGTCATGAAGTGATAATGG
1 GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATAATGG
*
54140751 GAGAGCGGTAACGAATTCGAAACCGTTC-ATGGGGAGGAAGAATAAATCATGAAGTGA
1 GAGAGCGGTAACG-ATT-GAAACC-ATCAATGGGGAGGAAGAATAAATCATGAAGTGA
54140808 GATAATGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
61 12 0.24
62 3 0.06
63 32 0.65
64 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.19
Consensus pattern (61 bp):
GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATAATGG
Found at i:54141538 original size:15 final size:16
Alignment explanation
Indices: 54141508--54141538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54141498 GGCATTATCA
54141508 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
54141524 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
54141539 CAATAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:54146103 original size:17 final size:17
Alignment explanation
Indices: 54146083--54146134 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
54146073 TTGAAATACC
*
54146083 TCAAACTAAAAAATATT
1 TCAAACTAAAAATTATT
* **
54146100 TCAAACTCAAAATTAAC
1 TCAAACTAAAAATTATT
*
54146117 TCAAATTAAAAATTATT
1 TCAAACTAAAAATTATT
54146134 T
1 T
54146135 GAGCCCTAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAACTAAAAATTATT
Found at i:54146826 original size:13 final size:13
Alignment explanation
Indices: 54146808--54146846 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
54146798 ATGTGAAGAA
54146808 TATTATTTAAAAT
1 TATTATTTAAAAT
*
54146821 TATTATTTAAATTT
1 TATTATTTAAA-AT
54146835 TATTA-TTAAAAT
1 TATTATTTAAAAT
54146847 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:54146839 original size:14 final size:14
Alignment explanation
Indices: 54146808--54146847 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
54146798 ATGTGAAGAA
54146808 TATTATTTAAA-AT
1 TATTATTTAAATAT
*
54146821 TATTATTTAAATTT
1 TATTATTTAAATAT
*
54146835 TATTATTAAAATA
1 TATTATTTAAATA
54146848 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTAAATAT
Found at i:54146892 original size:20 final size:22
Alignment explanation
Indices: 54146852--54146911 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
54146842 AAAATAAAAA
54146852 TAAA-ATATTAA-ATATTT-TAT
1 TAAATATATTAATA-ATTTATAT
54146872 TAAATA-A-TAATAATTTATAT
1 TAAATATATTAATAATTTATAT
*
54146892 TAAATATATTAATAAGTTAT
1 TAAATATATTAATAATTTAT
54146912 TATATGACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 7 0.21
20 15 0.44
21 2 0.06
22 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAATATATTAATAATTTATAT
Found at i:54146892 original size:32 final size:33
Alignment explanation
Indices: 54146816--54146902 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 33
54146806 AATATTATTT
* *
54146816 AAAATTATTAT-TTAAATTTTATTATTAAAATA
1 AAAATAATTATATTAAATATTATTATTAAAATA
*
54146848 AAAATAA-AATATTAAATATT-TTATT-AAATA
1 AAAATAATTATATTAAATATTATTATTAAAATA
*
54146878 ATAATAATTTATATTAAATA-TATTA
1 AAAATAA-TTATATTAAATATTATTA
54146903 ATAAGTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
30 11 0.24
31 8 0.17
32 27 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
AAAATAATTATATTAAATATTATTATTAAAATA
Found at i:54146911 original size:22 final size:20
Alignment explanation
Indices: 54146869--54146911 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
54146859 TTAAATATTT
*
54146869 TATTAAATAATAATAATTTA
1 TATTAAATAATAATAAGTTA
54146889 TATTAAATATATTAATAAGTTA
1 TATTAAATA-A-TAATAAGTTA
54146911 T
1 T
54146912 TATATGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTAAATAATAATAAGTTA
Found at i:54146982 original size:13 final size:14
Alignment explanation
Indices: 54146962--54146993 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
54146952 AATATTGAAA
54146962 AATA-TAATATTTT
1 AATATTAATATTTT
54146975 -ATATTAATATTTT
1 AATATTAATATTTT
54146988 AATATT
1 AATATT
54146994 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:54151092 original size:23 final size:20
Alignment explanation
Indices: 54151059--54151105 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
54151049 GGTTACTTAT
54151059 AAATATGTAAAACTTCAAAAAA
1 AAATATGTAAAA--TCAAAAAA
*
54151081 AAATATTGTAAAATGAAAAAA
1 AAATA-TGTAAAATCAAAAAA
54151102 AAAT
1 AAAT
54151106 TGTTTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 5 0.22
23 7 0.30
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (20 bp):
AAATATGTAAAATCAAAAAA
Found at i:54167332 original size:10 final size:10
Alignment explanation
Indices: 54167317--54167346 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
54167307 CATTAATACT
54167317 GTATTTGACA
1 GTATTTGACA
54167327 GTATTTGACA
1 GTATTTGACA
54167337 GTATTTGACA
1 GTATTTGACA
54167347 ATTCAATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (10 bp):
GTATTTGACA
Found at i:54171941 original size:27 final size:25
Alignment explanation
Indices: 54171893--54171952 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
54171883 AAAACTATTT
54171893 TTTAAAAAATAAAAATTATTTAAAAA
1 TTTAAAAAATAAAAATTATTT-AAAA
* *
54171919 TATTAAAAAATTTAATATT-TTTAAAA
1 T-TTAAAAAA-TAAAAATTATTTAAAA
54171945 TTTAAAAA
1 TTTAAAAA
54171953 TTAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 6 0.20
27 11 0.37
28 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTAAAAAATAAAAATTATTTAAAA
Found at i:54171955 original size:45 final size:46
Alignment explanation
Indices: 54171839--54171961 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 46
54171829 ACAAGTTAGC
**
54171839 ATTTAATTAATTTTTAAAATTTAAAAATT-TCAAAAAATATATAAAAA
1 ATTTAA-T-ATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
* **
54171886 A-CT-AT-TTTTTAAAAAATAAAAATTATTTAAAAATAT-TAAAAA
1 ATTTAATATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
*
54171928 ATTTAATATTTTTAAAATTTAAAAATTAATTAAA
1 ATTTAATATTTTTAAAATTTAAAAATTATTTAAA
54171962 TATTGATGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 24 0.38
43 10 0.16
44 3 0.05
45 24 0.38
46 1 0.02
47 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (46 bp):
ATTTAATATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
Found at i:54172622 original size:2 final size:2
Alignment explanation
Indices: 54172615--54172641 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
54172605 TAAGCATCAT
54172615 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
54172642 TTGTTCCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54174266 original size:20 final size:20
Alignment explanation
Indices: 54174238--54174280 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
54174228 AAAATGGTTT
* *
54174238 AAACTTTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
*
54174258 AAACATTTTTAAATCGATTG
1 AAACATTTTTAAATCAATTG
54174278 AAA
1 AAA
54174281 AATTGTTCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:54175076 original size:41 final size:40
Alignment explanation
Indices: 54174995--54175235 Score: 165
Period size: 41 Copynumber: 6.3 Consensus size: 40
54174985 ATACACATTG
* * * * *
54174995 GCGGCGTTTTT-CCGAAACGCCACTAAAAGCTAAACTATA
1 GCGGCGTTTTTGCCAAAACGCCACTAAAAACTGATCAATA
*
54175034 GCGGCGTTTTTGCCAAAAACGCCACTAAAAACTGGTCAATA
1 GCGGCGTTTTTGCC-AAAACGCCACTAAAAACTGATCAATA
* *
54175075 GCGGCATTTTT----AAACGCCACTAAAAGCTGATCAATA
1 GCGGCGTTTTTGCCAAAACGCCACTAAAAACTGATCAATA
*
54175111 ACGGCGTTTTAAT-CTC-AAACGCCACT---AA---AT---T-
1 GCGGCGTTTT--TGC-CAAAACGCCACTAAAAACTGATCAATA
* * * *
54175142 GTGGCGTTTTTGTCCCAAACGCCACAAAAAACTGATCAATT
1 GCGGCGTTTTTG-CCAAAACGCCACTAAAAACTGATCAATA
* * *
54175183 GTGGCGTTTTTATCCAAAACGCCACTAAAAACTGATTAATA
1 GCGGCGTTTTT-GCCAAAACGCCACTAAAAACTGATCAATA
54175224 GCGGCGTTTTTG
1 GCGGCGTTTTTG
54175236 GTCCAAACGC
Statistics
Matches: 159, Mismatches: 22, Indels: 41
0.72 0.10 0.18
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 18 0.11
32 1 0.01
34 2 0.01
35 2 0.01
36 31 0.19
37 2 0.01
38 2 0.01
39 11 0.07
40 3 0.02
41 85 0.53
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
GCGGCGTTTTTGCCAAAACGCCACTAAAAACTGATCAATA
Found at i:54175090 original size:36 final size:36
Alignment explanation
Indices: 54175050--54175120 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
54175040 TTTTTGCCAA
* *
54175050 AAACGCCACTAAAAACTGGTCAATAGCGGCATTTTT
1 AAACGCCACTAAAAACTGATCAATAACGGCATTTTT
* *
54175086 AAACGCCACTAAAAGCTGATCAATAACGGCGTTTT
1 AAACGCCACTAAAAACTGATCAATAACGGCATTTT
54175121 AATCTCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (36 bp):
AAACGCCACTAAAAACTGATCAATAACGGCATTTTT
Found at i:54175244 original size:41 final size:40
Alignment explanation
Indices: 54175144--54175253 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 40
54175134 ACTAAATTGT
* *
54175144 GGCGTTTTTGTCCCAAACGCCACAAAAAACTGATCAATTGT
1 GGCGTTTTTGT-CCAAACGCCACAAAAAACTGATCAATAGC
* * *
54175185 GGCGTTTTTATCCAAAACGCCACTAAAAACTGATTAATAGC
1 GGCGTTTTTGTCC-AAACGCCACAAAAAACTGATCAATAGC
*
54175226 GGCGTTTTTGGTCCAAACGCCGCAAAAA
1 GGCGTTTTT-GTCCAAACGCCACAAAAA
54175254 GTTTAGCAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
GGCGTTTTTGTCCAAACGCCACAAAAAACTGATCAATAGC
Found at i:54175596 original size:28 final size:28
Alignment explanation
Indices: 54175536--54175611 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
54175526 TGGCTTTCTG
* *
54175536 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
54175565 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
54175593 TAAACACT-AATCTATAAAC
1 TAAACCCTAAATCT-TAAAC
54175612 TCCAAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 26 0.65
29 9 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:54177558 original size:14 final size:15
Alignment explanation
Indices: 54177539--54177568 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
54177529 TGTGTTTATA
54177539 TAAATACAT-AATTC
1 TAAATACATAAATTC
54177553 TAAATACATAAATTC
1 TAAATACATAAATTC
54177568 T
1 T
54177569 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:54181655 original size:24 final size:23
Alignment explanation
Indices: 54181628--54181695 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
54181618 ATTATTATTG
*
54181628 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATC-TCCGTTTTATCAC
*
54181652 AAATATTATTCTCCGTTTTATTAC
1 AAATATTA-TCTCCGTTTTATCAC
54181676 AAATATTATCTTCCGTTTTA
1 AAATATTATC-TCCGTTTTA
54181696 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (23 bp):
AAATATTATCTCCGTTTTATCAC
Found at i:54181916 original size:15 final size:15
Alignment explanation
Indices: 54181872--54181927 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
54181862 AACGACATGT
54181872 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
54181888 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
54181901 ATATTATTTAATTAA
1 ATATTATTTAATTAA
54181916 ATATTATTTAAT
1 ATATTATTTAAT
54181928 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:54182044 original size:9 final size:9
Alignment explanation
Indices: 54182032--54182248 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
54182022 TATTTGATAT
*
54182032 CATAATTTA
1 CATAACTTA
54182041 CATAACTTA
1 CATAACTTA
* *
54182050 TATAACATA
1 CATAACTTA
*
54182059 TATAACTTA
1 CATAACTTA
54182068 CATAACTTA
1 CATAACTTA
* *
54182077 TATAACATA
1 CATAACTTA
54182086 CATAACTTA
1 CATAACTTA
*
54182095 TATAACTTA
1 CATAACTTA
* *
54182104 GATAA-ATA
1 CATAACTTA
*
54182112 TATAACTTA
1 CATAACTTA
54182121 CATAACTTA
1 CATAACTTA
54182130 CATAATACTTA
1 CAT-A-ACTTA
* *
54182141 AATATATTTTATA
1 CATA-A--CT-TA
*
54182154 TCATAATTTA
1 -CATAACTTA
54182164 CATAACTTA
1 CATAACTTA
54182173 CATAACTTA
1 CATAACTTA
*
54182182 TATAACTTA
1 CATAACTTA
* *
54182191 GATAA-ATA
1 CATAACTTA
* *
54182199 TATAATTTA
1 CATAACTTA
*
54182208 CATAA-ATA
1 CATAACTTA
* * *
54182216 TATATCATA
1 CATAACTTA
*
54182225 TCATAAATTA
1 -CATAACTTA
54182235 CATAACTTA
1 CATAACTTA
54182244 CATAA
1 CATAA
54182249 TACTTAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 121 0.73
10 11 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:54182054 original size:18 final size:18
Alignment explanation
Indices: 54182032--54182248 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
54182022 TATTTGATAT
* *
54182032 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
54182050 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
54182068 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
54182086 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
54182104 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
54182121 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* *
54182141 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
54182155 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
54182173 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
54182191 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
54182208 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
54182225 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
54182244 CATAA
1 CATAA
54182249 TACTTAAATA
Statistics
Matches: 156, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 2 0.01
17 40 0.26
18 84 0.54
19 9 0.06
20 12 0.08
21 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:54182236 original size:114 final size:114
Alignment explanation
Indices: 54182041--54182272 Score: 297
Period size: 114 Copynumber: 2.0 Consensus size: 114
54182031 TCATAATTTA
* * * * *
54182041 CATAACTTATATAACATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
* * *
54182106 TAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATAT
66 TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
* * * * * *
54182155 CATAATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
*
54182218 TATCATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
66 TA-AATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATAT
54182269 CATA
1 CATA
54182273 CATAACTAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
112 5 0.05
113 18 0.18
114 78 0.77
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (114 bp):
CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
Found at i:54188243 original size:31 final size:31
Alignment explanation
Indices: 54188197--54188263 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
54188187 TGGTTGTATT
* *
54188197 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
54188228 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
54188259 TTTTA
1 TTTTA
54188264 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:54195064 original size:17 final size:19
Alignment explanation
Indices: 54195037--54195074 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
54195027 AAAGTATCAC
54195037 TTTCATATCAA-TTAAGTG
1 TTTCATATCAACTTAAGTG
54195055 TTTC-TATCAACTTAAGTG
1 TTTCATATCAACTTAAGTG
54195073 TT
1 TT
54195075 AAATACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTCATATCAACTTAAGTG
Found at i:54197655 original size:4 final size:4
Alignment explanation
Indices: 54197646--54197670 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
54197636 TAATTGGTTA
54197646 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
54197671 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:54198549 original size:31 final size:31
Alignment explanation
Indices: 54198484--54198550 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
54198474 AATTTAACTG
* * * *
54198484 GTGACCAAAAAAGAAATATTCGAATAGTTAA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
* *
54198515 GTGATCAAAAAAGAAAAAGTCAAATAATTGA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
54198546 GTGAC
1 GTGAC
54198551 TATTTTATCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (31 bp):
GTGACCAAAAAAGAAAAAGTCAAATAATTAA
Found at i:54215351 original size:592 final size:592
Alignment explanation
Indices: 54214227--54215408 Score: 2067
Period size: 592 Copynumber: 2.0 Consensus size: 592
54214217 ATAAGTAGAT
54214227 ATGAATGCTCTCTTACCCTCTAAAAATTTGAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
1 ATGAATGCTCTCTTACCCTCTAAAAATTTGAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
* *
54214292 CTACAAGGTCAAGTTTATACAATTAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAA
66 CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAA
*
54214357 GCTATTAAGGATATGAATTATGTCCTACAATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
131 GCTATTAAGGATATGAATTATATCCTACAATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
* *
54214422 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATTAATGGCTATCATGGATGTTTG
196 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTG
54214487 AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGA
261 AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGA
* * *
54214552 AATAAGATGCTATATAAGGGTACAAATGAGAAGATAGAGGATTTGGTTGCTTTTGTTTGAGGTTA
326 AATAAGATGCTACATAAGGGTACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTA
* * *
54214617 CTATGCGAAGATTAATGCGCTGGCTGAAAGTATATATTTGTCTCCTCCACCTCAAATTGTTCGCT
391 CTATGCAAAGATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
* * * * * * *
54214682 AATGCCTTCTGTCGACATCTCTTGTCAAGATAAAAGTTGATGTTAGCTTTTCTCTTGCATAGAGA
456 AATCCCTTCTGTCGACATCTCTTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAA
* * *
54214747 AAGACATGTTCAAGATTAATCATTTGGGACGGACATGGACAAATTATGGGGGTGTTATAGTATCT
521 AAGACATGTTCAAGAGTAATCATTTGGGACGAACATGGAAAAATTATGGGGGTGTTATAGTATCT
54214812 AATACGC
586 AATACGC
* * *
54214819 ATGAATGCTCTCTTGCCCTCTAAAAATTTGAATTGGTATGTGGAAATTCCTAAAACATTTTTTGC
1 ATGAATGCTCTCTTACCCTCTAAAAATTTGAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
*
54214884 CTACAAGATCAAGTTTATACAATAAGCGTATTGCAAATGATCCTTTGTGTCTTAGATGTTATCAA
66 CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAA
*
54214949 GCTATTAAGGATATGAATTATATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
131 GCTATTAAGGATATGAATTATATCCTACAATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
54215014 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTG
196 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTG
* *
54215079 AAAATTATTCTATGAATAAAAGAATTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGA
261 AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGA
* * *
54215144 AATAAGCTGCTACATAAGGGTACAAACGAGAGGGTAGAGGATTTGGTTGCTTTTGTCTGAGGTTA
326 AATAAGATGCTACATAAGGGTACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTA
*
54215209 TTATGCAAAGATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
391 CTATGCAAAGATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
54215274 AATCCCTTCTGTCGACATCTCTTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAA
456 AATCCCTTCTGTCGACATCTCTTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAA
*
54215339 AAGGCATGTTCAAGAGTAATCATTTGGGACGAACATGGAAAAATTATGGGGGTGTTATAGTATCT
521 AAGACATGTTCAAGAGTAATCATTTGGGACGAACATGGAAAAATTATGGGGGTGTTATAGTATCT
54215404 AATAC
586 AATAC
54215409 ACACGTGATT
Statistics
Matches: 557, Mismatches: 33, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
592 557 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (592 bp):
ATGAATGCTCTCTTACCCTCTAAAAATTTGAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAA
GCTATTAAGGATATGAATTATATCCTACAATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTG
AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGA
AATAAGATGCTACATAAGGGTACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTA
CTATGCAAAGATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
AATCCCTTCTGTCGACATCTCTTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAA
AAGACATGTTCAAGAGTAATCATTTGGGACGAACATGGAAAAATTATGGGGGTGTTATAGTATCT
AATACGC
Found at i:54228323 original size:20 final size:20
Alignment explanation
Indices: 54228298--54228336 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
54228288 AAAGCTGGCC
54228298 ACATGTTTAAGCATAATCAT
1 ACATGTTTAAGCATAATCAT
54228318 ACATGTTTAAGCATAATCA
1 ACATGTTTAAGCATAATCA
54228337 CATAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
ACATGTTTAAGCATAATCAT
Found at i:54233076 original size:21 final size:22
Alignment explanation
Indices: 54233052--54233097 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
54233042 AAAGTTAAAT
54233052 TTTATTATTAACAAAT-TTTAG
1 TTTATTATTAACAAATATTTAG
**
54233073 TTTATTATTAATTAATATTTAG
1 TTTATTATTAACAAATATTTAG
54233095 TTT
1 TTT
54233098 TAAGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTATTATTAACAAATATTTAG
Found at i:54233270 original size:13 final size:13
Alignment explanation
Indices: 54233254--54233302 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
54233244 TTAAATTGAA
54233254 TATTTTAAATTTT
1 TATTTTAAATTTT
*
54233267 TATTTTGAAATAAATT
1 TATTTT-AAAT--TTT
*
54233283 TACTTTAAATTTT
1 TATTTTAAATTTT
54233296 TATTTTA
1 TATTTTA
54233303 TTCTAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 14 0.48
14 4 0.14
15 4 0.14
16 7 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTTAAATTTT
Found at i:54233923 original size:50 final size:50
Alignment explanation
Indices: 54233848--54233948 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
54233838 CATTGTGAGG
54233848 TATGAAGTAGGAGAGAGAGTATTTCATAATTAGGGTTTTAAATAAAACAA
1 TATGAAGTAGGAGAGAGAGTATTTCATAATTAGGGTTTTAAATAAAACAA
54233898 TATGAAGTAGGAGAGAGAGTATTTCATAATTAGGGTTTTAAATAAAACAA
1 TATGAAGTAGGAGAGAGAGTATTTCATAATTAGGGTTTTAAATAAAACAA
54233948 T
1 T
54233949 CGTTTCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (50 bp):
TATGAAGTAGGAGAGAGAGTATTTCATAATTAGGGTTTTAAATAAAACAA
Found at i:54235458 original size:20 final size:20
Alignment explanation
Indices: 54235430--54235469 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54235420 ATATATCTTG
* *
54235430 ATTTTATTTTATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
54235450 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
54235470 GATTGACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:54235965 original size:20 final size:21
Alignment explanation
Indices: 54235923--54235980 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
54235913 TGAATTTTAA
*
54235923 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
54235945 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTGTTTATTTT
**
54235965 ATATTCATATTTGTTT
1 ATATAAATATTTGTTT
54235981 GCTATCGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 17 0.52
21 4 0.12
22 12 0.36
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:54236195 original size:87 final size:87
Alignment explanation
Indices: 54236096--54236347 Score: 300
Period size: 87 Copynumber: 2.9 Consensus size: 87
54236086 AAATAAAAAA
* * * *
54236096 TAAAATTGAATAAAATCTATTTTGGGATTTATTCCCG-C-TATTCAAC-AGATTTTATTCTATTT
1 TAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGTCGT-TT-AACTA-ATTTTATTCCAATT
* *
54236158 TTTATTTTATTTCCAAAATAAGTAT
63 TTGATTTTATTTCCAAAACAAGTAT
**
54236183 TAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGTCGTTTAACTAATTTTATTCCAATTTTG
1 TAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAATTTTATTCCAATTTTG
* *
54236248 ATTTTGTTTCCAAAACGAGTAT
66 ATTTTATTTCCAAAACAAGTAT
* *
54236270 TAAAATTAAATAAAATCTGTTTTGAGATTTATTCTC-TCCGTTTAA-TGAATTTTATTCCAATTT
1 TAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGT-CGTTTAACT-AATTTTATTCCAATTT
*
54236333 TGATTTT-TTCCCAAA
64 TGATTTTATTTCCAAA
54236348 TGAGAAAAGG
Statistics
Matches: 145, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
86 9 0.06
87 131 0.90
88 4 0.03
89 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (87 bp):
TAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAATTTTATTCCAATTTTG
ATTTTATTTCCAAAACAAGTAT
Found at i:54236675 original size:91 final size:95
Alignment explanation
Indices: 54236494--54236679 Score: 209
Period size: 91 Copynumber: 2.0 Consensus size: 95
54236484 CTCATTTTGA
* * * *
54236494 AAATAAAATAAAAAATGGAATGAAATCTATTGAAGGACAGTAATAAATTCCGGAACAGATTTTAT
1 AAATAAAAT-AAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTAT
* * *
54236559 TTAACTTTAATTCTCGTTTGGAAATAAAATG
65 TCAACTTTAATTCTCATTTGCAAATAAAATG
* *
54236590 AAATAAAAT-AAAAT-GAATGAAATCCGTTGAA-G-CAGGAATAAATCCCGAAATAGATTTTATT
1 AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
* * * * *
54236651 CAATTTTTATTTTTATTTTCAAATAAAAT
66 CAACTTTAATTCTCATTTGCAAATAAAAT
54236680 ACAATTCGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
91 46 0.61
92 1 0.01
93 15 0.20
94 5 0.07
96 9 0.12
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (95 bp):
AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
CAACTTTAATTCTCATTTGCAAATAAAATG
Found at i:54238333 original size:58 final size:58
Alignment explanation
Indices: 54238271--54238389 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
54238261 TATAATATAG
* *
54238271 GGATCTCCCAAGTACTTAATAATAAAGGGGTCTGTTTGTTTCATTGAAAGTAGCTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
54238329 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
54238387 GGA
1 GGA
54238390 AAATGATTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (58 bp):
GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
Found at i:54240818 original size:19 final size:19
Alignment explanation
Indices: 54240779--54240818 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
54240769 TTAAAAATTA
*
54240779 ATTTTTTTATATTTAATAT
1 ATTTTTTTATATTTAAAAT
54240798 ATTTTTTTA-ATTTCAAAAT
1 ATTTTTTTATATTT-AAAAT
54240817 AT
1 AT
54240819 ATGGTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTTATATTTAAAAT
Found at i:54242690 original size:3 final size:3
Alignment explanation
Indices: 54242634--54242670 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
54242624 TATATGAATA
* *
54242634 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
54242671 GTTAAGTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:54242884 original size:15 final size:15
Alignment explanation
Indices: 54242844--54242885 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
54242834 AAATAATCTT
*
54242844 TAAGATAAACAATAA
1 TAAGATAAATAATAA
*
54242859 TGAGAGT-AATAATAA
1 TAAGA-TAAATAATAA
54242874 TAAGATAAATAA
1 TAAGATAAATAA
54242886 ATAAAAGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (15 bp):
TAAGATAAATAATAA
Found at i:54243274 original size:30 final size:30
Alignment explanation
Indices: 54243238--54243352 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
54243228 ACTTTTCTCA
*
54243238 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
54243268 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
54243298 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
54243328 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
54243353 CTTGTACCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:54243943 original size:25 final size:25
Alignment explanation
Indices: 54243915--54244058 Score: 87
Period size: 25 Copynumber: 5.6 Consensus size: 25
54243905 ATATTACGTA
* *
54243915 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
54243940 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
* * *
54243965 TATATATATATT-TTTCTACATGTTATCT
1 TATATATAT-TTAATACT--ATATTAT-T
*
54243993 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * *
54244019 TATATATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* *
54244044 TACATATTTTTAATA
1 TATATATATTTAATA
54244059 TTATCACGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.02
24 7 0.07
25 55 0.59
26 4 0.04
27 12 0.13
28 3 0.03
29 2 0.02
30 9 0.10
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:54244195 original size:16 final size:16
Alignment explanation
Indices: 54244176--54244256 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 16
54244166 ATTTCTATTT
54244176 TATTTT-TTATTTTCAA
1 TATTTTATTATTTT-AA
54244192 TATTAATTATTATTATTCTAA
1 TATT--TTATTA-T-TT-TAA
54244213 TATTTTGA-TATTTTAA
1 TATTTT-ATTATTTTAA
54244229 TATTTTA-TATTTTATA
1 TATTTTATTATTTTA-A
54244245 TATTTTATTATT
1 TATTTTATTATT
54244257 CACATCATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.14
16 21 0.38
17 6 0.11
18 3 0.05
19 7 0.12
20 2 0.04
21 8 0.14
22 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (16 bp):
TATTTTATTATTTTAA
Found at i:54244240 original size:7 final size:8
Alignment explanation
Indices: 54244205--54244256 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
54244195 TAATTATTAT
*
54244205 TATTCTAA
1 TATTTTAA
*
54244213 TATTTTGA
1 TATTTTAA
54244221 TATTTTAA
1 TATTTTAA
54244229 TATTTT-A
1 TATTTTAA
54244236 TATTTTATA
1 TATTTTA-A
*
54244245 TATTTTAT
1 TATTTTAA
54244253 TATT
1 TATT
54244257 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:54252721 original size:68 final size:70
Alignment explanation
Indices: 54252555--54252729 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
54252545 CTTTCCAAGG
* ** *
54252555 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
54252620 TTTTT
66 GTTTT
* * * *
54252625 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
54252689 TGTTTT
65 TGTTTT
** *
54252695 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
54252730 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
68 31 0.34
70 25 0.27
71 35 0.38
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:54253035 original size:72 final size:73
Alignment explanation
Indices: 54252746--54253072 Score: 445
Period size: 71 Copynumber: 4.5 Consensus size: 73
54252736 TTTTGTTTTC
*
54252746 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
54252809 GTTGTTAAA
66 GTT-TTAAA
*
54252818 AAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
54252882 GTTTT--C
66 GTTTTAAA
* ** * * *
54252888 AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
54252953 GTTTTCAA
66 GTTTTAAA
* *
54252961 AAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
54253024 TCT-TTTTAAA
63 TCTGTTTTAAA
*
54253034 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
54253073 ATTACACACT
Statistics
Matches: 230, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
70 21 0.09
71 81 0.35
72 49 0.21
73 30 0.13
74 48 0.21
75 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAA
Found at i:54253173 original size:129 final size:125
Alignment explanation
Indices: 54252965--54253199 Score: 348
Period size: 129 Copynumber: 1.8 Consensus size: 125
54252955 TTTCAAAAAA
*
54252965 TCAACTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTTTT
1 TCAACTATATTGCGAGAGGTGAGTT-AGCCTCGG-T-ACACGCTGAGGTATTTTCAATTTCTTTT
* *
54253030 TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTTTT
63 AAAAAAAATCAACTCATATTGCGAGA--TGAGTTGAGCCTCAGATTACACACTGTGGTATTTTTT
54253095 TCAACTCATATTGCGAGAGGTGAGTT-GCCTCAGG-ACACGCTGAGGTAATTTTCAATTTCTGTT
1 TCAACT-ATATTGCGAGAGGTGAGTTAGCCTC-GGTACACGCTGAGGT-ATTTTCAATTTCT-TT
54253158 TAAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAG
62 TAAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAG
54253200 GACACGCTGA
Statistics
Matches: 98, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
127 25 0.26
128 13 0.13
129 33 0.34
130 8 0.08
131 19 0.19
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (125 bp):
TCAACTATATTGCGAGAGGTGAGTTAGCCTCGGTACACGCTGAGGTATTTTCAATTTCTTTTAAA
AAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGATTACACACTGTGGTATTTTTT
Found at i:54253190 original size:273 final size:267
Alignment explanation
Indices: 54252822--54253336 Score: 761
Period size: 273 Copynumber: 1.9 Consensus size: 267
54252812 GTTAAAAAAA
*
54252822 TCAACTCATATTGCGAGAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
1 TCAACTCATATTGCGAGAATGAGTT-AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTA
* * *
54252887 CAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
65 AAAAATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTT
** * *
54252951 CTGTTTTCAAAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA
129 CTGTTTT--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG---ACACGCTGAGGTA
54253015 TTTTCAATTTCT-TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACA
189 -TTTCAATTTCTGTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACA
54253079 CACTGTGGTATTTTTT
252 CACTGTGGTATTTTTT
*
54253095 TCAACTCATATTGCGAGAGGTGAGTT-GCCTCAGGACACGCTGAGGTAATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGA-ATGAGTTAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTTT
*
54253159 AAAAAAAATCAACTCATATTGCGAG-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAAT
64 --AAAAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAAT
*
54253223 TTCTGTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTT
127 TTCTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTT
* *
54253288 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
192 CAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
54253337 CTCGGTCACA
Statistics
Matches: 222, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
269 45 0.20
270 16 0.07
272 32 0.14
273 85 0.38
274 24 0.11
275 20 0.09
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (267 bp):
TCAACTCATATTGCGAGAATGAGTTAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTAA
AAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTTCAAT
TTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGT
ATTTTTT
Found at i:54253394 original size:74 final size:70
Alignment explanation
Indices: 54253095--54253534 Score: 458
Period size: 72 Copynumber: 6.4 Consensus size: 70
54253085 GGTATTTTTT
54253095 TCAACTCATATTGCGAGAGGTGAGTT--GCCTCAGGACACGCTGAGGTAATTTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGT-A-TTTCAATTTCTGTT
**
54253158 TAAAAAAAA
63 T-TCAAAAA
54253167 TCAACTCATATTGCGAGA--TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGT-A-TTTCAATTTCTGTT
*
54253230 TT-AAAAT
63 TTCAAAAA
** *
54253237 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTTCAATTTCTGTTTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTCTGTTTTC
*
54253302 AAAAT
66 AAAAA
*
54253307 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGA-GTA-TTCAATTTCTTTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--ACACGCTGAGGTATTTCAATTTC----T
*
54253370 TTTTTCAAAAA
60 GTTTTCAAAAA
* * *
54253381 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACTGTGGTA----AA-TT-T-TTTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTCTGTTTTC
54253439 -AAAA
66 AAAAA
* *
54253443 T----TCATATTGCGAGAGGTGAGTTGAGCCTC--AGACGATGAGGTAATTTCAATTTCTGTTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGT-ATTTCAATTTCTGTTT-
54253502 TC-AAAA
64 TCAAAAA
54253508 TCAACTCATATTGCGAGAGGTG-GTTGA
1 TCAACTCATATTGCGAGAGGTGAGTTGA
54253535 ACGCTTTAAT
Statistics
Matches: 326, Mismatches: 17, Indels: 54
0.82 0.04 0.14
Matches are distributed among these distances:
56 8 0.02
57 1 0.00
58 28 0.09
61 2 0.01
62 7 0.02
63 6 0.02
64 4 0.01
65 7 0.02
68 5 0.02
69 35 0.11
70 77 0.24
71 16 0.05
72 83 0.25
73 3 0.01
74 44 0.13
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (70 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTCTGTTTTC
AAAAA
Found at i:54253394 original size:343 final size:340
Alignment explanation
Indices: 54252555--54253525 Score: 1242
Period size: 343 Copynumber: 2.9 Consensus size: 340
54252545 CTTTCCAAGG
* * *
54252555 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
* * * *
54252620 TTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCAC--GCCGAGGTATT---
66 GTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTCAA
* * ** * *
54252680 TTTAGTTTATGTTTT--AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTT---TT--A-ATT
131 TTT-CTTT-TTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGTTACACACT
* * *** *
54252737 TTTGT-TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
193 GTGGTATTT--TTTTCAACTCATATTGCGAGAGGTGAGTT-AGCCTCAGGACACGCTGAGGTAAT
*
54252801 TTCAATTTGT-TGTTAAAAAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAGGACACGCTG
255 TTCAATTTCTGT-TTAAAAAAATCAACTCATATTGCGAG-ATGAGTTGAGCCTCAGGACACGCTG
54252865 AGGTAATTTCAATTTCTGTTTTC
318 AGGTAATTTCAATTTCTGTTTTC
*
54252888 AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
54252953 GTTTTCAAAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATT
66 GTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGTA--
**
54253017 TTCAATTTC--TTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACAC
126 TTCAATTTCTTTTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG-TTACAC
54253080 ACTGTGGTATTTTTTTCAACTCATATTGCGAGAGGTGAGTT-GCCTCAGGACACGCTGAGGTAAT
190 ACTGTGGTATTTTTTTCAACTCATATTGCGAGAGGTGAGTTAGCCTCAGGACACGCTGAGGTAA-
54253144 TTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTG
254 TTTCAATTTCTGTTT-AAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTG
54253209 AGGTAATTTTCAATTTCTGTTTT-
318 AGGTAA-TTTCAATTTCTGTTTTC
*
54253232 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACACGCTGAGGTA-TTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
54253295 TGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGA-GTATTC
65 TGTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTC
*
54253359 AATTTCTTTTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--ACACAC
129 AATTTC-TTTTTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGTTACACAC
* *
54253422 TGTGGTAAATTTTTTTCAAAATTCATATTGCGAGAGGTGAGTTGAGCCTCA-G--ACGATGAGGT
192 TGTGGT--ATTTTTTTC--AACTCATATTGCGAGAGGTGAGTT-AGCCTCAGGACACGCTGAGGT
***
54253484 AATTTCAATTTCTGTTTGTCAAAATCAACTCATATTGCGAGA
252 AATTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGA
54253526 GGTGGTTGAA
Statistics
Matches: 568, Mismatches: 33, Indels: 66
0.85 0.05 0.10
Matches are distributed among these distances:
333 66 0.12
334 27 0.05
335 13 0.02
337 8 0.01
338 3 0.01
339 15 0.03
340 41 0.07
341 29 0.05
342 49 0.09
343 119 0.21
344 84 0.15
345 100 0.18
346 11 0.02
347 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (340 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
GTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTCAA
TTTCTTTTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGTTACACACTGTG
GTATTTTTTTCAACTCATATTGCGAGAGGTGAGTTAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGTTTAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTTC
Found at i:54253786 original size:71 final size:69
Alignment explanation
Indices: 54253711--54253889 Score: 181
Period size: 71 Copynumber: 2.6 Consensus size: 69
54253701 TATGTTTCAA
* *
54253711 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-A-GACGCTGAGGTAATTTCTATT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACAACGCTGAGGT--TTT-AATT
54253774 TATTGTT
63 TATTGTT
* *
54253781 -TAAAAATCAACTTCAAATTGGCGAG-AGTGAGTTTGAGCCTCAGGACAACGCTGAGGTTTTAAT
1 AAAAAAATCAAC-TCATATT-GCGAGAAGTGAG-TTGAGCCTCA-GACAACGCTGAGGTTTTAAT
54253844 TTATTGTT
62 TTATTGTT
* * *
54253852 AATAAAAAT-AGCT-ATATTGCAAGAGGTGAGTTGAGCCT
1 AA-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
54253890 GGCTCCACCA
Statistics
Matches: 91, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
69 22 0.24
70 21 0.23
71 26 0.29
72 5 0.05
73 7 0.08
74 10 0.11
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (69 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACAACGCTGAGGTTTTAATTTAT
TGTT
Found at i:54254199 original size:75 final size:72
Alignment explanation
Indices: 54254090--54254235 Score: 213
Period size: 75 Copynumber: 2.0 Consensus size: 72
54254080 AAATTTGTAA
* *
54254090 AAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAGGACACGCTTGAGGTAAATTTT-CAATTT
1 AAATCAACTAATATTGCGAGAATGAGTTGAGCCTCAAGACACG-TTGAGGTAAATTTTCCAATTT
54254154 CTGTTTTT
65 CTGTTTTT
**
54254162 AAATCAACTTAATATTGCGAGAAATTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTTCCAAT
1 AAATCAAC-TAATATTGCGAG-AA-TGAGTTGAGCCTCAAGACACGTTGAGGTAAATTTTCCAAT
54254227 TTCTGTTTT
63 TTCTGTTTT
54254236 CAAAAAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
72 8 0.12
73 11 0.17
74 14 0.21
75 33 0.50
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (72 bp):
AAATCAACTAATATTGCGAGAATGAGTTGAGCCTCAAGACACGTTGAGGTAAATTTTCCAATTTC
TGTTTTT
Found at i:54254281 original size:83 final size:79
Alignment explanation
Indices: 54254162--54254359 Score: 220
Period size: 83 Copynumber: 2.4 Consensus size: 79
54254152 TTCTGTTTTT
** *
54254162 AAATCAACTTAATATTGCGAGAAATTGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTTTCCAA
1 AAATCAACTT-ATATTGCGAG-AGGTGAGTTGAGCCTCAAGTACACGCTGAGGTA--TTTT-CAA
54254226 TTTCTGTTTTCAAAAAAAAA
61 TTTCTGTTTT-AAAAAAAAA
** *
54254246 AAATTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGTGTTCACATGCTGAGGTATTTTCAATT
1 AAA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-T-ACACGCTGAGGTATTTTCAATT
**
54254311 TCTGTTTTTTAAAAAAA
63 TCTGTTTTAAAAAAAAA
*
54254328 AAATCAACTCATATT-CGAGAGGTGAGTTGAGC
1 AAATCAACTTATATTGCGAGAGGTGAGTTGAGC
54254360 TTTCAGATTA
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
80 17 0.17
81 11 0.11
82 10 0.10
83 28 0.28
84 17 0.17
85 7 0.07
86 11 0.11
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (79 bp):
AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAAAAAA
Found at i:54254391 original size:83 final size:85
Alignment explanation
Indices: 54254173--54254393 Score: 219
Period size: 83 Copynumber: 2.7 Consensus size: 85
54254163 AATCAACTTA
** ** * *
54254173 ATATTGCGAGAAATTGAGTTGAGCCTCAAG-ACAC-GTTGAGGTATTTTTTCCAATTTCTGTTTT
1 ATATTGCGAG-AGGTGAGTTGAGCCTCGTGTACACAGCTGAGGTATTTTTTTCAATTTCTGTTTT
*
54254236 CAAAAAAAAAAAATTCAACTT
65 CAAAAAAAAAAAATTCAACTC
*
54254257 ATATTGCGAGAGGTGAGTTGAGCCTCGTGTTCACATGCTGAGGTA---TTTTCAATTTCTGTTTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCGTGTACACA-GCTGAGGTATTTTTTTCAATTTCTGTTTT
**
54254319 -TTAAAAAAAAAA-TCAACTC
65 CAAAAAAAAAAAATTCAACTC
* *
54254338 ATATT-CGAGAGGTGAGTTGAGCTTTCAGAT-TACACA-CTGTGGTATTTTTTTCAATT
1 ATATTGCGAGAGGTGAGTTGAGC-CTC-G-TGTACACAGCTGAGGTATTTTTTTCAATT
54254394 CATATTGCGA
Statistics
Matches: 115, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
80 24 0.21
81 13 0.11
82 16 0.14
83 41 0.36
84 13 0.11
86 8 0.07
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (85 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCGTGTACACAGCTGAGGTATTTTTTTCAATTTCTGTTTTC
AAAAAAAAAAAATTCAACTC
Found at i:54254651 original size:70 final size:72
Alignment explanation
Indices: 54254502--54254652 Score: 184
Period size: 70 Copynumber: 2.1 Consensus size: 72
54254492 TAATTCTTAC
** *
54254502 TTTTTTCAAATTCACTCATAATTGCAAAGGTGAGTTGAGCCTTCGGGGCACGCTGAGGTATTTTC
1 TTTTTT-AAATTCACTCATAATTGCAAAGGTGAGTTGAGCCTTCAAGACACGCTGAGGTATTTTC
*
54254567 AATTTTTG
65 AATTTTCG
* * *
54254575 TGTTTTATATTCAACTCAT-ATTGCGAGAGGTGAG-TGAGCC-TCAAGACACGCTGAGG-ATTTT
1 TTTTTTAAATTC-ACTCATAATTGC-AAAGGTGAGTTGAGCCTTCAAGACACGCTGAGGTATTTT
54254636 CAATTTTCG
64 CAATTTTCG
54254645 TTTTTTAA
1 TTTTTTAA
54254653 TTTATGTTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
70 19 0.28
71 13 0.19
72 16 0.24
73 19 0.28
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (72 bp):
TTTTTTAAATTCACTCATAATTGCAAAGGTGAGTTGAGCCTTCAAGACACGCTGAGGTATTTTCA
ATTTTCG
Found at i:54254822 original size:72 final size:70
Alignment explanation
Indices: 54254647--54254873 Score: 224
Period size: 72 Copynumber: 3.1 Consensus size: 70
54254637 AATTTTCGTT
* *
54254647 TTTTAATTTATGTTTCAAAAAAATCAACTCATATTTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATGTTT-AAAAAAATCAACTCATA-TTGCGAGAGGTGAGTTGAGCCTCAACACGCT
54254712 GAGGTAA
64 GAGGTAA
* * ***
54254719 TTTCAATTTTTTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAA-TTTATGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
54254784 TGAGGTGG
63 TGAGGTAA
* * * *
54254792 TTTTAATTTATG-TTATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTCGAGCCTTGCTCACAC
1 TTTTAATTTATGTTTA-AAAAAATCAACTCATATTGCGAGAGGTGAGTT-GAGCC-T-C-AACAC
54254856 GCTGAGGT-A
61 GCTGAGGTAA
54254865 TTTTCAATT
1 TTTT-AATT
54254874 ACTGGTTTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
71 25 0.20
72 51 0.40
73 33 0.26
74 17 0.13
75 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (70 bp):
TTTTAATTTATGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGA
GGTAA
Found at i:54254895 original size:14 final size:15
Alignment explanation
Indices: 54254865--54254901 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
54254855 CGCTGAGGTA
54254865 TTTTCAATTACTGGT
1 TTTTCAATTACTGGT
* *
54254880 TTTTCAATTTCTGTT
1 TTTTCAATTACTGGT
54254895 TTTTCAA
1 TTTTCAA
54254902 AAATCGACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.08, T:0.59
Consensus pattern (15 bp):
TTTTCAATTACTGGT
Found at i:54254931 original size:163 final size:162
Alignment explanation
Indices: 54254738--54255058 Score: 405
Period size: 163 Copynumber: 2.0 Consensus size: 162
54254728 TTTGTTTGTC
** *
54254738 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTGGTTTTAATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGGTAATTTCAATTTA
* *
54254802 TGTTATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTCGAGCCT-TGCTCACACGCTGAGGTAT
66 TGTT-TAAAAAATTAACTCATATTGCAAGAGGTGAGTT-GAGCCTCGGCTCACACGCTGAGGTAT
* * *
54254866 TTTCAATTACTGGTTTTTCAATTTCTGTTTTTTCA
129 TTTAAATTACT-GCTCTTCAATTTCTGTTTTTTCA
* * *
54254901 AAAATCGACTCATA-TGTTGAGAGGTGAGTTGAGCCTCGGGGACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTG-CGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGGTAATTTCAATTT
* *** * * * *
54254965 CTGTTTGTCAATTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
65 ATGTTTAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATT
*
54255030 TTAAATTTCTGCTCTTCAATTTCTGTTTT
130 TTAAATTACTGCTCTTCAATTTCTGTTTT
54255059 CAATGTAATA
Statistics
Matches: 135, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
162 25 0.19
163 84 0.62
164 26 0.19
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (162 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGGTAATTTCAATTTA
TGTTTAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTT
TAAATTACTGCTCTTCAATTTCTGTTTTTTCA
Found at i:54255847 original size:21 final size:20
Alignment explanation
Indices: 54255818--54255856 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
54255808 CAACTTAAAC
*
54255818 TTTTCTCAACTAGCCACTCCT
1 TTTTCTCAACCA-CCACTCCT
*
54255839 TTTTTTCAACCACCACTC
1 TTTTCTCAACCACCACTC
54255857 ACTAGCCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.21, C:0.38, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTCTCAACCACCACTCCT
Found at i:54255975 original size:29 final size:31
Alignment explanation
Indices: 54255877--54256015 Score: 108
Period size: 30 Copynumber: 4.5 Consensus size: 31
54255867 AATTGAACGA
*
54255877 ACCTTTTCCCCACCAACCAACTTCC-CTAG-CAC
1 ACCTTTT-TCCACC-ACCAAC-TCCACTAGCCAC
* * *
54255909 TCTTTTTTCCACCACTAACTCCACTAGCCAC
1 ACCTTTTTCCACCACCAACTCCACTAGCCAC
54255940 ACC-TTTTCCACCACCAACTCCA-TAGCCAC
1 ACCTTTTTCCACCACCAACTCCACTAGCCAC
* * *
54255969 TGCTTTTTTCCCACCA-CAACTCCATTAGCCAC
1 -ACCTTTTT-CCACCACCAACTCCACTAGCCAC
**
54256001 AACCTTCCTCCACCA
1 -ACCTTTTTCCACCA
54256016 TCCTGCTTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
29 10 0.11
30 28 0.32
31 27 0.31
32 22 0.25
ACGTcount: A:0.24, C:0.46, G:0.04, T:0.26
Consensus pattern (31 bp):
ACCTTTTTCCACCACCAACTCCACTAGCCAC
Found at i:54255975 original size:61 final size:61
Alignment explanation
Indices: 54255876--54256015 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 61
54255866 AAATTGAACG
*
54255876 AACCTTTTCCCCACCAACCAACTTCCCTAGCACTCTTTTTT-CCACCACTAACTCCACTAGCCAC
1 AACCTTTT--CCACC-ACCAACTTCCATAGCACTCTTTTTTCCCACCAC-AACTCCACTAGCCAC
*
54255940 -ACCTTTTCCACCACCAAC-TCCATAGCCACTGCTTTTTTCCCACCACAACTCCATTAGCCAC
1 AACCTTTTCCACCACCAACTTCCATAG-CACT-CTTTTTTCCCACCACAACTCCACTAGCCAC
*
54256001 AACCTTCCTCCACCA
1 AACCTT-TTCCACCA
54256016 TCCTGCTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
59 6 0.09
60 10 0.15
61 26 0.38
62 12 0.18
63 14 0.21
ACGTcount: A:0.25, C:0.46, G:0.04, T:0.26
Consensus pattern (61 bp):
AACCTTTTCCACCACCAACTTCCATAGCACTCTTTTTTCCCACCACAACTCCACTAGCCAC
Found at i:54255989 original size:31 final size:31
Alignment explanation
Indices: 54255886--54256000 Score: 123
Period size: 30 Copynumber: 3.7 Consensus size: 31
54255876 AACCTTTTCC
54255886 CCACCAACCAACTTCC-CTAG-CACTCTTTTTT
1 CCACC-ACCAAC-TCCACTAGCCACTCTTTTTT
* * *
54255917 CCACCACTAACTCCACTAGCCACAC-CTTTT
1 CCACCACCAACTCCACTAGCCACTCTTTTTT
54255947 CCACCACCAACTCCA-TAGCCACTGCTTTTTT
1 CCACCACCAACTCCACTAGCCACT-CTTTTTT
*
54255978 CCCACCA-CAACTCCATTAGCCAC
1 -CCACCACCAACTCCACTAGCCAC
54256001 AACCTTCCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.14
30 28 0.39
31 21 0.29
32 13 0.18
ACGTcount: A:0.25, C:0.45, G:0.04, T:0.25
Consensus pattern (31 bp):
CCACCACCAACTCCACTAGCCACTCTTTTTT
Found at i:54256014 original size:31 final size:28
Alignment explanation
Indices: 54255913--54256015 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 28
54255903 TAGCACTCTT
54255913 TTTTCCACCACTAACTCCACTAGCCACACC
1 TTTTCCACCAC-AACTCCA-TAGCCACACC
* *
54255943 TTTTCCACCACCAACTCCATAGCCACTGCTT
1 TTTTCCACCA-CAACTCCATAGCCAC-AC-C
54255974 TTTTCCCACCACAACTCCATTAGCCACAACC
1 TTTT-CCACCACAACTCCA-TAGCCAC-ACC
*
54256005 TTCCTCCACCA
1 TT-TTCCACCA
54256016 TCCTGCTTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
29 7 0.11
30 18 0.30
31 21 0.34
32 15 0.25
ACGTcount: A:0.25, C:0.46, G:0.04, T:0.25
Consensus pattern (28 bp):
TTTTCCACCACAACTCCATAGCCACACC
Found at i:54262139 original size:68 final size:68
Alignment explanation
Indices: 54261992--54262163 Score: 206
Period size: 68 Copynumber: 2.5 Consensus size: 68
54261982 CTTTCCAAGG
**
54261992 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTT
54262056 TTTA
65 TTTA
* * *
54262060 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-T
54262124 GTTT-
65 -TTTA
* ** * *
54262128 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
54262164 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
67 20 0.22
68 66 0.73
69 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTA
Found at i:54262536 original size:77 final size:74
Alignment explanation
Indices: 54262181--54262516 Score: 414
Period size: 72 Copynumber: 4.5 Consensus size: 74
54262171 TTTGTTTTTC
* *
54262181 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
54262244 GTTTGTTAAA
66 GTTT-TTAAA
** *
54262254 AAAATCAACTCATA-TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
54262318 -ATTTT-CA
66 GTTTTTAAA
* * ** * *
54262325 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
54262390 GTTTTCAAAAA
66 GTTTT--TAAA
* *
54262401 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
54262465 TCTGTTTTTAAAA
63 TCTGTTTTT-AAA
*
54262478 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
54262517 ATTACACACT
Statistics
Matches: 229, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
71 13 0.06
72 91 0.40
73 21 0.09
74 1 0.00
75 1 0.00
76 35 0.15
77 38 0.17
78 29 0.13
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTAAA
Found at i:54262587 original size:210 final size:203
Alignment explanation
Indices: 54262328--54262714 Score: 544
Period size: 210 Copynumber: 1.9 Consensus size: 203
54262318 ATTTTCAAAA
* * *
54262328 TTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
1 TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
* ** *
54262393 -TTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
66 GTT-AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTA
**
54262456 TTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTA
127 -TTTCAATTTCTG-TTTT---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGATTA
54262521 CACACTGTGGTATTTTT
187 CACACTGTGGTATTTTT
* ** *
54262538 TTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
54262603 GTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTC
66 GTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTC
* *
54262668 AATTTCTGTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
131 AATTTCTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
54262715 CTCAAGCACG
Statistics
Matches: 160, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
203 31 0.19
206 4 0.03
207 12 0.08
208 12 0.08
210 97 0.61
211 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (203 bp):
TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
GTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTC
AATTTCTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGATTACACACTGTG
GTATTTTT
Found at i:54262714 original size:70 final size:72
Alignment explanation
Indices: 54262539--54262890 Score: 354
Period size: 76 Copynumber: 4.7 Consensus size: 72
54262529 GGTATTTTTT
* ** *
54262539 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT-
54262604 TTAAAAAAAAA
65 TT---AAAAAA
54262615 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT
*
54262679 T-AAAAT
66 TAAAAAA
* * * *
54262685 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAG-CACGTTGAGGTATTTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT
54262749 TCAAAAAAAAA
66 T----AAAAAA
* ** *
54262760 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCTG
54262824 TTTTTTTTTAAAAAA
63 -----TTTTAAAAAA
** * * * *
54262839 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAACA-ACTGTGGTATTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
54262891 TTTTCAATTC
Statistics
Matches: 240, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
69 11 0.05
70 53 0.22
74 3 0.01
75 49 0.20
76 57 0.24
77 3 0.01
78 22 0.09
79 37 0.15
80 1 0.00
83 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT
TAAAAAA
Found at i:54262861 original size:79 final size:75
Alignment explanation
Indices: 54262539--54262868 Score: 341
Period size: 70 Copynumber: 4.4 Consensus size: 75
54262529 GGTATTTTTT
* * * * *
54262539 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-CACGCTGAGGTATTTTCAATTTCTGTTT
***
54262604 TTAAAAAAAAA
65 TTTTTAAAAAA
* ** *
54262615 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTCTG---
1 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-CACGCTGAGGTATTTTCAATTTCTGTTT
*
54262676 -TTTT-AAAAT
65 TTTTTAAAAAA
** * *
54262685 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGCACGTTGAGGTATTTTCAATTTTTGTTTT
1 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGCACGCTGAGGTATTTTCAATTTCTGTTTT
****
54262750 CAAAAAAAAA
66 TTTTAAAAAA
*
54262760 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG--CAC--GCTGAGGTATTTTCAATTTCTG
54262824 TTTTTTTTTAAAAAA
62 -TTTTTTTTAAAAAA
*
54262839 TCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TCAACTTATATTGCGAGAGGTGAGTTGAGC
54262869 TTCAGAACAA
Statistics
Matches: 217, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
69 11 0.05
70 49 0.23
71 1 0.00
74 1 0.00
75 47 0.22
76 49 0.23
78 20 0.09
79 39 0.18
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (75 bp):
TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGCACGCTGAGGTATTTTCAATTTCTGTTTT
TTTTAAAAAA
Found at i:54262894 original size:355 final size:354
Alignment explanation
Indices: 54261992--54262984 Score: 1377
Period size: 355 Copynumber: 2.9 Consensus size: 354
54261982 CTTTCCAAGG
* * *
54261992 AAAA-TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-TT-
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * *
54262054 T-TTTT-----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG-GCAC--GCCGAGG
66 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
* * * ** *
54262110 TATTTTTAGTTTATG-TTTT-----AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTT----
131 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
* * * * **
54262165 T-TA-ATTTTTGT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
195 TACACACTGTGGTATTTT---TTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
*
54262227 TGAGGTAATTTCAATTTGT-TTGTTAAAAAAATCAACTCATATGCGAGAAATGAGTTGAGCCTCA
257 TGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATGCGAGAAATGAGTTGAGCCTCA
54262291 GGACACGCTGAGGTAATTTCAATTTCTATTTTC
322 GGACACGCTGAGGTAATTTCAATTTCTATTTTC
54262324 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
54262389 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
66 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
54262454 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
131 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA-
54262519 TACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGA
195 TACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGA
54262584 GGTAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
260 GGTAATTTCAATTTCTGTTGTT--AAAAAAATCAACTCATA-TGCGAGAAATGAGTTGAGCCTCA
*
54262649 GGACACGCTGAGGT-ATTTCAATTTCTGTTTT-
322 GGACACGCTGAGGTAATTTCAATTTCTATTTTC
*
54262680 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAG-CACGTTGAGGTATTTTCAATTTT
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
54262744 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
66 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
**
54262809 TATTTTCAATTTCTGTTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
131 TATTTTCAATTTCTG--TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
* * *
54262874 A-ACA-ACTGTGGTATTTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
194 ATACACACTGTGGTA-TTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCT
* *
54262937 GAGGTAATTTCAATTTCTGTT-TGT-CAAGAATCAACTCATATTGCGAGA
258 GAGGTAATTTCAATTTCTGTTGT-TAAAAAAATCAACTCATA-TGCGAGA
54262985 GGTGGGTTGA
Statistics
Matches: 598, Mismatches: 29, Indels: 48
0.89 0.04 0.07
Matches are distributed among these distances:
332 4 0.01
333 53 0.09
334 2 0.00
335 1 0.00
336 4 0.01
341 38 0.06
342 3 0.01
344 18 0.03
345 4 0.01
349 3 0.01
350 29 0.05
352 22 0.04
354 71 0.12
355 179 0.30
356 46 0.08
357 84 0.14
358 37 0.06
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (354 bp):
AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
ACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATGCGAGAAATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTATTTTC
Found at i:54263104 original size:70 final size:71
Alignment explanation
Indices: 54263025--54263163 Score: 201
Period size: 70 Copynumber: 2.0 Consensus size: 71
54263015 TCAAAATCAG
** * *
54263025 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTT-TTGTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCTT-TTTTA
54263088 ATTTCAA
65 ATTTCAA
*
54263095 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCGTTTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTC-TTTTTTA
54263160 ATTT
65 ATTT
54263164 ATGTTTCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
70 40 0.66
71 10 0.16
72 9 0.15
73 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (71 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCTTTTTTAA
TTTCAA
Found at i:54263339 original size:70 final size:70
Alignment explanation
Indices: 54263156--54263351 Score: 234
Period size: 71 Copynumber: 2.8 Consensus size: 70
54263146 ATTTTCGTTT
** * *
54263156 TTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTG
1 TTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
54263221 AGGTAA
65 AGGTAA
* **
54263227 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTT-AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
54263292 TGA-GTGG
63 TGAGGTAA
* * *
54263299 TTTAATTTATG-TCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
54263352 TGGCTCACAC
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
70 37 0.35
71 50 0.47
72 12 0.11
73 8 0.07
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (70 bp):
TTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGA
GGTAA
Found at i:54263390 original size:14 final size:14
Alignment explanation
Indices: 54263371--54263405 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
54263361 CGCTGAGGTA
54263371 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
54263385 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
54263399 TTTTCAA
1 TTTTCAA
54263406 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:54263544 original size:162 final size:160
Alignment explanation
Indices: 54263227--54263834 Score: 650
Period size: 162 Copynumber: 3.8 Consensus size: 160
54263217 GCTGAGGTAA
* ***
54263227 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * ** * * *
54263292 TGA-GTGGTTT-AATTTATGTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGG
66 TGAGGTAATTTCAATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
54263355 CTCACACGCTGAGGTATTTTCAATTTCTGGT
131 CTCACACGCTGAGGTATTTTCAATTTCT-GT
*** * *
54263386 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
54263451 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TGAGGTAATTTCAATTTCTGTTT-TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
54263516 GCTCACATGCTGAGGTCTTTTCAATTTCTGT
130 GCTCACACGCTGAGGTATTTTCAATTTCTGT
**
54263547 TCTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
1 T-TTCAATTTCTGTT--T-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * **
54263612 ACGCTGAGGTAATTTCAATTTCTGTTTT-TAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
62 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGC
* *
54263676 CTCAAG---ACACGTTGAGGTATTTTCAATTTCTGT
126 CTC-GGCTCACACGCTGAGGTATTTTCAATTTCTGT
** * *
54263709 TTTCAA-------AAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GTTTCACA
1 TTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---GACA
* * * *
54263766 TGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
63 CGCTGAGGTAATTTCAATTTCTG--TTTT----CAAAAATTAACTCATATTGCGAGAGGTGAGTT
54263831 GAGC
122 GAGC
54263835 TTCAGATTAC
Statistics
Matches: 388, Mismatches: 42, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
150 1 0.00
151 38 0.10
153 24 0.06
155 4 0.01
159 89 0.23
160 10 0.03
161 16 0.04
162 103 0.27
163 6 0.02
164 30 0.08
165 67 0.17
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (160 bp):
TTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CTCACACGCTGAGGTATTTTCAATTTCTGT
Found at i:54263554 original size:14 final size:14
Alignment explanation
Indices: 54263535--54263562 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
54263525 CTGAGGTCTT
54263535 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
54263549 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
54263563 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:54263799 original size:79 final size:75
Alignment explanation
Indices: 54263549--54263834 Score: 319
Period size: 72 Copynumber: 3.7 Consensus size: 75
54263539 ATTTCTGTTC
**
54263549 TTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACAC
*
54263614 GCTGAGGTAAT
65 GCTGAGGTATT
* * *
54263625 TTCAATTTCTGTTTTT----AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACAC
*
54263686 GTTGAGGTATT
65 GCTGAGGTATT
* * **
54263697 TTCAATTTCTGTTTTCAAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGTTT
1 TTCAATTTCTGTTTT---TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCG---
* *
54263762 CACATGCTGAGGTATT
60 GACACGCTGAGGTATT
**
54263778 TTCAATTTCTGTTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTCTG-TTTTT-AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
54263835 TTCAGATTAC
Statistics
Matches: 181, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
72 66 0.36
76 14 0.08
79 35 0.19
80 38 0.21
81 24 0.13
82 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (75 bp):
TTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACG
CTGAGGTATT
Found at i:54263856 original size:80 final size:81
Alignment explanation
Indices: 54263641--54263859 Score: 277
Period size: 80 Copynumber: 2.7 Consensus size: 81
54263631 TTCTGTTTTT
* ** * **
54263641 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTTCAATT
54263704 TCTGTTTTCAAAAAAA
66 TCTGTTTTCAAAAAAA
*
54263720 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-G-TTTCACATGCTGAGGTATTTTCAA
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACA--CTGAGGTATTTTCAA
**
54263783 TTTCTGTTTT-TTAAAAA
64 TTTCTGTTTTCAAAAAAA
* * *
54263800 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTT
54263860 TTTCAATTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
79 38 0.31
80 52 0.43
81 25 0.21
82 6 0.05
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (81 bp):
AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTTCAATT
TCTGTTTTCAAAAAAA
Found at i:54263950 original size:968 final size:963
Alignment explanation
Indices: 54262589--54264533 Score: 3584
Period size: 972 Copynumber: 2.0 Consensus size: 963
54262579 GCTGAGGTAA
54262589 TTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
54262654 CGCTGAGGTATTTCAATTTCTGTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA
66 CGCTGAGGTATTTCAATTTCTGTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA
*
54262719 AGCACGTTGAGGTATTTTCAATTTTTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAG
131 AGCACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAG
***
54262784 TTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTTAAAAAATCAACTCATA
196 TTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAATCAACTCATA
54262849 TTGCGAGAGGTGAGTTGAGCTTCAGAACAACTGTGGTATTTTTTTTCAATTCATATTGCGAGAGG
261 TTGCGAGAGGTGAGTTGAGCTTCAGAACAACTGTGGTATTTTTTTTCAATTCATATTGCGAGAGG
54262914 TGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATT
326 TGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATT
54262979 GCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGA
391 GCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGA
54263044 GTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTTT-TGTTTTAATTTCAACTCATATTGCGA
456 GTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGA
*
54263107 GAGGTGAGTTGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCG-TTTTTTAATTTATGTTTC
521 GAGGTGAGTCGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCGTTTTTTTAATTTATGTTTC
54263171 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTT
586 -AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAA-TT
54263236 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GTGG-
649 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGT
*
54263299 TTTAATTTATG-TCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
714 TTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
54263363 CTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAG
779 CTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAG
54263428 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATAT
844 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATAT
54263493 TGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG-T
909 TGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGCT
54263547 TCTTCAATTTCTGTTCG-TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
1 T-TTCAATTTCTGTT-GTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
54263611 CACGCTGAGGTAATTTCAATTTCTGTTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
64 CACGCTGAGGT-ATTTCAATTTCTG-TTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
54263676 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAAAAATCAACTTATATTGCGA
127 CTCAAG-CACGTTGAGGTATTTTCAATTTCTGTTTTC---AAAAAAAAATCAACTTATATTGCGA
*
54263741 GAGGTGAGTTGAGCCTCGTTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAAAT
188 GAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTT-AAAAAAAAAT
54263806 CAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTA-TTTTTTTCAATTCA
252 CAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA--ACA-ACTGTGGTATTTTTTTTCAATTCA
54263870 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAA
314 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAA
*
54263935 TCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
379 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
54264000 TGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAA
444 TGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAA
* *
54264065 CTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
509 CTCATATTGCGAGAGGTGAGTCGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCGTTTTTTT
54264130 AATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGT
574 AATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGT
54264195 AATTTCAATTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
639 AATTTCAATTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
54264260 CTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTT
704 CTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTT
54264325 GGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCAT
769 GGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCAT
*
54264390 ATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAT
834 ATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAT
* *
54264455 TAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCT
899 TAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGCT
54264520 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
54264534 TTTTCAATTT
Statistics
Matches: 955, Mismatches: 13, Indels: 24
0.96 0.01 0.02
Matches are distributed among these distances:
958 1 0.00
959 71 0.07
960 14 0.01
961 45 0.05
962 29 0.03
965 78 0.08
966 42 0.04
968 184 0.19
969 81 0.08
970 134 0.14
971 29 0.03
972 245 0.26
973 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (963 bp):
TTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTCAATTTCTGTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA
AGCACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAG
TTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCTTCAGAACAACTGTGGTATTTTTTTTCAATTCATATTGCGAGAGG
TGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATT
GCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGA
GTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGA
GAGGTGAGTCGAGCCTCAAGACACGCTGAGGCATTTTCAATTTTCGTTTTTTTAATTTATGTTTC
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTT
GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTT
TAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCT
GAGGTATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGT
GAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTG
CGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGCT
Found at i:54264074 original size:72 final size:73
Alignment explanation
Indices: 54263993--54264134 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
54263983 TCAAAATCAG
* * * *
54263993 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
54264057 AATTTCAA
66 AATTTCAA
* *
54264065 CTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
54264130 AATTT
66 AATTT
54264135 ATGTTTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 53 0.84
73 10 0.16
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:54264244 original size:70 final size:72
Alignment explanation
Indices: 54264130--54264352 Score: 254
Period size: 70 Copynumber: 3.1 Consensus size: 72
54264120 TCGTTTTTTT
* *
54264130 AATTTATGTTTCA-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAG
1 AATTTATG-TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAG
54264193 GTAATTTC
65 GTAATTTC
** *
54264201 AATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAG
** *
54264265 GTGGTTTT
65 GTAATTTC
* * * **
54264273 AATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTG
*
54264338 AGGTATTTTC
63 AGGTAATTTC
54264348 AATTT
1 AATTT
54264353 CTGGTTTTCA
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
69 2 0.02
70 40 0.32
71 5 0.04
72 19 0.15
73 38 0.30
74 1 0.01
75 20 0.16
76 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (72 bp):
AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
TAATTTC
Found at i:54264311 original size:73 final size:71
Alignment explanation
Indices: 54264126--54264323 Score: 256
Period size: 70 Copynumber: 2.8 Consensus size: 71
54264116 ATTTTCGTTT
* *
54264126 TTTTAATTTATGTTTCA-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
54264190 GAGGTAA
65 GAGGTAA
* ** *
54264197 TTTCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
54264261 TGAGGTGG
64 TGAGGTAA
* * *
54264269 TTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
54264324 TGGCTCACAC
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
69 2 0.02
70 40 0.37
71 8 0.07
72 19 0.18
73 39 0.36
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:54264362 original size:14 final size:14
Alignment explanation
Indices: 54264343--54264377 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
54264333 CGCTGAGGTA
54264343 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
54264357 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
54264371 TTTTCAA
1 TTTTCAA
54264378 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:54264402 original size:162 final size:162
Alignment explanation
Indices: 54264197--54264536 Score: 502
Period size: 162 Copynumber: 2.1 Consensus size: 162
54264187 GCTGAGGTAA
*
54264197 TTTCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * *
54264261 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
*
54264326 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGCT
* * *
54264358 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * * *
54264423 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
66 TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
* * *
54264488 GCTCACATGCTGAGGTCTTTTTAATTTCTGCT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGCT
54264520 TTTCAATTTCTGTTTTT
1 TTTCAATTTCTGTTTTT
54264537 TCAATTTATA
Statistics
Matches: 159, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
161 9 0.06
162 150 0.94
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (162 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
GCTCACACGCTGAGGTATTTTCAATTTCTGCT
Found at i:54264527 original size:14 final size:15
Alignment explanation
Indices: 54264502--54264543 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
54264492 ACATGCTGAG
*
54264502 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
54264517 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
54264531 GTTTTTTCAATTT
1 GTCTTTTCAATTT
54264544 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:54264539 original size:15 final size:14
Alignment explanation
Indices: 54264505--54264554 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
54264495 TGCTGAGGTC
54264505 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
54264518 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
54264532 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
54264547 TTTTTCAA
1 TTTTTCAA
54264555 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:54265338 original size:30 final size:30
Alignment explanation
Indices: 54265302--54265475 Score: 276
Period size: 30 Copynumber: 5.8 Consensus size: 30
54265292 ACTTTTCTCA
* *
54265302 ACTAGCCACTCCTTTTTCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
54265332 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
54265362 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
54265392 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
54265422 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
54265452 ATTAGCCACACCTTCTCCACCACC
1 ACTAGCCACACCTTTTCCACCACC
54265476 GCTTGTACCT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 132 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.24
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:54265367 original size:60 final size:60
Alignment explanation
Indices: 54265302--54265475 Score: 314
Period size: 60 Copynumber: 2.9 Consensus size: 60
54265292 ACTTTTCTCA
54265302 ACTAGCCACTCCTTTTT-CACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
54265362 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* *
54265422 ACTAGCCACTCTTTTTCCACCACCAACTCCATTAGCCACACCTTCTCCACCACC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACC
54265476 GCTTGTACCT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
59 6 0.05
60 105 0.95
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.24
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:54266059 original size:27 final size:27
Alignment explanation
Indices: 54266029--54266148 Score: 86
Period size: 27 Copynumber: 4.6 Consensus size: 27
54266019 ATTTTAAATT
54266029 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
54266056 CTATTTTA--TTTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* ** *
54266081 TTATATTATTTATATATATATTTTCTA
1 CTATATTACGTATATATATATTTTATA
* * * *
54266108 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
54266134 CTATATTATGTATAT
1 CTATATTACGTATAT
54266149 TTTTAACACT
Statistics
Matches: 69, Mismatches: 20, Indels: 9
0.70 0.20 0.09
Matches are distributed among these distances:
25 20 0.29
26 11 0.16
27 38 0.55
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:54266069 original size:25 final size:25
Alignment explanation
Indices: 54266041--54266181 Score: 85
Period size: 25 Copynumber: 5.6 Consensus size: 25
54266031 ATATTACGTA
* *
54266041 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
54266066 TATATATCTTTAATATTATATTATTT
1 TATATATATTTAATACTATATTA-TT
** *
54266092 ATATATATATTTTCTAC-ATGTTATCT
1 -TATATATATTTAATACTATATTAT-T
*
54266118 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* *
54266144 TATAT-T-TTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* *
54266167 TACATATTTTTAATA
1 TATATATATTTAATA
54266182 TTATCACGTA
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.02
22 2 0.02
23 16 0.18
24 4 0.04
25 28 0.31
26 12 0.13
27 25 0.27
28 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:54266163 original size:23 final size:22
Alignment explanation
Indices: 54266117--54266179 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
54266107 ACATGTTATC
*
54266117 TTATGTATATATCTT-AACTATA
1 TTATGTATAT-TTTTAAACTATA
54266139 TTATGTATATTTTTAACACTATA
1 TTATGTATATTTTTAA-ACTATA
54266162 TTATGTACATATTTTTAA
1 TTATGT--ATATTTTTAA
54266180 TATTATCACG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 3 0.08
22 11 0.31
23 12 0.33
25 10 0.28
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATGTATATTTTTAAACTATA
Found at i:54266345 original size:16 final size:15
Alignment explanation
Indices: 54266321--54266368 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
54266311 TAATTATTAT
*
54266321 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
54266337 TATTTTAATATTTTA
1 TATTTTAATATTTTA
54266352 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
54266368 T
1 T
54266369 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:54266356 original size:7 final size:8
Alignment explanation
Indices: 54266321--54266372 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
54266311 TAATTATTAT
*
54266321 TATTCTAA
1 TATTTTAA
*
54266329 TATTTTGA
1 TATTTTAA
54266337 TATTTTAA
1 TATTTTAA
54266345 TATTTT-A
1 TATTTTAA
54266352 TATTTTATA
1 TATTTTA-A
*
54266361 TATTTTAT
1 TATTTTAA
54266369 TATT
1 TATT
54266373 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:54266964 original size:17 final size:16
Alignment explanation
Indices: 54266942--54267003 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
54266932 CTACAATAGT
54266942 AATAATAATAAATAATA
1 AATAATAAT-AATAATA
* *
54266959 AATAATACT-ATTA-A
1 AATAATAATAATAATA
*
54266973 AATAATAATAATAGTA
1 AATAATAATAATAATA
*
54266989 AATAA-AATAAAAATA
1 AATAATAATAATAATA
54267004 GCAATGAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 9 0.25
15 13 0.36
16 6 0.17
17 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:54266977 original size:21 final size:22
Alignment explanation
Indices: 54266951--54267003 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
54266941 TAATAATAAT
*
54266951 AAATAATAAATAATACT-ATTA
1 AAATAATAAATAATACTAAATA
*
54266972 AAATAAT-AATAATAGTAAATA
1 AAATAATAAATAATACTAAATA
54266993 AAATAA-AAATA
1 AAATAATAAATA
54267004 GCAATGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATAATAAATAATACTAAATA
Found at i:54267021 original size:3 final size:3
Alignment explanation
Indices: 54266936--54267003 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
54266926 ACGTCGCTAC
* * *
54266936 AAT AGT AAT AAT AAT AAAT AAT AAAT AAT ACT ATT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* *
54266982 AAT AGT AAAT AA- AAT AAA AAT A
1 AAT AAT -AAT AAT AAT AAT AAT A
54267004 GCAATGAGAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
2 4 0.08
3 39 0.76
4 8 0.16
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:54270232 original size:27 final size:27
Alignment explanation
Indices: 54270200--54270251 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
54270190 TACTATGGAG
*
54270200 TAAAATTATATTTTAATCTAAAATTGA
1 TAAAATTATAATTTAATCTAAAATTGA
* **
54270227 TAAAATTTTAATTTCGTCTAAAATT
1 TAAAATTATAATTTAATCTAAAATT
54270252 ATTTGATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAAATTATAATTTAATCTAAAATTGA
Found at i:54270978 original size:14 final size:15
Alignment explanation
Indices: 54270959--54270988 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
54270949 TTTTATAGTT
54270959 TTTTGAAT-TTTTTA
1 TTTTGAATATTTTTA
54270973 TTTTGAATATTTTTA
1 TTTTGAATATTTTTA
54270988 T
1 T
54270989 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTGAATATTTTTA
Found at i:54271465 original size:29 final size:28
Alignment explanation
Indices: 54271393--54271476 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
54271383 CAACAACAAC
*
54271393 TAAAATTTT-AATTCTTTTATTAAAATAT
1 TAAAATTTTAAATT-ATTTATTAAAATAT
**
54271421 TAAAA-AATAACTATTATTTATTAAAATAAT
1 TAAAATTTTAA--ATTATTTATTAAAAT-AT
*
54271451 TAAAATTTTAAATTATTAATTAAAAT
1 TAAAATTTTAAATTATTTATTAAAAT
54271477 TTTATCTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 25 0.56
30 10 0.22
31 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TAAAATTTTAAATTATTTATTAAAATAT
Found at i:54278429 original size:24 final size:24
Alignment explanation
Indices: 54278400--54278446 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
54278390 GTAAAAGCCG
54278400 ATAGAGTCGCACCTAAAAGGTAAT
1 ATAGAGTCGCACCTAAAAGGTAAT
54278424 ATAGAGTCGCACCTAAAAGGTAA
1 ATAGAGTCGCACCTAAAAGGTAA
54278447 GATAACCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (24 bp):
ATAGAGTCGCACCTAAAAGGTAAT
Found at i:54280418 original size:22 final size:22
Alignment explanation
Indices: 54280393--54280436 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54280383 TAGTCATATA
54280393 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
54280415 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
54280437 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:54280482 original size:16 final size:14
Alignment explanation
Indices: 54280456--54280496 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
54280446 TTTTAATTTT
54280456 ATTTT-AATAATAA
1 ATTTTAAATAATAA
54280469 ATTTTTAAAATAAT-A
1 A-TTTT-AAATAATAA
54280484 ATTTTAAATAATA
1 ATTTTAAATAATA
54280497 TTATTAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 2 0.08
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:54280511 original size:72 final size:75
Alignment explanation
Indices: 54280390--54280551 Score: 170
Period size: 72 Copynumber: 2.2 Consensus size: 75
54280380 ATTTAGTCAT
* * * * * * * *
54280390 ATAATAAATTATTAATATAATAAATATAATTTATTATTTTAATAAATTATTTAATAT-TTTAAT-
1 ATAATAAATTTTTAAAATAATAAATATAATATAATATTTTAACAAATTATTGAAAATATTCAATA
54280453 TT-TATTTTA
66 TTATATTTTA
* * *
54280462 ATAATAAATTTTTAAAATAATAATTTTAA-ATAATATTATTAACATATTATTGAAAATATTCAAT
1 ATAATAAATTTTTAAAATAATAAATATAATATAATATT-TTAACAAATTATTGAAAATATTCAAT
54280526 ATTAATATTTTA
65 ATT-ATATTTTA
*
54280538 ATAATAAATATTTA
1 ATAATAAATTTTTA
54280552 TTATAATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
71 6 0.08
72 40 0.55
73 5 0.07
74 2 0.03
76 20 0.27
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (75 bp):
ATAATAAATTTTTAAAATAATAAATATAATATAATATTTTAACAAATTATTGAAAATATTCAATA
TTATATTTTA
Found at i:54280549 original size:15 final size:15
Alignment explanation
Indices: 54280529--54280585 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
54280519 ATTCAATATT
54280529 AATATTTTAATAATA
1 AATATTTTAATAATA
*
54280544 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
54280563 AATATATTAATAATA
1 AATATTTTAATAATA
54280578 AATATTTT
1 AATATTTT
54280586 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:54281037 original size:19 final size:21
Alignment explanation
Indices: 54281013--54281063 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
54281003 TATCTAAACA
54281013 CTAAAAAATATTAA-T-TTTT
1 CTAAAAAATATTAATTATTTT
*
54281032 CTAAAAAA-ATAAATTATTTT
1 CTAAAAAATATTAATTATTTT
*
54281052 CTAAAAATTATT
1 CTAAAAAATATT
54281064 TTTCGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 11 0.42
21 2 0.08
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
CTAAAAAATATTAATTATTTT
Found at i:54281061 original size:14 final size:14
Alignment explanation
Indices: 54281042--54281079 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
54281032 CTAAAAAAAT
54281042 AAATTA-TTTTCTAA
1 AAATTATTTTTC-AA
*
54281056 AAATTATTTTTCGA
1 AAATTATTTTTCAA
54281070 AAATTATTTT
1 AAATTATTTT
54281080 GAATGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:54295957 original size:46 final size:46
Alignment explanation
Indices: 54295890--54296106 Score: 319
Period size: 46 Copynumber: 4.7 Consensus size: 46
54295880 TGGCAACCTG
*
54295890 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
54295936 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
54295982 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
54296028 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
54296074 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
54296107 TCACGTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 158 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:54296086 original size:138 final size:130
Alignment explanation
Indices: 54295841--54296106 Score: 372
Period size: 138 Copynumber: 2.0 Consensus size: 130
54295831 AGTGTGCTCT
*
54295841 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
54295906 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
54295971 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
54296036 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
54296100 TATGGCA
122 CATGGCA
54296107 TCACGTCAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
130 48 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Done.