Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 31 of 39
Found at i:4436587 original size:23 final size:23
Alignment explanation
Indices: 4436536--4436587 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
4436526 TTTTTTTCTT
* *
4436536 TCTTTCTTTTTTTTCTTTTTTTC
1 TCTTTCTTTTTTTTCTTTCTCTC
4436559 TCTTTCTTTTTTTTCTTTCTCTC
1 TCTTTCTTTTTTTTCTTTCTCTC
*
4436582 TTTTTC
1 TCTTTC
4436588 GGCTGCACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTCTTTTTTTTCTTTCTCTC
Found at i:4439366 original size:23 final size:23
Alignment explanation
Indices: 4439322--4439366 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4439312 AATTATAAAC
**
4439322 TTAAAATTTATTTTAATTAATTT
1 TTAAAATTTATTTTAAAAAATTT
4439345 TTAAAA-TTATTTTTAAAAAATT
1 TTAAAATTTA-TTTTAAAAAATT
4439367 ACATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAAATTTATTTTAAAAAATTT
Found at i:4439783 original size:37 final size:37
Alignment explanation
Indices: 4439742--4439818 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
4439732 AAAGTATAAT
**
4439742 TATATACATTTTCAATACATCAAATATAAATTATATA
1 TATATACATCATCAATACATCAAATATAAATTATATA
* * * * *
4439779 TATATATATCATGATTGCATCAAATATAAATTTTATA
1 TATATACATCATCAATACATCAAATATAAATTATATA
4439816 TAT
1 TAT
4439819 TCCTTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (37 bp):
TATATACATCATCAATACATCAAATATAAATTATATA
Found at i:4441042 original size:2 final size:2
Alignment explanation
Indices: 4441035--4441059 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4441025 TAATGTGTAA
4441035 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4441060 CCTACGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4443731 original size:2 final size:2
Alignment explanation
Indices: 4443724--4443750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4443714 CAATAAGCCT
4443724 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
4443751 CCACAAATTT
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:4445546 original size:2 final size:2
Alignment explanation
Indices: 4445534--4445583 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4445524 AATAAGAATT
*
4445534 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4445576 TA TA TA TA
1 TA TA TA TA
4445584 GCGTTCATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4447237 original size:2 final size:2
Alignment explanation
Indices: 4447230--4447257 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4447220 GTGCTATTAT
4447230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4447258 AGATCATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4447561 original size:25 final size:25
Alignment explanation
Indices: 4447528--4447575 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
4447518 CAAATCTAAT
4447528 TTTAAAAAATAAACACACTCCTATA
1 TTTAAAAAATAAACACACTCCTATA
4447553 TTTAAAAAATAAACACACTCCTA
1 TTTAAAAAATAAACACACTCCTA
4447576 CAAAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (25 bp):
TTTAAAAAATAAACACACTCCTATA
Found at i:4450191 original size:21 final size:21
Alignment explanation
Indices: 4450167--4450210 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4450157 CATTAGCACG
4450167 CTAACAAGAGTCATCAACATA
1 CTAACAAGAGTCATCAACATA
4450188 CTAACAAGAGTCATCAACATA
1 CTAACAAGAGTCATCAACATA
4450209 CT
1 CT
4450211 TTTAATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.20
Consensus pattern (21 bp):
CTAACAAGAGTCATCAACATA
Found at i:4453712 original size:31 final size:27
Alignment explanation
Indices: 4453677--4453736 Score: 66
Period size: 31 Copynumber: 2.1 Consensus size: 27
4453667 CAAATAAAAT
*
4453677 ATTATTTAAAAAAATGATATTTTTTATTATA
1 ATTATATAAAAAAAT--TA-TTTTTA-TATA
*
4453708 ATTATATAAATAAATTATTTTTATATA
1 ATTATATAAAAAAATTATTTTTATATA
4453735 AT
1 AT
4453737 ATAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
28 6 0.22
29 2 0.07
31 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
ATTATATAAAAAAATTATTTTTATATA
Found at i:4453731 original size:19 final size:22
Alignment explanation
Indices: 4453709--4453751 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
4453699 TTTATTATAA
4453709 TTATATAA-ATAA-AT-TATTT
1 TTATATAATATAATATATATTT
4453728 TTATATAATATAATATATATTT
1 TTATATAATATAATATATATTT
4453750 TT
1 TT
4453752 TAATATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 2 0.10
22 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATAATATAATATATATTT
Found at i:4453757 original size:19 final size:20
Alignment explanation
Indices: 4453727--4453776 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4453717 ATAAATTATT
*
4453727 TTTATATAATATAATATATA
1 TTTATTTAATATAATATATA
* * *
4453747 TTT-TTTAATATTATCTTTA
1 TTTATTTAATATAATATATA
4453766 TTTATTTAATA
1 TTTATTTAATA
4453777 CTTTTAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTTAATATAATATATA
Found at i:4461933 original size:15 final size:16
Alignment explanation
Indices: 4461893--4462028 Score: 70
Period size: 15 Copynumber: 8.2 Consensus size: 16
4461883 TTATATTTTG
4461893 AAATATTAAATATAATA
1 AAATATTAAATAT-ATA
*
4461910 TAATA--AAATA-ATTA
1 AAATATTAAATATA-TA
4461924 AAAT-TTAAATATATA
1 AAATATTAAATATATA
4461939 AAATATTAAA-ATTATA
1 AAATATTAAATA-TATA
*
4461955 TAATA-TAAAT-TATTA
1 AAATATTAAATATA-TA
* * *
4461970 ATATAATAAAATTTATA
1 AAAT-ATTAAATATATA
4461987 TAAATATTTAAATATTATTA
1 -AAATA-TTAAATA-TA-TA
*
4462007 TAATATAATAAATATATA
1 -AA-ATATTAAATATATA
4462025 AAAT
1 AAAT
4462029 TTGATTTTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 33
0.68 0.07 0.24
Matches are distributed among these distances:
13 1 0.01
14 7 0.08
15 25 0.27
16 17 0.18
17 13 0.14
18 12 0.13
19 4 0.04
20 11 0.12
21 3 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATTAAATATATA
Found at i:4461946 original size:23 final size:23
Alignment explanation
Indices: 4461893--4461970 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
4461883 TTATATTTTG
*
4461893 AAATATT-AAATAT-AATATAATA
1 AAATATTAAAATTTAAATAT-ATA
4461915 AAATAATTAAAATTTAAATATATA
1 AAAT-ATTAAAATTTAAATATATA
*
4461939 AAATATTAAAA-TTATATAATATA
1 AAATATTAAAATTTAAAT-ATATA
*
4461962 AATTATTAA
1 AAATATTAA
4461971 TATAATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
22 9 0.18
23 23 0.47
24 12 0.24
25 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTAAAATTTAAATATATA
Found at i:4461973 original size:13 final size:14
Alignment explanation
Indices: 4461907--4461975 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 14
4461897 ATTAAATATA
*
4461907 ATATAATA-AAATA
1 ATATAATATAAATT
* *
4461920 ATTAAAATTTAAATAT
1 A-TATAATATAAAT-T
*
4461936 ATAAAATATTAAAATT
1 ATATAATA-T-AAATT
4461952 ATATAATATAAATT
1 ATATAATATAAATT
4461966 AT-TAATATAA
1 ATATAATATAA
4461976 TAAAATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
13 9 0.20
14 12 0.26
15 11 0.24
16 10 0.22
17 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:4462021 original size:20 final size:19
Alignment explanation
Indices: 4461952--4462018 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 19
4461942 TATTAAAATT
4461952 ATATAATATAAATTA-T-TA
1 ATATAATA-AAATTATTATA
4461970 ATATAATAAAATT-TATATA
1 ATATAATAAAATTAT-TATA
*
4461989 A-ATATTTAAATATTATTATA
1 ATATA-ATAAA-ATTATTATA
4462009 ATATAATAAA
1 ATATAATAAA
4462019 TATATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
17 5 0.12
18 12 0.30
19 7 0.17
20 12 0.30
21 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATAAAATTATTATA
Found at i:4462024 original size:50 final size:52
Alignment explanation
Indices: 4461893--4462025 Score: 134
Period size: 50 Copynumber: 2.6 Consensus size: 52
4461883 TTATATTTTG
*
4461893 AAATATTAAATATAATATAATAAA-ATA-ATTAAAATTTAAATATATAAAATATT
1 AAATATT--ATATAATATAATAAATATATAATAAAATTT-AATATATAAAATATT
* * *
4461946 AAA-ATTATATAATATAAATTATTAATATAATAAAATTT-ATATA-AATAT-TT
1 AAATATTATATAATAT-AATAAAT-ATATAATAAAATTTAATATATAAAATATT
4461996 AAATATTATTATAATATAATAAATATATAA
1 AAATATTA-TATAATATAATAAATATATAA
4462026 AATTTGATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
50 20 0.29
51 17 0.25
52 16 0.24
53 6 0.09
54 9 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (52 bp):
AAATATTATATAATATAATAAATATATAATAAAATTTAATATATAAAATATT
Found at i:4462025 original size:8 final size:8
Alignment explanation
Indices: 4461893--4462026 Score: 52
Period size: 8 Copynumber: 16.4 Consensus size: 8
4461883 TTATATTTTG
4461893 AAATAT-T
1 AAATATAT
4461900 AAATATA-
1 AAATATAT
*
4461907 ATATA-AT
1 AAATATAT
4461914 AAA-ATAATT
1 AAATAT-A-T
*
4461923 AAA-ATTT
1 AAATATAT
4461930 AAATATAT
1 AAATATAT
4461938 AAA-ATATT
1 AAATATA-T
4461946 AAA-AT-T
1 AAATATAT
*
4461952 ATATAATAT
1 AAAT-ATAT
4461961 AAAT-TAT
1 AAATATAT
*
4461968 TAATATAAT
1 AAATAT-AT
4461977 AAAATTTATAT
1 -AAA--TATAT
*
4461988 AAATATTT
1 AAATATAT
4461996 AAATATTATT
1 AAATA-TA-T
4462006 ATAATATAAT
1 A-AATAT-AT
4462016 AAATATAT
1 AAATATAT
4462024 AAA
1 AAA
4462027 ATTTGATTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 37
0.68 0.07 0.26
Matches are distributed among these distances:
6 5 0.05
7 25 0.26
8 30 0.31
9 18 0.18
10 10 0.10
11 7 0.07
12 3 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AAATATAT
Found at i:4462993 original size:15 final size:15
Alignment explanation
Indices: 4462957--4462993 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4462947 TATAGTATTA
4462957 TAATTTTATTTATAG
1 TAATTTTATTTATAG
4462972 T-ATTTTATTTATA-
1 TAATTTTATTTATAG
4462985 TAAATTTTA
1 T-AATTTTA
4462994 ATATATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 12 0.60
15 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TAATTTTATTTATAG
Found at i:4463064 original size:16 final size:16
Alignment explanation
Indices: 4463056--4463091 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4463046 TATTTATTTA
4463056 ATATTTTATATATATT
1 ATATTTTATATATATT
4463072 ATA-TTTATATA-ATT
1 ATATTTTATATATATT
4463086 ATATTT
1 ATATTT
4463092 AAAATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 10 0.53
16 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTTATATATATT
Found at i:4463099 original size:12 final size:14
Alignment explanation
Indices: 4463046--4463092 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
4463036 TTTGTCTTAT
*
4463046 TATTTATTTAA-TA
1 TATTTATATAATTA
4463059 T-TTTATATATATTA
1 TATTTATATA-ATTA
4463073 TATTTATATAATTA
1 TATTTATATAATTA
4463087 TATTTA
1 TATTTA
4463093 AAATTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 2 0.07
14 13 0.43
15 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTATATAATTA
Found at i:4463110 original size:14 final size:14
Alignment explanation
Indices: 4463068--4463110 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4463058 ATTTTATATA
*
4463068 TATTATATTTATAT
1 TATTATATTTAAAT
*
4463082 AATTATATTTAAAAT
1 TATTATATTT-AAAT
*
4463097 TATTAAATTTAAAT
1 TATTATATTTAAAT
4463111 AAAATCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATTTAAAT
Found at i:4463214 original size:20 final size:20
Alignment explanation
Indices: 4463191--4463257 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
4463181 ATTATTATTT
4463191 AAAAATATTAAACTATTAAA
1 AAAAATATTAAACTATTAAA
* * * *
4463211 AAAACTAGTAACCTTTTAAAA
1 AAAAATATTAAACTATT-AAA
4463232 AAAAACTATTAATATCTATTAAA
1 AAAAA-TATTAA-A-CTATTAAA
4463255 AAA
1 AAA
4463258 TTACTTATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.37
21 7 0.20
22 5 0.14
23 6 0.17
24 4 0.11
ACGTcount: A:0.60, C:0.09, G:0.01, T:0.30
Consensus pattern (20 bp):
AAAAATATTAAACTATTAAA
Found at i:4465102 original size:14 final size:14
Alignment explanation
Indices: 4465083--4465128 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
4465073 TAAATTTATC
4465083 AAATATTATTAATT
1 AAATATTATTAATT
4465097 AAATATTATTAATT
1 AAATATTATTAATT
*
4465111 AAAT-TAATTAAATT
1 AAATATTATT-AATT
4465125 AAAT
1 AAAT
4465129 GTCAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATATTATTAATT
Found at i:4468106 original size:23 final size:22
Alignment explanation
Indices: 4468063--4468132 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
4468053 AAATTTTTAT
4468063 TTAAAT-TTAATTATAAA-AATA
1 TTAAATATTAA-TATAAATAATA
4468084 TATAAATATTAATATAAATAATA
1 T-TAAATATTAATATAAATAATA
* *
4468107 TTTTAATATT--TTTAAATAATA
1 -TTAAATATTAATATAAATAATA
4468128 TTAAA
1 TTAAA
4468133 AAAATTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 4 0.10
21 11 0.26
22 11 0.26
23 15 0.36
24 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAATATTAATATAAATAATA
Found at i:4469069 original size:16 final size:16
Alignment explanation
Indices: 4469035--4469081 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4469025 TAAATATTAA
*
4469035 AATAAAATTAATATTTT
1 AATAAAATAAAT-TTTT
4469052 AATAAAATAAATTTTT
1 AATAAAATAAATTTTT
* *
4469068 AATTAATTAAATTT
1 AATAAAATAAATTT
4469082 GTGCTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAATAAATTTTT
Found at i:4472278 original size:2 final size:2
Alignment explanation
Indices: 4472273--4472316 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4472263 AAGTGTGTGC
4472273 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4472315 CA
1 CA
4472317 TCTGATGCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4475893 original size:3 final size:3
Alignment explanation
Indices: 4475885--4475918 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4475875 AGAAAGCAGC
4475885 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4475919 GTATTTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4483954 original size:17 final size:19
Alignment explanation
Indices: 4483921--4483957 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
4483911 TTTCAGTGAT
4483921 ATTTTAATAATTTAAAATA
1 ATTTTAATAATTTAAAATA
4483940 ATTTTAA-AA-TTAAAATA
1 ATTTTAATAATTTAAAATA
4483957 A
1 A
4483958 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTTAATAATTTAAAATA
Found at i:4490671 original size:33 final size:33
Alignment explanation
Indices: 4490622--4490688 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4490612 CCTCCCTGAT
*
4490622 ACTTTAATTGGACTTCTGGTTTCTTTTGATTTG
1 ACTTTAATTCGACTTCTGGTTTCTTTTGATTTG
* *
4490655 ACTTTAATTCGCCTTCTGGTTTCTTTTGGTTTG
1 ACTTTAATTCGACTTCTGGTTTCTTTTGATTTG
4490688 A
1 A
4490689 TAAAATTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.54
Consensus pattern (33 bp):
ACTTTAATTCGACTTCTGGTTTCTTTTGATTTG
Found at i:4490961 original size:2 final size:2
Alignment explanation
Indices: 4490954--4490989 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4490944 CATTCATGTG
4490954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4490990 GAACATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4494712 original size:21 final size:19
Alignment explanation
Indices: 4494679--4494755 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
4494669 TTCTTAGATG
4494679 ATTTATATATTTATATTAT
1 ATTTATATATTTATATTAT
*
4494698 ATTTATATATTTTTATATTAAA
1 ATTTATATA--TTTATATT-AT
* * *
4494720 ATTAATATAATTATATGA-
1 ATTTATATATTTATATTAT
4494738 ATTTTAATATATTTATAT
1 A-TTT-ATATATTTATAT
4494756 AATCGTGTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.02
19 12 0.26
20 17 0.36
21 8 0.17
22 9 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
ATTTATATATTTATATTAT
Found at i:4495986 original size:11 final size:11
Alignment explanation
Indices: 4495970--4496014 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
4495960 AATTATTTAT
4495970 TTAAATTAAAA
1 TTAAATTAAAA
4495981 TTAAATT-AAA
1 TTAAATTAAAA
*
4495991 TTAAATTAAAT
1 TTAAATTAAAA
4496002 TTAAATTAAAA
1 TTAAATTAAAA
4496013 TT
1 TT
4496015 TTAATAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAA
Found at i:4495996 original size:21 final size:21
Alignment explanation
Indices: 4495970--4496011 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4495960 AATTATTTAT
4495970 TTAAATTAAAATTAAATTAAA
1 TTAAATTAAAATTAAATTAAA
*
4495991 TTAAATTAAATTTAAATTAAA
1 TTAAATTAAAATTAAATTAAA
4496012 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATTAAAATTAAATTAAA
Found at i:4496014 original size:6 final size:5
Alignment explanation
Indices: 4495970--4496011 Score: 66
Period size: 5 Copynumber: 8.0 Consensus size: 5
4495960 AATTATTTAT
4495970 TTAAA TTAAAA TTAAA TTAAA TTAAA TTAAA TTTAAA TTAAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTAAA -TTAAA TTAAA
4496012 ATTTTAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:4496922 original size:20 final size:21
Alignment explanation
Indices: 4496897--4496936 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4496887 ATTGTTAAAA
4496897 ATATTAAAATTTT-TATTTTT
1 ATATTAAAATTTTATATTTTT
*
4496917 ATATTAATATTTTATATTTT
1 ATATTAAAATTTTATATTTT
4496937 ATAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTAAAATTTTATATTTTT
Found at i:4496937 original size:20 final size:20
Alignment explanation
Indices: 4496897--4496948 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4496887 ATTGTTAAAA
*
4496897 ATATTAAAATTTTTATTTTT
1 ATATTAATATTTTTATTTTT
4496917 ATATTAATA-TTTTATATTTT
1 ATATTAATATTTTTAT-TTTT
4496937 ATAATT-ATATTT
1 AT-ATTAATATTT
4496949 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.21
20 17 0.61
21 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTAATATTTTTATTTTT
Found at i:4496970 original size:23 final size:22
Alignment explanation
Indices: 4496935--4496977 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4496925 ATTTTATATT
4496935 TTATAATTATATTTAAATAAAAA
1 TTATAATTATA-TTAAATAAAAA
* *
4496958 TTATTATTTTATTAAATAAA
1 TTATAATTATATTAAATAAA
4496978 TAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAATTATATTAAATAAAAA
Found at i:4497738 original size:21 final size:22
Alignment explanation
Indices: 4497714--4497754 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4497704 TCAATTTTTC
4497714 ATTTAATTTTTA-TTAAATTCA
1 ATTTAATTTTTATTTAAATTCA
*
4497735 ATTTGATTTTTATTTAAATT
1 ATTTAATTTTTATTTAAATT
4497755 TTTAATACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTAATTTTTATTTAAATTCA
Found at i:4500323 original size:14 final size:14
Alignment explanation
Indices: 4500296--4500332 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
4500286 GCAACGATCT
4500296 AAAGAAAGAATTAAA
1 AAAGAAA-AATTAAA
4500311 AAAGAAAAATTAAA
1 AAAGAAAAATTAAA
4500325 AAA-AAAAA
1 AAAGAAAAA
4500333 GAAGTTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.23
14 10 0.45
15 7 0.32
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (14 bp):
AAAGAAAAATTAAA
Found at i:4501317 original size:15 final size:14
Alignment explanation
Indices: 4501295--4501347 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 14
4501285 AAATATTTAA
*
4501295 TAATTTATGTATAT
1 TAATTTATATATAT
4501309 TATATTTATATATAT
1 TA-ATTTATATATAT
4501324 TAATTTAATATATAAT
1 TAATTT-ATATAT-AT
4501340 ATAATTTA
1 -TAATTTA
4501348 ATTAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 6 0.18
15 19 0.56
16 3 0.09
17 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATTTATATATAT
Found at i:4502469 original size:20 final size:21
Alignment explanation
Indices: 4502441--4502480 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4502431 TATTTAAAAA
4502441 TTTATAT-AAATATATAATATT
1 TTTATATAAAAT-TATAATATT
4502462 TTTA-ATAAAATTATAATAT
1 TTTATATAAAATTATAATAT
4502481 AATAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATATAAAATTATAATATT
Found at i:4502971 original size:27 final size:28
Alignment explanation
Indices: 4502914--4502990 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
4502904 TTTGTAAATT
* * **
4502914 TTAAT-TATAAATTTATTTTTTATTTTG
1 TTAATGTATAAAATTATTTTTTATCTCA
4502941 TTAATGTATAAAATT-TTTTTTATCTCA
1 TTAATGTATAAAATTATTTTTTATCTCA
*
4502968 TTAATGTATAAAATAATTATTTT
1 TTAATGTATAAAATTATT-TTTT
4502991 TTTTACTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 28 0.67
28 10 0.24
29 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (28 bp):
TTAATGTATAAAATTATTTTTTATCTCA
Found at i:4503821 original size:18 final size:18
Alignment explanation
Indices: 4503776--4503882 Score: 60
Period size: 18 Copynumber: 5.6 Consensus size: 18
4503766 TTATCTAGTA
4503776 ATATTATATTTATATAAATTT
1 ATATTATA-TTA-AT-AATTT
*
4503797 -TAATATATTAATAATTT
1 ATATTATATTAATAATTT
4503814 ATATTATA-TAATTTTTATATTTT
1 ATATTATATTAA----TA-A-TTT
*
4503837 ATAATATATTTAATAATTT
1 ATATTATA-TTAATAATTT
*
4503856 AT-TTATATT-ATATTTT
1 ATATTATATTAATAATTT
4503872 ATAATTATATT
1 AT-ATTATATT
4503883 TAAAATTATT
Statistics
Matches: 70, Mismatches: 5, Indels: 25
0.70 0.05 0.25
Matches are distributed among these distances:
16 8 0.11
17 10 0.14
18 19 0.27
19 8 0.11
20 7 0.10
21 4 0.06
22 1 0.01
23 10 0.14
25 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATATTAATAATTT
Found at i:4503830 original size:16 final size:16
Alignment explanation
Indices: 4503779--4503841 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
4503769 TCTAGTAATA
4503779 TTATATTTATATAAATTT
1 TTATA-TTATAT-AATTT
4503797 TAATATATTA-ATAA--T
1 T--TATATTATATAATTT
4503812 TTATATTATATAATTT
1 TTATATTATATAATTT
*
4503828 TTATATTTTATAAT
1 TTATATTATATAAT
4503842 ATATTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 7 0.18
14 4 0.10
15 2 0.05
16 14 0.36
17 2 0.05
18 3 0.08
19 3 0.08
20 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTATATAATTT
Found at i:4503846 original size:12 final size:12
Alignment explanation
Indices: 4503829--4503883 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
4503819 ATATAATTTT
4503829 TATATTTTATAA
1 TATATTTTATAA
*
4503841 TATATTTAATAA
1 TATATTTTATAA
* *
4503853 TTTA-TTTATAT
1 TATATTTTATAA
4503864 TATATTTTATAA
1 TATATTTTATAA
4503876 TTATATTT
1 -TATATTT
4503884 AAAATTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 8 0.23
12 20 0.57
13 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTTTATAA
Found at i:4503860 original size:23 final size:24
Alignment explanation
Indices: 4503774--4503892 Score: 88
Period size: 23 Copynumber: 5.0 Consensus size: 24
4503764 ATTTATCTAG
*
4503774 TAAT-ATTATATTTAT-ATAAATTT
1 TAATAATTATATTTATAATATA-TT
*
4503797 TAATATATTAATAATTTAT-AT-TATA
1 TAATA-ATT-AT-ATTTATAATATATT
**
4503822 TAATTTTTATATTTTATAATATATT
1 TAATAATTATA-TTTATAATATATT
*
4503847 TAATAATT-TATTTATATTATATT
1 TAATAATTATATTTATAATATATT
* *
4503870 TTATAATTATATTTAAAAT-TATT
1 TAATAATTATATTTATAATATATT
4503893 AAATTCGTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
22 1 0.01
23 34 0.44
24 14 0.18
25 17 0.22
26 3 0.04
27 8 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATAATTATATTTATAATATATT
Found at i:4503866 original size:28 final size:30
Alignment explanation
Indices: 4503774--4503881 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 30
4503764 ATTTATCTAG
*
4503774 TAATATTATATTTATATAAATTTTAATATATTAA
1 TAATA-TATA-TTATAT-AATTTTTATATATT-A
* *
4503808 TAATTTATATTATATAATTTTTATATTTTA
1 TAATATATATTATATAATTTTTATATATTA
4503838 TAATATAT-TTA-ATAATTTATT-TATATTA
1 TAATATATATTATATAATTT-TTATATATTA
* *
4503866 TATTTTATAATTATAT
1 TAATATAT-ATTATAT
4503882 TTAAAATTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
28 19 0.30
29 5 0.08
30 11 0.17
31 14 0.22
32 6 0.10
33 4 0.06
34 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATATATATTATATAATTTTTATATATTA
Found at i:4503880 original size:41 final size:41
Alignment explanation
Indices: 4503776--4503880 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 41
4503766 TTATCTAGTA
*
4503776 ATATTATATTTATATAAATTTTAATATATTAATAATTTATATT
1 ATATTATATTT-TAT-AATTATAATATATTAATAATTTATATT
* *
4503819 ATATAAT-TTTTATATTTTATAATATATTTAATAATTTAT-TT
1 ATATTATATTTTATA-ATTATAATATA-TTAATAATTTATATT
4503860 ATATTATATTTTATAATTATA
1 ATATTATATTTTATAATTATA
4503881 TTTAAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
40 1 0.02
41 25 0.46
42 22 0.41
43 6 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (41 bp):
ATATTATATTTTATAATTATAATATATTAATAATTTATATT
Found at i:4504017 original size:11 final size:11
Alignment explanation
Indices: 4503998--4504106 Score: 68
Period size: 11 Copynumber: 10.1 Consensus size: 11
4503988 ATATGAAAAA
4503998 AATAT-AATAT
1 AATATAAATAT
4504008 AATATAAATAT
1 AATATAAATAT
4504019 AATATAAATAT
1 AATATAAATAT
* * *
4504030 -ATAATTATTTT
1 AAT-ATAAATAT
* **
4504041 AAAATTTATAT
1 AATATAAATAT
4504052 AAATATAAAATAT
1 -AATAT-AAATAT
4504065 AAT-TATAATAT
1 AATATA-AATAT
4504076 AATA-AAA-AT
1 AATATAAATAT
*
4504085 -ATAAAAATAT
1 AATATAAATAT
*
4504095 ATTATAAATAT
1 AATATAAATAT
4504106 A
1 A
4504107 TAAATTCTGA
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
8 3 0.04
9 5 0.06
10 12 0.16
11 45 0.58
12 8 0.10
13 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATAAATAT
Found at i:4504052 original size:39 final size:37
Alignment explanation
Indices: 4504009--4504109 Score: 114
Period size: 39 Copynumber: 2.7 Consensus size: 37
4503999 ATATAATATA
** *
4504009 ATATAAATATAATATAAATATATAATTATTTTAAAATTT
1 ATATAAATATAATATAAATATATAA-TATAATAAAA-AT
*
4504048 ATATAAATATAAAATATAAT-TATAATATAATAAAAAT
1 ATATAAATATAATATA-AATATATAATATAATAAAAAT
* *
4504085 ATAAAAATATATTATAAATATATAA
1 ATATAAATATAATATAAATATATAA
4504110 ATTCTGAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
36 3 0.06
37 19 0.36
38 8 0.15
39 20 0.38
40 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
ATATAAATATAATATAAATATATAATATAATAAAAAT
Found at i:4504122 original size:57 final size:56
Alignment explanation
Indices: 4504003--4504111 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 56
4503993 AAAAAAATAT
* * * *
4504003 AATATAATATAAATATAATATAAATATATAATTATTTTAAAATTTATATAAATATAA
1 AATATAATATAAATATAATAAAAATATAAAAATATATTAAAA-TTATATAAATATAA
4504060 AATATAAT-TATAATATAATAAAAATATAAAAATATATTATAAA-TATATAAAT
1 AATATAATATA-AATATAATAAAAATATAAAAATATATTA-AAATTATATAAAT
4504112 TCTGAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 11 0.24
57 32 0.70
58 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (56 bp):
AATATAATATAAATATAATAAAAATATAAAAATATATTAAAATTATATAAATATAA
Found at i:4504403 original size:24 final size:22
Alignment explanation
Indices: 4504360--4504448 Score: 54
Period size: 25 Copynumber: 3.8 Consensus size: 22
4504350 ATTATAATAC
* *
4504360 TTTATAAATATATATTTTAAAT
1 TTTATAAATATAAATATTAAAT
4504382 TTTATATAATATAAAATATTAATAT
1 TTTATA-AATAT-AAATATTAA-AT
* * *
4504407 ATTAAAAATAATATAAGTATAAAAT
1 TTTATAAAT-ATA-AA-TATTAAAT
*
4504432 ATTT-TAAATATTAATAT
1 -TTTATAAATATAAATAT
4504449 AATATAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
22 9 0.17
23 7 0.13
24 13 0.25
25 16 0.31
26 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TTTATAAATATAAATATTAAAT
Found at i:4504406 original size:18 final size:18
Alignment explanation
Indices: 4504385--4504434 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
4504375 TTTAAATTTT
4504385 ATATAATATAAAATATTA
1 ATATAATATAAAATATTA
4504403 ATAT-AT-TAAAA-A-TA
1 ATATAATATAAAATATTA
4504417 ATATAAGTATAAAATATT
1 ATATAA-TATAAAATATT
4504435 TTAAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 6 0.22
17 7 0.26
18 5 0.19
19 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAATATAAAATATTA
Found at i:4504412 original size:32 final size:33
Alignment explanation
Indices: 4504385--4504460 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
4504375 TTTAAATTTT
4504385 ATATAA-TATAAAATATTAATATATTAAAAATA
1 ATATAAGTATAAAATATTAATATATTAAAAATA
*
4504417 ATATAAGTATAAAATATTTTAA-ATATT-AATATA
1 ATATAAGTATAAAATA--TTAATATATTAAAAATA
*
4504450 ATATAAATATA
1 ATATAAGTATA
4504461 TAAAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 6 0.15
33 24 0.62
34 5 0.13
35 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
ATATAAGTATAAAATATTAATATATTAAAAATA
Found at i:4504440 original size:25 final size:27
Alignment explanation
Indices: 4504380--4504441 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 27
4504370 TATATTTTAA
* *
4504380 ATTTTATATAATATAAAATATTAATAT
1 ATTTTAAATAATATAAAATATTAAAAT
** *
4504407 ATTAAAAATAATAT-AAGTA-TAAAAT
1 ATTTTAAATAATATAAAATATTAAAAT
4504432 ATTTTAAATA
1 ATTTTAAATA
4504442 TTAATATAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 13 0.46
26 4 0.14
27 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTTTAAATAATATAAAATATTAAAAT
Found at i:4504760 original size:24 final size:23
Alignment explanation
Indices: 4504713--4504756 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4504703 TATTTTTATG
*
4504713 TAAATTTAATTATAAAATATATA
1 TAAATTTAATTATAAAAAATATA
4504736 TAAATATT-ATTATAAAAAATA
1 TAAAT-TTAATTATAAAAAATA
4504757 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTTAATTATAAAAAATATA
Found at i:4505616 original size:39 final size:39
Alignment explanation
Indices: 4505573--4505649 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
4505563 TTTATACATC
*
4505573 ATATAAAATAAATATT-ATATTATAATA-TAAATATTAAAA
1 ATAT-AAA-AAATATTAATATTATAAAATTAAATATTAAAA
* *
4505612 ATATATAAAATATTAATATTTTAAAATTAAATATTAAA
1 ATATAAAAAATATTAATATTATAAAATTAAATATTAAA
4505650 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 7 0.21
38 11 0.33
39 15 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (39 bp):
ATATAAAAAATATTAATATTATAAAATTAAATATTAAAA
Found at i:4505629 original size:15 final size:15
Alignment explanation
Indices: 4505611--4505651 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
4505601 AAATATTAAA
*
4505611 AATATATAAAATATT
1 AATATATTAAATATT
*
4505626 AATATTTTAAA-ATT
1 AATATATTAAATATT
4505640 AA-ATATTAAATA
1 AATATATTAAATA
4505652 AAAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATATTAAATATT
Found at i:4505649 original size:7 final size:7
Alignment explanation
Indices: 4505581--4505651 Score: 51
Period size: 7 Copynumber: 9.9 Consensus size: 7
4505571 TCATATAAAA
4505581 TAAATAT
1 TAAATAT
4505588 T--ATAT
1 TAAATAT
4505593 TATAATA-
1 TA-AATAT
4505600 TAAATAT
1 TAAATAT
4505607 TAAAAATAT
1 T--AAATAT
4505616 ATAAAATAT
1 -T-AAATAT
*
4505625 TAATATTT
1 TAA-ATAT
4505633 TAAA-AT
1 TAAATAT
4505639 TAAATAT
1 TAAATAT
4505646 TAAATA
1 TAAATA
4505652 AAAATAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
5 5 0.09
6 9 0.17
7 15 0.28
8 10 0.19
9 13 0.25
10 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATAT
Found at i:4506226 original size:49 final size:50
Alignment explanation
Indices: 4506169--4506269 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 50
4506159 AATATAAAAT
* *
4506169 ATTTTAAATATAATTATTATATAAT-AAAATATATTAGTT-ATTTTTA-ATA
1 ATTTTAAATATAA--ATAAAATAATAAAAATATATTAGTTAATTTTTATATA
**
4506218 ATTTTAAATATAAATAAAATAATAAAAATATATTTTTTAATTTTTATATA
1 ATTTTAAATATAAATAAAATAATAAAAATATATTAGTTAATTTTTATATA
4506268 AT
1 AT
4506270 ATAAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
47 8 0.18
48 12 0.27
49 20 0.44
50 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (50 bp):
ATTTTAAATATAAATAAAATAATAAAAATATATTAGTTAATTTTTATATA
Found at i:4506325 original size:2 final size:2
Alignment explanation
Indices: 4506318--4506343 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4506308 TTTACTCTCC
4506318 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4506344 TTTGTGATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4506721 original size:21 final size:21
Alignment explanation
Indices: 4506697--4506770 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 21
4506687 TTAACTTTTT
4506697 TATTTTTAAATTTATTAAATA
1 TATTTTTAAATTTATTAAATA
*
4506718 TATTGTTTTAA---A--AAATA
1 TATT-TTTAAATTTATTAAATA
*
4506735 -ATTTTATAAATTAATTAAAT-
1 TATTTT-TAAATTTATTAAATA
4506755 TATATTTTAAATTTAT
1 TAT-TTTTAAATTTAT
4506771 AACTTCAGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 5 0.12
19 2 0.05
21 18 0.44
22 8 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TATTTTTAAATTTATTAAATA
Found at i:4509610 original size:5 final size:5
Alignment explanation
Indices: 4509600--4509707 Score: 59
Period size: 5 Copynumber: 22.4 Consensus size: 5
4509590 CGATTATAAA
* * * * * *
4509600 AATAT AATAT AA-AT AAAAT AATAA AAAAT AA-AT -ATAT ATTTT AAAATT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA-T
* * *
4509648 TATAT AATAT AA-ATT AATAT AA-AT -ATAA AATAT AATAT AATTAT AAAAT
1 AATAT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT AA-TAT AATAT
4509697 AATA- AATAT AA
1 AATAT AATAT AA
4509708 CACGAATTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
3 2 0.03
4 16 0.21
5 50 0.65
6 9 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:4509619 original size:16 final size:16
Alignment explanation
Indices: 4509598--4509707 Score: 65
Period size: 18 Copynumber: 6.9 Consensus size: 16
4509588 ATCGATTATA
4509598 AAAATATAATATAAAT
1 AAAATATAATATAAAT
4509614 AAAATAATAA-A-AAAT
1 AAAAT-ATAATATAAAT
**
4509629 -AAATAT-ATAT-TTT
1 AAAATATAATATAAAT
*
4509642 AAAAT-TTATAT-AAT
1 AAAATATAATATAAAT
4509656 ATAAAT-TAATATAAATAT
1 A-AAATATAATAT-AA-AT
4509674 AAAATATAATATAATTAT
1 AAAATATAATATAA--AT
4509692 AAAATAATAAATATAA
1 AAAAT-AT-AATATAA
4509708 CACGAATTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.07
14 14 0.18
15 13 0.17
16 6 0.08
17 11 0.14
18 17 0.22
19 2 0.03
20 7 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATAATATAAAT
Found at i:4509674 original size:23 final size:25
Alignment explanation
Indices: 4509601--4509707 Score: 68
Period size: 23 Copynumber: 4.4 Consensus size: 25
4509591 GATTATAAAA
* *
4509601 ATATAATATAAATAAAATAATAAA-
1 ATATAATATAAATATAATTATAAAT
* * *
4509625 AAATAA-ATATATAT-TTTA-AAATTT
1 ATATAATATAAATATAATTATAAA--T
4509649 ATATAATATAAAT-TAA-TATAAAT
1 ATATAATATAAATATAATTATAAAT
*
4509672 ATAAAATAT-AATATAATTATAAA-
1 ATATAATATAAATATAATTATAAAT
4509695 ATAATAAATATAA
1 AT-AT-AATATAA
4509708 CACGAATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
21 3 0.05
22 5 0.08
23 20 0.32
24 20 0.32
25 13 0.21
26 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATAATATAAATATAATTATAAAT
Found at i:4509702 original size:32 final size:32
Alignment explanation
Indices: 4509600--4509707 Score: 91
Period size: 32 Copynumber: 3.4 Consensus size: 32
4509590 CGATTATAAA
* *
4509600 AATAT-AATAT-AAA-TAAAATAATAAAAAAT
1 AATATAAATATAAAATTAATATAATATAAAAT
* * * *
4509629 AAATATATATTTTAAAATTTATATAATATAAATT
1 -AATATA-AATATAAAATTAATATAATATAAAAT
4509663 AATATAAATATAAAATATAATATAATTATAAAAT
1 AATATAAATATAAAAT-TAATATAA-TATAAAAT
4509697 -A-ATAAATATAA
1 AATATAAATATAA
4509708 CACGAATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
30 5 0.08
32 21 0.34
33 17 0.27
34 19 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
AATATAAATATAAAATTAATATAATATAAAAT
Found at i:4509703 original size:25 final size:25
Alignment explanation
Indices: 4509595--4509707 Score: 87
Period size: 25 Copynumber: 4.5 Consensus size: 25
4509585 AATATCGATT
4509595 ATAA-AAATATAATATAA--ATAAA
1 ATAATAAATATAATATAATTATAAA
* *
4509617 ATAATAAAAAATAAATATATATTTTAAA
1 ATAAT-AAATAT-AATATA-ATTATAAA
*
4509645 AT--T-TATATAATATAAATTAATATAA
1 ATAATAAATATAATAT-AATT-ATA-AA
4509670 AT-ATAAAATATAATATAATTATAAA
1 ATAAT-AAATATAATATAATTATAAA
4509695 ATAATAAATATAA
1 ATAATAAATATAA
4509708 CACGAATTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
22 4 0.06
23 8 0.11
24 11 0.15
25 22 0.31
26 8 0.11
27 4 0.06
28 15 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAAATATAATATAATTATAAA
Found at i:4513813 original size:23 final size:22
Alignment explanation
Indices: 4513786--4513835 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
4513776 TTAAATGAAA
* *
4513786 ATTTTATTTTTTACATTTATAAT
1 ATTTTAATTTTTA-AATTATAAT
*
4513809 ATTTTTAATTTTTAAATTATGAT
1 A-TTTTAATTTTTAAATTATAAT
4513832 ATTT
1 ATTT
4513836 AAGTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 3 0.13
23 9 0.39
24 11 0.48
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTAATTTTTAAATTATAAT
Found at i:4513815 original size:24 final size:23
Alignment explanation
Indices: 4513787--4513835 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4513777 TAAATGAAAA
* *
4513787 TTTTATTTTTTACATTTATAATAT
1 TTTTAATTTTTA-AATTATAATAT
*
4513811 TTTTAATTTTTAAATTATGATAT
1 TTTTAATTTTTAAATTATAATAT
4513834 TT
1 TT
4513836 AAGTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAATTTTTAAATTATAATAT
Found at i:4513922 original size:2 final size:2
Alignment explanation
Indices: 4513915--4513971 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
4513905 GAAAACAAGA
4513915 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
4513957 AG AA AG AG CG AG AG A
1 AG AG AG AG AG AG AG A
4513972 AGACAAAACG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4518901 original size:3 final size:3
Alignment explanation
Indices: 4518893--4518940 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
4518883 TTTATTTATA
4518893 AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AA- AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT
4518937 AAT A
1 AAT A
4518941 TGCTTGACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.15
3 28 0.68
4 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4518915 original size:22 final size:20
Alignment explanation
Indices: 4518890--4518940 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 20
4518880 TCTTTTATTT
4518890 ATAAATAATAATAATAATAATA
1 ATAAATAATAA-AATAAT-ATA
4518912 ATAAATAAATAAAATAATATA
1 ATAAAT-AATAAAATAATATA
4518933 ATATAATA
1 ATA-AATA
4518941 TGCTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.26
22 15 0.56
23 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAATAATAAAATAATATA
Found at i:4518918 original size:19 final size:17
Alignment explanation
Indices: 4518896--4518940 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
4518886 ATTTATAAAT
4518896 AATAATAATAATAATAATA
1 AATAATAA-AATAAT-ATA
4518915 AATAAATAAAATAATATA
1 AAT-AATAAAATAATATA
4518933 ATATAATA
1 A-ATAATA
4518941 TGCTTGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATAAAATAATATA
Found at i:4519545 original size:16 final size:17
Alignment explanation
Indices: 4519526--4519557 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4519516 TGTTCGTTAA
4519526 ATTATAATT-TAAATTT
1 ATTATAATTATAAATTT
4519542 ATTATAATTATAAATT
1 ATTATAATTATAAATT
4519558 GATATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATAATTATAAATTT
Found at i:4521558 original size:17 final size:18
Alignment explanation
Indices: 4521526--4521569 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
4521516 AATATTTTAA
* *
4521526 AAATATTATTATAAAAAT
1 AAATAATATAATAAAAAT
4521544 AAA-AATATAATAAAAAT
1 AAATAATATAATAAAAAT
4521561 AAATAATAT
1 AAATAATAT
4521570 TTTACGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATATAATAAAAAT
Found at i:4522485 original size:3 final size:3
Alignment explanation
Indices: 4522477--4522515 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4522467 ACAATTCCTA
*
4522477 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4522516 TTGATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4526286 original size:13 final size:13
Alignment explanation
Indices: 4526268--4526293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4526258 TTAATTAAAT
4526268 ATATAAGTATTCA
1 ATATAAGTATTCA
4526281 ATATAAGTATTCA
1 ATATAAGTATTCA
4526294 CATTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATATAAGTATTCA
Found at i:4532145 original size:17 final size:17
Alignment explanation
Indices: 4532125--4532177 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4532115 TTAAAATATT
4532125 ATATTTATATAAATTTA
1 ATATTTATATAAATTTA
4532142 ATATATTA-AT-AATTT-
1 ATAT-TTATATAAATTTA
*
4532157 ATA-TTATAAAAATTTTA
1 ATATTTATATAAA-TTTA
4532174 ATAT
1 ATAT
4532178 ATTTAACGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 5 0.17
16 8 0.28
17 9 0.31
18 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTATATAAATTTA
Found at i:4532147 original size:24 final size:26
Alignment explanation
Indices: 4532113--4532160 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
4532103 TTATAATTAT
4532113 ATTTAAAATATT-AT-ATTTATATAA
1 ATTTAAAATATTAATAATTTATATAA
*
4532137 ATTTAATATATTAATAATTTATAT
1 ATTTAAAATATTAATAATTTATAT
4532161 TATAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 2 0.10
26 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTAAAATATTAATAATTTATATAA
Found at i:4532174 original size:32 final size:32
Alignment explanation
Indices: 4532110--4532180 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
4532100 ATATTATAAT
*
4532110 TATATTTAAAATATTATATTTATATAAATTTAA
1 TATA-TTAAAATATTATATTTATAAAAATTTAA
4532143 TATATTAATAAT-TTATA-TTATAAAAATTTTAA
1 TATATTAA-AATATTATATTTATAAAAA-TTTAA
4532175 TATATT
1 TATATT
4532181 TAACGTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 8 0.23
32 20 0.57
33 7 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATTAAAATATTATATTTATAAAAATTTAA
Found at i:4535230 original size:30 final size:27
Alignment explanation
Indices: 4535196--4535250 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
4535186 TATATTAAGT
*
4535196 TATTTTATTATTTTATATTTAATTTTAAAA
1 TATTTTA-TA-TTTATA-TAAATTTTAAAA
4535226 TATTTTATATTTATATAAATTTTAA
1 TATTTTATATTTATATAAATTTTAA
4535251 TAAATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 6 0.25
29 2 0.08
30 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTATATTTATATAAATTTTAAAA
Found at i:4535275 original size:18 final size:18
Alignment explanation
Indices: 4535254--4535302 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
4535244 ATTTTAATAA
4535254 ATTAATAATTTATATTAT
1 ATTAATAATTTATATTAT
* *
4535272 ATTAA-AA-TTATTTTTT
1 ATTAATAATTTATATTAT
4535288 A-TAATATATTTATAT
1 ATTAATA-ATTTATAT
4535303 AATTATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 3 0.12
16 9 0.36
17 3 0.12
18 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAATAATTTATATTAT
Found at i:4535628 original size:21 final size:21
Alignment explanation
Indices: 4535608--4535726 Score: 84
Period size: 22 Copynumber: 5.4 Consensus size: 21
4535598 CCAAAATTTA
4535608 ATTAT-TTATAATATATTTTT
1 ATTATATTATAATATATTTTT
4535628 A-TATATTATAATTATATTTTT
1 ATTATATTATAA-TATATTTTT
4535649 ATTATAATATATAACTATATATTTTT
1 ATTAT-AT-TAT-A--ATATATTTTT
* *
4535675 AATAAATT-TATATATTATTATTT
1 ATTATATTATA-ATA-TATT-TTT
* *
4535698 A-TATATTATATTATATTTTA
1 ATTATATTATAATATATTTTT
4535718 ATTAATATT
1 ATT-ATATT
4535727 TTAAGATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
19 3 0.04
20 10 0.12
21 19 0.23
22 20 0.25
23 9 0.11
24 4 0.05
25 3 0.04
26 12 0.15
27 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATATTATAATATATTTTT
Found at i:4535653 original size:24 final size:24
Alignment explanation
Indices: 4535618--4535740 Score: 84
Period size: 24 Copynumber: 5.2 Consensus size: 24
4535608 ATTATTTATA
*
4535618 ATATATTT-TTATATATTATAATT
1 ATATTTTTATTATATATTATAATT
4535641 ATATTTTTATTATA-ATATATAACTAT
1 ATATTTTTATTATATAT-TATAA-T-T
*
4535667 ATATTTTTA--ATAAATT-T-A-T
1 ATATTTTTATTATATATTATAATT
*
4535686 ATATTATTATTTATATATTAT-ATT
1 ATATTTTTA-TTATATATTATAATT
* *
4535710 ATATTTTAATTA-ATATTTTAAGATT
1 ATATTTTTATTATATATTAT-A-ATT
4535735 ATATTT
1 ATATTT
4535741 AAATTGAATA
Statistics
Matches: 81, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
19 9 0.11
22 13 0.16
23 15 0.19
24 22 0.27
25 12 0.15
26 10 0.12
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.59
Consensus pattern (24 bp):
ATATTTTTATTATATATTATAATT
Found at i:4535659 original size:37 final size:36
Alignment explanation
Indices: 4535613--4535721 Score: 102
Period size: 37 Copynumber: 3.1 Consensus size: 36
4535603 ATTTAATTAT
4535613 TTATAATATATTTTTATATATTATAATTATATTTTTA
1 TTATAATATATTTTTATATATTAT-ATTATATTTTTA
*** **
4535650 TTATAATATATAACTATATATT-T-TTAATAAATTTA
1 TTATAATATATTTTTATATATTATATT-ATATTTTTA
*
4535685 -TAT-AT-TATTATTTATATATTATATTATATTTTAA
1 TTATAATATATT-TTTATATATTATATTATATTTTTA
4535719 TTA
1 TTA
4535722 ATATTTTAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
32 3 0.05
33 10 0.18
34 12 0.21
35 11 0.20
36 1 0.02
37 19 0.34
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (36 bp):
TTATAATATATTTTTATATATTATATTATATTTTTA
Found at i:4535690 original size:45 final size:44
Alignment explanation
Indices: 4535618--4535716 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 44
4535608 ATTATTTATA
* *
4535618 ATATATTTTTATATATTATAATTATATTTTTATTATAATATATAACT
1 ATATATTTTTATAAATTATAATTATATTATTATT-T-ATATATAA-T
*
4535665 ATATATTTTTAATAAATT-T-A-TATATTATTATTTATATATTAT
1 ATATATTTTT-ATAAATTATAATTATATTATTATTTATATATAAT
4535707 ATTATATTTT
1 A-TATATTTT
4535717 AATTAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.04
43 15 0.32
44 1 0.02
45 11 0.23
46 1 0.02
47 11 0.23
48 6 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (44 bp):
ATATATTTTTATAAATTATAATTATATTATTATTTATATATAAT
Found at i:4535711 original size:16 final size:14
Alignment explanation
Indices: 4535608--4535706 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
4535598 CCAAAATTTA
4535608 ATTATTTATA-ATAT
1 ATTATTTATATAT-T
4535622 ATT-TTTATATATT
1 ATTATTTATATATT
*
4535635 A-TAATTATAT-TT
1 ATTATTTATATATT
*
4535647 -TTATTATAATATATA
1 ATTATT-T-ATATATT
* * *
4535662 ACTATATAT-TTTT
1 ATTATTTATATATT
*
4535675 AATAAATTTATATATT
1 -AT-TATTTATATATT
4535691 ATTATTTATATATT
1 ATTATTTATATATT
4535705 AT
1 AT
4535707 ATTATATTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
12 6 0.10
13 17 0.27
14 25 0.40
15 9 0.14
16 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTATATATT
Found at i:4536214 original size:25 final size:24
Alignment explanation
Indices: 4536186--4536239 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4536176 AGAATAAGGC
*
4536186 AATAATTT-ATAAATAATATAAATAT
1 AATAATTTAATAAAT-ATA-AAAAAT
4536211 AATAAATTTAATAAATATAAAAAAT
1 AAT-AATTTAATAAATATAAAAAAT
4536236 AATA
1 AATA
4536240 TAATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 1 0.04
25 11 0.42
26 8 0.31
27 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAATTTAATAAATATAAAAAAT
Found at i:4536217 original size:18 final size:18
Alignment explanation
Indices: 4536194--4536256 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
4536184 GCAATAATTT
4536194 ATAAATAATATAAATATA
1 ATAAATAATATAAATATA
*
4536212 ATAAAT-TTAATAAATATA
1 ATAAATAAT-ATAAATATA
*
4536230 AAAAATAATAT-AATATTA
1 ATAAATAATATAAATA-TA
*
4536248 ATACATAAT
1 ATAAATAAT
4536257 TAATATGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 5 0.14
18 31 0.84
19 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATAATATAAATATA
Found at i:4536226 original size:27 final size:27
Alignment explanation
Indices: 4536187--4536256 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
4536177 GAATAAGGCA
*
4536187 ATAATTT-ATAAATAATATAAATATAAT
1 ATAATTTAATAAATAATA-AAAAATAAT
4536214 A-AATTTAATAAAT-ATAAAAAATAAT
1 ATAATTTAATAAATAATAAAAAATAAT
*
4536239 ATAATATTAATACATAAT
1 ATAAT-TTAATAAATAAT
4536257 TAATATGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 9 0.24
26 11 0.30
27 15 0.41
28 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAATTTAATAAATAATAAAAAATAAT
Found at i:4540819 original size:3 final size:3
Alignment explanation
Indices: 4540811--4540835 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4540801 AATCCGATGA
4540811 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
4540836 GCTGCTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:4542918 original size:14 final size:13
Alignment explanation
Indices: 4542894--4542996 Score: 58
Period size: 14 Copynumber: 8.2 Consensus size: 13
4542884 TTGATTTTAA
4542894 TATATTA-ATAAT
1 TATATTATATAAT
4542906 TAATATTATATAAAT
1 T-ATATTATAT-AAT
* * *
4542921 TTTATGATATATTT
1 TATATTATATA-AT
4542935 TATATTATAT-A-
1 TATATTATATAAT
*
4542946 TATTTTA-ATAAT
1 TATATTATATAAT
* * *
4542958 TTTA-TGTGT-AT
1 TATATTATATAAT
4542969 TATATTATATAAT
1 TATATTATATAAT
*
4542982 TATATT-TAAAAT
1 TATATTATATAAT
4542994 TAT
1 TAT
4542997 TAAATTTTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
10 2 0.03
11 13 0.19
12 15 0.22
13 15 0.22
14 18 0.27
15 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATATTATATAAT
Found at i:4542923 original size:32 final size:29
Alignment explanation
Indices: 4542870--4542955 Score: 77
Period size: 32 Copynumber: 2.9 Consensus size: 29
4542860 TAATTATGTT
**
4542870 TAATTATATTTATATTGATTTTAATATATTAA
1 TAATTATA-TTATATAAATTTTAATATA-T-A
4542902 TAATTAATATTATATAAATTTT-ATGATATA
1 TAATT-ATATTATATAAATTTTAAT-ATATA
* *
4542932 T-TTTATATTATATATATTTTAATA
1 TAATTATATTATATAAATTTTAATA
4542956 ATTTTATGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 16 0.34
29 4 0.09
30 2 0.04
31 3 0.06
32 19 0.40
33 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TAATTATATTATATAAATTTTAATATATA
Found at i:4542972 original size:25 final size:24
Alignment explanation
Indices: 4542893--4542982 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 24
4542883 ATTGATTTTA
*
4542893 ATATATTA-ATAA-TTAATATTAT
1 ATATATTATATAATTTTATATTAT
*
4542915 ATAAATTTTATGATATATTTTATATTAT
1 AT--ATATTAT-ATA-ATTTTATATTAT
* *
4542943 ATATATTTTAATAATTTTATGTGTAT
1 ATATATTAT-ATAATTTTATAT-TAT
4542969 -TATATTATATAATT
1 ATATATTATATAATT
4542983 ATATTTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 2 0.04
24 11 0.20
25 15 0.28
26 14 0.26
27 1 0.02
28 11 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (24 bp):
ATATATTATATAATTTTATATTAT
Found at i:4543020 original size:17 final size:17
Alignment explanation
Indices: 4542976--4543020 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4542966 TATTATATTA
*
4542976 TATAATTATATTTAAAAT
1 TATAA-TATTTTTAAAAT
4542994 TATTAA-ATTTTTAAAAT
1 TA-TAATATTTTTAAAAT
4543011 TATAATATTT
1 TATAATATTT
4543021 ATTTTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
18 2 0.08
19 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAATATTTTTAAAAT
Found at i:4547195 original size:2 final size:2
Alignment explanation
Indices: 4547152--4547180 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4547142 TTTTAAATTA
4547152 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4547181 TCATATCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4547975 original size:2 final size:2
Alignment explanation
Indices: 4547968--4547993 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4547958 TCTGCACTCC
4547968 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4547994 AAAGCATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4548241 original size:13 final size:14
Alignment explanation
Indices: 4548221--4548259 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
4548211 CTAGATATAT
4548221 TATTTAAATTTTTA
1 TATTTAAATTTTTA
*
4548235 T-TTTAAATATTTA
1 TATTTAAATTTTTA
4548248 TATTTAACATTT
1 TATTTAA-ATTT
4548260 ACATCATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 12 0.57
14 6 0.29
15 3 0.14
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTAAATTTTTA
Found at i:4549007 original size:29 final size:29
Alignment explanation
Indices: 4548940--4549009 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
4548930 AATTAAGTAT
*
4548940 AAATTAAAAGATAATAATTTATTTTAATA
1 AAATTAAAATATAATAATTTATTTTAATA
* *
4548969 TAATAAAAATATAATAATTTATTTTAA-A
1 AAATTAAAATATAATAATTTATTTTAATA
4548997 AAATTAGAAATAT
1 AAATTA-AAATAT
4549010 GTGTTTCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
AAATTAAAATATAATAATTTATTTTAATA
Found at i:4550460 original size:23 final size:22
Alignment explanation
Indices: 4550430--4550474 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
4550420 ATAAATTTAA
4550430 TTATAAT-AATATTTAAAATATT
1 TTATAATAAAT-TTTAAAATATT
*
4550452 TTATAAATAAATTTTAATATATT
1 TTAT-AATAAATTTTAAAATATT
4550475 AATATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATAATAAATTTTAAAATATT
Found at i:4550463 original size:38 final size:36
Alignment explanation
Indices: 4550416--4550494 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 36
4550406 ACTACAATTA
4550416 ATAAATAAA-TTTAATTATAATAATATTTAAAATATTTT
1 ATAAATAAATTTTAA-TATAATAATATTT--AATATTTT
*
4550454 ATAAATAAATTTTAATATATTAATATTTAATATTTT
1 ATAAATAAATTTTAATATAATAATATTTAATATTTT
4550490 ATAAA
1 ATAAA
4550495 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 13 0.33
38 21 0.54
39 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
ATAAATAAATTTTAATATAATAATATTTAATATTTT
Found at i:4550482 original size:15 final size:15
Alignment explanation
Indices: 4550445--4550486 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
4550435 ATAATATTTA
* *
4550445 AAATATTTTATAAAT
1 AAATATTTAATATAT
4550460 AAAT-TTTAATATAT
1 AAATATTTAATATAT
*
4550474 TAATATTTAATAT
1 AAATATTTAATAT
4550487 TTTATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATTTAATATAT
Found at i:4552549 original size:14 final size:14
Alignment explanation
Indices: 4552530--4552559 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4552520 TCGACTCATT
4552530 ATCATATTAAATAG
1 ATCATATTAAATAG
4552544 ATCATATTAAATAG
1 ATCATATTAAATAG
4552558 AT
1 AT
4552560 TATTTGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
ATCATATTAAATAG
Found at i:4552705 original size:16 final size:18
Alignment explanation
Indices: 4552671--4552719 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4552661 ACATAATGTA
*
4552671 AATAT-AATATAAAAAAAT
1 AATATAAATAT-ATAAAAT
4552689 AAT-TAAA-ATATAAAAT
1 AATATAAATATATAAAAT
4552705 AATATAAATATATAA
1 AATATAAATATATAA
4552720 TTACATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 11 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATATAAATATATAAAAT
Found at i:4552759 original size:31 final size:33
Alignment explanation
Indices: 4552671--4552783 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 33
4552661 ACATAATGTA
* * * *
4552671 AATAT-AATATAAAAAAATAATTAAAATATAAAAT
1 AATATAAATATATAAATA-AATCAAAATAT-ATAT
* * *
4552705 AATATAAATATATAATTACATCAAAATTTATAT
1 AATATAAATATATAAATAAATCAAAATATATAT
4552738 AA-ATAAAT-TATAAATAAATCAAAATATATAAT
1 AATATAAATATATAAATAAATCAAAATATAT-AT
*
4552770 ATTAATAAATATAT
1 AAT-ATAAATATAT
4552784 TTATAATATT
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
31 18 0.29
32 9 0.14
33 5 0.08
34 19 0.30
35 12 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (33 bp):
AATATAAATATATAAATAAATCAAAATATATAT
Found at i:4552811 original size:19 final size:20
Alignment explanation
Indices: 4552764--4552816 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4552754 AATCAAAATA
* *
4552764 TATAATATTAATAAATATATT
1 TATAATATTAA-AAAAATAAT
4552785 TATAATATTAAAAAAATAAT
1 TATAATATTAAAAAAATAAT
4552805 T-TAATATATAAA
1 TATAATAT-TAAA
4552817 TTATCAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAATATTAAAAAAATAAT
Found at i:4552816 original size:38 final size:35
Alignment explanation
Indices: 4552733--4552817 Score: 82
Period size: 38 Copynumber: 2.3 Consensus size: 35
4552723 CATCAAAATT
4552733 TATATAAATAAATTATAAATAAATCAAAATATATAA
1 TATATAAATAAATTATAAATAAA-CAAAATATATAA
* *
4552769 TATTAATAAATATATTTATAATATTAAA-AAAATAATTTAA
1 TA-T-ATAAATA-AATTATAA-A-TAAACAAAAT-ATATAA
4552809 TATATAAAT
1 TATATAAAT
4552818 TATCAACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
36 2 0.05
37 1 0.02
38 13 0.32
39 13 0.32
40 8 0.20
41 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (35 bp):
TATATAAATAAATTATAAATAAACAAAATATATAA
Found at i:4554768 original size:50 final size:50
Alignment explanation
Indices: 4554707--4554916 Score: 258
Period size: 50 Copynumber: 4.2 Consensus size: 50
4554697 AGTTGTTTAG
* ** * *
4554707 AGTCAACAATTACGGCCATCTCTCTTTATTGTCAAAGGTCGTTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * * * **
4554757 AGTCAATAATTATGGCCACATCTCTCAATTCTCAAATTTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* **
4554807 CGTCAACAATTACGATCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * * *
4554857 CGTCAACAATTACGGTCACCTCTCTCTATTGTCAAAGGTTGATGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
4554907 AGTCAACAAT
1 AGTCAACAAT
4554917 GACAACACCT
Statistics
Matches: 136, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 136 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
Found at i:4557013 original size:17 final size:16
Alignment explanation
Indices: 4556991--4557024 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4556981 TATACATTAC
4556991 ATATGTAGAACATCCAA
1 ATATGT-GAACATCCAA
*
4557008 ATATGTGGACATCCAA
1 ATATGTGAACATCCAA
4557024 A
1 A
4557025 CAAGTAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (16 bp):
ATATGTGAACATCCAA
Found at i:4559340 original size:50 final size:50
Alignment explanation
Indices: 4559279--4559531 Score: 265
Period size: 50 Copynumber: 5.1 Consensus size: 50
4559269 AGTTACTTAG
* ** *
4559279 AGTCAACAATTAGGGCCACCTCTCTTTATTGTCAAAAGTTGGTGAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAAT
* * * * *
4559329 AGTCAATAATTATGGCCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAAT
* * *
4559379 CGTCAACAATTACAGCCACCTCTCTCGATTATCAAAGGTTGGTGAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAAT
* * * * * * *
4559429 AGTTAACAATTACGGTCACCTCTTTCGATTGTC-AAAGATAGATGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAG-TTGGTGAAAAAT
* * * * **
4559479 AGTTAACAATTATGGTCACATCTCTCGATTATCAAAAGTTAATGAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAAT
4559529 AGT
1 AGT
4559532 TAAAAATAGT
Statistics
Matches: 171, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 3 0.02
50 164 0.96
51 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAAT
Found at i:4559464 original size:100 final size:100
Alignment explanation
Indices: 4559279--4559534 Score: 305
Period size: 100 Copynumber: 2.6 Consensus size: 100
4559269 AGTTACTTAG
* ** * * * *
4559279 AGTCAACAATTAGGGCCACCTCTCTTTATTGTCAAAAGTTGGTGAAAAATAGTCAATAATTATGG
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAATAGTTAACAATTACGG
* * *
4559344 CCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
66 CCACCTCTCTCAATTATCAAAGATAGATGAAGAAT
* * *
4559379 CGTCAACAATTACAGCCACCTCTCTCGATTATCAAAGGTTGGTGAAAAATAGTTAACAATTACGG
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAATAGTTAACAATTACGG
* * * *
4559444 TCACCTCTTTCGATTGTCAAAGATAGATGAAGAAT
66 CCACCTCTCTCAATTATCAAAGATAGATGAAGAAT
* * * * **
4559479 AGTTAACAATTATGGTCACATCTCTCGATTATCAAAAGTTAATGAAAAATAGTTAA
1 AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAATAGTTAA
4559535 AAATAGTAAC
Statistics
Matches: 130, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 130 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (100 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTATCAAAAGTTGGTGAAAAATAGTTAACAATTACGG
CCACCTCTCTCAATTATCAAAGATAGATGAAGAAT
Found at i:4559809 original size:43 final size:43
Alignment explanation
Indices: 4559722--4559810 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 43
4559712 TGAATTATTG
* * *
4559722 TTTAAAATATTTTATTTTTTAATTTAAATTTAAATTTAATTAA
1 TTTAAAATATTTTATTATTTAATATAAATTAAAATTTAATTAA
* *
4559765 TTTAATAATTTTTTATTATTTAA-ATAATATTAAAATTTTA-TAA
1 TTTAA-AATATTTTATTATTTAATATAA-ATTAAAATTTAATTAA
4559808 TTT
1 TTT
4559811 TTATAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 14 0.36
44 25 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (43 bp):
TTTAAAATATTTTATTATTTAATATAAATTAAAATTTAATTAA
Found at i:4559813 original size:27 final size:27
Alignment explanation
Indices: 4559755--4559819 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
4559745 TTAAATTTAA
* *
4559755 ATTTAATTAATTTAATAATTTTTTATT
1 ATTTAAATAATTTAATAATTTTTAATT
4559782 ATTTAAATAATATTAA-AATTTTATAATT
1 ATTTAAATAAT-TTAATAATTTT-TAATT
4559810 -TTTATAATAA
1 ATTTA-AATAA
4559820 ACTTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTAAATAATTTAATAATTTTTAATT
Found at i:4559851 original size:25 final size:26
Alignment explanation
Indices: 4559806--4559861 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
4559796 AAAATTTTAT
*
4559806 AATTTTTATAATAAACTTTA-TATAA
1 AATTTTTATAATAAACATTATTATAA
*
4559831 AATTTTTTTAACTAAA-ATTATTATAA
1 AATTTTTATAA-TAAACATTATTATAA
*
4559857 TATTT
1 AATTT
4559862 AACAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
AATTTTTATAATAAACATTATTATAA
Found at i:4559855 original size:26 final size:24
Alignment explanation
Indices: 4559795--4559861 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 24
4559785 TAAATAATAT
4559795 TAAAATTTTAT--AATTTTTATAA
1 TAAAATTTTATAAAATTTTTATAA
* *
4559817 TAAACTTTATATAAAATTTTTTTAA
1 TAAAATTT-TATAAAATTTTTATAA
*
4559842 CTAAAATTATTATAATATTT
1 -TAAAATT-TTATAAAATTT
4559862 AACAAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
25 10 0.28
26 15 0.42
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAATTTTATAAAATTTTTATAA
Found at i:4561426 original size:20 final size:21
Alignment explanation
Indices: 4561403--4561457 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
4561393 TATAAATAAT
4561403 ATAAATATGATATATA-TATA
1 ATAAATATGATATATATTATA
* *
4561423 ATAAATAT-AAAAATATTATA
1 ATAAATATGATATATATTATA
*
4561443 ATTAATATGATATAT
1 ATAAATATGATATAT
4561458 TTAATGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.18
20 19 0.68
21 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATAAATATGATATATATTATA
Found at i:4562137 original size:22 final size:23
Alignment explanation
Indices: 4562112--4562157 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4562102 TAATTTTAAA
*
4562112 TATTATTATTAAAAATTAT-TTT
1 TATTAATATTAAAAATTATATTT
**
4562134 TATTAATATTTTAAATTATATTT
1 TATTAATATTAAAAATTATATTT
4562157 T
1 T
4562158 TTTTAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTAATATTAAAAATTATATTT
Found at i:4563594 original size:210 final size:210
Alignment explanation
Indices: 4563254--4563679 Score: 694
Period size: 210 Copynumber: 2.0 Consensus size: 210
4563244 TATGTACATG
* * *
4563254 TGAATAGGATATCAACCGTCCATAATTTACATGAAAATAATTTAATTTTTAGAATCGACATGCAC
1 TGAATAGGATATCAACCCTCCATAATTTACATGAAAATAATTTAATTTTTAGAACCGACATACAC
* *
4563319 GCAATTATACTTTTGGCTGAATTGTTTTTATCATCTTAGATAGAACTAAGATCTATGCTATAAAT
66 ACAATTATACCTTTGGCTGAATTGTTTTTATCATCTTAGATAGAACTAAGATCTATGCTATAAAT
*
4563384 GACCTTGCCTCATCTCCTTCGACTTTAAGTTTTTAAATTTAAAGTCTAACTCCATTAATTTATAT
131 GACCTTGCCTCATCTCCTTCAACTTTAAGTTTTTAAATTTAAAGTCTAACTCCATTAATTTATAT
*
4563449 AGCCACTCTTAAATT
196 AACCACTCTTAAATT
**
4563464 TGAATAGGATATCAACCCTCCATAATTTACATGGGAATAATTTAATTTTTA-AGACCGACATACA
1 TGAATAGGATATCAACCCTCCATAATTTACATGAAAATAATTTAATTTTTAGA-ACCGACATACA
* *
4563528 CATAATTATACCTTTGGCTGAATTGTTTTTATCATCCTT-GATAGAACTAAGATCTATGTTATAA
65 CACAATTATACCTTTGGCTGAATTGTTTTTATCAT-CTTAGATAGAACTAAGATCTATGCTATAA
*
4563592 ATGACCTTGCCTCATCTCCTTCAACTTTAAGTTTTTAAATTTAAAGTTTAACTCCATTAATTTAT
129 ATGACCTTGCCTCATCTCCTTCAACTTTAAGTTTTTAAATTTAAAGTCTAACTCCATTAATTTAT
*
4563657 ATAATCACTCTTAAATT
194 ATAACCACTCTTAAATT
*
4563674 TTAATA
1 TGAATA
4563680 TTTATAATTT
Statistics
Matches: 200, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
209 1 0.00
210 196 0.98
211 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (210 bp):
TGAATAGGATATCAACCCTCCATAATTTACATGAAAATAATTTAATTTTTAGAACCGACATACAC
ACAATTATACCTTTGGCTGAATTGTTTTTATCATCTTAGATAGAACTAAGATCTATGCTATAAAT
GACCTTGCCTCATCTCCTTCAACTTTAAGTTTTTAAATTTAAAGTCTAACTCCATTAATTTATAT
AACCACTCTTAAATT
Found at i:4565017 original size:2 final size:2
Alignment explanation
Indices: 4565005--4565041 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4564995 ATAATGGGGC
*
4565005 AT AT GT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4565042 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Done.