Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 115 of 318
Found at i:36532835 original size:4 final size:4
Alignment explanation
Indices: 36532828--36532855 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36532818 TTTTTTTTAA
36532828 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
36532856 TTGCTTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:36534152 original size:27 final size:27
Alignment explanation
Indices: 36534121--36534187 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
36534111 ATTAATATCC
*
36534121 AAAAAAATAAAA-TAATAAATAATAAAA
1 AAAAAAATAAAAGGAA-AAATAATAAAA
* *
36534148 GAAAAAGA-AAAAGGAAGAATAATAAAA
1 -AAAAAAATAAAAGGAAAAATAATAAAA
36534175 AAATAAAATAAAA
1 AAA-AAAATAAAA
36534188 AAATTGGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 3 0.09
27 17 0.53
28 12 0.38
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.13
Consensus pattern (27 bp):
AAAAAAATAAAAGGAAAAATAATAAAA
Found at i:36537054 original size:10 final size:10
Alignment explanation
Indices: 36537037--36537075 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
36537027 TTAAATTCTA
36537037 AAAGATAAAT
1 AAAGATAAAT
* *
36537047 ACAGATAATT
1 AAAGATAAAT
36537057 AAAGATAAAT
1 AAAGATAAAT
36537067 AAAGATAAA
1 AAAGATAAA
36537076 AGCTAGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36537062 original size:20 final size:20
Alignment explanation
Indices: 36537037--36537074 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36537027 TTAAATTCTA
*
36537037 AAAGATAAATACAGATAATT
1 AAAGATAAATAAAGATAATT
36537057 AAAGATAAATAAAGATAA
1 AAAGATAAATAAAGATAA
36537075 AAGCTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:36540710 original size:21 final size:21
Alignment explanation
Indices: 36540686--36540725 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36540676 TGCAAGTTAG
*
36540686 ATAAAGAAAAGGCA-GTAAATA
1 ATAAACAAAA-GCATGTAAATA
36540707 ATAAACAAAAGCATGTAAA
1 ATAAACAAAAGCATGTAAA
36540726 ATGGCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.62, C:0.07, G:0.15, T:0.15
Consensus pattern (21 bp):
ATAAACAAAAGCATGTAAATA
Found at i:36553949 original size:93 final size:91
Alignment explanation
Indices: 36553827--36553998 Score: 263
Period size: 93 Copynumber: 1.9 Consensus size: 91
36553817 TGATATTTTT
* * **
36553827 ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGCCACATGCTGA
1 ATTTCTGCTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTCGAGCCACACACTGA
*
36553892 GGTATTTTCAATTTCTATTTTTTAAA
66 GGTATCTTCAATTTCTATTTTTTAAA
* *
36553918 ATTTCTGCTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTCGGGTCACACACT
1 ATTTCTGCTTTTC--AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTCGAGCCACACACT
36553983 GAGGTATCTTCAATTT
64 GAGGTATCTTCAATTT
36553999 ATGTTTCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 12 0.17
93 60 0.83
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (91 bp):
ATTTCTGCTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTCGAGCCACACACTGA
GGTATCTTCAATTTCTATTTTTTAAA
Found at i:36554048 original size:77 final size:77
Alignment explanation
Indices: 36553931--36554205 Score: 329
Period size: 78 Copynumber: 3.5 Consensus size: 77
36553921 TCTGCTTTTC
* * * *
36553931 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTCGGGTCACACACTGAGGTATCTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
*
36553996 TTTATGTTTCAA
66 TTTATTTTTCAA
*
36554008 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTTA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTA-TTTTCA
*
36554073 GTTTGTATTTTTC--
65 -ATT-TATTTTTCAA
* * * * * *
36554086 AAAAAAATCAACTAATATTACGAGAGGTGAGTTGAGTCTCGGGACACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
36554151 TTTACATTTTTTCAA
66 TTT--A-TTTTTCAA
** *
36554166 AAAAAAATTTGACTCATATTGCAAGAAGTGAGTTGAGCCT
1 AAAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCT
36554206 TTTAGTCTCT
Statistics
Matches: 167, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 2 0.01
77 61 0.37
78 62 0.37
79 2 0.01
80 14 0.08
81 25 0.15
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTCAA
TTTATTTTTCAA
Found at i:36556324 original size:28 final size:29
Alignment explanation
Indices: 36556292--36556349 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
36556282 TTTCTACTAT
*
36556292 TATTA-CAAATATATTATTTCTT-TTATTA
1 TATTATCAAA-ATATTATTTATTATTATTA
*
36556320 TATTATTAAAATATTATTTATTATTATTA
1 TATTATCAAAATATTATTTATTATTATTA
36556349 T
1 T
36556350 TTTCTTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTATCAAAATATTATTTATTATTATTA
Found at i:36556381 original size:24 final size:23
Alignment explanation
Indices: 36556333--36556399 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
36556323 TATTAAAATA
*
36556333 TTATT-TATTATTATTATTT-TCT
1 TTATTCTAATATTATT-TTTATCT
*
36556355 TTA-TCGTGAATATTATTTTTATTT
1 TTATTC-T-AATATTATTTTTATCT
36556379 TTATTCTAATATTATATTTTA
1 TTATTCTAATATTAT-TTTTA
36556400 ATATTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 12 0.32
24 19 0.51
25 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (23 bp):
TTATTCTAATATTATTTTTATCT
Found at i:36556997 original size:25 final size:25
Alignment explanation
Indices: 36556969--36557023 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
36556959 ACGTAGCTAC
*
36556969 AAATATTTTATTTTAATTATTAT-TT
1 AAATATTTGATTTTAATT-TTATATT
*
36556994 AAAT-TTTGGTTTTAATTTTATACTT
1 AAATATTTGATTTTAATTTTATA-TT
36557019 AAATA
1 AAATA
36557024 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 11 0.44
25 10 0.40
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATATTTGATTTTAATTTTATATT
Found at i:36559417 original size:20 final size:22
Alignment explanation
Indices: 36559388--36559429 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
36559378 AATAAAATAG
*
36559388 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
36559408 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
36559430 TATTAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:36559443 original size:22 final size:22
Alignment explanation
Indices: 36559400--36559443 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36559390 ATATTAAATA
*
36559400 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAACAAATTAT
* * *
36559422 ATTTATTATATTAACAATTTAT
1 ATTTATTAAAATAACAAATTAT
36559444 CATATAACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATTAAAATAACAAATTAT
Found at i:36562063 original size:55 final size:55
Alignment explanation
Indices: 36561981--36562090 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
36561971 TCAAGAATGT
*
36561981 GAAGGAAACGTACCATATTGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAG
1 GAAGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAG
36562036 GAAGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAG
1 GAAGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAG
36562091 CAGGAAAACT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (55 bp):
GAAGGAAACGTACCATATAGTTATGGAGTTTGATATCAACCTTAAAAAATGGCAG
Found at i:36570517 original size:14 final size:14
Alignment explanation
Indices: 36570498--36570527 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36570488 CATAGTAACC
*
36570498 CTTATGCTATGCAT
1 CTTATGCTATACAT
36570512 CTTATGCTATACAT
1 CTTATGCTATACAT
36570526 CT
1 CT
36570528 CGGTGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (14 bp):
CTTATGCTATACAT
Found at i:36574200 original size:16 final size:18
Alignment explanation
Indices: 36574171--36574203 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
36574161 TACAGATTAA
36574171 ATATAGACATTTCATATT
1 ATATAGACATTTCATATT
36574189 ATATA-ACA-TTCATAT
1 ATATAGACATTTCATAT
36574204 CAGAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATAGACATTTCATATT
Found at i:36575636 original size:27 final size:26
Alignment explanation
Indices: 36575606--36575663 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
36575596 CACATAAACT
*
36575606 GGAAGCCCCCTCTCGAGCCATATAAAA
1 GGAAGCCCCATCT-GAGCCATATAAAA
* * *
36575633 GGAAG-CTCATGTGAGCCATATAACA
1 GGAAGCCCCATCTGAGCCATATAAAA
36575658 GGAAGC
1 GGAAGC
36575664 TCATACGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.65
26 4 0.15
27 5 0.19
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (26 bp):
GGAAGCCCCATCTGAGCCATATAAAA
Found at i:36575673 original size:25 final size:25
Alignment explanation
Indices: 36575619--36575680 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
36575609 AGCCCCCTCT
* *
36575619 CGAGCCATATAAAAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATA
*
36575644 TGAGCCATATAACAGGAAGCTCATA
1 CGAGCCATATAACAGGAAGCTCATA
36575669 CGAGCCA-ATAAC
1 CGAGCCATATAAC
36575681 GGGTAGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 5 0.15
25 28 0.85
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATA
Found at i:36575802 original size:26 final size:26
Alignment explanation
Indices: 36575755--36575814 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
36575745 AGTTATATCG
*
36575755 GGAAGCTC-CAGAGAGCCATTAATCA
1 GGAAGCTCACAAAGAGCCATTAATCA
* *
36575780 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCATTAATCA
36575806 GGAAGCTCA
1 GGAAGCTCA
36575815 TGAAAAGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATTAATCA
Found at i:36575823 original size:26 final size:25
Alignment explanation
Indices: 36575751--36575825 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
36575741 AGTGAGTTAT
*
36575751 ATCGGGAAGCTCCAG-AGAGCCATTA
1 ATCGGGAAGCT-CAGAAAAGCCATTA
* * *
36575776 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCAGAAA-AGCCATTA
36575802 ATCGGGAAGCTCATGAAAAGCCAT
1 ATCGGGAAGCTCA-GAAAAGCCAT
36575826 ATATAGGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
24 2 0.05
25 11 0.28
26 24 0.60
27 3 0.08
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (25 bp):
ATCGGGAAGCTCAGAAAAGCCATTA
Found at i:36580176 original size:87 final size:86
Alignment explanation
Indices: 36579999--36580240 Score: 405
Period size: 87 Copynumber: 2.8 Consensus size: 86
36579989 AAAAAATGCT
* *
36579999 GCTAAAGGTCAAGGATTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAA-CGCCGCTAAACGTCAAGGCTTTTAG
36580063 CGGCGTTTGTGGGAAAAGCGCC
65 CGGCGTTTGTGGGAAAAGCGCC
36580085 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAACGTCAAGGCTTTTTAG
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAACGTCAAGGC-TTTTAG
*
36580150 CGGCGTTTGTGGTAAAAGCGCC
65 CGGCGTTTGTGGGAAAAGCGCC
* * *
36580172 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAACGTCAAGGCTTTTAGC
36580237 GGCG
66 GGCG
36580241 CTTTTTTTAC
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
86 59 0.40
87 89 0.60
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (86 bp):
GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAACGTCAAGGCTTTTAGC
GGCGTTTGTGGGAAAAGCGCC
Found at i:36580263 original size:43 final size:43
Alignment explanation
Indices: 36579999--36580240 Score: 405
Period size: 43 Copynumber: 5.6 Consensus size: 43
36579989 AAAAAATGCT
*
36579999 GCTAAAGGTCAAGGATTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
36580042 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
36580085 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAA-CGCC
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGGAAAAGCGCC
* *
36580128 GCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCC
1 GCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGGAAAAGCGCC
* *
36580172 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGTAAAGCGCC
1 GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
*
36580215 GCTAAACGTCAAGGCTTTTAGCGGCG
1 GCTAAAGGTCAAGGCTTTTAGCGGCG
36580241 CTTTTTTTAC
Statistics
Matches: 188, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
43 147 0.78
44 41 0.22
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (43 bp):
GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:36580263 original size:130 final size:129
Alignment explanation
Indices: 36579999--36580240 Score: 421
Period size: 130 Copynumber: 1.9 Consensus size: 129
36579989 AAAAAATGCT
*
36579999 GCTAAAGGTCAAGGATTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GCTAAACGTCAAGGATTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
36580064 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCC
66 GGCGTTTGTGCGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCC
* *
36580128 GCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
1 GCTAAACGTCAAGG-ATTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
*
36580193 CGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
65 CGGCGTTTGTGCGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
36580241 CTTTTTTTAC
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 13 0.12
130 93 0.88
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (129 bp):
GCTAAACGTCAAGGATTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
GGCGTTTGTGCGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGGAAAACGCC
Found at i:36580350 original size:31 final size:31
Alignment explanation
Indices: 36580315--36580395 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
36580305 CTTCCTGCAT
* *
36580315 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
36580346 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
36580377 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
36580396 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:36586347 original size:9 final size:9
Alignment explanation
Indices: 36586333--36586603 Score: 188
Period size: 9 Copynumber: 29.6 Consensus size: 9
36586323 TATTTAAGTA
36586333 TTATGTAAG
1 TTATGTAAG
*
36586342 TTATGTAAT
1 TTATGTAAG
*
36586351 TTATGATATG
1 TTATG-TAAG
* * *
36586361 ATATAT-AT
1 TTATGTAAG
*
36586369 TTATGTAAA
1 TTATGTAAG
* *
36586378 TTATAT-AT
1 TTATGTAAG
*
36586386 TTATCTAAG
1 TTATGTAAG
*
36586395 TTATATAAG
1 TTATGTAAG
36586404 TTATGTAAG
1 TTATGTAAG
*
36586413 TTATGTAAA
1 TTATGTAAG
*
36586422 TTATGATATAAAA
1 TTATG---T-AAG
*
36586435 TATATTTAAG
1 T-TATGTAAG
36586445 TATTATGTAAG
1 --TTATGTAAG
36586456 TTATGTAAG
1 TTATGTAAG
* *
36586465 TTATAT-AT
1 TTATGTAAG
*
36586473 TTATCTAAG
1 TTATGTAAG
*
36586482 TTATATAAG
1 TTATGTAAG
*
36586491 TTATATAAG
1 TTATGTAAG
*
36586500 TTATGTATG
1 TTATGTAAG
*
36586509 TTATATAAG
1 TTATGTAAG
36586518 TTATGTAAG
1 TTATGTAAG
* *
36586527 TTATATATG
1 TTATGTAAG
*
36586536 TTATATAAG
1 TTATGTAAG
36586545 TTATGTAAG
1 TTATGTAAG
*
36586554 TTATATAAG
1 TTATGTAAG
*
36586563 TTATATAAG
1 TTATGTAAG
*
36586572 TTATGTACG
1 TTATGTAAG
*
36586581 TTTTGTAAG
1 TTATGTAAG
* *
36586590 TTATATAAA
1 TTATGTAAG
36586599 TTATG
1 TTATG
36586604 ATATCAAATA
Statistics
Matches: 208, Mismatches: 43, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
8 16 0.08
9 168 0.81
10 7 0.03
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.01
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36586412 original size:18 final size:18
Alignment explanation
Indices: 36586333--36586603 Score: 207
Period size: 18 Copynumber: 15.3 Consensus size: 18
36586323 TATTTAAGTA
* *
36586333 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
36586351 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
36586369 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
36586386 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
36586404 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
36586422 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
36586435 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
36586456 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
36586473 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
36586491 TTATATAAGTTATGTATG
1 TTATGTAAGTTATATAAG
* *
36586509 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
36586527 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
36586545 TTATGTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
36586563 TTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAG
* *
36586581 TTTTGTAAGTTATATAAA
1 TTATGTAAGTTATATAAG
36586599 TTATG
1 TTATG
36586604 ATATCAAATA
Statistics
Matches: 204, Mismatches: 38, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
13 4 0.02
14 6 0.03
16 2 0.01
17 37 0.18
18 135 0.66
19 7 0.03
20 10 0.05
21 3 0.01
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:36586425 original size:27 final size:27
Alignment explanation
Indices: 36586386--36586603 Score: 222
Period size: 27 Copynumber: 7.9 Consensus size: 27
36586376 AATTATATAT
*
36586386 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
36586413 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
36586445 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
36586473 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
36586500 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
36586527 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
36586554 TTATATAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
36586581 TTTTGTAAGTTATATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
36586604 ATATCAAATA
Statistics
Matches: 162, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 22 0.14
27 101 0.62
28 4 0.02
29 5 0.03
30 7 0.04
31 6 0.04
32 8 0.05
33 3 0.02
34 6 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:36586443 original size:114 final size:114
Alignment explanation
Indices: 36586309--36586530 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
36586299 ACTAGTTATG
* * * *
36586309 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
36586373 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
36586423 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
36586488 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
36586531 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:36586728 original size:15 final size:15
Alignment explanation
Indices: 36586708--36586763 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
36586698 AAGTAGCGGG
36586708 ATTAAATAATATTTA
1 ATTAAATAATATTTA
36586723 ATTAAATAATATTT-
1 ATTAAATAATATTTA
36586737 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
36586752 ATTAAGTAATAT
1 ATTAAATAATAT
36586764 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:36591254 original size:10 final size:11
Alignment explanation
Indices: 36591233--36591283 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
36591223 ACTAAACCAC
36591233 TTTTCATATATA
1 TTTT-ATATATA
36591245 TATTTATATATA
1 T-TTTATATATA
*
36591257 TTTTAAAATAATA
1 TTTT-ATAT-ATA
36591270 TTTTATATATA
1 TTTTATATATA
36591281 TTT
1 TTT
36591284 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:36591292 original size:15 final size:15
Alignment explanation
Indices: 36591272--36591303 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36591262 AAATAATATT
*
36591272 TTATATATATTTATC
1 TTATATACATTTATC
36591287 TTATATACATTTATC
1 TTATATACATTTATC
36591302 TT
1 TT
36591304 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:36592372 original size:41 final size:41
Alignment explanation
Indices: 36592315--36592533 Score: 341
Period size: 41 Copynumber: 5.4 Consensus size: 41
36592305 GTTATGAGAT
* *
36592315 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* ** * *
36592356 TTTTAGTGGCGTTTTACCTAACGCGCCGCTAATGTTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
36592397 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
36592438 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
36592479 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
36592519 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
36592534 TTACTAAAAT
Statistics
Matches: 164, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 16 0.10
41 148 0.90
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
Found at i:36592548 original size:41 final size:40
Alignment explanation
Indices: 36592315--36592597 Score: 277
Period size: 41 Copynumber: 7.0 Consensus size: 40
36592305 GTTATGAGAT
* **
36592315 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTA-CTAAAACGCCGCTAATGCTCTGGC
* ** *
36592356 TTTTAGTGGCGTTTTACCTAACGCGCCGCTAATGTTCTGGC
1 TTTTAGCGGCGTTTTA-CTAAAACGCCGCTAATGCTCTGGC
*
36592397 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACT-AAAACGCCGCTAATGCTCTGGC
*
36592438 TTTTAGCGGCGTTTTAC-AGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACTA-AAA-CGCCGCTAATGCTCTGGC
*
36592479 TTTTAGCGGCGTTTTAC-AGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACTA-AAA-CGCCGCTAATGCTCTGGC
* ** *
36592519 TTTTAGCGGCGTTTTTTACTAAAATGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACTAAAACGCCGCTAATGCTCTGGC
* ** * * *
36592560 TTTTAGCGGCATTTTTTTAGAACGTCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTACTAAAACGCCGCTAATGCTCTG
36592598 AATTTTAAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
39 21 0.10
40 16 0.08
41 166 0.78
42 9 0.04
43 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACTAAAACGCCGCTAATGCTCTGGC
Found at i:36592548 original size:123 final size:122
Alignment explanation
Indices: 36592315--36592574 Score: 344
Period size: 123 Copynumber: 2.1 Consensus size: 122
36592305 GTTATGAGAT
* * * ** *
36592315 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTGGCTTTTAGTGGCGTTTTACCTAACGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
* *
36592380 GCCGCTAATGTTCTGGCTTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
66 GCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACTGAAAACGCCGCTAATGCTCT-GC
*
36592438 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTTGGCTTTTAGCGGCGTTTTACAGAAAGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
* * ** *
36592503 GCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTTTACT-AAAATGCCGCTGTTGCTCTGT
66 GCCGCTAATGCTCTGGCTTTTAGCGGCG--TTTTACTGAAAACGCCGCTAATGCTCTGC
*
36592560 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
36592575 TTTAGAACGT
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
122 27 0.22
123 86 0.72
124 7 0.06
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (122 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
GCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACTGAAAACGCCGCTAATGCTCTGC
Found at i:36597695 original size:20 final size:20
Alignment explanation
Indices: 36597670--36597738 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
36597660 AAAAATATAA
36597670 ATTTTGAATTTTTTATAAAT
1 ATTTTGAATTTTTTATAAAT
36597690 ATTTTGAA-TTTTTA-AAACTT
1 ATTTTGAATTTTTTATAAA--T
* *
36597710 ATTTTGATTTTTTTTATAATT
1 ATTTTGA-ATTTTTTATAAAT
36597731 ATTGTTGA
1 ATT-TTGA
36597739 GAGAGACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 3 0.07
19 6 0.15
20 16 0.39
21 4 0.10
22 10 0.24
23 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.61
Consensus pattern (20 bp):
ATTTTGAATTTTTTATAAAT
Found at i:36599732 original size:51 final size:51
Alignment explanation
Indices: 36599668--36599776 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
36599658 AATAGAAAGG
* * * *
36599668 ATGAAAATGGAGAAATGAAAAACATTTG-GAATGATTATGGTTTTCTCCAAA
1 ATGAAAATAGAGAAATG-AAAACATTTGAAAATGAATATGGTGTTCTCCAAA
* *
36599719 ATGAAAATAGAGAAATGAAATCATTTGAAAATGAATGTGGTGTTCTCCAAA
1 ATGAAAATAGAGAAATGAAAACATTTGAAAATGAATATGGTGTTCTCCAAA
36599770 ATGAAAA
1 ATGAAAA
36599777 ATAAAAATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 9 0.18
51 42 0.82
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (51 bp):
ATGAAAATAGAGAAATGAAAACATTTGAAAATGAATATGGTGTTCTCCAAA
Found at i:36602447 original size:22 final size:23
Alignment explanation
Indices: 36602417--36602460 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
36602407 TTTGATGTTA
36602417 AAAAAATAAGA-AAAAA-AAGTTT
1 AAAAAATAA-ATAAAAAGAAGTTT
*
36602439 AAAATATAAATAAAAAGAAGTT
1 AAAAAATAAATAAAAAGAAGTT
36602461 AGAAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 13 0.68
23 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAAAATAAATAAAAAGAAGTTT
Found at i:36605360 original size:25 final size:25
Alignment explanation
Indices: 36605339--36605386 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
36605329 ACCTAATAGG
*
36605339 TGAAA-AACTTAAAATAAGTAATAA
1 TGAAACAACTTAAAATAAATAATAA
*
36605363 TGAAACAATTTAAAATAAATAATA
1 TGAAACAACTTAAAATAAATAATA
36605387 TGAGGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
TGAAACAACTTAAAATAAATAATAA
Found at i:36605724 original size:15 final size:15
Alignment explanation
Indices: 36605691--36605729 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
36605681 AATTGGAAAC
*
36605691 GAAATAAAATTAAAG
1 GAAATAAAATTAAAA
36605706 GAAA-AAAATTAAAAA
1 GAAATAAAATT-AAAA
36605721 GAAATAAAA
1 GAAATAAAA
36605730 CAGGATTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (15 bp):
GAAATAAAATTAAAA
Found at i:36607191 original size:44 final size:45
Alignment explanation
Indices: 36607071--36607247 Score: 140
Period size: 45 Copynumber: 3.8 Consensus size: 45
36607061 GGTCTATTAT
* * * *
36607071 CTTCAATCTGCTCCACTGTAACTTTAGGGAGATGAGATTTGTTGT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTGA
* * * * *
36607116 CTTTAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTG-TGA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTGA
* * * ** *
36607160 CTTCAACCTGTTCCACTGCAATTTTAGGGAGATAAGGTTTATGATTTCTA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA-GACT-TG--TT-GA
* *
36607210 CCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA
1 -CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA
36607248 TTCACTATCT
Statistics
Matches: 99, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
44 29 0.29
45 35 0.35
46 2 0.02
49 1 0.01
50 2 0.02
51 30 0.30
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTGA
Found at i:36607348 original size:119 final size:119
Alignment explanation
Indices: 36607171--36607387 Score: 344
Period size: 119 Copynumber: 1.8 Consensus size: 119
36607161 TTCAACCTGT
* * * *
36607171 TCCACTGCAATTTTAGGGAGATAAGGTTTATGATTTCTACCTTCAATCTACTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
*
36607236 AGGGAGATAAGATTCACTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
66 AGGGAGACAAGATTCACTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
* * *
36607290 TCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAGCTTCAATCTACTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
**
36607355 AGGGAGACAAGATTTTCTATCTTCAGTCTGCTC
66 AGGGAGACAAGATTCACTATCTTCAGTCTGCTC
36607388 TACTGCAACT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 88 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (119 bp):
TCCACTGCAACTTCAGGGAGACAAGGTTTATCATTTCTACCTTCAATCTACTCCACTGCAACTTC
AGGGAGACAAGATTCACTATCTTCAGTCTGCTCCATTGTAACACTTCAACTGGC
Found at i:36607349 original size:51 final size:50
Alignment explanation
Indices: 36607279--36607545 Score: 217
Period size: 45 Copynumber: 5.6 Consensus size: 50
36607269 CATTGTAACA
*
36607279 CTTCAA-CTGGCTCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAG
1 CTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCA-TTGTAG
* * * *
36607330 CTTCAATCTACTCCACTGCAACTTCAGGGAGACAAGATTT-TC----TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATTGTAG
* * * * *
36607375 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAA-G-AT-TC--TCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATTGTAG
* * * * *
36607420 CTTCAGTGTGCTCCACTGCTACTTCAGGGAGATAA-----GAC-TTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATTGTAG
* *
36607464 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCA-TTGTAG
**
36607515 CTTCAATCTATTCCACTGCAACTTCAGGGAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG
36607546 GTGAGATTGG
Statistics
Matches: 179, Mismatches: 25, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
43 4 0.02
44 34 0.19
45 68 0.38
49 1 0.01
50 2 0.01
51 68 0.38
52 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (50 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATTGTAG
Found at i:36607395 original size:45 final size:45
Alignment explanation
Indices: 36607279--36607495 Score: 222
Period size: 45 Copynumber: 4.7 Consensus size: 45
36607269 CATTGTAACA
* *
36607279 CTTCAA-CTGGCTCCACTGCAACTTCAGGGAGACAAGGTTTGTCATTTGTAG
1 CTTCAATCT-GCTCCACTGCAACTTCAGGGAGACAAGATTT-TC-----TAT
*
36607330 CTTCAATCTACTCCACTGCAACTTCAGGGAGACAAGATTTTCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGACAAGATTTTCTAT
* * * *
36607375 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGATTCTCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGACAAGATTTTCTAT
* * * * * * *
36607420 CTTCAGTGTGCTCCACTGCTACTTCAGGGAGATAAGA-CTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGACAAGATTTTCTAT
*
36607464 CTTCAACCTGCTCCACTGCAACTTCAGGGAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGA
36607496 TAAGGTTTGT
Statistics
Matches: 146, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
44 31 0.21
45 76 0.52
50 2 0.01
51 35 0.24
52 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGACAAGATTTTCTAT
Found at i:36615712 original size:19 final size:20
Alignment explanation
Indices: 36615690--36615743 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
36615680 GGTGTTTTTG
* *
36615690 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
*
36615709 TGAAATGTAATGTAAATGAA
1 TGAAATGTAATGCAAATGAA
36615729 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
36615744 AAGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:36619750 original size:25 final size:25
Alignment explanation
Indices: 36619729--36619776 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
36619719 ACCTAATAGG
*
36619729 TGAAA-AACTTAAAATAAGTAATAA
1 TGAAACAACTTAAAATAAATAATAA
*
36619753 TGAAACAATTTAAAATAAATAATA
1 TGAAACAACTTAAAATAAATAATA
36619777 TGAGGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
TGAAACAACTTAAAATAAATAATAA
Found at i:36626513 original size:20 final size:20
Alignment explanation
Indices: 36626471--36626513 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
36626461 TAAGAAAATG
* *
36626471 AAAATAAATAAAATTATCAT
1 AAAACAAATAAAATCATCAT
* *
36626491 AAAACAAATAATATCATCGT
1 AAAACAAATAAAATCATCAT
36626511 AAA
1 AAA
36626514 TATAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAACAAATAAAATCATCAT
Found at i:36626844 original size:26 final size:29
Alignment explanation
Indices: 36626815--36626873 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 29
36626805 ATCAATTCTT
*
36626815 TTAAAATCTCTATT-ATTAA-AT-AAAAA
1 TTAAAATCTATATTAATTAATATAAAAAA
* *
36626841 TTAAACTCTATTTTAATTAATATAAAAAA
1 TTAAAATCTATATTAATTAATATAAAAAA
36626870 TTAA
1 TTAA
36626874 CTCGCAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
27 5 0.19
28 2 0.07
29 9 0.33
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
TTAAAATCTATATTAATTAATATAAAAAA
Found at i:36629266 original size:17 final size:17
Alignment explanation
Indices: 36629246--36629279 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36629236 AAGGATATGC
36629246 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
36629263 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
36629280 GATATGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:36629278 original size:5 final size:5
Alignment explanation
Indices: 36629270--36629300 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
36629260 TATAATCTTA
36629270 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
36629301 CAATCTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:36636087 original size:9 final size:9
Alignment explanation
Indices: 36636073--36636132 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
36636063 CTTCTATTTC
36636073 AAAAAAAAG
1 AAAAAAAAG
36636082 AAAAAAAAAG
1 -AAAAAAAAG
*
36636092 AAAAATAA-
1 AAAAAAAAG
* *
36636100 AAAAATAAT
1 AAAAAAAAG
* *
36636109 AATAAAAAT
1 AAAAAAAAG
*
36636118 AAAAAAGAG
1 AAAAAAAAG
36636127 AAAAAA
1 AAAAAA
36636133 GAAAAATGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
8 8 0.19
9 26 0.60
10 9 0.21
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.08
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:36636133 original size:9 final size:8
Alignment explanation
Indices: 36636074--36636138 Score: 51
Period size: 8 Copynumber: 7.6 Consensus size: 8
36636064 TTCTATTTCA
36636074 AAAAAAAG
1 AAAAAAAG
36636082 AAAAAAA-
1 AAAAAAAG
*
36636089 AAGAAAAAT
1 AA-AAAAAG
*
36636098 AAAAAAAT
1 AAAAAAAG
*
36636106 AATAATAAAA
1 AA-AA-AAAG
36636116 ATAAAAAAG
1 A-AAAAAAG
36636125 AGAAAAAAG
1 A-AAAAAAG
36636134 AAAAA
1 AAAAA
36636139 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.04
8 24 0.49
9 16 0.33
10 6 0.12
11 1 0.02
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (8 bp):
AAAAAAAG
Found at i:36637162 original size:44 final size:44
Alignment explanation
Indices: 36637023--36637418 Score: 307
Period size: 44 Copynumber: 9.1 Consensus size: 44
36637013 CAAAGAAACA
*
36637023 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
36637067 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC---GATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
36637109 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTCGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
36637152 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
36637196 AGATCTGACA-CTCCTGTGCTTACAGTGAAGCAGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
36637241 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
36637284 ATATTTGGCATCCCTGTGTTTATAGGAAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
36637328 AGATTTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
36637373 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
36637416 AGA
1 AGA
36637419 CTTCAGTATT
Statistics
Matches: 272, Mismatches: 58, Indels: 46
0.72 0.15 0.12
Matches are distributed among these distances:
39 1 0.00
40 4 0.01
41 19 0.07
42 11 0.04
43 29 0.11
44 169 0.62
45 37 0.14
46 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:36637299 original size:132 final size:132
Alignment explanation
Indices: 36637022--36637414 Score: 666
Period size: 132 Copynumber: 3.0 Consensus size: 132
36637012 TCAAAGAAAC
* *
36637022 AAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
*
36637087 TACAGTGAAGCAGATC---GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGAT
66 TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
36637149 AG
131 AG
* * * *
36637151 CAGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAACAGATCTGACACTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
36637216 TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
36637281 AG
131 AG
* * *
36637283 AATATTTGGCATCCCTGTGTTTATAGGAAACAGATCGAAGATAGCAGATTTGACACTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
*
36637348 TACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
36637413 AG
131 AG
36637415 CAGACTTCAG
Statistics
Matches: 246, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
129 75 0.30
132 171 0.70
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
TACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AG
Found at i:36637940 original size:45 final size:44
Alignment explanation
Indices: 36637746--36637968 Score: 168
Period size: 45 Copynumber: 5.1 Consensus size: 44
36637736 AATATAAGAT
* * * *
36637746 GATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAGA-AGCA
1 GATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGCA
* * * *
36637789 GATTTGGCGTCTTTGTGTTCGACAGAGAGCAGATCGAAGATATCA
1 GATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGCA
** * * * * *
36637834 -ACATGACAGTC-ATG-AGTTTACAAGGAGCAGATTGAAGA-AGCA
1 GATTTGGC-GTCTCTGTA-TTGACAGGGAGCAGATCGAAGATAGCA
* * *
36637876 AATTTAGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGCA
** * *
36637921 GATTTGGCGTCTCTGTATTAGATGGGGAACAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGCA
36637966 GAT
1 GAT
36637969 ATCGCCTTCC
Statistics
Matches: 137, Mismatches: 34, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
42 6 0.04
43 39 0.28
44 42 0.31
45 50 0.36
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGCA
Found at i:36638349 original size:17 final size:17
Alignment explanation
Indices: 36638329--36638362 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36638319 AAAGATATGC
36638329 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
36638346 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
36638363 GATATGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:36641552 original size:62 final size:62
Alignment explanation
Indices: 36641413--36641699 Score: 310
Period size: 62 Copynumber: 4.6 Consensus size: 62
36641403 ATATCCTGCC
* ** * *
36641413 ACACGGCCTGGGCACATGCCTATGTGCCTTAGCCGTGTGGATTTTA-AGCACA--AGCAGTGAGT
1 ACACGGCCTGGGCACACGCCCGTGT-CCTTGGCCGTGTGG-TTTTATA-CA-ATGAACAGTGAGT
*
36641475 C
62 T
* * * * * * * *
36641476 ATACGGACTAGGCACATGCTCGTGTCATTGGCCGTGTGGTTTTATACTATGAACAGCGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * * *
36641538 ACACGGCCTGGGCACAAGCCCATGTCCCTGGCCGTGTGGTTTTATTCAATGAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* *
36641600 ACACAGCCTGGGCACACGCTCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * *
36641662 CCACGGCCCGGACACACGCCCGTGTCCTTGGCCGTGTG
1 ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTG
36641700 AACCCTGCAG
Statistics
Matches: 187, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.01
61 6 0.03
62 161 0.86
63 19 0.10
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.25
Consensus pattern (62 bp):
ACACGGCCTGGGCACACGCCCGTGTCCTTGGCCGTGTGGTTTTATACAATGAACAGTGAGTT
Found at i:36645680 original size:16 final size:17
Alignment explanation
Indices: 36645630--36645680 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
36645620 ATGGAAATAT
*
36645630 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
36645647 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
36645666 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
36645681 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:36645699 original size:22 final size:21
Alignment explanation
Indices: 36645640--36645682 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
36645630 AATCTTTAAG
36645640 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
36645659 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
36645680 GAT
1 GAT
36645683 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:36648789 original size:14 final size:14
Alignment explanation
Indices: 36648770--36648799 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36648760 TAAAGTTATT
36648770 AAAAAGAGAAAGAA
1 AAAAAGAGAAAGAA
*
36648784 AAAAAGAGAGAGAA
1 AAAAAGAGAAAGAA
36648798 AA
1 AA
36648800 GAGGGTCACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAGAA
Found at i:36651276 original size:27 final size:26
Alignment explanation
Indices: 36651246--36651297 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
36651236 TTCAAAACAA
36651246 AAAAAAAAGAAAAATGAGAAAAAAAAG
1 AAAAAAAAGAAAAATGA-AAAAAAAAG
**
36651273 AAAAATGAGAAAAATGAAAAAAAAA
1 AAAAAAAAGAAAAATGAAAAAAAAA
36651298 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (26 bp):
AAAAAAAAGAAAAATGAAAAAAAAAG
Found at i:36651283 original size:9 final size:9
Alignment explanation
Indices: 36651253--36651294 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
36651243 CAAAAAAAAA
36651253 AGAAAAATG
1 AGAAAAATG
**
36651262 AGAAAAAAA
1 AGAAAAATG
36651271 AGAAAAATG
1 AGAAAAATG
36651280 AGAAAAATG
1 AGAAAAATG
36651289 A-AAAAA
1 AGAAAAA
36651295 AAATGGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 5 0.17
9 24 0.83
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (9 bp):
AGAAAAATG
Found at i:36651295 original size:18 final size:18
Alignment explanation
Indices: 36651246--36651286 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
36651236 TTCAAAACAA
36651246 AAAAAAAAGAAAAATGAG
1 AAAAAAAAGAAAAATGAG
36651264 AAAAAAAAGAAAAATGAG
1 AAAAAAAAGAAAAATGAG
36651282 AAAAA
1 AAAAA
36651287 TGAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAAAAGAAAAATGAG
Found at i:36652307 original size:43 final size:43
Alignment explanation
Indices: 36652259--36652381 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 43
36652249 ATTCCCTAAG
36652259 CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCAAAA
1 CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCAAAA
* * * * * *
36652302 CAGTAGTGG-AACAGATCGAAGA-CT-C-G-CCTTAATC-CCCTAAG
1 CAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCTCCCAAAA
36652343 CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCC
1 CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCC
36652382 TAAGTAGTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
39 1 0.02
40 5 0.08
41 21 0.35
42 8 0.13
43 19 0.32
44 5 0.08
45 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (43 bp):
CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCAAAA
Found at i:36652391 original size:84 final size:84
Alignment explanation
Indices: 36652242--36653022 Score: 1171
Period size: 84 Copynumber: 9.3 Consensus size: 84
36652232 CAAAATTTAG
* * *
36652242 CGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCAAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36652307 GTGGAACAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
36652326 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
36652391 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
36652410 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCATATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36652475 GTGGAACAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
36652494 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36652559 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
36652578 CGCCTCAATCCCCTAAGCAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
36652643 GTCGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
36652662 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36652727 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
36652746 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
***
36652806 ACAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * *
36652828 TGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
36652893 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
36652912 CGCCTTAATCCCCTAAGCAGTACGGTAATAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
36652975 GCGGAGCAGATCAAAGACGAT
66 GTGGAGCAGATCGAAGAC--T
* *
36652996 GCACCTTAACCCCCTAAGCAGTAGGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGT
36653023 CCAAGATGAT
Statistics
Matches: 638, Mismatches: 48, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
79 37 0.06
81 1 0.00
82 62 0.10
84 477 0.75
85 24 0.04
87 37 0.06
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:36653747 original size:14 final size:15
Alignment explanation
Indices: 36653728--36653784 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
36653718 AATCTTTAAG
36653728 GATATG-CAATCTTA
1 GATATGACAATCTTA
36653742 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
36653759 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
36653778 GATATGA
1 GATATGA
36653785 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:36653769 original size:36 final size:38
Alignment explanation
Indices: 36653728--36653820 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 38
36653718 AATCTTTAAG
36653728 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
36653764 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
* *
36653804 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
36653821 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
36 23 0.46
38 7 0.14
40 9 0.18
41 11 0.22
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:36653775 original size:19 final size:19
Alignment explanation
Indices: 36653728--36653820 Score: 127
Period size: 19 Copynumber: 4.8 Consensus size: 19
36653718 AATCTTTAAG
36653728 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36653747 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36653764 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36653783 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
36653804 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
36653821 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
17 17 0.25
19 30 0.45
20 3 0.04
21 9 0.13
22 8 0.12
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36655585 original size:43 final size:42
Alignment explanation
Indices: 36655537--36655693 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
36655527 AACTCGTACA
* **
36655537 ATGCCAATGT-CTCAGACATGGTCTTACATGTAATTAAATGTTG
1 ATGCCAATGTCCT-AGACATGGTCTTACATGTAATCAAAT-ACG
* * * *
36655580 ATGCCACTGTCCTAGACAGGGTCTTACATGAAATCATATACG
1 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCAAATACG
* *
36655622 ATGCCGATGTCCTAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCTAGACATGGTCTTACATGT-AA--TCAAATACG
* * * *
36655666 ATACGAATGTTCTAGACGTGGTCTTACA
1 ATGCCAATGTCCTAGACATGGTCTTACA
36655694 CGAAATCACA
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.29
43 33 0.36
44 27 0.29
45 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGTAATCAAATACG
Found at i:36662751 original size:14 final size:14
Alignment explanation
Indices: 36662734--36662762 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36662724 AATTAAGCCT
36662734 ATATCGTTAACTAA
1 ATATCGTTAACTAA
36662748 ATATCGTTAACTAA
1 ATATCGTTAACTAA
36662762 A
1 A
36662763 ATAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
ATATCGTTAACTAA
Found at i:36662987 original size:10 final size:9
Alignment explanation
Indices: 36662974--36663045 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 9
36662964 TTGATGAAAA
36662974 ATAAAATATT
1 ATAAAA-ATT
*
36662984 ATAAATATT
1 ATAAAAATT
36662993 ATAAAAA-T
1 ATAAAAATT
36663001 ATAAATAAATT
1 AT-AA-AAATT
*
36663012 CTAATAAATT
1 ATAA-AAATT
36663022 ATAAAAATT
1 ATAAAAATT
36663031 AT-AAAATT
1 ATAAAAATT
36663039 AATAAAA
1 -ATAAAA
36663046 CATATTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
8 9 0.17
9 20 0.38
10 22 0.42
11 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:36662991 original size:9 final size:9
Alignment explanation
Indices: 36662977--36663044 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
36662967 ATGAAAAATA
36662977 AAATATTAT
1 AAATATTAT
36662986 AAATATTAT
1 AAATATTAT
*
36662995 AAA-AATAT
1 AAATATTAT
*
36663003 AAATAAATTCT
1 AAAT--ATTAT
*
36663014 AATAAATTAT
1 AA-ATATTAT
*
36663024 AAAAATTAT
1 AAATATTAT
36663033 AAA-ATTAAT
1 AAATATT-AT
36663042 AAA
1 AAA
36663045 ACATATTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
8 10 0.20
9 27 0.55
10 6 0.12
11 5 0.10
12 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATATTAT
Found at i:36663024 original size:21 final size:18
Alignment explanation
Indices: 36662974--36663036 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
36662964 TTGATGAAAA
36662974 ATAAAATATTATAAATATT
1 ATAAAA-ATTATAAATATT
36662993 ATAAAAA-TATAAATAAATT
1 ATAAAAATTATAAAT--ATT
* *
36663012 CTAATAAATTATAAAAATT
1 ATAA-AAATTATAAATATT
36663031 ATAAAA
1 ATAAAA
36663037 TTAATAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.19
18 3 0.08
19 18 0.49
20 3 0.08
21 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATTATAAATATT
Found at i:36663037 original size:17 final size:17
Alignment explanation
Indices: 36662950--36663045 Score: 63
Period size: 19 Copynumber: 5.3 Consensus size: 17
36662940 TATTCAATAT
36662950 TAAAAA-TACTAAAATTGA
1 TAAAAATTA-TAAAATT-A
36662968 TGAAAAA-TA-AAATATTA
1 T-AAAAATTATAAA-ATTA
* *
36662985 TAAATATTATAAAAATA
1 TAAAAATTATAAAATTA
*
36663002 TAAATAAATTCTAATAAATTA
1 T-AA-AAATTAT-A-AAATTA
36663023 TAAAAATTATAAAATTAA
1 TAAAAATTATAAAATT-A
36663041 TAAAA
1 TAAAA
36663046 CATATTTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.06
17 16 0.25
18 16 0.25
19 18 0.29
20 3 0.05
21 6 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAAATTATAAAATTA
Found at i:36663081 original size:9 final size:9
Alignment explanation
Indices: 36663069--36663164 Score: 57
Period size: 10 Copynumber: 9.7 Consensus size: 9
36663059 CTTAAAATGT
36663069 TAAAAAATA
1 TAAAAAATA
36663078 TAAAAAATCA
1 TAAAAAAT-A
36663088 TAAAAAAATTA
1 T-AAAAAA-TA
*
36663099 TAAAAAAATG
1 T-AAAAAATA
*
36663109 TTAAAAATA
1 TAAAAAATA
* *
36663118 TTAAAATTGA
1 TAAAAAAT-A
**
36663128 TATAAATTTA
1 TA-AAAAATA
36663138 TAAAAAAATA
1 T-AAAAAATA
36663148 TTAAAAAATCA
1 -TAAAAAAT-A
36663159 TAAAAA
1 TAAAAA
36663165 CTTGAACTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
9 21 0.30
10 26 0.37
11 23 0.32
12 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
TAAAAAATA
Found at i:36663164 original size:11 final size:10
Alignment explanation
Indices: 36663070--36663164 Score: 61
Period size: 11 Copynumber: 9.4 Consensus size: 10
36663060 TTAAAATGTT
36663070 AAAAAATAT-
1 AAAAAATATA
36663079 AAAAAATCATA
1 AAAAAAT-ATA
36663090 AAAAAATTATA
1 AAAAAA-TATA
*
36663101 AAAAAATGT-
1 AAAAAATATA
*
36663110 TAAAAATAT-
1 AAAAAATATA
* *
36663119 TAAAATTGATA
1 AAAAAAT-ATA
* **
36663130 TAAATTTATA
1 AAAAAATATA
*
36663140 AAAAAATATT
1 AAAAAATATA
36663150 AAAAAATCATA
1 AAAAAAT-ATA
36663161 AAAA
1 AAAA
36663165 CTTGAACTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
9 20 0.29
10 22 0.31
11 27 0.39
12 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAAATATA
Found at i:36666752 original size:14 final size:14
Alignment explanation
Indices: 36666733--36666762 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36666723 TTATTAAACG
*
36666733 TTACAGTTCTAATC
1 TTACAGTACTAATC
36666747 TTACAGTACTAATC
1 TTACAGTACTAATC
36666761 TT
1 TT
36666763 TACAATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (14 bp):
TTACAGTACTAATC
Found at i:36668783 original size:44 final size:44
Alignment explanation
Indices: 36668716--36668802 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
36668706 ACTCTATTTT
36668716 TAGTTTCCCACTTAAACATTGATTAGTGTAGGTTATTTTAATAC
1 TAGTTTCCCACTTAAACATTGATTAGTGTAGGTTATTTTAATAC
* * *
36668760 TAGTTTTCCACTTAAGC-TCTGATTAGTGTTGGTTATTTTAATA
1 TAGTTTCCCACTTAAACAT-TGATTAGTGTAGGTTATTTTAATA
36668803 TTATTTGACC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (44 bp):
TAGTTTCCCACTTAAACATTGATTAGTGTAGGTTATTTTAATAC
Found at i:36669713 original size:12 final size:12
Alignment explanation
Indices: 36669694--36669723 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36669684 ATTAAAATTA
36669694 AAAT-AAAATCT
1 AAATAAAAATCT
36669705 AAATAAAAATCT
1 AAATAAAAATCT
36669717 AAATAAA
1 AAATAAA
36669724 CAAAATCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAAAATCT
Found at i:36670178 original size:75 final size:75
Alignment explanation
Indices: 36670055--36670203 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
36670045 ATATATCATA
* * *
36670055 TGCTCAAAATAGTTGAGTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTGTGAATATTTG
1 TGCTCAAAATAGTTAAGTGATGAATAAGAAATTGATGCTCAAAGTAAGCCACTTGTGAATATTTG
36670120 TTGAGGAAAG
66 TTGAGGAAAG
*
36670130 TGCTCAAAATGGTTAAGTGATGAATAAGAAATTGATGCTCAAAGTAAGCCACTTGTGAATATTTG
1 TGCTCAAAATAGTTAAGTGATGAATAAGAAATTGATGCTCAAAGTAAGCCACTTGTGAATATTTG
36670195 TTGAGGAAA
66 TTGAGGAAA
36670204 AGAAAAACTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (75 bp):
TGCTCAAAATAGTTAAGTGATGAATAAGAAATTGATGCTCAAAGTAAGCCACTTGTGAATATTTG
TTGAGGAAAG
Found at i:36672138 original size:21 final size:21
Alignment explanation
Indices: 36672099--36672138 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36672089 ACCTTCGTGC
* * *
36672099 CTTCTGTTTAGCTCTTATGAG
1 CTTCTGTTCAACTCATATGAG
36672120 CTTCTGTTCAACTCATATG
1 CTTCTGTTCAACTCATATG
36672139 TGTAACAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (21 bp):
CTTCTGTTCAACTCATATGAG
Found at i:36673412 original size:42 final size:42
Alignment explanation
Indices: 36673348--36673489 Score: 151
Period size: 42 Copynumber: 3.4 Consensus size: 42
36673338 GAGATGGGAA
* * * *
36673348 TACGTGTAAGACCATATCTGGGATATGGCATCGGTATGATAT
1 TACGTGTAAGACCATGTTTGGGATATGGCATCGATATGAAAT
* * *
36673390 TACGTGGAAGACCATGTTTGGGACATGGCATCGATACGAAAT
1 TACGTGTAAGACCATGTTTGGGATATGGCATCGATATGAAAT
* * * *
36673432 TTCGTGTAAGACCATAG-TTGGGCTATTGGCATTGATATGAGAT
1 TACGTGTAAGACCAT-GTTTGGGATA-TGGCATCGATATGAAAT
*
36673475 TACATGTAAGACCAT
1 TACGTGTAAGACCAT
36673490 ATCCAGGATA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 54 0.66
43 28 0.34
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TACGTGTAAGACCATGTTTGGGATATGGCATCGATATGAAAT
Found at i:36673503 original size:85 final size:84
Alignment explanation
Indices: 36673350--36673505 Score: 188
Period size: 85 Copynumber: 1.8 Consensus size: 84
36673340 GATGGGAATA
* * * * ***
36673350 CGTGTAAGACCATATCTGGGATATGGCATCGGTATGATATTACGTGGAAGACCATGTTTGGGACA
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTACATGGAAGACCATATCCAGGACA
36673415 TGGCATCGATACGAAATTT
66 TGGCATCGATACGAAATTT
* * *
36673434 CGTGTAAGACCATAGT-TGGGCTATTGGCATTGATATGAGATTACATGTAAGACCATATCCAGGA
1 CGTGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGATTACATGGAAGACCATATCCAGGA
*
36673498 TATGGCAT
64 CATGGCAT
36673506 TGTACGACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
84 20 0.34
85 39 0.66
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (84 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTACATGGAAGACCATATCCAGGACA
TGGCATCGATACGAAATTT
Found at i:36680384 original size:13 final size:13
Alignment explanation
Indices: 36680366--36680390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36680356 AAATATAAAT
36680366 AATTTTTCTTTTG
1 AATTTTTCTTTTG
36680379 AATTTTTCTTTT
1 AATTTTTCTTTT
36680391 CTATTTATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
AATTTTTCTTTTG
Found at i:36682373 original size:24 final size:25
Alignment explanation
Indices: 36682345--36682393 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
36682335 TCTAAGTCTA
**
36682345 ATTG-TTTATCTATAGTAACTAATC
1 ATTGTTTTATCTATAACAACTAATC
36682369 ATTGTTTTATCTATAACAACTAATC
1 ATTGTTTTATCTATAACAACTAATC
36682394 TGAAATAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (25 bp):
ATTGTTTTATCTATAACAACTAATC
Found at i:36683192 original size:12 final size:12
Alignment explanation
Indices: 36683175--36683204 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36683165 TTCCGGAGAT
36683175 AGATACAAATGC
1 AGATACAAATGC
*
36683187 AGATACAAATTC
1 AGATACAAATGC
36683199 AGATAC
1 AGATAC
36683205 CGATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (12 bp):
AGATACAAATGC
Found at i:36683275 original size:24 final size:24
Alignment explanation
Indices: 36683248--36683294 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
36683238 CATAGGTGTG
*
36683248 GATATAGATGCAAACATAGATTCA
1 GATACAGATGCAAACATAGATTCA
*
36683272 GATACAGATGCAGACATAGATTC
1 GATACAGATGCAAACATAGATTC
36683295 TATCCCCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (24 bp):
GATACAGATGCAAACATAGATTCA
Found at i:36683684 original size:4 final size:4
Alignment explanation
Indices: 36683671--36683752 Score: 157
Period size: 4 Copynumber: 20.8 Consensus size: 4
36683661 CATACTTTTG
36683671 ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
36683718 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
36683753 GACTTTTCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.04
4 74 0.96
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:36700550 original size:46 final size:46
Alignment explanation
Indices: 36700420--36700681 Score: 332
Period size: 46 Copynumber: 5.7 Consensus size: 46
36700410 TACCATAGTG
* * *
36700420 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCAGGTTGCCATGGTA
* *
36700466 TCTTTC-A-CATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGGTA
** * *
36700510 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTG
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGGTA
* *
36700556 TCTTTCAACCATGGTCTTATTCATTTAATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGGTA
** * *
36700602 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGTTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGGTA
** *
36700648 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAG
36700682 AGAGCACACT
Statistics
Matches: 194, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
43 4 0.02
44 34 0.18
45 2 0.01
46 154 0.79
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGGTA
Found at i:36700612 original size:92 final size:92
Alignment explanation
Indices: 36700420--36700681 Score: 366
Period size: 92 Copynumber: 2.9 Consensus size: 92
36700410 TACCATAGTG
* *
36700420 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTC-A-CATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
36700483 TTCATTTCATGTCACGCTGCCATGGTA
66 TTCATTTCATATCAGGCTGCCATGGTA
* * *
36700510 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTGTCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
36700575 TTCATTTAATATCAGGTTGCCATGGTA
66 TTCATTTCATATCAGGCTGCCATGGTA
* * * * *
36700602 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGTTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
36700667 CACATTTCATATCAG
66 TTCATTTCATATCAG
36700682 AGAGCACACT
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
90 47 0.31
91 1 0.01
92 102 0.68
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCAGGCTGCCATGGTA
Found at i:36700673 original size:138 final size:136
Alignment explanation
Indices: 36700412--36700674 Score: 373
Period size: 138 Copynumber: 1.9 Consensus size: 136
36700402 TGACATGATA
* ** * *
36700412 CCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCACATG
1 CCATAGTGTCTTTCAACCATGGTCTTACTCATTTAATATCAGGTTGCCATGGTATCTTTCACATG
** * **
36700477 GTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTC
66 GTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCCGTC
36700542 ATGTTG
131 ATGTTG
* *
36700548 CCATGGTGTCTTTCAACCATGGTCTTATTCATTTAATATCAGGTTGCCATGGTATCTTTCAACCA
1 CCATAGTGTCTTTCAACCATGGTCTTACTCATTTAATATCAGGTTGCCATGGTATCTTTC-A-CA
* * *
36700613 TGGTCTTACACATTTCATATCAGGTTGCCATGTTATCTTTCAACCATGGTCTTACACATTTC
64 TGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
36700675 ATATCAGAGA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
136 53 0.48
137 1 0.01
138 56 0.51
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (136 bp):
CCATAGTGTCTTTCAACCATGGTCTTACTCATTTAATATCAGGTTGCCATGGTATCTTTCACATG
GTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCCGTC
ATGTTG
Found at i:36703694 original size:27 final size:27
Alignment explanation
Indices: 36703656--36703707 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36703646 AAACCATTGG
*
36703656 TCCCAACGGCTAATTAAATAGTCGTGA
1 TCCCAACAGCTAATTAAATAGTCGTGA
36703683 TCCCAACAGCTAATTAAATAGTCGT
1 TCCCAACAGCTAATTAAATAGTCGT
36703708 TGTGGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (27 bp):
TCCCAACAGCTAATTAAATAGTCGTGA
Found at i:36705302 original size:29 final size:29
Alignment explanation
Indices: 36705239--36705305 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
36705229 ATTAACAAAA
*
36705239 TTAAGAATTTAGTCTTTGTATTTTTATTTC
1 TTAA-AATTTAGTCTTTCTATTTTTATTTC
*
36705269 ATAAAATTTAGTC-TTCTATTTTTCATATT-
1 TTAAAATTTAGTCTTTCTATTTTT-AT-TTC
36705298 TTAAAATT
1 TTAAAATT
36705306 CAAGTCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 9 0.28
29 18 0.56
30 5 0.16
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (29 bp):
TTAAAATTTAGTCTTTCTATTTTTATTTC
Found at i:36707083 original size:11 final size:11
Alignment explanation
Indices: 36707067--36707091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36707057 TTGAGAGAAA
36707067 AAATCATTTTT
1 AAATCATTTTT
36707078 AAATCATTTTT
1 AAATCATTTTT
36707089 AAA
1 AAA
36707092 AGTAATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATCATTTTT
Found at i:36718407 original size:33 final size:33
Alignment explanation
Indices: 36718370--36718436 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36718360 CAATTAAACT
36718370 TCAAACTTTAAAATCCCTAATTTCCCCTTTTTC
1 TCAAACTTTAAAATCCCTAATTTCCCCTTTTTC
36718403 TCAAACTTTAAAATCCCTAATTTCCCCTTTTTC
1 TCAAACTTTAAAATCCCTAATTTCCCCTTTTTC
36718436 T
1 T
36718437 TTCTTTCCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (33 bp):
TCAAACTTTAAAATCCCTAATTTCCCCTTTTTC
Found at i:36718687 original size:5 final size:5
Alignment explanation
Indices: 36718677--36718702 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36718667 TTTTTATTTA
36718677 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
36718703 ATCTAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:36728930 original size:16 final size:17
Alignment explanation
Indices: 36728895--36728929 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
36728885 ATTATTAAGA
36728895 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
36728912 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36728930 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36729140 original size:44 final size:45
Alignment explanation
Indices: 36729091--36729185 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
36729081 TTACACCTCT
* *
36729091 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
36729135 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
36729180 ATTACA
1 ATTACA
36729186 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:36729185 original size:16 final size:16
Alignment explanation
Indices: 36729166--36729217 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
36729156 GATTTGCTAT
* *
36729166 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
36729182 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36729198 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36729214 TACA
1 TACA
36729218 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:36729373 original size:31 final size:33
Alignment explanation
Indices: 36729330--36729396 Score: 111
Period size: 31 Copynumber: 2.1 Consensus size: 33
36729320 GGGTGCGTTT
36729330 GGTGCTATTGGATTAGAGATGTATT-GATTAGA
1 GGTGCTATTGGATTAGAGATGTATTGGATTAGA
*
36729362 GGTG-TATTGGATTAGAGGTGTATTGGATTAGA
1 GGTGCTATTGGATTAGAGATGTATTGGATTAGA
36729394 GGT
1 GGT
36729397 AATAGCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.37
Consensus pattern (33 bp):
GGTGCTATTGGATTAGAGATGTATTGGATTAGA
Found at i:36729374 original size:16 final size:16
Alignment explanation
Indices: 36729330--36729396 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
36729320 GGGTGCGTTT
36729330 GGTGCTATTGGATTAGA
1 GGTG-TATTGGATTAGA
*
36729347 GATGTATT-GATTAGA
1 GGTGTATTGGATTAGA
36729362 GGTGTATTGGATTAGA
1 GGTGTATTGGATTAGA
36729378 GGTGTATTGGATTAGA
1 GGTGTATTGGATTAGA
36729394 GGT
1 GGT
36729397 AATAGCAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
15 14 0.30
16 30 0.64
17 3 0.06
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.37
Consensus pattern (16 bp):
GGTGTATTGGATTAGA
Found at i:36729780 original size:122 final size:122
Alignment explanation
Indices: 36729596--36729930 Score: 531
Period size: 122 Copynumber: 2.7 Consensus size: 122
36729586 TATCAATAAT
36729596 AAAT-AATTTAATCATATTTTAACATAATTATTATTAAAAATTTTAATTAAAATATATAATTTAA
1 AAATAAATTTAA-CATA--TTAACATAATTATTA--AAAAATTTTAATTAAAATATATAATTTAA
36729660 TAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATAC-TA
61 TAAAATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACATA
36729721 AAATAAATTTAACATATTAACATAATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAA
1 AAATAAATTTAACATATTAACATAATTATTAAAAA-ATTTTAATTAAAATATATAATTTAATAAA
36729786 ATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATA
65 ATTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATAC-ATA
*
36729845 AAATATAATTTAAC--A-T-A-ATTATTATTAAAAATATTTTAATTAAAATATATAATTTAATAA
1 AAATA-AATTTAACATATTAACATAATTATTAAAAA-ATTTTAATTAAAATATATAATTTAATAA
36729905 AATTCTTAATAATCAATATTCTTATA
64 AATTCTTAATAATCAATATTCTTATA
36729931 ACAAAAATTC
Statistics
Matches: 203, Mismatches: 2, Indels: 15
0.92 0.01 0.07
Matches are distributed among these distances:
120 67 0.33
121 5 0.02
122 85 0.42
123 16 0.08
124 7 0.03
125 16 0.08
126 7 0.03
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (122 bp):
AAATAAATTTAACATATTAACATAATTATTAAAAAATTTTAATTAAAATATATAATTTAATAAAA
TTCTTAATAATCAATATTCTTATATAAATTTACTAAAATCATAATATATGATACATA
Found at i:36729905 original size:59 final size:56
Alignment explanation
Indices: 36729613--36729908 Score: 160
Period size: 63 Copynumber: 5.0 Consensus size: 56
36729603 TTAATCATAT
36729613 TTTAACATAATTATTATT-AAAAATTTTAATTAAAATATATAATTTAATAAAATT-
1 TTTAACATAATTATTATTAAAAAATTTTAATTAAAATATATAATTTAATAAAATTA
* * * * * * * *
36729667 CTTAATAATCAA-TATTCTTATATAAA-TTT-ACTAAAATCATAATATATGATACTAAAATAAA
1 TTTAA-CAT-AATTATTATTA-AAAAATTTTAATTAAAAT-AT-ATA-AT-TTAATAAAAT-TA
*
36729728 TTTAACATATTAACATAATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATT-
1 TTTAAC--A-T-A-ATTATTATTAAAAA-ATTTTAATTAAAATATATAATTTAATAAAATTA
* * * * * *
36729789 CTTAATAATCAA-TATTCTTATATAAA-TTT-ACTAAAATCATAATATATGATACTATAAAATAT
1 TTTAA-CAT-AATTATTATTA-AAAAATTTTAATTAAAAT-AT-ATA-AT-TTA--ATAAAAT-T
36729851 AA
56 -A
36729853 TTTAACATAATTATTATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATT
1 TTTAACATAATTATTATTAAAAA-ATTTTAATTAAAATATATAATTTAATAAAATT
36729909 CTTAATAATC
Statistics
Matches: 177, Mismatches: 32, Indels: 62
0.65 0.12 0.23
Matches are distributed among these distances:
54 4 0.02
55 22 0.12
56 12 0.07
57 17 0.10
58 9 0.05
59 19 0.11
60 1 0.01
61 17 0.10
62 9 0.05
63 23 0.13
64 15 0.08
65 17 0.10
66 5 0.03
67 7 0.04
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (56 bp):
TTTAACATAATTATTATTAAAAAATTTTAATTAAAATATATAATTTAATAAAATTA
Found at i:36742582 original size:16 final size:16
Alignment explanation
Indices: 36742561--36742601 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
36742551 ATGTTTGGTT
36742561 GGCTGTAATGGAATAG
1 GGCTGTAATGGAATAG
36742577 GGCTGTAATGGAATAG
1 GGCTGTAATGGAATAG
*
36742593 AGCTGTAAT
1 GGCTGTAAT
36742602 AAGTAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.34, T:0.27
Consensus pattern (16 bp):
GGCTGTAATGGAATAG
Found at i:36743041 original size:19 final size:19
Alignment explanation
Indices: 36743017--36743069 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
36743007 AATTTATGAA
36743017 AAATGATTTACTTTTCTAG
1 AAATGATTTACTTTTCTAG
36743036 AAATGATTTACTTTTCTAG
1 AAATGATTTACTTTTCTAG
36743055 AAATGATTTACTTTT
1 AAATGATTTACTTTT
36743070 ATGGTGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (19 bp):
AAATGATTTACTTTTCTAG
Found at i:36743429 original size:18 final size:18
Alignment explanation
Indices: 36743406--36743440 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36743396 ATGTGGTAGT
*
36743406 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
36743424 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
36743441 ATATCTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:36743478 original size:20 final size:20
Alignment explanation
Indices: 36743455--36743518 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
36743445 CTATTAATAC
36743455 ATACTTCATCCGGTTAAATT
1 ATACTTCATCCGGTTAAATT
* *
36743475 ATACAGTT--TTCTGTT-AATAT
1 ATAC--TTCATCCGGTTAAAT-T
*
36743495 ATACTTCATCCGGATAAATT
1 ATACTTCATCCGGTTAAATT
36743515 ATAC
1 ATAC
36743519 AGTTTTCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 23 0.70
21 3 0.09
22 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (20 bp):
ATACTTCATCCGGTTAAATT
Found at i:36743503 original size:40 final size:40
Alignment explanation
Indices: 36743444--36743624 Score: 281
Period size: 40 Copynumber: 4.5 Consensus size: 40
36743434 CTTAAGTATA
*
36743444 TCTATTAATACATACTTCATCCGGTTAAATTATACAGTTT
1 TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
36743484 TCTGTTAATATATACTTCATCCGGATAAATTATACAGTTT
1 TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* * *
36743524 TCTATTAATACATACTTTATTCGGGTAAATTATACAGTTT
1 TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
*
36743564 TCTATTAATACATACTTCATCCGGATCAATTATACAGTTT
1 TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
36743604 TTTGTTAATACATACTTCATC
1 TCTATTAATACATACTTCATC
36743625 AGATTTTCTG
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (40 bp):
TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:36758938 original size:28 final size:28
Alignment explanation
Indices: 36758907--36758962 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
36758897 TTTCTAATTA
*
36758907 AATTCAATTTT-AATCCTTTTTATATTTT
1 AATT-AATTTTAAATCCTTTATATATTTT
* *
36758935 AATTTATTTTAAATGCTTTATATATTTT
1 AATTAATTTTAAATCCTTTATATATTTT
36758963 TATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTAATTTTAAATCCTTTATATATTTT
Found at i:36759046 original size:12 final size:12
Alignment explanation
Indices: 36759009--36759059 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
36758999 ACATTATTTC
*
36759009 ATTATATATTTT
1 ATTATATATTAT
*
36759021 ATCTATAAATTAT
1 AT-TATATATTAT
36759034 ATTATAT-TATAT
1 ATTATATAT-TAT
*
36759046 ATTATATTTTAT
1 ATTATATATTAT
36759058 AT
1 AT
36759060 ATTTCTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.03
12 21 0.64
13 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATATATTAT
Found at i:36759059 original size:14 final size:13
Alignment explanation
Indices: 36759031--36759074 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
36759021 ATCTATAAAT
36759031 TATATTATA-TTA
1 TATATTATATTTA
36759043 TATATTATATTTTA
1 TATATTATA-TTTA
*
36759057 TATATT-TCTTTA
1 TATATTATATTTA
36759069 TATATT
1 TATATT
36759075 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 19 0.66
13 1 0.03
14 9 0.31
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATTATATTTA
Found at i:36761353 original size:43 final size:43
Alignment explanation
Indices: 36761300--36761404 Score: 174
Period size: 43 Copynumber: 2.4 Consensus size: 43
36761290 GGTTTAATGT
*
36761300 ATTGGCACTAAGTGTGCGATACAATTACAGCCTCGGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTACAGCCTCAGCTAATTA
* *
36761343 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTACAGCCTCAGCTAATTA
*
36761386 ATCGGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
36761405 GTTCGTTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGATACAATTACAGCCTCAGCTAATTA
Found at i:36764572 original size:54 final size:54
Alignment explanation
Indices: 36764447--36764602 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
36764437 CTATATTTAT
* * *
36764447 AGCGTTGTAACT--AAAAAACTCGTCCTTTTCCTTTTCTTTCAA-TT-TTAT--
1 AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTCAATTTATTGTCC
36764495 AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTCAATTTATTGTCC
1 AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTCAATTTATTGTCC
**
36764549 AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTTTATTTATTGTCC
1 AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTCAATTTATTGTCC
36764603 CCACAATATA
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
48 12 0.12
50 28 0.29
51 2 0.02
52 3 0.03
54 52 0.54
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (54 bp):
AGCGTTGTAACTAAAAAAAATTTGTCCTTTTCCTTTTCTTTCAATTTATTGTCC
Found at i:36766618 original size:20 final size:19
Alignment explanation
Indices: 36766593--36766766 Score: 75
Period size: 20 Copynumber: 9.2 Consensus size: 19
36766583 TTGTTATAAG
36766593 TATTATTTTTAATTATATAT
1 TATTATTTTT-ATTATATAT
*
36766613 TATTATTACTTATTATATAT
1 TATTATT-TTTATTATATAT
36766633 TATT-TTTCTTAAATTAT-TAT
1 TATTATTT-TT--ATTATATAT
36766653 T-TTACATCTCTTTA-TATATAT
1 TATT--AT-T-TTTATTATATAT
* *
36766674 TATTATATTT-TCATATAT
1 TATTATTTTTATTATATAT
36766692 TA-TATTTATTAATTATATA-
1 TATTATTT-TT-ATTATATAT
* *
36766711 TA-TATTGTT-TTATATGT
1 TATTATTTTTATTATATAT
* * *
36766728 TA--CTTTATATTATAT-C
1 TATTATTTTTATTATATAT
*
36766744 TATTATTTTTCTTATATGAT
1 TATTATTTTTATTATAT-AT
36766764 TAT
1 TAT
36766767 ATTACATTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 42
0.67 0.09 0.24
Matches are distributed among these distances:
16 11 0.09
17 12 0.10
18 25 0.21
19 12 0.10
20 38 0.32
21 12 0.10
22 3 0.03
23 3 0.03
24 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TATTATTTTTATTATATAT
Found at i:36766618 original size:37 final size:32
Alignment explanation
Indices: 36766577--36766656 Score: 79
Period size: 37 Copynumber: 2.3 Consensus size: 32
36766567 ATATTATAAA
*
36766577 ATTATTTTGTTATAAGTATTATTTTTAATTATATATT
1 ATTATTTTATTAT-A-TATTATTTTT-ATTA-A-ATT
*
36766614 ATTATTACTTATTATATATTATTTTTCTTAAATT
1 ATTATT--TTATTATATATTATTTTTATTAAATT
36766648 ATTATTTTA
1 ATTATTTTA
36766657 CATCTCTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 3 0.08
34 9 0.23
35 1 0.03
36 3 0.08
37 16 0.41
38 1 0.03
39 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (32 bp):
ATTATTTTATTATATATTATTTTTATTAAATT
Found at i:36778869 original size:114 final size:115
Alignment explanation
Indices: 36778688--36779079 Score: 581
Period size: 114 Copynumber: 3.5 Consensus size: 115
36778678 ACATTTATGT
* * *
36778688 TGAAGCAGATCCAAGATGATTTGGTATTTTTGTTTACAAGAAACAAGTCGAGGACATAGCAGATT
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTTTACAAG-AACAAATCGAGGACATAGCAAATT
36778753 TGACTCTCAGACGTTCTCAAAGATAACAGATCTAACCTTCAGATGTTATAC
65 TGACTCTCAGACGTTCTCAAAGATAACAGATCTAACCTTCAGATGTTATAC
* *
36778804 T-AAGCAGATCCAAGATGA-TTGGTATTCTTGTGTTACAAGAATAAATCGAGGACATAGCATATT
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGT-TTACAAGAACAAATCGAGGACATAGCAAATT
*
36778867 TGACTCTCAGACGTTCTCAAAGAT-ATAG-TCTAACCTTCAGATGTTTATAC
65 TGACTCTCAGACGTTCTCAAAGATAACAGATCTAACCTTCAGATG-TTATAC
*
36778917 TGAAGTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAACAAATCGAGGACATAG-AAAT
1 TGAAGCAGATCCAAGATGATTTGGTATTC-T-TGTTTACAAGAACAAATCGAGGACATAGCAAAT
* *
36778981 TTGACTCTCAGACATTCTC-AATATAACAGATCTAACCTTCAGATGTTATAC
64 TTGACTCTCAGACGTTCTCAAAGATAACAGATCTAACCTTCAGATGTTATAC
36779032 TGAAGC-GATCCAAGAT-A-TT-GTATT-TTGTTTACAAGAACAAATCGAGGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTTTACAAGAACAAATCGAGGA
36779080 ATTGAGATAG
Statistics
Matches: 256, Mismatches: 12, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
108 23 0.09
109 1 0.00
111 5 0.02
112 17 0.07
113 11 0.04
114 87 0.34
115 68 0.27
116 41 0.16
117 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (115 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTTTACAAGAACAAATCGAGGACATAGCAAATTT
GACTCTCAGACGTTCTCAAAGATAACAGATCTAACCTTCAGATGTTATAC
Found at i:36791603 original size:21 final size:21
Alignment explanation
Indices: 36791577--36791616 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36791567 AGACAAGCGA
* *
36791577 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
36791598 TACTCCAAAACAGGTGGAG
1 TACTCCAAAACAGGTGGAG
36791617 ATTGAGCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:36797391 original size:43 final size:43
Alignment explanation
Indices: 36797338--36797626 Score: 267
Period size: 43 Copynumber: 6.6 Consensus size: 43
36797328 ACTTTTAGCA
* * ** *
36797338 AAAGAGTCGCTAAAAGTCATGTTCTTTAATGATGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * *
36797381 AAAGCGTCGCTAAAGATCATGTTCTTTAGCGGTTTTTGTAGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * *
36797424 ATAGCATTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * * *
36797467 AAAGTG-CAGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAGGA
1 AAAGCGTC-GCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* *
36797510 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGTGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * *
36797553 AAAATGCCTCTGCCACTAAACGTCATGTTATTTAGCTGG-GTTTGTGGGA
1 -AAA-GCGTC-G---CTAAAGGTCATGTTCTTTAGC-GGTGTTTGTGGGG
* *
36797602 AAAACATCGCTAAAGGTCATGTTCT
1 AAAGCGTCGCTAAAGGTCATGTTCT
36797627 ATAGAGCCAC
Statistics
Matches: 199, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
43 155 0.78
44 4 0.02
45 3 0.02
46 2 0.01
47 3 0.02
48 3 0.02
49 27 0.14
50 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
Found at i:36799412 original size:43 final size:43
Alignment explanation
Indices: 36799332--36799438 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
36799322 ATTTATCTAA
* * * *
36799332 AAAAATGCTGCTAAAGGTCATGACCTTTAGTGGCGC-TTCCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
* *
36799374 TAAAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCC
1 -AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
* *
36799418 ACAAACGCCACTAAAGGTCAT
1 AAAAACGCCGCTAAAGGTCAT
36799439 AAAATTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 49 0.91
44 5 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
Found at i:36799466 original size:10 final size:10
Alignment explanation
Indices: 36799453--36799523 Score: 58
Period size: 10 Copynumber: 7.0 Consensus size: 10
36799443 TTTTAAAAAA
36799453 ATAAAATATT
1 ATAAAATATT
36799463 ATAAAATATT
1 ATAAAATATT
*
36799473 ATAAAAGTAAT
1 ATAAAA-TATT
*
36799484 AAAAAAT-TT
1 ATAAAATATT
*
36799493 A-AAAAAATT
1 ATAAAATATT
36799502 -TAAAATTCATT
1 ATAAAA-T-ATT
36799513 ATCAAAATATT
1 AT-AAAATATT
36799524 GAGAAAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
8 4 0.08
9 8 0.16
10 17 0.35
11 14 0.29
12 2 0.04
13 4 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:36801092 original size:7 final size:7
Alignment explanation
Indices: 36801080--36801107 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
36801070 AATTCTATTG
36801080 TGAGTTA
1 TGAGTTA
36801087 TGAGTTA
1 TGAGTTA
36801094 TGAGTTA
1 TGAGTTA
36801101 TGAGTTA
1 TGAGTTA
36801108 AGGCACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
TGAGTTA
Found at i:36803680 original size:16 final size:16
Alignment explanation
Indices: 36803659--36803712 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
36803649 AGAATTAGAT
36803659 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
36803675 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
36803685 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
36803701 AAAATTTGAAAT
1 AAAATTTGAAAT
36803713 GATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Done.