Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 307 of 316
Found at i:100881938 original size:10 final size:9
Alignment explanation
Indices: 100881920--100882018 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
100881910 TAAAATTTAA
100881920 AAAATATTT
1 AAAATATTT
100881929 AAAATCATTT
1 AAAAT-ATTT
*
100881939 AAAATATTAA
1 AAAATATT-T
100881949 AAAATATTT
1 AAAATATTT
*
100881958 TAAATCATTTT
1 AAAAT-A-TTT
*
100881969 AAATTATTT
1 AAAATATTT
* *
100881978 TAAATGTTTT
1 AAAAT-ATTT
* *
100881988 ATAATATTA
1 AAAATATTT
100881997 AAAATATATT
1 AAAATAT-TT
*
100882007 -TAATATTT
1 AAAATATTT
100882015 AAAA
1 AAAA
100882019 AATAATTTGA
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
8 2 0.03
9 33 0.49
10 26 0.39
11 6 0.09
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (9 bp):
AAAATATTT
Found at i:100881982 original size:29 final size:29
Alignment explanation
Indices: 100881910--100881972 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
100881900 AAATTCTATG
*
100881910 TAAAAT-TTAAAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
100881938 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
100881967 TTAAAT
1 TAAAAT
100881973 TATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:100881995 original size:19 final size:19
Alignment explanation
Indices: 100881950--100881995 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
100881940 AAATATTAAA
100881950 AAATATTTTAAATCATTTT
1 AAATATTTTAAATCATTTT
*
100881969 AAATTATTTTAAAT-GTTTT
1 AAA-TATTTTAAATCATTTT
100881988 ATAATATT
1 A-AATATT
100881996 AAAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
AAATATTTTAAATCATTTT
Found at i:100882035 original size:31 final size:34
Alignment explanation
Indices: 100881988--100882076 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
100881978 TAAATGTTTT
100881988 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
100882020 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
* *
100882054 ATATATATTATAAA-ACATTTTAA
1 ATA-ATATTAAAAATATATTTTAA
100882077 AAAATATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 11 0.23
34 13 0.27
35 4 0.08
36 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:100882047 original size:33 final size:33
Alignment explanation
Indices: 100881988--100882076 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
100881978 TAAATGTTTT
100881988 ATAATATTAAAAATATATTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTAATATTTATAAAA
*
100882020 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATT-AAAA-ATATATTTAATATTTATAAAA
*
100882054 ATATATATTATAAAACAT-TTTAA
1 ATA-ATATTA-AAAATATATTTAA
100882077 AAAATATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
31 2 0.04
32 9 0.18
33 15 0.31
34 12 0.24
35 6 0.12
36 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
ATAATATTAAAAATATATTTAATATTTATAAAA
Found at i:100885555 original size:30 final size:30
Alignment explanation
Indices: 100885519--100885641 Score: 174
Period size: 30 Copynumber: 4.1 Consensus size: 30
100885509 GGTCAAATGG
* *
100885519 ACTCGAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
* *
100885549 ACTCGAACCACCCATGTCCGGGTGATATAA
1 ACTCGAACCACCCATATCCGGGTGATATGA
*
100885579 ACTCGAACCACCCATATCCGGATGATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
* * *
100885609 ACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
100885639 ACT
1 ACT
100885642 GTTCTGGGAC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (30 bp):
ACTCGAACCACCCATATCCGGGTGATATGA
Found at i:100885612 original size:60 final size:60
Alignment explanation
Indices: 100885519--100885641 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 60
100885509 GGTCAAATGG
* * *
100885519 ACTCGAACCGCCTATATCCGGGTGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
1 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
* * *
100885579 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
100885639 ACT
1 ACT
100885642 GTTCTGGGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (60 bp):
ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
Found at i:100888658 original size:27 final size:28
Alignment explanation
Indices: 100888628--100888685 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
100888618 GTCAAAATAA
*
100888628 TAAAAAATATATTTA-ATATATATTTTT
1 TAAAAAATATATTTATATATATATTTAT
** *
100888655 TAAAATTTATATTTATATTTATATTTAT
1 TAAAAAATATATTTATATATATATTTAT
100888683 TAA
1 TAA
100888686 TAATCACATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TAAAAAATATATTTATATATATATTTAT
Found at i:100888809 original size:21 final size:21
Alignment explanation
Indices: 100888781--100888824 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
100888771 TTAAAAAAAG
100888781 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
100888801 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
100888823 AA
1 AA
100888825 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:100888929 original size:33 final size:32
Alignment explanation
Indices: 100888878--100888946 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
100888868 ATAAATAAAC
*
100888878 AAAATAAAATAAGAAAAAA-ACGTAAAA-TTTAA
1 AAAATAAAAAAAGAAAAAAGAC--AAAATTTTAA
*
100888910 AAAAGTAAAAAAAGGAAAAAGACAAAATTTTAA
1 AAAA-TAAAAAAAGAAAAAAGACAAAATTTTAA
100888943 AAAA
1 AAAA
100888947 ATATATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 8 0.25
33 22 0.69
34 2 0.06
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.16
Consensus pattern (32 bp):
AAAATAAAAAAAGAAAAAAGACAAAATTTTAA
Found at i:100889010 original size:28 final size:27
Alignment explanation
Indices: 100888945--100889013 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
100888935 AATTTTAAAA
* *
100888945 AAATATATTTAAAATATTATGATTTCTT
1 AAAT-TATTTAAAAAATTATAATTTCTT
* *
100888973 ATATTA-TTAAAAAATTATAATTTTTT
1 AAATTATTTAAAAAATTATAATTTCTT
100888999 AAATGTATTTAAAAA
1 AAAT-TATTTAAAAA
100889014 TTGTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 20 0.59
27 4 0.12
28 10 0.29
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
AAATTATTTAAAAAATTATAATTTCTT
Found at i:100889513 original size:21 final size:21
Alignment explanation
Indices: 100889488--100889574 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
100889478 TAAAAAATAT
100889488 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
100889509 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
*
100889532 TTTTAAATAT-AT-ATTACAAAA
1 TTTTAAAAATAATAATT--AAAA
*
100889553 TTTTTAAAATTAATAATATAAA
1 -TTTTAAAAATAATAAT-TAAA
100889575 TTAAATAAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
20 6 0.12
21 10 0.20
22 16 0.31
23 16 0.31
24 2 0.04
25 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:100889534 original size:23 final size:22
Alignment explanation
Indices: 100889488--100889561 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
100889478 TAAAAAATAT
*
100889488 TTTTAAAAATAATA--ATTAAAA
1 TTTTAAAAA-AATATTATAAAAA
100889509 TTTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * * *
100889532 TTTTAAATATATATTACAAAAT
1 TTTTAAAAAAATATTATAAAAA
100889554 TTTTAAAA
1 TTTTAAAA
100889562 TTAATAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 9 0.20
22 12 0.27
23 19 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:100889575 original size:22 final size:21
Alignment explanation
Indices: 100889486--100889576 Score: 60
Period size: 23 Copynumber: 4.1 Consensus size: 21
100889476 GTTAAAAAAT
100889486 ATTTTTAAAAATAATAAT-TAA
1 ATTTTT-AAAATAATAATATAA
* * *
100889507 AATTTTAAAAAAATATTATAAA
1 ATTTTTAAAATAATAATAT-AA
* * *
100889529 ACATTTT-AAATATATATTACAAA
1 A-TTTTTAAAATA-ATAATA-TAA
100889552 ATTTTTAAAATTAATAATATAA
1 ATTTTTAAAA-TAATAATATAA
100889574 ATT
1 ATT
100889577 AAATAAGTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
20 9 0.16
21 6 0.11
22 16 0.29
23 22 0.40
24 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTTTAAAATAATAATATAA
Found at i:100889679 original size:10 final size:9
Alignment explanation
Indices: 100889645--100889678 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
100889635 ACAAAATATA
100889645 AAAAAAAGT
1 AAAAAAAGT
100889654 AAAAAAAGT
1 AAAAAAAGT
100889663 AAAAAAAGT
1 AAAAAAAGT
100889672 AAAAAAA
1 AAAAAAA
100889679 ATACATAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:100892822 original size:30 final size:29
Alignment explanation
Indices: 100892801--100892858 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
100892791 TTTTAATTTC
*
100892801 TTTAAAAGATATTTTTAAAATTGTTATAAAT
1 TTTAAAA-ATATTATTAAAATT-TTATAAAT
100892832 TTTAAAAATATTATTAAAA-TTTATAAA
1 TTTAAAAATATTATTAAAATTTTATAAA
100892859 AATCATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 1 0.04
30 11 0.42
31 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTAAAAATATTATTAAAATTTTATAAAT
Found at i:100892849 original size:19 final size:19
Alignment explanation
Indices: 100892813--100892870 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 19
100892803 TAAAAGATAT
* *
100892813 TTTTAAAATTGTTAT-AAA
1 TTTTAAAAATATTATAAAA
100892831 TTTTAAAAATATTATTAAAA
1 TTTTAAAAATATTA-TAAAA
100892851 TTTATAAAAATCATT-TAAAA
1 TTT-TAAAAAT-ATTATAAAA
100892871 GTTAAGTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.35
19 1 0.03
20 11 0.32
21 7 0.21
22 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATTATAAAA
Found at i:100893426 original size:29 final size:28
Alignment explanation
Indices: 100893371--100893428 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
100893361 AGAAAATGTT
*
100893371 AGTTGAAGAACTCAATTATGTATAAAAA
1 AGTTGAAGAACTCAATTATGTAAAAAAA
*
100893399 AGTTGCAAGAACTTAATTGAT-TAAAAAAA
1 AGTTG-AAGAACTCAATT-ATGTAAAAAAA
100893428 A
1 A
100893429 AACTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 19 0.73
30 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (28 bp):
AGTTGAAGAACTCAATTATGTAAAAAAA
Found at i:100895883 original size:4 final size:4
Alignment explanation
Indices: 100895866--100895938 Score: 60
Period size: 4 Copynumber: 18.5 Consensus size: 4
100895856 TAAAAGCTGC
* ** *
100895866 TGTA TGTT TGTA TGTA TGTA TCCA TGTA TGTA TGTA TATA TGTA TG--
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
100895912 TGTA TGTG TGTG TGTG TGTA TTGTA TG
1 TGTA TGTA TGTA TGTA TGTA -TGTA TG
100895939 CGGAGATGTC
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.04
4 50 0.89
5 4 0.07
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:100903080 original size:42 final size:42
Alignment explanation
Indices: 100903028--100903237 Score: 131
Period size: 42 Copynumber: 5.0 Consensus size: 42
100903018 GTGCCATTGG
* *
100903028 ATAAATCGAAGCAATCATACTGATACATAAGTGCATCATCGA
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATCGA
** * * * * * * *
100903070 ATTTACCGAAGCAAAT-AAACTAACACACGAGGTGCATAATTGG
1 ATAAACCGAAGC-AATCATACTGACACA-TAAGTGCATCATCGA
* * *
100903113 ATAAACCGAAGTAATCATACTGACACATAAGTGCATAATTGGA
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCA-TCGA
* * * * * *
100903156 AGT--ACTGAAGTAAAT-ATATTGACACACGAGGTGCATCATTGA
1 A-TAAACCGAAG-CAATCATACTGACACA-TAAGTGCATCATCGA
* * *
100903198 ATAAACTGAAGCAATCATACTGATACATATGTGCATCATC
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATC
100903238 AGATAGATTG
Statistics
Matches: 125, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 62 0.50
43 61 0.49
44 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (42 bp):
ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATCGA
Found at i:100903121 original size:43 final size:43
Alignment explanation
Indices: 100903074--100903220 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
100903064 CATCGAATTT
* *
100903074 ACCGAAGCAAATAAACTAACACACGAGGTGCATAATTGGATAA
1 ACCGAAGCAAATATACTGACACACGAGGTGCATAATTGGATAA
* * * *
100903117 ACCGAAG-TAATCATACTGACACA-TAAGTGCATAATTGGA-AGT
1 ACCGAAGCAAAT-ATACTGACACACGAGGTGCATAATTGGATA-A
* * * * *
100903159 ACTGAAGTAAATATATTGACACACGAGGTGCATCATTGAATAA
1 ACCGAAGCAAATATACTGACACACGAGGTGCATAATTGGATAA
*
100903202 ACTGAAGC-AATCATACTGA
1 ACCGAAGCAAAT-ATACTGA
100903221 TACATATGTG
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 36 0.44
43 44 0.54
44 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (43 bp):
ACCGAAGCAAATATACTGACACACGAGGTGCATAATTGGATAA
Found at i:100903129 original size:85 final size:84
Alignment explanation
Indices: 100903023--100903237 Score: 277
Period size: 85 Copynumber: 2.5 Consensus size: 84
100903013 ACATAGTGCC
* *
100903023 ATTGGATAAATCGAAGCAATCATACTGATACATAAGTGCATCATCGAATTTACCGAAGCAAATAA
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATCGAA-GTACCGAAGCAAATAA
100903088 ACTAACACACGAGGTGCATA
65 ACTAACACACGAGGTGCATA
* * * * * * *
100903108 ATTGGATAAACCGAAGTAATCATACTGACACATAAGTGCATAATTGGAAGTACTGAAGTAAATAT
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCA-TCGAAGTACCGAAGCAAATAA
* * *
100903173 ATTGACACACGAGGTGCATC
65 ACTAACACACGAGGTGCATA
* * *
100903193 ATTGAATAAACTGAAGCAATCATACTGATACATATGTGCATCATC
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATC
100903238 AGATAGATTG
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 105 0.95
86 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (84 bp):
ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATCGAAGTACCGAAGCAAATAAA
CTAACACACGAGGTGCATA
Found at i:100903346 original size:7 final size:7
Alignment explanation
Indices: 100903336--100903365 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
100903326 ATTCATCGTG
100903336 AATTCGC
1 AATTCGC
100903343 AATTCGC
1 AATTCGC
100903350 AATTCGC
1 AATTCGC
100903357 AATTC-C
1 AATTCGC
100903363 AAT
1 AAT
100903366 ACAACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (7 bp):
AATTCGC
Found at i:100904635 original size:39 final size:39
Alignment explanation
Indices: 100904581--100904706 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
100904571 TTTAGTGATG
100904581 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
100904620 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
100904659 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
100904698 TATGTCCGG
1 TATATCCGG
100904707 GCTAAAGTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:100904733 original size:78 final size:78
Alignment explanation
Indices: 100904581--100904744 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
100904571 TTTAGTGATG
* * * ** *
100904581 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCACGC
*
100904646 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
100904659 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCACG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCACG
*
100904723 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
100904737 TATA-CCGG
1 TATATCCGG
100904745 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 9 0.12
78 65 0.88
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCACGC
TATGAGCTGGAAT
Found at i:100909152 original size:22 final size:21
Alignment explanation
Indices: 100909113--100909156 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
100909103 AAATATGATG
100909113 TTGATTATGTCATAATTATTA
1 TTGATTATGTCATAATTATTA
* *
100909134 TTGATTAATGTTATTATTATTA
1 TTGATT-ATGTCATAATTATTA
100909156 T
1 T
100909157 AGTTGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
TTGATTATGTCATAATTATTA
Found at i:100912212 original size:2 final size:2
Alignment explanation
Indices: 100912207--100912251 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
100912197 GATTTTTTAA
*
100912207 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
100912249 TC T
1 TC T
100912252 TCGGTTGGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:100913099 original size:15 final size:15
Alignment explanation
Indices: 100913081--100913132 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
100913071 AGAGGAAGAG
*
100913081 GAGGAAGTGGAAGTT
1 GAGGAAGTGGAAGTA
* * *
100913096 GAGGAAGAGGTAGAA
1 GAGGAAGTGGAAGTA
100913111 GAGGAAGTGGAAGTA
1 GAGGAAGTGGAAGTA
*
100913126 GAAGAAG
1 GAGGAAG
100913133 AAGAGGACGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.46, T:0.12
Consensus pattern (15 bp):
GAGGAAGTGGAAGTA
Found at i:100913104 original size:24 final size:24
Alignment explanation
Indices: 100913072--100913118 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
100913062 TGAAGAAATA
*
100913072 GAGGAAGAGG-AGGAAGTGGAAGTT
1 GAGGAAGAGGTA-GAAGAGGAAGTT
100913096 GAGGAAGAGGTAGAAGAGGAAGT
1 GAGGAAGAGGTAGAAGAGGAAGT
100913119 GGAAGTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (24 bp):
GAGGAAGAGGTAGAAGAGGAAGTT
Found at i:100913115 original size:30 final size:30
Alignment explanation
Indices: 100913071--100913133 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
100913061 ATGAAGAAAT
* * *
100913071 AGAGGAAGAGGAGGAAGTGGAAGTTGAGGA
1 AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
*
100913101 AGAGGTAGAAGAGGAAGTGGAAGTAGAAGA
1 AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
100913131 AGA
1 AGA
100913134 AGAGGACGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (30 bp):
AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
Found at i:100922477 original size:166 final size:166
Alignment explanation
Indices: 100922203--100922701 Score: 944
Period size: 166 Copynumber: 3.0 Consensus size: 166
100922193 TCCTATTTAA
*
100922203 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCATCATAATTAAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
100922268 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
*
100922333 GAAAACATTGATCACACAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
*
100922369 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTGAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
*
100922434 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
100922499 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
*
100922535 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAAGTAGCAAATAACACATGCACCATAATTAAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
100922600 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
*
100922665 GAAAACATTGATCAAAAAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
100922701 G
1 G
100922702 TTAGAAGAAT
Statistics
Matches: 325, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 325 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (166 bp):
GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
Found at i:100925011 original size:27 final size:27
Alignment explanation
Indices: 100924973--100925026 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
100924963 ACCTTCATGC
100924973 CTAGTCATTTTATTGGGAACATAATGG
1 CTAGTCATTTTATTGGGAACATAATGG
100925000 CTAGTCATTTTATTGGGAACATAATGG
1 CTAGTCATTTTATTGGGAACATAATGG
100925027 ATAACAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (27 bp):
CTAGTCATTTTATTGGGAACATAATGG
Found at i:100926664 original size:16 final size:16
Alignment explanation
Indices: 100926623--100926664 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
100926613 TATAAAACAA
100926623 ATTTAAAAATTTATTT
1 ATTTAAAAATTTATTT
* *
100926639 AATTGAAAATTTATTT
1 ATTTAAAAATTTATTT
100926655 -TTTAAGAAAT
1 ATTTAA-AAAT
100926665 ACTTCGAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTTAAAAATTTATTT
Found at i:100927800 original size:30 final size:30
Alignment explanation
Indices: 100927764--100927832 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
100927754 GCGGTTTTAG
*
100927764 TATTTTGGCTATAACTTGATATACAAACAT
1 TATTTTGGCCATAACTTGATATACAAACAT
100927794 TATTTTGGCCATAACTTGATATACAAACAT
1 TATTTTGGCCATAACTTGATATACAAACAT
100927824 TCATTTTGG
1 T-ATTTTGG
100927833 ACCCACAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (30 bp):
TATTTTGGCCATAACTTGATATACAAACAT
Found at i:100929237 original size:20 final size:19
Alignment explanation
Indices: 100929195--100929237 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
100929185 TTTCCATTTT
* **
100929195 TTTTCCTTCTTTTTCCCGG
1 TTTTCCTTCTTCTTCCCAA
100929214 TTTTCCTTTCTTCTTCCCAA
1 TTTTCC-TTCTTCTTCCCAA
100929234 TTTT
1 TTTT
100929238 ATTCTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.05, C:0.30, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTCCTTCTTCTTCCCAA
Found at i:100930165 original size:20 final size:20
Alignment explanation
Indices: 100930126--100930177 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
100930116 GTTCATTCGG
* * *
100930126 GGGAAGGAAAAAAGGGAAATT
1 GGGAA-GAAGAAAGGAAAATC
100930147 GGGAAGAAGAAAGGAAAATC
1 GGGAAGAAGAAAGGAAAATC
*
100930167 GGGAAAAAGAA
1 GGGAAGAAGAA
100930178 GAAGAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.06
Consensus pattern (20 bp):
GGGAAGAAGAAAGGAAAATC
Found at i:100930778 original size:79 final size:78
Alignment explanation
Indices: 100930606--100930811 Score: 323
Period size: 79 Copynumber: 2.7 Consensus size: 78
100930596 GGAAATTTTA
*
100930606 TGATAATTATAATTATTAATT-AAAATTTTGATATAAAAAAAGAA---GTGCTAAATCATAAAAC
1 TGATAATTATAATTATTAATTAAAAAATTTGATAT-AAAAAAGAAGTTGTGCTAAATCATAAAAC
*
100930667 ATCAGAAAACATTG
65 ATCAGAAAAAATTG
100930681 TGATAATTATAATTATTAATTAAAAAATTTGATATAAAAAAGAAGTTGTGCTAAATCATAAAACA
1 TGATAATTATAATTATTAATTAAAAAATTTGATATAAAAAAGAAGTTGTGCTAAATCATAAAACA
*
100930746 TCGGAAAAAAATTG
66 TCAG-AAAAAATTG
100930760 TGATAATTATAATTATTAATTAAAAACA-TTGATATAAAAAAGAAGTTGTGCT
1 TGATAATTATAATTATTAATTAAAAA-ATTTGATATAAAAAAGAAGTTGTGCT
100930812 CTTTTTATTG
Statistics
Matches: 122, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
75 30 0.25
76 12 0.10
78 21 0.17
79 58 0.48
80 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (78 bp):
TGATAATTATAATTATTAATTAAAAAATTTGATATAAAAAAGAAGTTGTGCTAAATCATAAAACA
TCAGAAAAAATTG
Found at i:100932672 original size:7 final size:8
Alignment explanation
Indices: 100932659--100932683 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100932649 TAATTTAATT
100932659 TTTTTTTA
1 TTTTTTTA
100932667 TTTTTTTA
1 TTTTTTTA
100932675 TTTTTTTA
1 TTTTTTTA
100932683 T
1 T
100932684 AATCATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:100943860 original size:9 final size:9
Alignment explanation
Indices: 100943846--100943910 Score: 67
Period size: 9 Copynumber: 6.7 Consensus size: 9
100943836 TTTCTCAACA
100943846 AAAAAAATT
1 AAAAAAATT
100943855 AAAAAAATT
1 AAAAAAATT
100943864 AAAAAAATTT
1 AAAAAAA-TT
100943874 AAAACAAAATT
1 -AAA-AAAATT
*
100943885 AAAAATATAT
1 AAAAAAAT-T
*
100943895 AAAGAAAGTT
1 AAA-AAAATT
100943905 AAAAAA
1 AAAAAA
100943911 TTTCTAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 23 0.48
10 13 0.27
11 8 0.17
12 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAAAATT
Found at i:100943882 original size:12 final size:11
Alignment explanation
Indices: 100943845--100943888 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
100943835 TTTTCTCAAC
100943845 AAAA-AAAATT
1 AAAACAAAATT
100943855 -AAA-AAAATT
1 AAAACAAAATT
*
100943864 AAAA-AAATTT
1 AAAACAAAATT
100943874 AAAACAAAATT
1 AAAACAAAATT
100943885 AAAA
1 AAAA
100943889 ATATATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 9 0.30
10 12 0.40
11 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAACAAAATT
Found at i:100943897 original size:21 final size:21
Alignment explanation
Indices: 100943845--100943910 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 21
100943835 TTTTCTCAAC
*
100943845 AAAAAAA-ATTAAA-AAAATT
1 AAAAAAATATAAAACAAAATT
*
100943864 AAAAAAATTTAAAACAAAATT
1 AAAAAAATATAAAACAAAATT
* * *
100943885 AAAAATATAT-AAAGAAAGTT
1 AAAAAAATATAAAACAAAATT
100943905 AAAAAA
1 AAAAAA
100943911 TTTCTAGAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 7 0.18
20 17 0.45
21 14 0.37
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (21 bp):
AAAAAAATATAAAACAAAATT
Found at i:100950034 original size:3 final size:3
Alignment explanation
Indices: 100950028--100950055 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100950018 TACTAGTAGT
100950028 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
100950056 AAGCTTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:100951630 original size:3 final size:3
Alignment explanation
Indices: 100951611--100952039 Score: 81
Period size: 3 Copynumber: 142.3 Consensus size: 3
100951601 AATGTAAGAG
* * * * *
100951611 AAT AAT AA- AAG ATT AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
100951658 AAT AAT AAT AGCT AAGT AGGA- AAT AAT AAC AGT ACATT AAT AAG ACA-
1 AAT AAT AAT A-AT AA-T A--AT AAT AAT AAT AAT A-A-T AAT AAT A-AT
* * * * * * *
100951705 AAT AA- ATAT AAT AAT AGT GAT AGT ACT AA- AGAA AAA AAGT ATT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AA-T AAT AAT
* * * *
100951751 AAT AGT AAT AA- ATAT AAT AGT AAT AAAT AGAA AAT AAT AGT ACATT
1 AAT AAT AAT AAT A-AT AAT AAT AAT -AAT A-AT AAT AAT AAT A-A-T
*
100951797 AAT AAT AAT AAT AAT ATAT AA- AA- AAT AGGA- AAT AAT AAT -AT GAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
** * * * * *
100951841 AA- AA- AAT AAT -AT GTT AAT AAA AAT AAC AGT AGT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
100951886 AA- AGT AAT AGT AAT AAA AAT AAA AAT AAA AAT AAT AGT AAT AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
100951932 ATT AAT AAG AAT GAT AAT AAT GAA- ACG AGAT TAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
100951977 AA- AAA AAT AGA- CAT AA- AAGA AAT AGT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
100952021 AGT AAT AAT -AT AAAT AAT A
1 AAT AAT AAT AAT -AAT AAT A
100952040 TATGTATGAA
Statistics
Matches: 306, Mismatches: 78, Indels: 84
0.65 0.17 0.18
Matches are distributed among these distances:
2 32 0.10
3 240 0.78
4 28 0.09
5 5 0.02
6 1 0.00
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:100951789 original size:20 final size:20
Alignment explanation
Indices: 100951764--100951902 Score: 61
Period size: 20 Copynumber: 6.7 Consensus size: 20
100951754 AGTAATAAAT
100951764 ATAATAGTAATAAATAGAAA
1 ATAATAGTAATAAATAGAAA
* *
100951784 ATAATAGTACATTAATAATAATA
1 ATAATAGTA-ATAAAT-AGAA-A
* * *
100951807 ATAATATATAAAAAATAGGAA
1 ATAATA-GTAATAAATAGAAA
* * *
100951828 ATAATAAT-AT-GATAAAAA
1 ATAATAGTAATAAATAGAAA
* *
100951846 ATAATATGTTAATAAAAATAACA
1 ATAATA-G-TAATAAATAGAA-A
* *
100951869 GTAGTAGTAAT-AATA-ATAA
1 ATAATAGTAATAAATAGA-AA
100951888 AGTAATAGTAATAAA
1 A-TAATAGTAATAAA
100951903 AATAAAAATA
Statistics
Matches: 87, Mismatches: 20, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
18 11 0.13
19 3 0.03
20 25 0.29
21 20 0.23
22 10 0.11
23 16 0.18
24 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (20 bp):
ATAATAGTAATAAATAGAAA
Found at i:100951822 original size:37 final size:35
Alignment explanation
Indices: 100951748--100951823 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
100951738 AAAAAGTATT
* *
100951748 AATAATAGTAATAAATATAATAGTAATAAATAGAA
1 AATAATAGTAATAAATATAATAATAATAAATAAAA
* *
100951783 AATAATAGTACATTAATAATAATAATAATATATAAAA
1 AATAATAGTA-ATAAAT-ATAATAATAATAAATAAAA
100951820 AATA
1 AATA
100951824 GGAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 10 0.29
36 5 0.14
37 20 0.57
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (35 bp):
AATAATAGTAATAAATATAATAATAATAAATAAAA
Found at i:100951906 original size:20 final size:20
Alignment explanation
Indices: 100951855--100951908 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
100951845 AATAATATGT
*
100951855 TAATAAAAATAACAGTAGTAG
1 TAATAAAAATAA-AGTAATAG
*
100951876 TAATAATAATAAAGTAATAG
1 TAATAAAAATAAAGTAATAG
100951896 TAATAAAAATAAA
1 TAATAAAAATAAA
100951909 AATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
TAATAAAAATAAAGTAATAG
Found at i:100955346 original size:20 final size:20
Alignment explanation
Indices: 100955306--100955346 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100955296 TTTAAAGTAG
**
100955306 AATTAACTAGAAATATGCAA
1 AATTAACTAGAAATAAACAA
*
100955326 AATTAACTAGAATTAAACAA
1 AATTAACTAGAAATAAACAA
100955346 A
1 A
100955347 TAACACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (20 bp):
AATTAACTAGAAATAAACAA
Found at i:100955778 original size:19 final size:18
Alignment explanation
Indices: 100955723--100955771 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
100955713 TATTTTAGAT
*
100955723 TTTTTAAAATTTTTATATA
1 TTTTTAGAATTTTTA-ATA
100955742 TTCTTTAGAATTTTTAATA
1 TT-TTTAGAATTTTTAATA
100955761 TTTTTA-AATTT
1 TTTTTAGAATTT
100955772 CTGTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 4 0.14
19 7 0.25
20 12 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTAGAATTTTTAATA
Found at i:100956642 original size:69 final size:69
Alignment explanation
Indices: 100956556--100956691 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
100956546 TGGTCCGAAA
* * * * *
100956556 TTAAATTCGAATTTTAATAAAAGATTTGATTCCGATTTTAATTCAACTCGATTTGAATATAATTT
1 TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCAACCCGATCTGAATATAATTT
100956621 AAAT
66 AAAT
** **
100956625 TTAAATCCAAATTTTAATAAAAGATTTGATTTTGACTTTAATTCGTCCCGATCTGAATATAATTT
1 TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCAACCCGATCTGAATATAATTT
100956690 AA
66 AA
100956692 TTGTTTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (69 bp):
TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCAACCCGATCTGAATATAATTT
AAAT
Found at i:100959618 original size:19 final size:20
Alignment explanation
Indices: 100959566--100959621 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
100959556 TAAACTATCC
* *
100959566 TGTTGTTGTTTTACTGTTAT
1 TGTTATTGTTTTATTGTTAT
* *
100959586 T-TTATTATTATATTGTTAT
1 TGTTATTGTTTTATTGTTAT
100959605 TGTT-TTGTTTTATTGTT
1 TGTTATTGTTTTATTGTT
100959622 TAGAGATTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 26 0.90
20 3 0.10
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (20 bp):
TGTTATTGTTTTATTGTTAT
Found at i:100964949 original size:3 final size:3
Alignment explanation
Indices: 100964941--100964974 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
100964931 TAAATGGAGT
* *
100964941 TGA TGA TGA TGA TGA TGA TGA TGG TGA CGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
100964975 AGTTGCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:100965471 original size:20 final size:19
Alignment explanation
Indices: 100965446--100965495 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
100965436 AGTACAAAAT
*
100965446 AATTCAAACTAATCTTCAAA
1 AATTCAAAATAAT-TTCAAA
**
100965466 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTCAAA
100965485 AATTCAAAATA
1 AATTCAAAATA
100965496 TTTATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTCAAAATAATTTCAAA
Found at i:100965971 original size:3 final size:3
Alignment explanation
Indices: 100965963--100966008 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
100965953 ACCTATAACC
100965963 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
100966009 GAAACTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:100975114 original size:12 final size:13
Alignment explanation
Indices: 100975093--100975122 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
100975083 AAAACACATT
100975093 AAAAATTTAATAG
1 AAAAATTTAATAG
100975106 AAAAA-TTAATAG
1 AAAAATTTAATAG
100975118 AAAAA
1 AAAAA
100975123 ACCGTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AAAAATTTAATAG
Found at i:100976683 original size:29 final size:30
Alignment explanation
Indices: 100976632--100976688 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
100976622 AGAATTGGAG
* *
100976632 CAAATTAAGATTTCATGTCTAAAATTATCC
1 CAAATTAAGAATTCATCTCTAAAATTATCC
*
100976662 CAAATTAA-AATTCATCTTTAAAATTAT
1 CAAATTAAGAATTCATCTCTAAAATTAT
100976689 ACATTAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.39
Consensus pattern (30 bp):
CAAATTAAGAATTCATCTCTAAAATTATCC
Found at i:100982116 original size:13 final size:14
Alignment explanation
Indices: 100982088--100982115 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100982078 GAAAAATTCG
100982088 ATAAAATTTTTAAA
1 ATAAAATTTTTAAA
100982102 ATAAAATTTTTAAA
1 ATAAAATTTTTAAA
100982116 TTTTGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAAATTTTTAAA
Found at i:100987061 original size:17 final size:18
Alignment explanation
Indices: 100987033--100987072 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
100987023 TTGATTTGAT
100987033 TAAATAAAATAAAATTTA
1 TAAATAAAATAAAATTTA
100987051 TAAAT-AAATAAAATTTA
1 TAAATAAAATAAAATTTA
*
100987068 AAAAT
1 TAAAT
100987073 TAGTACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATAAAATAAAATTTA
Found at i:100989916 original size:29 final size:30
Alignment explanation
Indices: 100989855--100989929 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
100989845 AAAATTATAT
* *
100989855 ATGAATTTTGATTTGTTGTGTAATTTGATAC
1 ATGAATTTTGATTTG-TATGTAATTTGACAC
100989886 ATGAATTTTGATTTG-ATGTAA-TTGCACAC
1 ATGAATTTTGATTTGTATGTAATTTG-ACAC
*
100989915 ATGAAACTTTGATTT
1 ATG-AATTTTGATTT
100989930 TTGATTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.08
29 11 0.28
30 10 0.26
31 15 0.38
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (30 bp):
ATGAATTTTGATTTGTATGTAATTTGACAC
Found at i:100989977 original size:31 final size:32
Alignment explanation
Indices: 100989918--100989977 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
100989908 TGCACACATG
* *
100989918 AAACTTTGATTTTTGATTCAAATGTACACGTC
1 AAACTTTGAATTTTGATTCAAATATACACGTC
*
100989950 AAACTTT-AATTTTGATTCAATTATACAC
1 AAACTTTGAATTTTGATTCAAATATACAC
100989978 ATTTAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (32 bp):
AAACTTTGAATTTTGATTCAAATATACACGTC
Found at i:100990455 original size:18 final size:20
Alignment explanation
Indices: 100990423--100990461 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
100990413 ATAAAATTCT
*
100990423 ATTTTTTAAAGAAAT-ATAA
1 ATTTGTTAAAGAAATCATAA
100990442 ATTTGTTAAA-AAATCATAA
1 ATTTGTTAAAGAAATCATAA
100990461 A
1 A
100990462 AATTATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTTGTTAAAGAAATCATAA
Found at i:100990796 original size:15 final size:15
Alignment explanation
Indices: 100990776--100990804 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100990766 GATTCAAATT
100990776 TAAATATAAAATATA
1 TAAATATAAAATATA
100990791 TAAATATAAAATAT
1 TAAATATAAAATAT
100990805 TTTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAATATAAAATATA
Found at i:101001230 original size:24 final size:24
Alignment explanation
Indices: 101001198--101001246 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
101001188 CACCAATTCG
101001198 TTCTATCCAACTGCTATATTTTAT
1 TTCTATCCAACTGCTATATTTTAT
*
101001222 TTCTATCCAACTGCTATGTTTTAT
1 TTCTATCCAACTGCTATATTTTAT
101001246 T
1 T
101001247 ATATTATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.51
Consensus pattern (24 bp):
TTCTATCCAACTGCTATATTTTAT
Found at i:101001911 original size:31 final size:32
Alignment explanation
Indices: 101001876--101001935 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
101001866 TCAAACTAAA
*
101001876 AAGCCAAGTTTAGGTACCAAATT-GAACCTTC
1 AAGCCAAGTTTAAGTACCAAATTGGAACCTTC
*
101001907 AAGCCAAGTTTAAGTACCTAATTGGAACC
1 AAGCCAAGTTTAAGTACCAAATTGGAACC
101001936 AAAAAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (32 bp):
AAGCCAAGTTTAAGTACCAAATTGGAACCTTC
Found at i:101006443 original size:18 final size:16
Alignment explanation
Indices: 101006420--101006464 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
101006410 CTAATCAAAT
101006420 AAATTATAAAAATTTACA
1 AAATTATAAAAA-TTA-A
*
101006438 AAATTAGAAAAATTAA
1 AAATTATAAAAATTAA
*
101006454 AAATTTTAAAA
1 AAATTATAAAA
101006465 TCGGATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 3 0.12
18 11 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATTATAAAAATTAA
Found at i:101007225 original size:14 final size:14
Alignment explanation
Indices: 101007200--101007234 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
101007190 AGGGTCCGTT
101007200 TGTTTATATGTAAAA
1 TGTTT-TATGTAAAA
101007215 TGTTTTATGTAAAA
1 TGTTTTATGTAAAA
*
101007229 TATTTT
1 TGTTTT
101007235 CTATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (14 bp):
TGTTTTATGTAAAA
Found at i:101007579 original size:24 final size:23
Alignment explanation
Indices: 101007521--101007582 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
101007511 ATTTAATCAT
101007521 ATAATAAATTATTAATATAATTTA
1 ATAATAAATT-TTAATATAATTTA
* * *
101007545 TTAA-AATATTTTAATTTTATTTTA
1 ATAATAA-ATTTTAA-TATAATTTA
101007569 ATAATAAATTTTAA
1 ATAATAAATTTTAA
101007583 AAATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 6 0.19
24 23 0.74
25 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATAAATTTTAATATAATTTA
Found at i:101007589 original size:16 final size:16
Alignment explanation
Indices: 101007567--101007603 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101007557 AATTTTATTT
101007567 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
101007584 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
101007599 TAATA
1 TAATA
101007604 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:101007650 original size:15 final size:15
Alignment explanation
Indices: 101007562--101007686 Score: 61
Period size: 13 Copynumber: 8.4 Consensus size: 15
101007552 ATTTTAATTT
101007562 TATTTTAATAAT-AA
1 TATTTTAATAATAAA
*
101007576 -ATTTTAAAAAT-AA
1 TATTTTAATAATAAA
101007589 TAATTTT-A-AAT-AA
1 T-ATTTTAATAATAAA
*
101007602 TATTATTCACATGA-AAA
1 TATT-TT-A-ATAATAAA
* *
101007619 TA-TTCAAT-ATTAA
1 TATTTTAATAATAAA
101007632 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
101007647 TATTTATTACAATTATAAA
1 TA-TT-TT--AATAATAAA
*
101007666 TATATTAATAATAAA
1 TATTTTAATAATAAA
101007681 TATTTT
1 TATTTT
101007687 GTAGTATAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
12 4 0.05
13 26 0.30
14 7 0.08
15 25 0.29
16 4 0.05
17 9 0.10
18 1 0.01
19 10 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:101008905 original size:25 final size:25
Alignment explanation
Indices: 101008877--101008925 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
101008867 ACAATGATGA
101008877 ATGTATATAATTTGCAGTGCTCCTT
1 ATGTATATAATTTGCAGTGCTCCTT
* *
101008902 ATGTATATATTTTGCAGTTCTCCT
1 ATGTATATAATTTGCAGTGCTCCT
101008926 ATCAGTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.47
Consensus pattern (25 bp):
ATGTATATAATTTGCAGTGCTCCTT
Found at i:101010461 original size:22 final size:23
Alignment explanation
Indices: 101010425--101010467 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
101010415 CTTCTAATTC
*
101010425 AACCATGTAGAAACT-ACAAAAG
1 AACCATCTAGAAACTGACAAAAG
*
101010447 AACCATCTAGGAACTGACAAA
1 AACCATCTAGAAACTGACAAA
101010468 CAATCGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (23 bp):
AACCATCTAGAAACTGACAAAAG
Found at i:101012924 original size:16 final size:16
Alignment explanation
Indices: 101012903--101012933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101012893 CTCACCCCAA
*
101012903 TAAATTATTTTTAATT
1 TAAATTAATTTTAATT
101012919 TAAATTAATTTTAAT
1 TAAATTAATTTTAAT
101012934 AGAGTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAATTAATTTTAATT
Found at i:101015243 original size:154 final size:156
Alignment explanation
Indices: 101014759--101015474 Score: 678
Period size: 154 Copynumber: 4.6 Consensus size: 156
101014749 ATCAGAGTAA
* * * **
101014759 CTTGATCATGAATTATATCTAATATTGACGCAAATAGAAAACAATGAAGAAGGTAAAATCCTATT
1 CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
* * * * *
101014824 TCAAGCCCTCAAACGAA-CTTATCTTCTATCTTATGTGGACCCCTGATTCA-GGTACGTGTTTCT
66 TCAAGTCCTCAAAC-AAGTTTATCTTCTATCTTAAGTGGACCCATGATT-AGGGTACATGTTTCT
* *
101014887 ACTCAATAAAA-TGAACCAT-TGGATAG
129 ACTCAATAAAACAGAACCATCCGGATAG
* * * * * * * * *
101014913 CTTGATGATGAA-TAAAACTAATAGTCAAGTAAAAAGATAACAATGAAGAAGGAAAAAGCCTATT
1 CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
* * * *
101014977 TCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACTCTTGATTAGGGTACATGATTG
66 TCAAGTCCTCAAACAAGTTTA---TCTTCTATCTTAAGTGGACCCATGATTAGGGTACATGTTTC
* *
101015042 TACTCAATAAAACAAAATCATCC-GACTAG
128 TACTCAATAAAACAGAACCATCCGGA-TAG
* * * * * *
101015071 CTTGATCATTAATGAAATCAAATATTCATGCAAATAGGTGACGATGAAGAAGGTAAAATCCCATT
1 CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
* * * * * *
101015136 TCAAGCCCTCAAACAAGTTTATC-T-TATCTTACGTGGACCCATAATTCA-AGTCCGTGTTTCTA
66 TCAAGTCCTCAAACAAGTTTATCTTCTATCTTAAGTGGACCCATGATT-AGGGTACATGTTTCTA
101015198 CTCAATAAAACAGAACCATCCGGATAG
130 CTCAATAAAACAGAACCATCCGGATAG
* * ** * * * *
101015225 CTTGATAATGAATTAAATCTAATAGTCATGCGGAGAGATGACAATGAAAAAGGGAAAAGCCTATT
1 CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
* * **** *
101015290 GCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGATTTGTGATTAGGGTACATGTTTG
66 TCAAGTCCTCAAACAAGTTTA---TCTTCTATCTTAAGTGGACCCATGATTAGGGTACATGTTTC
* * * **
101015355 TACTCGATAAAACGGAACCATGCAAATAG
128 TACTCAATAAAACAGAACCATCCGGATAG
* * * * * *
101015384 CTAGATCATGAA-TAAATCAAATATTCATGCAAATAGGTGATAATGAAGAAGGTAAATTCCCATT
1 CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
*
101015448 TCACGTCCTCAAACAAGTTTATCTTCT
66 TCAAGTCCTCAAACAAGTTTATCTTCT
101015475 TCTATCTTAC
Statistics
Matches: 447, Mismatches: 98, Indels: 33
0.77 0.17 0.06
Matches are distributed among these distances:
152 2 0.00
153 58 0.13
154 130 0.29
155 11 0.02
156 47 0.11
157 9 0.02
158 74 0.17
159 116 0.26
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (156 bp):
CTTGATCATGAATTAAATCTAATATTCATGCAAATAGATGACAATGAAGAAGGTAAAATCCTATT
TCAAGTCCTCAAACAAGTTTATCTTCTATCTTAAGTGGACCCATGATTAGGGTACATGTTTCTAC
TCAATAAAACAGAACCATCCGGATAG
Found at i:101015345 original size:313 final size:309
Alignment explanation
Indices: 101014762--101015472 Score: 931
Period size: 312 Copynumber: 2.3 Consensus size: 309
101014752 AGAGTAACTT
* * * * *** *
101014762 GATCATGAATTATATCTAATATTGACGCAAATAGAAAACAATGAAGAAGGTAAAATCCTATTTCA
1 GATCATGAA-TAAATCAAATATTCATGCAAATAGGTGACAATGAAGAAGGTAAAATCCCATTTCA
* * * * *
101014827 AGCCCTCAAACGAA-CTTATCTTCTATCTTATGTGGACCCCTGATTCAGGTACGTGTTTCTACTC
65 AGCCCTCAAAC-AAGTTTATC-T-TATCTTACGTGGACCCATAATTCAAGTACGTGTTTCTACTC
* * * *
101014891 AATAAAATGAACCATTGGATAGCTTGATGATGAATAAAACTAATAGTCAAGTAAAAAGATAACAA
127 AATAAAAAGAACCATCGGATAGCTTGATAATGAATAAAACTAATAGTCAAGCAAAAAGATAACAA
* * *
101014956 TGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACT
192 TGAAAAAGGAAAAAGCCTATTGCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGACT
* * * *
101015021 CTTGATTAGGGTACATGATTGTACTCAATAAAACAAAATCATCCGACTAGCTT
257 CTTGATTAGGGTACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
* *
101015074 GATCATTAATGAAATCAAATATTCATGCAAATAGGTGACGATGAAGAAGGTAAAATCCCATTTCA
1 GATCATGAAT-AAATCAAATATTCATGCAAATAGGTGACAATGAAGAAGGTAAAATCCCATTTCA
*
101015139 AGCCCTCAAACAAGTTTATCTTATCTTACGTGGACCCATAATTCAAGTCCGTGTTTCTACTCAAT
65 AGCCCTCAAACAAGTTTATCTTATCTTACGTGGACCCATAATTCAAGTACGTGTTTCTACTCAAT
* * ** * *
101015204 AAAACAGAACCATCCGGATAGCTTGATAATGAATTAAATCTAATAGTCATGCGGAGAGATGACAA
130 AAAA-AGAACCAT-CGGATAGCTTGATAATGAA-TAAAACTAATAGTCAAGCAAAAAGATAACAA
*
101015269 TGAAAAAGGGAAAAGCCTATTGCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGA-T
192 TGAAAAAGGAAAAAGCCTATTGCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGACT
* * * ** *
101015333 TTGTGATTAGGGTACATGTTTGTACTCGATAAAACGGAACCATGCAAATAGCTA
257 CT-TGATTAGGGTACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
* * *
101015387 GATCATGAATAAATCAAATATTCATGCAAATAGGTGATAATGAAGAAGGTAAATTCCCATTTCAC
1 GATCATGAATAAATCAAATATTCATGCAAATAGGTGACAATGAAGAAGGTAAAATCCCATTTCAA
*
101015452 GTCCTCAAACAAGTTTATCTT
66 GCCCTCAAACAAGTTTATCTT
101015473 CTTCTATCTT
Statistics
Matches: 347, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
310 43 0.12
311 11 0.03
312 159 0.46
313 134 0.39
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (309 bp):
GATCATGAATAAATCAAATATTCATGCAAATAGGTGACAATGAAGAAGGTAAAATCCCATTTCAA
GCCCTCAAACAAGTTTATCTTATCTTACGTGGACCCATAATTCAAGTACGTGTTTCTACTCAATA
AAAAGAACCATCGGATAGCTTGATAATGAATAAAACTAATAGTCAAGCAAAAAGATAACAATGAA
AAAGGAAAAAGCCTATTGCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGACTCTTG
ATTAGGGTACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
Found at i:101024579 original size:29 final size:30
Alignment explanation
Indices: 101024544--101024605 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
101024534 CTTAACAAGC
*
101024544 CAATGACTTAAAT-AAACTTTCGAATAGTT
1 CAATGACTTAAATAAAACTTTCGAATAATT
*
101024573 CAATGACTTAAATGAAAATTTTCGAATAATT
1 CAATGACTTAAAT-AAAACTTTCGAATAATT
101024604 CA
1 CA
101024606 GTGATCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
31 16 0.55
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (30 bp):
CAATGACTTAAATAAAACTTTCGAATAATT
Found at i:101026630 original size:3 final size:3
Alignment explanation
Indices: 101026617--101026666 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
101026607 CACCGAGTCG
* * * * *
101026617 GTT GCT GTT GTT GTT GTT GTT GTT GCT GTT GCT GTT GCT GTT GCT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
101026665 GT
1 GT
101026667 GGTTTCTGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.10, G:0.34, T:0.56
Consensus pattern (3 bp):
GTT
Found at i:101026637 original size:12 final size:12
Alignment explanation
Indices: 101026622--101026665 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
101026612 AGTCGGTTGC
*
101026622 TGTTGTTGTTGT
1 TGTTGTTGCTGT
101026634 TGTTGTTGCTGT
1 TGTTGTTGCTGT
*
101026646 TGCTGTTGCTGT
1 TGTTGTTGCTGT
*
101026658 TGCTGTTG
1 TGTTGTTG
101026666 TGGTTTCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.00, C:0.09, G:0.34, T:0.57
Consensus pattern (12 bp):
TGTTGTTGCTGT
Found at i:101026676 original size:18 final size:18
Alignment explanation
Indices: 101026625--101026665 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
101026615 CGGTTGCTGT
* *
101026625 TGTTGTTGTTGTTGTTGC
1 TGTTGCTGTTGCTGTTGC
101026643 TGTTGCTGTTGCTGTTGC
1 TGTTGCTGTTGCTGTTGC
101026661 TGTTG
1 TGTTG
101026666 TGGTTTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.34, T:0.56
Consensus pattern (18 bp):
TGTTGCTGTTGCTGTTGC
Found at i:101028409 original size:17 final size:18
Alignment explanation
Indices: 101028384--101028438 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
101028374 TTATATATTA
101028384 TATTAAATTAACACATTT
1 TATTAAATTAACACATTT
**
101028402 TATT-AATT-ACAGTTTT
1 TATTAAATTAACACATTT
101028418 TATTAAATTAA-ACATGTT
1 TATTAAATTAACACAT-TT
101028436 TAT
1 TAT
101028439 CCAAACTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 10 0.33
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (18 bp):
TATTAAATTAACACATTT
Found at i:101032382 original size:48 final size:47
Alignment explanation
Indices: 101032264--101032431 Score: 194
Period size: 47 Copynumber: 3.5 Consensus size: 47
101032254 AATCGATAAG
* * ** *
101032264 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAGA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-TCTCACTAAAA
*
101032312 -ACCTATACCATGGTCCGTAGCCAAATCAAGGTAACTCCTCACTAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-CTCACTAAAA
*
101032359 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCACTCTCACCTAAAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA--ACTCTCA-CTAAAA
* * *
101032409 TGCCTATATCATGGCCCGAAGCC
1 TACCTATACCATGGCCCGTAGCC
101032432 TACATAATAG
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
46 1 0.01
47 39 0.38
48 32 0.31
49 4 0.04
50 28 0.27
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTCACTAAAA
Found at i:101043007 original size:49 final size:49
Alignment explanation
Indices: 101042951--101043046 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
101042941 TCAATTAAGT
*
101042951 AAAAAATAAATAAATTTAAGTATCAACTAGATATTTTTAGACAAATTCA
1 AAAAAATAAATAAATTTAAGTATCAACTAGATACTTTTAGACAAATTCA
101043000 AAAAAATAAATAAATTTAAGTATCAACTAGATACTTTTAGACAAATT
1 AAAAAATAAATAAATTTAAGTATCAACTAGATACTTTTAGACAAATT
101043047 TAGAGGCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.32
Consensus pattern (49 bp):
AAAAAATAAATAAATTTAAGTATCAACTAGATACTTTTAGACAAATTCA
Found at i:101043506 original size:66 final size:66
Alignment explanation
Indices: 101043423--101043553 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
101043413 CATTTTTTCA
* *
101043423 ACTATGATTTAGATTCTAATTTGAT-TATAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTAT
1 ACTATGATTCAGATTCTAATTTGATCT-CAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTAT
101043487 CT
65 CT
* *
101043489 ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAATCGAGTCTTTAATGTATC
1 ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTATC
101043554 AATATCTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (66 bp):
ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTATC
T
Found at i:101047366 original size:94 final size:93
Alignment explanation
Indices: 101047206--101047393 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 93
101047196 TATAAGCTAC
*
101047206 AGAACAAGATTAAAAGGGAGGCTGCGAATCAAAGGGGAAACAACTAGAAAATTTTGGTGAAGCTG
1 AGAACAAGATTAAAAGGGAGGCTACGAATCAAAGGGGAAACAACTAGAAAATTTTGGTGAAGCTG
101047271 ATGTTGTAGAAGACTACAACGATGGTGA
66 ATGTTGTAGAAGACTACAACGATGGTGA
101047299 AGAACAAGATTAAAAGGGAGGCTACGAATCAAAAGGGGAAACAACTAGAAAATTTTGGTGAAGCT
1 AGAACAAGATTAAAAGGGAGGCTACGAATC-AAAGGGGAAACAACTAGAAAATTTTGGTGAAGCT
101047364 GATGTTGTAGAAGACTACAACGATGGTGA
65 GATGTTGTAGAAGACTACAACGATGGTGA
101047393 A
1 A
101047394 CTTCTAGTCG
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 29 0.31
94 64 0.69
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (93 bp):
AGAACAAGATTAAAAGGGAGGCTACGAATCAAAGGGGAAACAACTAGAAAATTTTGGTGAAGCTG
ATGTTGTAGAAGACTACAACGATGGTGA
Found at i:101055978 original size:22 final size:21
Alignment explanation
Indices: 101055953--101055993 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
101055943 CTTGCGTTTG
*
101055953 TTCATTTTTTCACTCTATTTTC
1 TTCATTCTTTCACT-TATTTTC
101055975 TTCATTCTTTCACTTATTT
1 TTCATTCTTTCACTTATTT
101055994 CATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCATTCTTTCACTTATTTTC
Found at i:101057403 original size:26 final size:26
Alignment explanation
Indices: 101057374--101057423 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
101057364 GACCAATTCC
*
101057374 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
101057400 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
101057424 GTCATCCGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:101057406 original size:13 final size:13
Alignment explanation
Indices: 101057354--101057423 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
101057344 TTGTACATAT
*
101057354 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
101057368 AATTCCTATAAAC
1 ATTTCATATAACC
* *
101057381 ATTTCACACAACC
1 ATTTCATATAACC
**
101057394 ATTTTGTATAACC
1 ATTTCATATAACC
*
101057407 AATTCATATAACC
1 ATTTCATATAACC
101057420 ATTT
1 ATTT
101057424 GTCATCCGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:101058082 original size:23 final size:24
Alignment explanation
Indices: 101058051--101058101 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
101058041 AAGTTCAAGC
*
101058051 GAGCACTATCAGGAGGCTCACAAA
1 GAGCACTATCAGGAAGCTCACAAA
* *
101058075 GAGC-CTATCGGGAAGCTCACGAA
1 GAGCACTATCAGGAAGCTCACAAA
101058098 GAGC
1 GAGC
101058102 TTTATTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.25, G:0.29, T:0.12
Consensus pattern (24 bp):
GAGCACTATCAGGAAGCTCACAAA
Found at i:101060216 original size:18 final size:18
Alignment explanation
Indices: 101060168--101060216 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
101060158 ATAATATAAT
101060168 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
101060187 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
101060208 TATTTAATA
1 TATTTAATA
101060217 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:101061932 original size:22 final size:22
Alignment explanation
Indices: 101061886--101061932 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
101061876 TATTAGATAT
**
101061886 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
101061908 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
101061930 TAA
1 TAA
101061933 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:101064292 original size:24 final size:24
Alignment explanation
Indices: 101064219--101064293 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
101064209 TGAATAAGAC
101064219 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
101064243 CATGACG-AGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
101064266 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
101064290 CATG
1 CATG
101064294 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:101064303 original size:93 final size:92
Alignment explanation
Indices: 101064111--101064324 Score: 270
Period size: 93 Copynumber: 2.3 Consensus size: 92
101064101 GCTCTCTGAT
** * * ** *
101064111 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAGATGAAATGAATAAGAACAT
* *
101064176 GGTTGAAAGATACCATGGCAGCGTGAC
66 GGTTGAAAGATACCATGGCAACATGAC
*
101064203 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAAATGAATAAGAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT-AAGATG-AAATGAATAAGAAC
101064267 ATGGTTGAAAGATACCATGGCAACATGAC
64 ATGGTTGAAAGATACCATGGCAACATGAC
* **
101064296 A-GAAAATGAGTAAGACCACAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
101064325 CAATATGGCA
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
92 42 0.40
93 64 0.60
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.20
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAGATGAAATGAATAAGAACAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:101064334 original size:46 final size:46
Alignment explanation
Indices: 101064121--101064324 Score: 268
Period size: 46 Copynumber: 4.4 Consensus size: 46
101064111 ATGAAATGTG
* * * **
101064121 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
* *
101064167 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
101064213 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAA
* *
101064260 TAAGAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
**
101064306 TAAGACCACAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
101064325 CAATATGGCA
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 100 0.70
47 43 0.30
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:101066490 original size:46 final size:46
Alignment explanation
Indices: 101066415--101066596 Score: 242
Period size: 46 Copynumber: 4.0 Consensus size: 46
101066405 TTATCTTCGA
* * * *
101066415 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCGTTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATAT
* *
101066461 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
101066507 CACGTTGCCATGGTATCTTTCAACTATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATAT
* *
101066553 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
101066597 TTCAGAGAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
45 4 0.03
46 115 0.96
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:101066577 original size:92 final size:91
Alignment explanation
Indices: 101066420--101066596 Score: 275
Period size: 92 Copynumber: 1.9 Consensus size: 91
101066410 TTCGACATGA
* *
101066420 TGCCATAGTATCTTTCAACTATGGTCTTACTCGTTTTCTATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACTATGGTCTTACTC-ATTTCTATCAGGTTGCCATGGTATCTTTCAAC
**
101066485 CATGGTCTTATTCATTTCATGTCACGT
65 CATGGTCTTACACATTTCATGTCACGT
*
101066512 TGCCATGGTATCTTTCAACTATGGTCTTACAT-ATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACTATGGTCTTAC-TCATTTC-TATCAGGTTGCCATGGTATCTTTCAA
101066576 CCATGGTCTTACACATTTCAT
64 CCATGGTCTTACACATTTCAT
101066597 TTCAGAGAGC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
91 4 0.05
92 73 0.94
93 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (91 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATGTCACGT
Found at i:101066952 original size:24 final size:23
Alignment explanation
Indices: 101066920--101066968 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
101066910 ATCAGGTAGT
*
101066920 TCACAAAGAACCATATCGTGAAGC
1 TCACAAAGAACC-TATCGGGAAGC
* *
101066944 TCACGAAGAGCCTATCGGGAAGC
1 TCACAAAGAACCTATCGGGAAGC
101066967 TC
1 TC
101066969 CGGATCGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (23 bp):
TCACAAAGAACCTATCGGGAAGC
Found at i:101066965 original size:23 final size:23
Alignment explanation
Indices: 101066933--101067048 Score: 83
Period size: 23 Copynumber: 5.0 Consensus size: 23
101066923 CAAAGAACCA
*
101066933 TATCGTGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* **
101066956 TATCGGGAAGCTC-CGGATCGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
101066978 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* * *
101067004 TCTCGGGAGGCTCACAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
*
101067027 TATCAGGAAGCTCACGAAGAGC
1 TATCGGGAAGCTCACGAAGAGC
101067049 TGTATTTCGG
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
22 6 0.09
23 42 0.62
24 4 0.06
25 14 0.21
26 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.16
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:101070883 original size:17 final size:18
Alignment explanation
Indices: 101070830--101070901 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
101070820 AATCATATCT
101070830 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
101070849 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
101070867 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
101070884 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
101070902 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:101070888 original size:35 final size:37
Alignment explanation
Indices: 101070823--101070901 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
101070813 ATTACAAAAT
101070823 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
101070859 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
101070894 CATATCAT
1 CATATCAT
101070902 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:101070899 original size:14 final size:15
Alignment explanation
Indices: 101070844--101070899 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
101070834 AGATTGTATA
101070844 TCATATCTAAGATTG
1 TCATATCTAAGATTG
101070859 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
101070877 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
101070894 -CATATC
1 TCATATC
101070900 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:101071155 original size:18 final size:18
Alignment explanation
Indices: 101071107--101071155 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
101071097 ATAATATAAT
101071107 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
101071126 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
101071147 TATTTAATA
1 TATTTAATA
101071156 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:101084843 original size:7 final size:7
Alignment explanation
Indices: 101084815--101084866 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
101084805 TCGAAACCCA
101084815 AAAACC-
1 AAAACCT
101084821 AAAACCT
1 AAAACCT
* *
101084828 AATATCT
1 AAAACCT
101084835 AAAACCT
1 AAAACCT
*
101084842 AAAACTT
1 AAAACCT
* *
101084849 GATACCT
1 AAAACCT
101084856 AAAACCT
1 AAAACCT
101084863 AAAA
1 AAAA
101084867 AAAAAACAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (7 bp):
AAAACCT
Found at i:101084845 original size:21 final size:21
Alignment explanation
Indices: 101084815--101084866 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
101084805 TCGAAACCCA
*
101084815 AAAACC-AAAACCTAATATCT
1 AAAACCTAAAACCTAATACCT
* *
101084835 AAAACCTAAAACTTGATACCT
1 AAAACCTAAAACCTAATACCT
101084856 AAAACCTAAAA
1 AAAACCTAAAA
101084867 AAAAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAACCTAAAACCTAATACCT
Found at i:101086888 original size:46 final size:46
Alignment explanation
Indices: 101086707--101086888 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
101086697 TTTGACATGA
* * * * *
101086707 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
101086753 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101086799 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101086845 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101086889 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101089060 original size:11 final size:11
Alignment explanation
Indices: 101089019--101089061 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
101089009 TTATATACTA
* *
101089019 ATAAAATAATA
1 ATAAAATATTT
101089030 ATAAAATATCTT
1 ATAAAATAT-TT
101089042 ATTAAAATATTT
1 A-TAAAATATTT
101089054 ATAAAATA
1 ATAAAATA
101089062 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:101089102 original size:31 final size:30
Alignment explanation
Indices: 101089024--101089102 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
101089014 TACTAATAAA
* *
101089024 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
101089054 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
101089084 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
101089103 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:101091547 original size:25 final size:25
Alignment explanation
Indices: 101091500--101091547 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
101091490 TTCCATGTAC
* ** *
101091500 TCATACTTATTTCATTTATCTATCT
1 TCATAATTATTTCATACAACTATCT
101091525 TCATAATTATTTCATACAACTAT
1 TCATAATTATTTCATACAACTAT
101091548 TTTGTACATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (25 bp):
TCATAATTATTTCATACAACTATCT
Found at i:101091884 original size:46 final size:46
Alignment explanation
Indices: 101091703--101091884 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
101091693 TTTGACATGA
* * * * *
101091703 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
101091749 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101091795 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101091841 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101091885 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101094053 original size:11 final size:11
Alignment explanation
Indices: 101094012--101094054 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
101094002 TTATATACTA
* *
101094012 ATAAAATAATA
1 ATAAAATATTT
101094023 ATAAAATATCTT
1 ATAAAATAT-TT
101094035 ATTAAAATATTT
1 A-TAAAATATTT
101094047 ATAAAATA
1 ATAAAATA
101094055 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:101094095 original size:31 final size:30
Alignment explanation
Indices: 101094017--101094095 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
101094007 TACTAATAAA
* *
101094017 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
101094047 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
101094077 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
101094096 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:101095510 original size:53 final size:53
Alignment explanation
Indices: 101095430--101095533 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
101095420 AGTTAGTTAG
*
101095430 CATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACATCTTTTCTATTAT
1 CATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTATTAT
101095483 CATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTATT
1 CATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTATT
101095534 TTCAGGACAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (53 bp):
CATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTATTAT
Found at i:101102999 original size:15 final size:16
Alignment explanation
Indices: 101102967--101102999 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101102957 TTAATCGTTG
101102967 ATTATTTTAAATTAAA
1 ATTATTTTAAATTAAA
*
101102983 ATTATTTTTAA-TAAA
1 ATTATTTTAAATTAAA
101102998 AT
1 AT
101103000 ACCGGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTTAAATTAAA
Found at i:101108139 original size:34 final size:34
Alignment explanation
Indices: 101108088--101108155 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
101108078 ATTGTGGTCA
* *
101108088 AAAGATAGAAACGGAAAGATTGTAGTCATTTGAT
1 AAAGATAGAAACAGAAAGATTGTAGCCATTTGAT
*
101108122 AAAGGTAGAAACAGAAAGATTGTAGCCATTTGAT
1 AAAGATAGAAACAGAAAGATTGTAGCCATTTGAT
101108156 CAAGTCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (34 bp):
AAAGATAGAAACAGAAAGATTGTAGCCATTTGAT
Found at i:101110270 original size:35 final size:36
Alignment explanation
Indices: 101110231--101110301 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
101110221 TAATATTGCA
101110231 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
101110266 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
101110302 CATATAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:101110306 original size:14 final size:15
Alignment explanation
Indices: 101110233--101110288 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
101110223 ATATTGCATA
101110233 TCATATCTAAGATTG
1 TCATATCTAAGATTG
101110248 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
101110266 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
101110283 -CATATC
1 TCATATC
101110289 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:101110317 original size:17 final size:19
Alignment explanation
Indices: 101110219--101110306 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
101110209 AATCATATCT
*
101110219 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
101110238 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
101110256 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
101110273 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
101110292 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
101110307 AATTGAAGAT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 33 0.51
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:101110750 original size:29 final size:30
Alignment explanation
Indices: 101110703--101110764 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
101110693 AGAGACACCA
* *
101110703 AATCTGTTATCTTCGATCTGCTCCTCGCCT
1 AATCTGCTATCTTCAATCTGCTCCTCGCCT
*
101110733 AATCTGCT-TCTTCAATCTGCTCCTCGTCT
1 AATCTGCTATCTTCAATCTGCTCCTCGCCT
101110762 AAT
1 AAT
101110765 ACAGAGATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.40
Consensus pattern (30 bp):
AATCTGCTATCTTCAATCTGCTCCTCGCCT
Found at i:101110991 original size:78 final size:78
Alignment explanation
Indices: 101110871--101111154 Score: 480
Period size: 78 Copynumber: 3.6 Consensus size: 78
101110861 CGAAGGTTAG
* *
101110871 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTT
1 ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
101110936 CAATGAAGGTCCA
66 CAATGAAGGTCCA
*
101110949 ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
101111014 CAATGAAGGTCCA
66 CAATGAAGGTCCA
*
101111027 ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
101111092 CAATGAAGGT-CA
66 CAATGAAGGTCCA
* * **
101111104 GATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATC
1 -ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
101111155 TATTTCTTCG
Statistics
Matches: 197, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 2 0.01
78 195 0.99
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCCA
Found at i:101119721 original size:22 final size:21
Alignment explanation
Indices: 101119686--101119761 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
101119676 AAAAGGTATC
* *
101119686 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
101119707 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCCAAGAT
* *
101119730 TGCATATCATATCT--AAGAT
1 TACAAATCATATCTCCAAGAT
*
101119749 TGC-AATCATATCT
1 TACAAATCATATCT
101119762 AAGATTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.19
19 8 0.17
21 4 0.09
22 17 0.36
23 9 0.19
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:101119778 original size:35 final size:37
Alignment explanation
Indices: 101119715--101119809 Score: 144
Period size: 35 Copynumber: 2.6 Consensus size: 37
101119705 ATTACAAAAT
101119715 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
101119751 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
101119786 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTG-ATAT
101119810 AATTGAAGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.41
36 19 0.35
37 10 0.19
38 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:101119809 original size:14 final size:15
Alignment explanation
Indices: 101119736--101119791 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
101119726 AGATTGCATA
101119736 TCATATCTAAGATTG
1 TCATATCTAAGATTG
101119751 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
101119769 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
101119786 -CATATC
1 TCATATC
101119792 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:101119820 original size:17 final size:19
Alignment explanation
Indices: 101119722--101119809 Score: 155
Period size: 19 Copynumber: 4.8 Consensus size: 19
101119712 AATCATATCT
101119722 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
101119741 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
101119759 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
101119776 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
101119795 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
101119810 AATTGAAGAT
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.