Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 64
Found at i:7251324 original size:25 final size:24
Alignment explanation
Indices: 7251288--7251358 Score: 115
Period size: 25 Copynumber: 2.9 Consensus size: 24
7251278 AAATCTGTGT
7251288 AAAACTTTTAGTTTTACACAATGA
1 AAAACTTTTAGTTTTACACAATGA
7251312 AAAACTCTTTAGTTTTACACAATGA
1 AAAACT-TTTAGTTTTACACAATGA
*
7251337 AAAATTGTTTAGTTTTACACAA
1 AAAACT-TTTAGTTTTACACAA
7251359 GTTTAAGACC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 6 0.14
25 38 0.86
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (24 bp):
AAAACTTTTAGTTTTACACAATGA
Found at i:7251924 original size:18 final size:18
Alignment explanation
Indices: 7251901--7251941 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
7251891 TTGTCAAATC
7251901 AATGTCGCAATTCACATG
1 AATGTCGCAATTCACATG
7251919 AATGTCGCAATTCACATG
1 AATGTCGCAATTCACATG
7251937 AATGT
1 AATGT
7251942 AGTGATTAGT
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:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (18 bp):
AATGTCGCAATTCACATG
Found at i:7255831 original size:20 final size:20
Alignment explanation
Indices: 7255808--7255852 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7255798 CTTACAGTAT
7255808 CGATACTGCATAAATAATAC
1 CGATACTGCATAAATAATAC
*
7255828 CGATACTGCATGAATAATAC
1 CGATACTGCATAAATAATAC
7255848 CGATA
1 CGATA
7255853 TTGTTCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (20 bp):
CGATACTGCATAAATAATAC
Found at i:7256068 original size:21 final size:22
Alignment explanation
Indices: 7256038--7256078 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7256028 TTAAAAATTA
7256038 TAAAGGAAGTACCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
*
7256060 TAAA-GAAGTACTGATACTC
1 TAAAGGAAGTACCGATACTC
7256079 CCTGTCTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:7257904 original size:19 final size:20
Alignment explanation
Indices: 7257880--7257917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7257870 TGAAAATGAT
*
7257880 TTGATTTT-AAAAGCAAAAG
1 TTGATTTTGAAAAACAAAAG
7257899 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
7257918 TGAAACCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGATTTTGAAAAACAAAAG
Found at i:7259888 original size:24 final size:24
Alignment explanation
Indices: 7259867--7259928 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
7259857 ATTTGCACTG
* *
7259867 AAGTGCTACGTAGAATATGCACCA
1 AAGTGCCACATAGAATATGCACCA
*
7259891 AATTGCCACATAGAATATGCACCA
1 AAGTGCCACATAGAATATGCACCA
7259915 AAGTGCCACATAGA
1 AAGTGCCACATAGA
7259929 TTTCTCCCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (24 bp):
AAGTGCCACATAGAATATGCACCA
Found at i:7259960 original size:24 final size:24
Alignment explanation
Indices: 7259928--7260000 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
7259918 TGCCACATAG
*
7259928 ATTTCTCCCGAAGGACCGCGTAAA
1 ATTTGTCCCGAAGGACCGCGTAAA
** * *
7259952 ATTTGTCCCGAAGGACTACATAGA
1 ATTTGTCCCGAAGGACCGCGTAAA
* *
7259976 ATTTGTCCCAAAGAACCGCGTAAA
1 ATTTGTCCCGAAGGACCGCGTAAA
7260000 A
1 A
7260001 CTCTTGACTT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
ATTTGTCCCGAAGGACCGCGTAAA
Found at i:7266050 original size:24 final size:24
Alignment explanation
Indices: 7265984--7266051 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
7265974 CATAGATTAA
* *
7265984 TCCCAAAGGACTGCGTAAAATTTG
1 TCCCGAAGGACTGCGTAGAATTTG
**
7266008 TCCCGAAGGACCACGTAGAATTTG
1 TCCCGAAGGACTGCGTAGAATTTG
* *
7266032 TCCCGAAGGATTGCATAGAA
1 TCCCGAAGGACTGCGTAGAA
7266052 CCCTCAACTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
TCCCGAAGGACTGCGTAGAATTTG
Found at i:7268076 original size:21 final size:22
Alignment explanation
Indices: 7268043--7268083 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7268033 TTAAAAATTA
7268043 TAAAGGAAGTACCAATACTCAT
1 TAAAGGAAGTACCAATACTCAT
*
7268065 TAAAGG-AGTACCGATACTC
1 TAAAGGAAGTACCAATACTC
7268084 CCTGTCCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (22 bp):
TAAAGGAAGTACCAATACTCAT
Found at i:7268872 original size:18 final size:18
Alignment explanation
Indices: 7268851--7268898 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
7268841 TTCATCATTT
*
7268851 AAAAATTAATAATGAAAA
1 AAAAATTAATAATCAAAA
7268869 AAAATATT--TAATCAAAA
1 AAAA-ATTAATAATCAAAA
*
7268886 GAAAATTAATAAT
1 AAAAATTAATAAT
7268899 TATATTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 8 0.32
19 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAATTAATAATCAAAA
Found at i:7269196 original size:2 final size:2
Alignment explanation
Indices: 7269189--7269223 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7269179 TTAATTCATA
7269189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7269224 CACTAAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7269703 original size:29 final size:29
Alignment explanation
Indices: 7269671--7269743 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
7269661 TTTTATTTAG
*
7269671 GTCCCCTAACTTTTAAAACTTGCAATACA
1 GTCCCCTAACATTTAAAACTTGCAATACA
*
7269700 GTCCTCTAACATTTAAAACTTGCAATACA
1 GTCCCCTAACATTTAAAACTTGCAATACA
*
7269729 G-CCCTCCAACATTTA
1 GTCCC-CTAACATTTA
7269744 GTCCGTTTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (29 bp):
GTCCCCTAACATTTAAAACTTGCAATACA
Found at i:7276536 original size:35 final size:35
Alignment explanation
Indices: 7276463--7276537 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
7276453 CGTCACGTCC
* **
7276463 AGTAAGGCCCTGAGCACACAGCTGAGAAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGAAACCGCCA
* *
7276498 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGAAACCGCCA
7276533 AGTAA
1 AGTAA
7276538 TCTTCCTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.27, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGAAACCGCCA
Found at i:7276643 original size:24 final size:24
Alignment explanation
Indices: 7276616--7276706 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
7276606 CATAATTCAA
*
7276616 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
7276640 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
7276664 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
7276687 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
7276707 TCAAATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:7276686 original size:47 final size:48
Alignment explanation
Indices: 7276616--7276706 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
7276606 CATAATTCAA
* * *
7276616 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
7276664 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAAT
7276707 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:7280323 original size:35 final size:35
Alignment explanation
Indices: 7280250--7280324 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
7280240 CGTCACGTCC
* **
7280250 AGTAAGGCCCTAAGCACATAGCCGAGGAACCGGTA
1 AGTAAGGCCCTAAGCACACAGCCGAGGAACCGCCA
* *
7280285 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTAAGCACACAGCCGAGGAACCGCCA
7280320 AGTAA
1 AGTAA
7280325 TCTTCCTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.27, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTAAGCACACAGCCGAGGAACCGCCA
Found at i:7280435 original size:24 final size:23
Alignment explanation
Indices: 7280407--7280493 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
7280397 ATTCAAGTCA
*
7280407 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* *
7280430 TTGTATCAGATCAGAATCCATGTC
1 -AGTATCAGATCAGAATCCAGGTC
* *
7280454 AATATCAGATCAGAATACAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* *
7280477 AGGTATCATAACAGAAT
1 A-GTATCAGATCAGAAT
7280494 TCAAATTTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.38
24 32 0.62
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:7280483 original size:47 final size:48
Alignment explanation
Indices: 7280403--7280493 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 48
7280393 CATAATTCAA
* * ** *
7280403 GTCAAGTATCATATCAGAATCCAGGTCTTGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATACAGGTCAGGTATCAGAACAGAATCCAT
*
7280451 GTCAA-TATCAGATCAGAATACAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATACAGGTCAGGTATCAGAACAGAAT
7280494 TCAAATTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 32 0.86
48 5 0.14
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATACAGGTCAGGTATCAGAACAGAATCCAT
Found at i:7284864 original size:9 final size:9
Alignment explanation
Indices: 7284852--7284877 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7284842 TAAATTATAT
7284852 ATTTTATTC
1 ATTTTATTC
7284861 ATTTTATTC
1 ATTTTATTC
7284870 ATTTTATT
1 ATTTTATT
7284878 TTTGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTATTC
Found at i:7285378 original size:20 final size:20
Alignment explanation
Indices: 7285353--7285394 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7285343 GACCAGCCCA
*
7285353 AACCGAGTCAACCCAACCCG
1 AACCGAGTCAAACCAACCCG
*
7285373 AACCGAGTCAAACCGACCCG
1 AACCGAGTCAAACCAACCCG
7285393 AA
1 AA
7285395 TCGTTGACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.40, G:0.17, T:0.05
Consensus pattern (20 bp):
AACCGAGTCAAACCAACCCG
Found at i:7285441 original size:22 final size:22
Alignment explanation
Indices: 7285416--7285508 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
7285406 ACCCAAACTG
* ** *
7285416 TTGATCGGTCTGATTGTTGACT
1 TTGACCGGTCTGACCGTTGAAT
7285438 TTGACCGGTC-GCACCGTTGAAT
1 TTGACCGGTCTG-ACCGTTGAAT
*
7285460 TTGACCGGT-TAGACCGTTAAAT
1 TTGACCGGTCT-GACCGTTGAAT
* * *
7285482 TTGATCGGTCTGATCGTTGACT
1 TTGACCGGTCTGACCGTTGAAT
7285504 TTGAC
1 TTGAC
7285509 TTTGACCGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.02
22 54 0.95
23 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
TTGACCGGTCTGACCGTTGAAT
Found at i:7285814 original size:13 final size:13
Alignment explanation
Indices: 7285798--7285836 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
7285788 GTGTTCCTTA
*
7285798 TGTTTCATATATC
1 TGTTTCAAATATC
*
7285811 TGTTTTAAATATC
1 TGTTTCAAATATC
*
7285824 TGTTTGAAATATC
1 TGTTTCAAATATC
7285837 ATGTGCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (13 bp):
TGTTTCAAATATC
Found at i:7287263 original size:31 final size:32
Alignment explanation
Indices: 7287224--7287380 Score: 146
Period size: 31 Copynumber: 5.0 Consensus size: 32
7287214 ACCTCGGCAA
* *
7287224 CTGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 CTGTCCATATGTCCCGAAGAACATAGGTAAAT
*
7287256 -TGTCCATATGTTCC-ATAGAACATAGGT-AAT
1 CTGTCCATATGTCCCGA-AGAACATAGGTAAAT
* *
7287286 CCTGTCCATATGTCTCGAA-AGACATAGGTATAT
1 -CTGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* * *
7287319 -TTTCCATATATCCCGAA-AGACATAGGTAATT
1 CTGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* *
7287350 CTGTCCATATGTTCCGTAGAACATAGGTAAA
1 CTGTCCATATGTCCCGAAGAACATAGGTAAA
7287381 CCTTCGACTC
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
30 4 0.04
31 49 0.49
32 44 0.44
33 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (32 bp):
CTGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:7287326 original size:63 final size:63
Alignment explanation
Indices: 7287224--7287380 Score: 183
Period size: 63 Copynumber: 2.5 Consensus size: 63
7287214 ACCTCGGCAA
* * * * *
7287224 CTGTCCATAGGTCCCGAAGAACCTAGGTAAATTGTCCATATGTTCC-ATAGAACATAGGTAATC
1 CTGTCCATATGTCCCGAAGAACATAGGTAAATTGTCCATATATCCCGAAAG-ACATAGGTAATC
* * * *
7287287 CTGTCCATATGTCTCGAA-AGACATAGGTATATTTTCCATATATCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAGA-ACATAGGTAAATTGTCCATATATCCCGAAAGACATAGGTAATC
* *
7287350 CTGTCCATATGTTCCGTAGAACATAGGTAAA
1 CTGTCCATATGTCCCGAAGAACATAGGTAAA
7287381 CCTTCGACTC
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
62 1 0.01
63 73 0.94
64 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (63 bp):
CTGTCCATATGTCCCGAAGAACATAGGTAAATTGTCCATATATCCCGAAAGACATAGGTAATC
Found at i:7290157 original size:18 final size:18
Alignment explanation
Indices: 7290126--7290195 Score: 95
Period size: 18 Copynumber: 3.9 Consensus size: 18
7290116 GCGTAGAATT
* *
7290126 TGTCCCGTAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
7290144 TGTTCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
7290162 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
**
7290180 TGTCCTAAAGGACCAC
1 TGTCCCGAAGGACCAC
7290196 GTAGACCCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7292389 original size:2 final size:2
Alignment explanation
Indices: 7292382--7292435 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
7292372 ATTTCACGAT
7292382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7292424 TA TA TA TA TA TA
1 TA TA TA TA TA TA
7292436 ATTATTAGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7293512 original size:13 final size:13
Alignment explanation
Indices: 7293490--7293536 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
7293480 TCAAAAAAAT
* *
7293490 TCAACAGTCAAAC
1 TCAACGGTCAAAG
7293503 TCAACGGTCAAAG
1 TCAACGGTCAAAG
*
7293516 TCAATGGGTCAAAG
1 TCAA-CGGTCAAAG
7293530 TCAACGG
1 TCAACGG
7293537 GTTGATTCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (13 bp):
TCAACGGTCAAAG
Found at i:7293527 original size:14 final size:14
Alignment explanation
Indices: 7293496--7293538 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7293486 AAATTCAACA
*
7293496 GTCAAACTCAAC-G
1 GTCAAAGTCAACGG
*
7293509 GTCAAAGTCAATGG
1 GTCAAAGTCAACGG
7293523 GTCAAAGTCAACGG
1 GTCAAAGTCAACGG
7293537 GT
1 GT
7293539 TGATTCGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (14 bp):
GTCAAAGTCAACGG
Found at i:7293633 original size:19 final size:19
Alignment explanation
Indices: 7293609--7293673 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
7293599 GATCGGTTTG
7293609 ACTGGACCGGTTTGGTCAT
1 ACTGGACCGGTTTGGTCAT
7293628 ACTGGACCGGTTTGGTCAT
1 ACTGGACCGGTTTGGTCAT
*
7293647 ACTGGACCGGTTTAGTCAT
1 ACTGGACCGGTTTGGTCAT
7293666 ACTGGACC
1 ACTGGACC
7293674 AGTTCCAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.29
Consensus pattern (19 bp):
ACTGGACCGGTTTGGTCAT
Found at i:7296174 original size:14 final size:14
Alignment explanation
Indices: 7296157--7296183 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7296147 ATATTAAATA
7296157 ATAAATATAATTAT
1 ATAAATATAATTAT
7296171 ATAAATATAATTA
1 ATAAATATAATTA
7296184 AAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:7296605 original size:29 final size:29
Alignment explanation
Indices: 7296572--7296642 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
7296562 TTAGTTCGTG
7296572 AGTTTGAGTCGAGTTGAGCTTACTTTTAA
1 AGTTTGAGTCGAGTTGAGCTTACTTTTAA
*
7296601 AGTTTGAGTCGAGTTTAGCTTACTTTTAA
1 AGTTTGAGTCGAGTTGAGCTTACTTTTAA
7296630 AGTTTGAGTCGAG
1 AGTTTGAGTCGAG
7296643 CTCAGCAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (29 bp):
AGTTTGAGTCGAGTTGAGCTTACTTTTAA
Found at i:7304881 original size:31 final size:30
Alignment explanation
Indices: 7304824--7304881 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7304814 ATTTTAATAG
*
7304824 AAATATAATTAAATCATATTTTTTATTGAA
1 AAATATAATTAAATCATACTTTTTATTGAA
* *
7304854 AAATATAATTAATTTAGTACTTTTTATT
1 AAATATAATTAAATCA-TACTTTTTATT
7304882 TATTTCAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (30 bp):
AAATATAATTAAATCATACTTTTTATTGAA
Found at i:7306364 original size:28 final size:30
Alignment explanation
Indices: 7306331--7306388 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
7306321 TTAATCTTTT
*
7306331 ATTATA-ATTTTAATAGAAA-TATAATTAA
1 ATTATATATTTTAATAAAAATTATAATTAA
* *
7306359 ATTATATTTTTTATTAAAAATTATAATTAA
1 ATTATATATTTTAATAAAAATTATAATTAA
7306389 TTTAGTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 10 0.40
30 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTATATATTTTAATAAAAATTATAATTAA
Found at i:7311748 original size:3 final size:3
Alignment explanation
Indices: 7311740--7311798 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7311730 AAAATTAGAA
7311740 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7311788 AAT AAT AAT AA
1 AAT AAT AAT AA
7311799 AATGTTAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7316392 original size:18 final size:18
Alignment explanation
Indices: 7316363--7316416 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
7316353 CATTGTCAAC
*
7316363 ATCAATAGCATTATCATG
1 ATCAATATCATTATCATG
** * **
7316381 ATCTCTATCATTCTCAAC
1 ATCAATATCATTATCATG
7316399 ATCAATATCATTATCATG
1 ATCAATATCATTATCATG
7316417 TAATACATTT
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (18 bp):
ATCAATATCATTATCATG
Found at i:7317734 original size:9 final size:9
Alignment explanation
Indices: 7317722--7317820 Score: 83
Period size: 9 Copynumber: 11.0 Consensus size: 9
7317712 TAAATACCAC
*
7317722 AAATTCTAG
1 AAATTCCAG
*
7317731 AAATTCCAT
1 AAATTCCAG
*
7317740 AAATTCCAT
1 AAATTCCAG
7317749 AAA-TCCAAG
1 AAATTCC-AG
7317758 AAATTCCAG
1 AAATTCCAG
* *
7317767 TAATTCAAG
1 AAATTCCAG
*
7317776 AAATTCCAT
1 AAATTCCAG
*
7317785 AAATTCAAG
1 AAATTCCAG
* *
7317794 AAATTTCAT
1 AAATTCCAG
* *
7317803 AAATTCAAA
1 AAATTCCAG
7317812 AAATTCCAG
1 AAATTCCAG
7317821 TACTGGAATT
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
8 3 0.04
9 64 0.91
10 3 0.04
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.28
Consensus pattern (9 bp):
AAATTCCAG
Found at i:7317743 original size:18 final size:18
Alignment explanation
Indices: 7317740--7317819 Score: 117
Period size: 18 Copynumber: 4.4 Consensus size: 18
7317730 GAAATTCCAT
*
7317740 AAATTCCATAAATCCAAG
1 AAATTCCATAAATTCAAG
7317758 AAATTCCAGT-AATTCAAG
1 AAATTCCA-TAAATTCAAG
7317776 AAATTCCATAAATTCAAG
1 AAATTCCATAAATTCAAG
* *
7317794 AAATTTCATAAATTCAAA
1 AAATTCCATAAATTCAAG
7317812 AAATTCCA
1 AAATTCCA
7317820 GTACTGGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.02
18 54 0.96
19 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (18 bp):
AAATTCCATAAATTCAAG
Found at i:7317743 original size:27 final size:27
Alignment explanation
Indices: 7317712--7317765 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7317702 ACTTAAAATT
* *
7317712 TAAATACCACAAATTCTAGAAATTCCA
1 TAAATACCACAAATCCAAGAAATTCCA
* *
7317739 TAAATTCCATAAATCCAAGAAATTCCA
1 TAAATACCACAAATCCAAGAAATTCCA
7317766 GTAATTCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (27 bp):
TAAATACCACAAATCCAAGAAATTCCA
Found at i:7317794 original size:36 final size:36
Alignment explanation
Indices: 7317722--7317819 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
7317712 TAAATACCAC
* * * *
7317722 AAATTCTAGAAATTCCATAAATTCCATAAATCCAAG
1 AAATTCCAGTAATTCAAAAAATTCCATAAATCCAAG
* *
7317758 AAATTCCAGTAATTCAAGAAATTCCATAAATTCAAG
1 AAATTCCAGTAATTCAAAAAATTCCATAAATCCAAG
*
7317794 AAATTTCA-TAAATTCAAAAAATTCCA
1 AAATTCCAGT-AATTCAAAAAATTCCA
7317820 GTACTGGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.02
36 53 0.98
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (36 bp):
AAATTCCAGTAATTCAAAAAATTCCATAAATCCAAG
Found at i:7319078 original size:30 final size:31
Alignment explanation
Indices: 7319044--7319108 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
7319034 TTTAGTCCCT
* * *
7319044 AAACTTTTCAAAGT-TTATACTTTGGTCACC
1 AAACTTTTCAAAATCTTATAATTTGATCACC
*
7319074 AAAC-TTTCAAAATCTTATAATTTGATCACT
1 AAACTTTTCAAAATCTTATAATTTGATCACC
7319104 AAACT
1 AAACT
7319109 AAATCCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (31 bp):
AAACTTTTCAAAATCTTATAATTTGATCACC
Found at i:7332749 original size:8 final size:8
Alignment explanation
Indices: 7332737--7332905 Score: 212
Period size: 8 Copynumber: 21.1 Consensus size: 8
7332727 AAGATGATAC
*
7332737 ATGCATGC
1 ATGCATGT
*
7332745 ATGCATGC
1 ATGCATGT
*
7332753 ATGCATGC
1 ATGCATGT
*
7332761 ATGTATGT
1 ATGCATGT
*
7332769 ATGTATGT
1 ATGCATGT
*
7332777 ATGTATGT
1 ATGCATGT
7332785 ATGCATGT
1 ATGCATGT
7332793 ATGCATGT
1 ATGCATGT
7332801 ATGCATGT
1 ATGCATGT
7332809 ATGCATGT
1 ATGCATGT
7332817 ATGCATGT
1 ATGCATGT
*
7332825 ATGTATGT
1 ATGCATGT
*
7332833 ATGTATGT
1 ATGCATGT
*
7332841 ATGTATGT
1 ATGCATGT
*
7332849 ATGTATGT
1 ATGCATGT
*
7332857 ATGTATGT
1 ATGCATGT
*
7332865 ATGTATGT
1 ATGCATGT
7332873 ATGCATGT
1 ATGCATGT
7332881 ATGCATGT
1 ATGCATGT
*
7332889 ATGTATGT
1 ATGCATGT
*
7332897 ATGTATGT
1 ATGCATGT
7332905 A
1 A
7332906 AAACAATTGG
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 155 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (8 bp):
ATGCATGT
Found at i:7332760 original size:4 final size:4
Alignment explanation
Indices: 7332761--7332905 Score: 227
Period size: 4 Copynumber: 36.2 Consensus size: 4
7332751 GCATGCATGC
* * *
7332761 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
7332809 ATGC ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
7332857 ATGT ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7332905 A
1 A
7332906 AAACAATTGG
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 127 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:7334770 original size:134 final size:131
Alignment explanation
Indices: 7334458--7334795 Score: 381
Period size: 131 Copynumber: 2.6 Consensus size: 131
7334448 TGACATGTCG
* * * * * *
7334458 TCCTCATCGCATAGGAACTGTGTCATCCCCCAACTAGACCTCCTCATCACGTAGAAGCTATGTCA
1 TCCTCATCGCGTAGGAACCGTGTCATCCACCAACTAGACCTCCTCATCACGCAGGAGCCATGTCA
* * * * * ** *
7334523 CCCCTAGATAACCAGTCATCCTCATCATGTAGGAACCGTGTTCTCATCCCTAAAGATGGTTTATT
66 CCCCTAGATAACAACTCATCCTCATCACGTACGAACCGTGTTATCATCCCTAAAGATGGCCTACT
*
7334588 G
131 A
* *
7334589 TCCTCATCACGTAGGAATCGTGTCATCCACCAACTAGACCTCCTCATCACGCAGGAGCCATGTCA
1 TCCTCATCGCGTAGGAACCGTGTCATCCACCAACTAGACCTCCTCATCACGCAGGAGCCATGTCA
* * *
7334654 CCCCTAGATAATCAACT-GTCCTCATCGCGTACGAACCGTGTTATCACCCTCCCTAAAGATTGCC
66 CCCCTAGATAA-CAACTCATCCTCATCACGTACGAACCGTGTTATCA---TCCCTAAAGATGGCC
7334718 TACTA
127 TACTA
* * * * * * *
7334723 TCTTCATCGCGTAGAAACCGTGTCATCCACCGACCAGATCTCCTCATCACGCAGGAGTCGTGTCA
1 TCCTCATCGCGTAGGAACCGTGTCATCCACCAACTAGACCTCCTCATCACGCAGGAGCCATGTCA
*
7334788 CCCTTAGA
66 CCCCTAGA
7334796 CGACCAGAAC
Statistics
Matches: 173, Mismatches: 30, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
131 92 0.53
132 3 0.02
134 78 0.45
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (131 bp):
TCCTCATCGCGTAGGAACCGTGTCATCCACCAACTAGACCTCCTCATCACGCAGGAGCCATGTCA
CCCCTAGATAACAACTCATCCTCATCACGTACGAACCGTGTTATCATCCCTAAAGATGGCCTACT
A
Found at i:7335002 original size:3 final size:3
Alignment explanation
Indices: 7334988--7335096 Score: 209
Period size: 3 Copynumber: 36.0 Consensus size: 3
7334978 CAAAAAATAC
7334988 TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7335034 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7335082 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
7335097 ACATTTATTA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 102 0.97
4 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7341537 original size:15 final size:15
Alignment explanation
Indices: 7341517--7341546 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7341507 TAAAAATATT
*
7341517 ATTATAATATTAAAA
1 ATTATAACATTAAAA
7341532 ATTATAACATTAAAA
1 ATTATAACATTAAAA
7341547 TGAAAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTATAACATTAAAA
Found at i:7341676 original size:23 final size:23
Alignment explanation
Indices: 7341598--7341695 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 23
7341588 TTTATGAAAT
*
7341598 TTATAA-ATAATATT-TATTTTA
1 TTATAATATAATATTATATATTA
7341619 TTAATAAT-T--TATTATATATTA
1 TT-ATAATATAATATTATATATTA
7341640 TTAAGATAATATATAATATTATATATTA
1 TT---AT-A-ATATAATATTATATATTA
*
7341668 TTATAATATAAT-TGAATATATTA
1 TTATAATATAATAT-TATATATTA
7341691 TTATA
1 TTATA
7341696 TTATTAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
20 4 0.06
21 10 0.16
22 6 0.10
23 22 0.35
24 2 0.03
25 4 0.06
26 1 0.02
28 14 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAATATAATATTATATATTA
Found at i:7341714 original size:22 final size:22
Alignment explanation
Indices: 7341682--7341726 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7341672 AATATAATTG
*
7341682 AATATATTATTATATTATTAAA
1 AATATAATATTATATTATTAAA
7341704 AATATAATATTATATTATTAAA
1 AATATAATATTATATTATTAAA
7341726 A
1 A
7341727 TTATTCGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAATATTATATTATTAAA
Found at i:7342154 original size:2 final size:2
Alignment explanation
Indices: 7342149--7342175 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7342139 TTTTTTAAAT
7342149 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7342176 GTTTGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7355469 original size:29 final size:29
Alignment explanation
Indices: 7355436--7355495 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7355426 ATGGAGTTGT
7355436 TGAGAGGAAAAACAGAACTTTAGAGGAAA
1 TGAGAGGAAAAACAGAACTTTAGAGGAAA
*
7355465 TGAGAGGAAAAATAGAACTTTAGAGGAAA
1 TGAGAGGAAAAACAGAACTTTAGAGGAAA
7355494 TG
1 TG
7355496 GCTAGAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.28, T:0.17
Consensus pattern (29 bp):
TGAGAGGAAAAACAGAACTTTAGAGGAAA
Found at i:7357960 original size:22 final size:22
Alignment explanation
Indices: 7357904--7357954 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7357894 ACCCAGGTGC
7357904 CGATACCTCTCTTGCTAGGTAT
1 CGATACCTCTCTTGCTAGGTAT
*
7357926 TGATACCTCTCTTGCTAGGTAT
1 CGATACCTCTCTTGCTAGGTAT
7357948 CGATACC
1 CGATACC
7357955 GTTCTTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (22 bp):
CGATACCTCTCTTGCTAGGTAT
Found at i:7359934 original size:32 final size:32
Alignment explanation
Indices: 7359893--7359963 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
7359883 AATTTATGTA
* *
7359893 TTTGAATATTTGGATGTTTTGGATT-TGTGTGT
1 TTTGGATATTTGGATG-TTTGAATTGTGTGTGT
* *
7359925 TTTGGATATTTGGTTGTTTGAATTGTTTGTGT
1 TTTGGATATTTGGATGTTTGAATTGTGTGTGT
7359957 TTTGGAT
1 TTTGGAT
7359964 GTTTAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (32 bp):
TTTGGATATTTGGATGTTTGAATTGTGTGTGT
Found at i:7359966 original size:15 final size:15
Alignment explanation
Indices: 7359907--7359967 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
7359897 AATATTTGGA
7359907 TGTTTTGGAT-TTGTG
1 TGTTTTGGATGTT-TG
*
7359922 TGTTTTGGATATTTG
1 TGTTTTGGATGTTTG
*
7359937 -GTTGTTTGAATTGTTTG
1 TG-T-TTTGGA-TGTTTG
7359954 TGTTTTGGATGTTT
1 TGTTTTGGATGTTT
7359968 AATTTTGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 1 0.03
15 18 0.47
16 12 0.32
17 6 0.16
18 1 0.03
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.61
Consensus pattern (15 bp):
TGTTTTGGATGTTTG
Found at i:7360100 original size:16 final size:16
Alignment explanation
Indices: 7360079--7360110 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7360069 GGACTAACTA
7360079 ATATTTCTCTTGACTT
1 ATATTTCTCTTGACTT
7360095 ATATTTCTCTTGACTT
1 ATATTTCTCTTGACTT
7360111 TGATCTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
ATATTTCTCTTGACTT
Found at i:7360410 original size:18 final size:18
Alignment explanation
Indices: 7360373--7360410 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7360363 TTTTAAGATT
*
7360373 TTATATTCGATTTAAATA
1 TTATATTCGATTCAAATA
*
7360391 TTATATTCGATTCAATTA
1 TTATATTCGATTCAAATA
7360409 TT
1 TT
7360411 CGAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTCGATTCAAATA
Found at i:7372037 original size:27 final size:26
Alignment explanation
Indices: 7371999--7372090 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
7371989 AAAAGGAAGG
*
7371999 AGCAGGAGTCCTAAGAGACGTAGTGTT
1 AGCAGGAGTCCTAA-AGACGTAGTGCT
*
7372026 AGCAGGAGTCCTGAAAGATGTAGTGCT
1 AGCAGGAGTCCT-AAAGACGTAGTGCT
* *
7372053 AGCAGGAGTCCTAAAAAACGTAGCGCT
1 AGCAGGAGTCCT-AAAGACGTAGTGCT
*
7372080 AGCAGGGGTCC
1 AGCAGGAGTCC
7372091 AAGTGGGAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.33, T:0.18
Consensus pattern (26 bp):
AGCAGGAGTCCTAAAGACGTAGTGCT
Found at i:7375360 original size:2 final size:2
Alignment explanation
Indices: 7375355--7375382 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7375345 CTAAAAAATA
7375355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7375383 TAAAATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7375806 original size:21 final size:20
Alignment explanation
Indices: 7375780--7375839 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
7375770 GATTATAAAA
7375780 TTTTAATATAGTTTTTAATAT
1 TTTTAATATA-TTTTTAATAT
7375801 TTTTAATATATATTTTAA-AT
1 TTTTAATATAT-TTTTAATAT
*
7375821 TTTT-TTATATTTTTAATAT
1 TTTTAATATATTTTTAATAT
7375840 CATGATGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 6 0.17
19 7 0.19
20 7 0.19
21 16 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTAATATATTTTTAATAT
Found at i:7375816 original size:12 final size:11
Alignment explanation
Indices: 7375780--7375839 Score: 60
Period size: 9 Copynumber: 5.8 Consensus size: 11
7375770 GATTATAAAA
7375780 TTTTAATATAGT
1 TTTTAATATA-T
7375792 TTTT-A-ATAT
1 TTTTAATATAT
7375801 TTTTAATATAT
1 TTTTAATATAT
7375812 ATTTTAA-AT-T
1 -TTTTAATATAT
7375822 TTTT--TATAT
1 TTTTAATATAT
7375831 TTTTAATAT
1 TTTTAATAT
7375840 CATGATGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
8 2 0.05
9 14 0.34
10 5 0.12
11 10 0.24
12 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:7377351 original size:90 final size:91
Alignment explanation
Indices: 7377197--7377380 Score: 273
Period size: 90 Copynumber: 2.0 Consensus size: 91
7377187 TTCCTAGAAC
*
7377197 ACCCATGTGCCTTGCATATGACCAGCCCCCATGCGCCTTGTATGTGGATCATTTAGGCACCAAGA
1 ACCCATGTGCCTTGCATATGACCAGCCCCCATGCGCCTTGCATGTGGATCATTTAGGCACCAAGA
7377262 TGAAGAGTTCTCTCCCTATTCGGCCA
66 TGAAGAGTTCTCTCCCTATTCGGCCA
** * * * *
7377288 ACCCATGTGTTTTGCATGTGATCAG-CCCCATGTGCCTTGCATGTGGTTCATTTAGG-AGCCAAG
1 ACCCATGTGCCTTGCATATGACCAGCCCCCATGCGCCTTGCATGTGGATCATTTAGGCA-CCAAG
*
7377351 ATGAAGAGTTCTCTCTCTATTCGGCCA
65 ATGAAGAGTTCTCTCCCTATTCGGCCA
7377378 ACC
1 ACC
7377381 ATCAACTACC
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
89 1 0.01
90 62 0.74
91 21 0.25
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (91 bp):
ACCCATGTGCCTTGCATATGACCAGCCCCCATGCGCCTTGCATGTGGATCATTTAGGCACCAAGA
TGAAGAGTTCTCTCCCTATTCGGCCA
Found at i:7378210 original size:28 final size:28
Alignment explanation
Indices: 7378148--7378210 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
7378138 AAAGAAAATC
* * *
7378148 AGAAAAGAAATTGAAGCACTCCAAAAGA
1 AGAAAAGAAAATCAAGCACTCAAAAAGA
*
7378176 A-AGAAAGAAAATCCAGCACTCAAAAAGA
1 AGA-AAAGAAAATCAAGCACTCAAAAAGA
7378204 AGAAAAG
1 AGAAAAG
7378211 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 27 0.93
29 1 0.03
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.08
Consensus pattern (28 bp):
AGAAAAGAAAATCAAGCACTCAAAAAGA
Found at i:7378214 original size:15 final size:15
Alignment explanation
Indices: 7378203--7378231 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7378193 ACTCAAAAAG
7378203 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
7378218 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
7378232 GTTGATGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:7383837 original size:55 final size:54
Alignment explanation
Indices: 7383776--7383953 Score: 139
Period size: 54 Copynumber: 3.3 Consensus size: 54
7383766 CTAAACCTAG
** * * *
7383776 CACAGAGGTGCTTGGCTGTCGATT-ACAACATAGATGTGCTCAATCATCCTAAATA
1 CACAGAGGTGCCAGACTGTAGATTGA-AACATAGAGGTGCTCAATCATCCTAAA-A
* * * *
7383831 CACAGAGGTGCCAGATTTTAGATTGAAGCATAGAGGTGCTCAATCATCCTAAAG
1 CACAGAGGTGCCAGACTGTAGATTGAAACATAGAGGTGCTCAATCATCCTAAAA
* * * ** * *
7383885 CACAGAGGTGTCATA-TCCTAGATTGAGGCACAGAGATGCTCAATCAAT--TAAAAA
1 CACAGAGGTGCCAGACT-GTAGATTGAAACATAGAGGTGCTCAATC-ATCCT-AAAA
7383939 CACAGAGGTGCCAGA
1 CACAGAGGTGCCAGA
7383954 TTTTAGACTG
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 2 0.02
54 53 0.52
55 45 0.45
56 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (54 bp):
CACAGAGGTGCCAGACTGTAGATTGAAACATAGAGGTGCTCAATCATCCTAAAA
Found at i:7383925 original size:54 final size:55
Alignment explanation
Indices: 7383812--7383970 Score: 180
Period size: 54 Copynumber: 2.9 Consensus size: 55
7383802 AACATAGATG
** * *
7383812 TGCTCAATCATCCTAAATACACAGAGGTGCCAGATTTTAGATTGAAGCATAGAGG
1 TGCTCAATCATCCTAAATACACAGAGGTGCCAGATCCTAGATTGAAGCACAGAGA
* * * *
7383867 TGCTCAATCATCCTAAA-GCACAGAGGTGTCATATCCTAGATTGAGGCACAGAGA
1 TGCTCAATCATCCTAAATACACAGAGGTGCCAGATCCTAGATTGAAGCACAGAGA
* ** *
7383921 TGCTCAATCAAT--TAAAAACACAGAGGTGCCAGATTTTAGACTGAAGCACA
1 TGCTCAATC-ATCCTAAATACACAGAGGTGCCAGATCCTAGATTGAAGCACA
7383971 TAAGTGATCA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.05
54 64 0.74
55 19 0.22
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (55 bp):
TGCTCAATCATCCTAAATACACAGAGGTGCCAGATCCTAGATTGAAGCACAGAGA
Found at i:7383960 original size:108 final size:110
Alignment explanation
Indices: 7383812--7384039 Score: 275
Period size: 108 Copynumber: 2.1 Consensus size: 110
7383802 AACATAGATG
* * * * *
7383812 TGCTCAATC-ATCCTAAATACACAGAGGTGCCAGATTTTAGATTGAAGCATAGAGGTGCTCAATC
1 TGCTCAATCAAT-CTAAAAACACAGAGGTGCCAGATTTTAGACTGAAGCACAGAAGTGATCAATC
*
7383876 A-TCCTAA-AGCACAGAGGTGTCATATCCTAGATTGAGGCACAGAGA
65 ATTCCTAACAGCACAGAGGCGTCAT-TCCTAGATTGAGGCACAGAGA
* *
7383921 TGCTCAATCAAT-TAAAAACACAGAGGTGCCAGATTTTAGACTGAAGCACATAAGTGATCAGTCA
1 TGCTCAATCAATCTAAAAACACAGAGGTGCCAGATTTTAGACTGAAGCACAGAAGTGATCAATCA
** * * * * *
7383985 TTTTTAACTGCACAGAGGCGTCATTTCTCGATTGAGGCATAGAGG
66 TTCCTAACAGCACAGAGGCGTCATTCCTAGATTGAGGCACAGAGA
7384030 TGCTCAATCA
1 TGCTCAATCA
7384040 TCTTTAGCCA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
108 45 0.45
109 40 0.40
110 16 0.16
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (110 bp):
TGCTCAATCAATCTAAAAACACAGAGGTGCCAGATTTTAGACTGAAGCACAGAAGTGATCAATCA
TTCCTAACAGCACAGAGGCGTCATTCCTAGATTGAGGCACAGAGA
Found at i:7393422 original size:18 final size:18
Alignment explanation
Indices: 7393385--7393424 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
7393375 ACACATGCAT
7393385 AAAAATTTAAATTTAGGTA
1 AAAAATTTAAATTTA-GTA
7393404 AAAAATTTAAAATTT-GTA
1 AAAAATTT-AAATTTAGTA
7393422 AAA
1 AAA
7393425 TCAAAGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAAATTTAAATTTAGTA
Found at i:7394568 original size:46 final size:46
Alignment explanation
Indices: 7394473--7394560 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
7394463 ACCGTTATGT
* * * *
7394473 ATTTCCATTTGTGGCATCATTTCATTCCAATTATGTACTGTTATAC
1 ATTTCCATTTATGACATCATTTCATGCCAATTATGCACTGTTATAC
* *
7394519 ATTTTCATTTATGACATCCTTTCATGCCAATTATGCACTGTT
1 ATTTCCATTTATGACATCATTTCATGCCAATTATGCACTGTT
7394561 CTTCATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTCCATTTATGACATCATTTCATGCCAATTATGCACTGTTATAC
Found at i:7394991 original size:54 final size:54
Alignment explanation
Indices: 7394910--7395510 Score: 760
Period size: 54 Copynumber: 11.1 Consensus size: 54
7394900 GGTTGCCGTA
* * *
7394910 TAGTGCCGAAACAGTTGTTCATTAACATATGATGAATTCCGTGAATTGCACACC
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
*
7394964 TAGTGCCGAAACGGTTGCTCATCAACATATGATGAATTCCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* ** * * *
7395018 TAGTGTCGAAACAATTGTTCATCAATATATGATTAATTCCGT-AAGTTGCACACA
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA-TTGCACACT
* * * *
7395072 TAGTGTCGAAACGGTTGTTCATCAATATTTGATGAATTCTGTGAATTGCACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * * * * *
7395126 TAGTGTCGAAATGGTTGTTTATCAACATATGATGAATTTCTTGAATTTCTCACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * *
7395180 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGT-AAGTTGCACACA
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA-TTGCACACT
* * *
7395234 TAGTACCGAAATGGTTGTTCATCAACATATTATGAATTCCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* **
7395288 TAGTGTCGAAATAGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * *
7395342 TAGTGCCGAAACGGTTGTTCATCAACATATGGTGAATTTCATGAATTGTACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * * * * *
7395396 TACTACCGAAATGGTTGTTCATTAACATATGAT-ATATTTCGT-AAGTTACACACA
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGA-ATTCCGTGAA-TTGCACACT
*
7395450 TAGTGCTGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
7395504 TAGTGCC
1 TAGTGCC
7395511 TATTTGGTAA
Statistics
Matches: 468, Mismatches: 71, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
53 7 0.01
54 454 0.97
55 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACT
Found at i:7399022 original size:23 final size:23
Alignment explanation
Indices: 7398991--7399059 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
7398981 CACCACAACT
* *
7398991 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
7399014 CGTAGAATTACACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
7399037 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
7399060 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:7399191 original size:103 final size:103
Alignment explanation
Indices: 7399075--7399292 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
7399065 TAATGTCCAT
* *
7399075 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
7399140 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
7399178 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
7399243 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
7399281 AAGGACCACATA
1 AAGGACCACATA
7399293 GACCCTCGAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:7401807 original size:20 final size:21
Alignment explanation
Indices: 7401777--7401816 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7401767 AGCCATTGGG
7401777 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
*
7401798 GCCT-ATGGTATCTATACTA
1 GCCTGATGGTATCGATACTA
7401817 CTATGTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:7412510 original size:31 final size:31
Alignment explanation
Indices: 7412472--7412531 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7412462 AGTCCACCCA
*
7412472 ACATTTAGTCTGTTTGCAAAATGGTCCCCTG
1 ACATTTAGTCTATTTGCAAAATGGTCCCCTG
* *
7412503 ACATTTAGTCTATTTGTAATATGGTCCCC
1 ACATTTAGTCTATTTGCAAAATGGTCCCC
7412532 GACCGTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (31 bp):
ACATTTAGTCTATTTGCAAAATGGTCCCCTG
Found at i:7414479 original size:31 final size:31
Alignment explanation
Indices: 7414442--7414515 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
7414432 TCAAACGATT
7414442 GGGGACCATATTGCAAACAGACTAAATATTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
**
7414473 GGGGACCATATTGCAATTAGACTAAATATTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
*
7414504 GGGGACTATATT
1 GGGGACCATATT
7414516 ACAAGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATATTG
Found at i:7422023 original size:59 final size:59
Alignment explanation
Indices: 7421953--7422069 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
7421943 ATTTATTCCT
* *
7421953 CTTTCATGATTACAGCAAAAATTCATCCAAGAGAAGTTATTTTCAAAGTTTCAAGATTC
1 CTTTCAAGATTACAGCAAAAATTCATCCAAGAGAAGCTATTTTCAAAGTTTCAAGATTC
* * * *
7422012 CTTTCAAGATTACATCAAAAATTCATTCAAGAGAAGCTCTTTTCAAAGTTTTAAGATT
1 CTTTCAAGATTACAGCAAAAATTCATCCAAGAGAAGCTATTTTCAAAGTTTCAAGATT
7422070 ACGACAAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (59 bp):
CTTTCAAGATTACAGCAAAAATTCATCCAAGAGAAGCTATTTTCAAAGTTTCAAGATTC
Found at i:7422126 original size:15 final size:16
Alignment explanation
Indices: 7422094--7422126 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7422084 ATTTGGTTTT
*
7422094 TTATTATCAATTATGA
1 TTATTATCAATAATGA
7422110 TTATTAT-AATAATGA
1 TTATTATCAATAATGA
7422125 TT
1 TT
7422127 TAATTCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (16 bp):
TTATTATCAATAATGA
Found at i:7426804 original size:29 final size:29
Alignment explanation
Indices: 7426753--7426810 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7426743 GTGTTGGTTG
*
7426753 TAGGTCACCATGCCATCCGGGCGACCTAC
1 TAGGTCACCATGCCATCCCGGCGACCTAC
* * * *
7426782 TAGGTCGCCATGGCTTCCCGGCGAGCTAC
1 TAGGTCACCATGCCATCCCGGCGACCTAC
7426811 GAGAGAGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (29 bp):
TAGGTCACCATGCCATCCCGGCGACCTAC
Found at i:7426903 original size:10 final size:10
Alignment explanation
Indices: 7426855--7426947 Score: 51
Period size: 10 Copynumber: 8.3 Consensus size: 10
7426845 CCAAAACGCT
7426855 GGGCATCCGA
1 GGGCATCCGA
* *
7426865 GGCCATCCAA
1 GGGCATCCGA
*
7426875 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
*
7426888 GAGCATCCGA
1 GGGCATCCGA
7426898 GGGCATCCGACCGA
1 GGGCAT----CCGA
7426912 GGGCATCCGA
1 GGGCATCCGA
*
7426922 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
7426935 GGGCATCCGA
1 GGGCATCCGA
7426945 GGG
1 GGG
7426948 AAGCCGAGCG
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
10 32 0.51
11 6 0.10
12 4 0.06
13 11 0.17
14 10 0.16
ACGTcount: A:0.23, C:0.29, G:0.38, T:0.11
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:7426913 original size:14 final size:14
Alignment explanation
Indices: 7426894--7426926 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7426884 GCGAGAGCAT
7426894 CCGAGGGCATCCGA
1 CCGAGGGCATCCGA
7426908 CCGAGGGCATCCGA
1 CCGAGGGCATCCGA
*
7426922 GCGAG
1 CCGAG
7426927 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.39, T:0.06
Consensus pattern (14 bp):
CCGAGGGCATCCGA
Found at i:7426943 original size:23 final size:23
Alignment explanation
Indices: 7426862--7426945 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 23
7426852 GCTGGGCATC
* *
7426862 CGAGGCCATCCAAGCGAGCTATG
1 CGAGGGCATCCGAGCGAGCTATG
*
7426885 CGAGAGCATCCGAG-G-GC-ATCCG
1 CGAGGGCATCCGAGCGAGCTAT--G
7426907 ACCGAGGGCATCCGAGCGAGCTATG
1 --CGAGGGCATCCGAGCGAGCTATG
7426932 CGAGGGCATCCGAG
1 CGAGGGCATCCGAG
7426946 GGAAGCCGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 2 0.04
23 25 0.50
24 13 0.26
25 2 0.04
26 2 0.04
27 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.36, T:0.11
Consensus pattern (23 bp):
CGAGGGCATCCGAGCGAGCTATG
Found at i:7427128 original size:22 final size:24
Alignment explanation
Indices: 7427078--7427130 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
7427068 GCTGCATTAT
*
7427078 TGCAGCATAATTTTCGTTGCTTCA
1 TGCAGCATAATTTGCGTTGCTTCA
* *
7427102 AGCAGCATCATTTGC-TT-CTTCA
1 TGCAGCATAATTTGCGTTGCTTCA
7427124 TGCAGCA
1 TGCAGCA
7427131 ATTATTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 12 0.48
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (24 bp):
TGCAGCATAATTTGCGTTGCTTCA
Found at i:7427540 original size:43 final size:42
Alignment explanation
Indices: 7427477--7427592 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
7427467 TCTATCATAC
*
7427477 ATAAA-TAAAAAATTATTTAATTAGTTTGTTTGTTTAATAGTT
1 ATAAATTAAAAAATTAATTAATTAGTTTGTTTG-TTAATAGTT
* *
7427519 ATAAATTAAAAAATTAATTAATTAGTTTGTTTGTTAGTCGTT
1 ATAAATTAAAAAATTAATTAATTAGTTTGTTTGTTAATAGTT
* *
7427561 AGTTATATATAAAAAA-TAGTTAATTAGTTTGT
1 A--TAAAT-TAAAAAATTAATTAATTAGTTTGT
7427593 AGTTAGTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
42 13 0.20
43 26 0.40
44 19 0.29
45 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (42 bp):
ATAAATTAAAAAATTAATTAATTAGTTTGTTTGTTAATAGTT
Found at i:7427650 original size:47 final size:47
Alignment explanation
Indices: 7427599--7427716 Score: 143
Period size: 47 Copynumber: 2.5 Consensus size: 47
7427589 TTGTAGTTAG
* *
7427599 TTAAAAAATTAAGTTATATTTGTTTGTT-G-AGTTGAA-TTTATATTATA
1 TTAAAAAATT-AGTT-TATTAGTTTATTAGTAGTTGAAGTTT-TATTATA
*
7427646 TTAAAAAATTAGTTTATTAGTTTATTAGTAGTTTAAGTTTTATTATA
1 TTAAAAAATTAGTTTATTAGTTTATTAGTAGTTGAAGTTTTATTATA
* *
7427693 ATAAAAAAATAGTTTATTAGTTTA
1 TTAAAAAATTAGTTTATTAGTTTA
7427717 AGTTTAAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
45 10 0.16
46 5 0.08
47 45 0.71
48 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (47 bp):
TTAAAAAATTAGTTTATTAGTTTATTAGTAGTTGAAGTTTTATTATA
Found at i:7427722 original size:42 final size:39
Alignment explanation
Indices: 7427663--7427745 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 39
7427653 ATTAGTTTAT
*
7427663 TAGTTTATTAGTAGTTTAAGTTTTA-TTATAATAAAAAAA
1 TAGTTTATTAGTAGTTTAAGTTTAAGTTAT-ATAAAAAAA
*
7427702 TAGTTTATTAGTTTAAGTTTAAGTTTAAGTTATATAAAAGAA
1 TAGTTTATTAG--T-AGTTTAAGTTTAAGTTATATAAAAAAA
7427744 TA
1 TA
7427746 ATTATTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
39 11 0.29
41 1 0.03
42 22 0.58
43 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (39 bp):
TAGTTTATTAGTAGTTTAAGTTTAAGTTATATAAAAAAA
Found at i:7427860 original size:21 final size:21
Alignment explanation
Indices: 7427835--7427874 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7427825 GTTAATTAGT
*
7427835 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGCTTAAGTTATATTA
7427856 TTGTTAGCTTAAGTTATAT
1 TTGTTAGCTTAAGTTATAT
7427875 CATATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.55
Consensus pattern (21 bp):
TTGTTAGCTTAAGTTATATTA
Found at i:7428162 original size:30 final size:30
Alignment explanation
Indices: 7428057--7428162 Score: 131
Period size: 30 Copynumber: 3.5 Consensus size: 30
7428047 TTTAGTTAAT
* * *
7428057 TAGTTTTTTAGTAGTAAATTATAATTAAAAAA
1 TAGTTTATTAGTTG-AAATTAT-ATTAAAGAA
* * *
7428089 TTGTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAATTATATTAAAGAA
7428119 TAGTTTATTAGTTGAAATTATATTAAAGAA
1 TAGTTTATTAGTTGAAATTATATTAAAGAA
*
7428149 TAATTTATTAGTTG
1 TAGTTTATTAGTTG
7428163 TTTAAGGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 48 0.75
31 6 0.09
32 10 0.16
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAATTATATTAAAGAA
Found at i:7428244 original size:15 final size:16
Alignment explanation
Indices: 7428216--7428249 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
7428206 GTTTGTTACT
7428216 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
7428232 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
7428247 TTA
1 TTA
7428250 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:7430551 original size:11 final size:11
Alignment explanation
Indices: 7430509--7430611 Score: 73
Period size: 11 Copynumber: 8.7 Consensus size: 11
7430499 ATATTAATAA
7430509 TAAAT-ATTAT
1 TAAATCATTAT
* *
7430519 CAAATCATTAC
1 TAAATCATTAT
7430530 TAAATCATTAT
1 TAAATCATTAT
7430541 TAAATCATTAT
1 TAAATCATTAT
*
7430552 TATAATGATTATT
1 TA-AATCATTA-T
7430565 ACTAAATCATTAT
1 --TAAATCATTAT
*
7430578 TATAATGGTTATTAT
1 TA-AA---TCATTAT
* *
7430593 CAAATCATTAC
1 TAAATCATTAT
7430604 TAAATCAT
1 TAAATCAT
7430612 CAAATCATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
10 4 0.05
11 40 0.55
12 9 0.12
13 2 0.03
14 9 0.12
15 9 0.12
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.43
Consensus pattern (11 bp):
TAAATCATTAT
Found at i:7430567 original size:37 final size:37
Alignment explanation
Indices: 7430513--7430611 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
7430503 TAATAATAAA
7430513 TATTATCAAATCATTACTAAATCATTATTA-AATCAT
1 TATTATCAAATCATTACTAAATCATTATTATAATCAT
* **
7430549 TATTAT-AATGATTATTACTAAATCATTATTATAATGGT
1 TATTATCAA--ATCATTACTAAATCATTATTATAATCAT
7430587 TATTATCAAATCATTACTAAATCAT
1 TATTATCAAATCATTACTAAATCAT
7430612 CAAATCATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
35 2 0.04
36 6 0.11
37 35 0.64
38 10 0.18
39 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.43
Consensus pattern (37 bp):
TATTATCAAATCATTACTAAATCATTATTATAATCAT
Found at i:7430570 original size:26 final size:25
Alignment explanation
Indices: 7430513--7430602 Score: 105
Period size: 26 Copynumber: 3.6 Consensus size: 25
7430503 TAATAATAAA
* *
7430513 TATTATCAAATCATTACTA-AATCAT
1 TATTAT-AAATCATTATTATAATGAT
7430538 TA-T-TAAATCATTATTATAATGAT
1 TATTATAAATCATTATTATAATGAT
*
7430561 TATTACTAAATCATTATTATAATGGT
1 TATTA-TAAATCATTATTATAATGAT
7430587 TATTATCAAATCATTA
1 TATTAT-AAATCATTA
7430603 CTAAATCATC
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.19
23 8 0.14
24 2 0.04
25 3 0.05
26 33 0.58
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (25 bp):
TATTATAAATCATTATTATAATGAT
Found at i:7430805 original size:26 final size:25
Alignment explanation
Indices: 7430721--7431014 Score: 197
Period size: 26 Copynumber: 12.0 Consensus size: 25
7430711 GTATCAAATC
* *
7430721 ATTA-AATATTAATAATAAATCATT
1 ATTATAATATTATTATTAAATCATT
* * *
7430745 ATTATCAA-ATCATCACTAAATCATT
1 ATTAT-AATATTATTATTAAATCATT
*
7430770 ATTAT--CATTATTATTAAATCATT
1 ATTATAATATTATTATTAAATCATT
* *
7430793 ATTATAATGATTATTACTAAATTATT
1 ATTATAAT-ATTATTATTAAATCATT
*
7430819 ATTATAATGATTATTATCAAATCATT
1 ATTATAAT-ATTATTATTAAATCATT
* * *
7430845 ACTA-AATCATCAAATCATT-AA--A-T
1 ATTATAAT-AT--TATTATTAAATCATT
* *
7430868 ATTA-AA-ATCATTATTAAATAATT
1 ATTATAATATTATTATTAAATCATT
*
7430891 ATTATCAA-ATCATTATTATAATCATT
1 ATTAT-AATATTATTATTA-AATCATT
*
7430917 ATTATAATCATTATTACTAAATCATT
1 ATTATAAT-ATTATTATTAAATCATT
*
7430943 ATTATAATGATTATTATCAAATCATT
1 ATTATAAT-ATTATTATTAAATCATT
* * *
7430969 A--CTAA-ATCATTGTTAAATCATT
1 ATTATAATATTATTATTAAATCATT
7430991 ATTATCAA-ATTATTATTAAATCAT
1 ATTAT-AATATTATTATTAAATCAT
7431015 CAAATCATTA
Statistics
Matches: 216, Mismatches: 34, Indels: 39
0.75 0.12 0.13
Matches are distributed among these distances:
19 5 0.02
20 2 0.01
21 2 0.01
22 16 0.07
23 30 0.14
24 9 0.04
25 53 0.25
26 87 0.40
27 12 0.06
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (25 bp):
ATTATAATATTATTATTAAATCATT
Found at i:7430830 original size:124 final size:120
Alignment explanation
Indices: 7430510--7431044 Score: 386
Period size: 124 Copynumber: 4.4 Consensus size: 120
7430500 TATTAATAAT
* * * * *
7430510 AAAT-ATTATCAAATCATTACTA-AATCATTATTAAATCATTATTATAATGATTATTACTAAATC
1 AAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATCATTATTACTAAATC
* * * * *
7430573 ATTATTATAATGGTTATTATCAAATCATT-ACTA-AATCATCAAATCATTAAATATTA
66 ATTATTATAATGATTATTATCAAATCATTAAATATAATAAT-AAATCATT-ATTA-TC
* * * * * * * *
7430629 AAATCATTGTTACAA--ATTA-AAT-TTTGA-AATTAGA-CTAGTTTTTTTAA-CCTTA--AC-A
1 AAATCATTATTA-AATCATTATTATCATT-ATTATTAAATC-A-TTATTATAATCATTATTACTA
*
7430684 AATTCGACATATTTATAATGATTATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTA
62 AA-TC-A-TTA-TTATAATGATTA-T--TATCAAATCATTAAATA-TAATAATAAATCATTATTA
7430749 TC
119 TC
* * * *
7430751 AAATCATCACTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAATT
1 AAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATCATTATTACTAAATC
* * * *
7430816 ATTATTATAATGATTATTATCAAATCATT-ACTA-AATCATCAAATCATTAAATATTA
66 ATTATTATAATGATTATTATCAAATCATTAAATATAATAAT-AAATCATT-ATTA-TC
* *
7430872 AAATCATTATTAAATAATTATTATCAAATCATTATTATAATCATTATTATAATCATTATTACTAA
1 AAATCATTATTAAATCATTATTATC--ATTATTATTA-AATCATTATTATAATCATTATTACTAA
* **
7430937 ATCATTATTATAATGATTATTATCAAATCATTACTAA-ATCATTGTTAAATCATTATTATC
63 ATCATTATTATAATGATTATTATCAAATCATTA--AATAT-AATAATAAATCATTATTATC
* * * *
7430997 AAATTATTATTAAATCATCA-AATCATTAAGTATTAAAATCATTATTAT
1 AAATCATTATTAAATCATTATTATCATT-ATTATT-AAATCATTATTAT
7431045 GGTTAATTGA
Statistics
Matches: 325, Mismatches: 52, Indels: 74
0.72 0.12 0.16
Matches are distributed among these distances:
115 3 0.01
116 4 0.01
117 2 0.01
118 18 0.06
119 35 0.11
120 12 0.04
121 39 0.12
122 24 0.07
123 37 0.11
124 91 0.28
125 36 0.11
126 6 0.02
127 12 0.04
128 6 0.02
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (120 bp):
AAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATCATTATTACTAAATC
ATTATTATAATGATTATTATCAAATCATTAAATATAATAATAAATCATTATTATC
Found at i:7430862 original size:227 final size:223
Alignment explanation
Indices: 7430408--7430879 Score: 674
Period size: 227 Copynumber: 2.0 Consensus size: 223
7430398 CGTTTGTTAT
7430408 TTGTTACAAATTAAATATTGAAATTAGACTAGTTTTTTTAACCTTAACAAATTCGACATATTTAT
1 TTGTTACAAATTAAATATTGAAATTAGACTAGTTTTTTTAACCTTAACAAATTCGACATATTTAT
*
7430473 AATGATTATTAGTATCAAATCATTAAATATTAATAATAAATATTATCAAATCATTACTAAATCAT
66 AATGATTATTAGTATCAAATCATTAAATATTAATAATAAATATTATCAAATCATCACTAAATCAT
* *
7430538 TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGGTTATTATCAAATCATTA
131 TATT-AATCATTATTATAATCATTATTACTAAATCATTATTATAATGATTATTAT-AAATCATTA
7430603 CTAAATCATCAAATCATTAAATATTAAAATCA
194 CT--ATCATCAAATCATTAAATATTAAAATCA
*
7430635 TTGTTACAAATTAAATTTTGAAATTAGACTAGTTTTTTTAACCTTAACAAATTCGACATATTTAT
1 TTGTTACAAATTAAATATTGAAATTAGACTAGTTTTTTTAACCTTAACAAATTCGACATATTTAT
7430700 AATGATTATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTATCAAATCATCACTAAA
66 AATGATTATTAGTATCAAATCATTAAATATTAATAAT-AA--A-TATTATCAAATCATCAC----
* *
7430765 TCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAATTATTATTATAATGAT
123 T-A--A--ATC---ATTATT-AATCATTATTATAATCATTATTACTAAATCATTATTATAATGAT
7430830 TATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
179 TATTAT-AAATCATTACT--ATCATCAAATCATTAAATATTAAAATCA
7430878 TT
1 TT
7430880 ATTAAATAAT
Statistics
Matches: 225, Mismatches: 4, Indels: 16
0.92 0.02 0.07
Matches are distributed among these distances:
227 101 0.45
228 2 0.01
230 1 0.00
231 16 0.07
235 1 0.00
236 1 0.00
238 1 0.00
240 3 0.01
243 99 0.44
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (223 bp):
TTGTTACAAATTAAATATTGAAATTAGACTAGTTTTTTTAACCTTAACAAATTCGACATATTTAT
AATGATTATTAGTATCAAATCATTAAATATTAATAATAAATATTATCAAATCATCACTAAATCAT
TATTAATCATTATTATAATCATTATTACTAAATCATTATTATAATGATTATTATAAATCATTACT
ATCATCAAATCATTAAATATTAAAATCA
Found at i:7431214 original size:14 final size:14
Alignment explanation
Indices: 7431190--7431268 Score: 69
Period size: 14 Copynumber: 5.9 Consensus size: 14
7431180 TTAGTAATAC
*
7431190 TTATTAAATCATTA
1 TTATCAAATCATTA
*
7431204 GTATCAAATCATTA
1 TTATCAAATCATTA
*
7431218 TTAT-AATTTCATTA
1 TTATCAA-ATCATTA
*
7431232 TTA-CTAATCATTA
1 TTATCAAATCATTA
7431245 -T-T-AAATCATTA
1 TTATCAAATCATTA
*
7431256 CTATCAAATCATT
1 TTATCAAATCATT
7431269 GTTACTATCA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 9 0.17
14 33 0.63
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.46
Consensus pattern (14 bp):
TTATCAAATCATTA
Found at i:7434403 original size:44 final size:48
Alignment explanation
Indices: 7434345--7434460 Score: 123
Period size: 44 Copynumber: 2.4 Consensus size: 48
7434335 GTTTAAACAC
* * *
7434345 ACTAACAAATTAATTAAATATTTTTTTA-ACAT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAAATAATGTTTTATACATCTATATATAACTTAA
* * *
7434389 ACTAAGAAACTAATTAACTAATGTTTTATATATCTAATATATAACTTAA
1 ACTAACAAACTAATTAAATAATGTTTTATACATCT-ATATATAACTTAA
7434438 ACTAACAAACTAATATAATATAA
1 ACTAACAAACTAAT-TAA-ATAA
7434461 CTTAAACTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
44 23 0.40
45 3 0.05
46 1 0.02
48 2 0.04
49 22 0.39
50 3 0.05
51 3 0.05
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (48 bp):
ACTAACAAACTAATTAAATAATGTTTTATACATCTATATATAACTTAA
Found at i:7434490 original size:21 final size:21
Alignment explanation
Indices: 7434457--7434505 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7434447 CTAATATAAT
7434457 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7434478 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7434499 ACTAACT
1 A-TAACT
7434506 AAATAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7434533 original size:35 final size:33
Alignment explanation
Indices: 7434478--7434567 Score: 101
Period size: 35 Copynumber: 2.7 Consensus size: 33
7434468 TAACAAACTA
* * *
7434478 ATAATTTATACTAACAAACTAACTAACTAAATAAT
1 ATAACTTAAACTAACAAACTAACTAAATAAAT--T
*
7434513 ATAACTTAAACTAACAAACTAACTAAATAACTT
1 ATAACTTAAACTAACAAACTAACTAAATAAATT
*
7434546 A-AACCCTAAACTAACAAACTAA
1 ATAA-CTTAAACTAACAAACTAA
7434568 TTATTTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.04
33 19 0.39
35 28 0.57
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (33 bp):
ATAACTTAAACTAACAAACTAACTAAATAAATT
Found at i:7434560 original size:56 final size:53
Alignment explanation
Indices: 7434422--7434549 Score: 170
Period size: 56 Copynumber: 2.4 Consensus size: 53
7434412 TTTTATATAT
*
7434422 CTAAT-ATATAACTTAAACTAACAAACTAATATAATATAACTTAAACTAACAAA
1 CTAATAATATAACTTAAACTAACTAACTAA-ATAATATAACTTAAACTAACAAA
* *
7434475 CTAATAATTTATACTAACAAACTAACTAACTAAATAATATAACTTAAACTAACAAA
1 CTAATAATATA-ACT--TAAACTAACTAACTAAATAATATAACTTAAACTAACAAA
7434531 CTAACTAA-ATAACTTAAAC
1 CTAA-TAATATAACTTAAAC
7434550 CCTAAACTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
53 9 0.14
54 4 0.06
55 6 0.09
56 29 0.45
57 17 0.26
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.28
Consensus pattern (53 bp):
CTAATAATATAACTTAAACTAACTAACTAAATAATATAACTTAAACTAACAAA
Found at i:7435986 original size:40 final size:39
Alignment explanation
Indices: 7435952--7436206 Score: 153
Period size: 36 Copynumber: 6.7 Consensus size: 39
7435942 TTTTTTATTT
* * *
7435952 ATATAAATATATTATATAG-TTTGCAAATGATTTTTGAA
1 ATATAAATATAATATATAGTTTTGAAAACGATTTTTGAA
*
7435990 ATATATATATAATATATAGTTTTGAAAACGATTTTTGAAA
1 ATATAAATATAATATATAGTTTTGAAAACGATTTTTG-AA
* * * * *
7436030 ATGTATACATATTATATAGATTTTTAAAAAC-A-TTTTGAA
1 A--TATAAATATAATATATAGTTTTGAAAACGATTTTTGAA
* * * *
7436069 A-AT-TATATAATATATTGTTTTTTAAAAAGCA-TTTTGAA
1 ATATAAATATAATATATAG-TTTTGAAAACG-ATTTTTGAA
* *
7436107 A-ATATATATAATATATAGTTTTTGAAAAC--CTTTT-AA
1 ATATAAATATAATATATAG-TTTTGAAAACGATTTTTGAA
* * *
7436143 AAACT-TATATAATATATAGTTTTGAAATC-ATTTTT-AA
1 ATA-TAAATATAATATATAGTTTTGAAAACGATTTTTGAA
* *
7436180 A-ACT-TATATAATATATAGTTTTAAAAA
1 ATA-TAAATATAATATATAGTTTTGAAAA
7436207 AAGCATTTTG
Statistics
Matches: 182, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
35 9 0.05
36 46 0.25
37 26 0.14
38 29 0.16
39 40 0.22
40 8 0.04
41 1 0.01
42 23 0.13
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (39 bp):
ATATAAATATAATATATAGTTTTGAAAACGATTTTTGAA
Found at i:7436006 original size:38 final size:36
Alignment explanation
Indices: 7435958--7436230 Score: 184
Period size: 39 Copynumber: 7.2 Consensus size: 36
7435948 ATTTATATAA
*
7435958 ATATATTATATAG-TTTGCAAATGATTTTTGAAATATAT
1 ATATAATATATAGTTTTG-AAA-GATTTTTGAAA-ATAT
7435996 ATATAATATATAGTTTTGAAAACGATTTTTGAAAATGTAT
1 ATATAATATATAGTTTTG-AAA-GATTTTTGAAAA--TAT
* * * * *
7436036 ACATATTATATAGATTTTTAAAAACATTTTGAAAAT-T
1 ATATAATATATAG-TTTTGAAAGA-TTTTTGAAAATAT
* *
7436073 ATATAATATATTGTTTTTTAAAAAGCA-TTTTGAAAATAT
1 ATATAATATATAG--TTTT-GAAAG-ATTTTTGAAAATAT
* *
7436112 ATATAATATATAGTTTTTGAAA-ACCTTTTAAAAACT-T
1 ATATAATATATAG-TTTTGAAAGA-TTTTTGAAAA-TAT
*
7436149 ATATAATATATAGTTTTGAAATCATTTTT-AAAACT-T
1 ATATAATATATAGTTTTGAAA-GATTTTTGAAAA-TAT
*
7436185 ATATAATATATAGTTTTAAAAAAAGCA-TTTTGAAAATAT
1 ATATAATATATAGTTTT---GAAAG-ATTTTTGAAAATAT
7436224 ATATAAT
1 ATATAAT
7436231 TTTTAAAACA
Statistics
Matches: 195, Mismatches: 20, Indels: 39
0.77 0.08 0.15
Matches are distributed among these distances:
35 1 0.01
36 32 0.16
37 40 0.21
38 40 0.21
39 51 0.26
40 27 0.14
41 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
ATATAATATATAGTTTTGAAAGATTTTTGAAAATAT
Found at i:7436091 original size:37 final size:36
Alignment explanation
Indices: 7435983--7436267 Score: 273
Period size: 37 Copynumber: 7.8 Consensus size: 36
7435973 TGCAAATGAT
*
7435983 TTTTGAAATATATATATAATATATAG-TTTTGAAAACGA
1 TTTTGAAA-AT-TATATAATATATAGTTTTTAAAAAC-A
*
7436021 TTTTTGAAAATGTATACATATTATATAGATTTTTAAAAACA
1 -TTTTGAAAAT-TAT--ATAATATATAG-TTTTTAAAAACA
*
7436062 TTTTGAAAATTATATAATATATTGTTTTTTAAAAAGCA
1 TTTTGAAAATTATATAATATATAG-TTTTTAAAAA-CA
* *
7436100 TTTTGAAAATATATATAATATATAGTTTTTGAAAACC
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAACA
* * *
7436137 TTTTAAAAACTTATATAATATATAG-TTTTGAAATCA
1 TTTTGAAAA-TTATATAATATATAGTTTTTAAAAACA
* *
7436173 TTTTTAAAACTTATATAATATATAGTTTTAAAAAAAGCA
1 TTTTGAAAA-TTATATAATATATAGTTTT-TAAAAA-CA
7436212 TTTTG-AAA--ATAT-ATATA-A-TTTTT-AAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
*
7436241 TTTTGAAAACTATATAATATATAGTTT
1 TTTTGAAAATTATATAATATATAGTTT
7436268 GAATTTTTTT
Statistics
Matches: 212, Mismatches: 18, Indels: 36
0.80 0.07 0.14
Matches are distributed among these distances:
29 7 0.03
30 7 0.03
32 8 0.04
33 6 0.03
34 6 0.03
35 7 0.03
36 33 0.16
37 45 0.21
38 33 0.16
39 30 0.14
40 20 0.09
41 1 0.00
42 9 0.04
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
Found at i:7436301 original size:38 final size:38
Alignment explanation
Indices: 7436246--7436318 Score: 96
Period size: 40 Copynumber: 1.9 Consensus size: 38
7436236 AAACATTTTG
7436246 AAAACTATAT-A-ATATATAGTTTGAATTTTTTTTAAA
1 AAAACTATATAATATATATAGTTTGAATTTTTTTTAAA
* *
7436282 AAAATTATATATATAATATATAGTTTTAATTTTTTTT
1 AAAACTATATA-AT-ATATATAGTTTGAATTTTTTTT
7436319 TGAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.29
38 1 0.03
40 21 0.68
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (38 bp):
AAAACTATATAATATATATAGTTTGAATTTTTTTTAAA
Found at i:7436368 original size:5 final size:5
Alignment explanation
Indices: 7436354--7436382 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
7436344 TTATTTTTCA
7436354 ATTTT A-TTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
7436383 TGTCCAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:7437375 original size:20 final size:20
Alignment explanation
Indices: 7437350--7437401 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
7437340 CAGTTTTATT
*
7437350 TTATTTTAATTTAGCCATTA
1 TTATTTTAATTTAGCCACTA
* *
7437370 TTATTTTTATTTAGCCACTG
1 TTATTTTAATTTAGCCACTA
7437390 TTATTTTAATTT
1 TTATTTTAATTT
7437402 TTGCATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.60
Consensus pattern (20 bp):
TTATTTTAATTTAGCCACTA
Found at i:7437500 original size:24 final size:24
Alignment explanation
Indices: 7437468--7437546 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 24
7437458 TTTTCTTAAC
**
7437468 ATTTTTTCTTTTTTCTTTTTTATT
1 ATTTTTTCTTTTTTAATTTTTATT
7437492 ATTTTTTC-TTTTTAATTTTTATT
1 ATTTTTTCTTTTTTAATTTTTATT
* *
7437515 A-TTCTTCTTTTTACTAAATTTTATTT
1 ATTTTTTCTTTTT--TAATTTTTA-TT
7437541 ATTTTT
1 ATTTTT
7437547 ATTTATCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.11
23 18 0.40
24 8 0.18
25 8 0.18
26 3 0.07
27 3 0.07
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTTTTCTTTTTTAATTTTTATT
Found at i:7437526 original size:22 final size:23
Alignment explanation
Indices: 7437484--7437527 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7437474 TCTTTTTTCT
*
7437484 TTTTTATTATTTTTTCTTTTTAA
1 TTTTTATTATTTCTTCTTTTTAA
7437507 TTTTTATTA-TTCTTCTTTTTA
1 TTTTTATTATTTCTTCTTTTTA
7437528 CTAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTATTATTTCTTCTTTTTAA
Found at i:7437551 original size:14 final size:14
Alignment explanation
Indices: 7437534--7437620 Score: 54
Period size: 14 Copynumber: 6.2 Consensus size: 14
7437524 TTTACTAAAT
7437534 TTTATTTATTTTTA
1 TTTATTTATTTTTA
* *
7437548 TTTATCTA-TTTTC
1 TTTATTTATTTTTA
*
7437561 TTTATTTTATTATTA
1 TTTA-TTTATTTTTA
**
7437576 -TTATTATATTAATA
1 TTTATT-TATTTTTA
* *
7437590 TTTTTTTCTTTTT-
1 TTTATTTATTTTTA
*
7437603 TCATATTTATTTTTA
1 T-TTATTTATTTTTA
7437618 TTT
1 TTT
7437621 TATCATCTAA
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
13 11 0.21
14 34 0.64
15 8 0.15
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:7442494 original size:126 final size:128
Alignment explanation
Indices: 7442346--7442574 Score: 390
Period size: 127 Copynumber: 1.8 Consensus size: 128
7442336 TCAACGGGGG
* *
7442346 GATTCTCGGCTACACCCCGATAAGAACAAGAGGGAGGTAA-CCATTCGAGGATAGTATTGTGATC
1 GATTCTCGGCTACACCCCGATAAGAACAAGAGGGAGATAACCCAATCGAGGATAGTATTGTGATC
* *
7442410 ACCAATCCGTAAGGCGCTTCAAGCCTTATCAAACAGCAATAGAAAACGGACAGGGGGGGGCAC
66 ACCAATCCATAAGGCACTTCAAGCCTTATCAAACAGCAATAGAAAACGGACAGGGGGGGGCAC
*
7442473 GATTC-CGGCTACACCCTGATAAGAACAAGAGGGAGATAACCCAATCGAGGATAGTATTGTGATC
1 GATTCTCGGCTACACCCCGATAAGAACAAGAGGGAGATAACCCAATCGAGGATAGTATTGTGATC
*
7442537 ACCAATCCATAAGGCACTTCAAGCCTTCTCAAACAGCA
66 ACCAATCCATAAGGCACTTCAAGCCTTATCAAACAGCA
7442575 GAGGGAGGTA
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
126 32 0.34
127 63 0.66
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (128 bp):
GATTCTCGGCTACACCCCGATAAGAACAAGAGGGAGATAACCCAATCGAGGATAGTATTGTGATC
ACCAATCCATAAGGCACTTCAAGCCTTATCAAACAGCAATAGAAAACGGACAGGGGGGGGCAC
Found at i:7444318 original size:3 final size:3
Alignment explanation
Indices: 7444310--7444364 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
7444300 TAGTATTTAA
* *
7444310 ATT ATT ATT ATT ATT ATT ATT ATT -TT AAT ATT -TT AAT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
7444355 -TT ATA ATT AT
1 ATT ATT ATT AT
7444365 ACTTAGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7444322 original size:9 final size:9
Alignment explanation
Indices: 7444310--7444364 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
7444300 TAGTATTTAA
7444310 ATTATTATT
1 ATTATTATT
7444319 ATTATTATT
1 ATTATTATT
7444328 ATTATT-TT
1 ATTATTATT
*
7444336 AATATT-TT
1 ATTATTATT
*
7444344 AATATTATT
1 ATTATTATT
*
7444353 -TT-TTATA
1 ATTATTATT
7444360 ATTAT
1 ATTAT
7444365 ACTTAGTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.10
8 18 0.45
9 18 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTATTATT
Found at i:7444349 original size:22 final size:22
Alignment explanation
Indices: 7444315--7444357 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7444305 TTTAAATTAT
*
7444315 TATTATTATTATTATTATTTTAA
1 TATTATTAATATTATT-TTTTAA
7444338 TATT-TTAATATTATTTTTTA
1 TATTATTAATATTATTTTTTA
7444358 TAATTATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTATTAATATTATTTTTTAA
Found at i:7450289 original size:75 final size:74
Alignment explanation
Indices: 7450127--7450335 Score: 205
Period size: 75 Copynumber: 2.9 Consensus size: 74
7450117 ATAAATATAT
* * * * *
7450127 ATAAAAAATCATAA-A-T-AAA-GTCAAATATCAAGACTCAAACAACAATATTAAGTTTAGAACA
1 ATAAAAAATCATAATATTAAAATGTCAAATTTCAAGATTCAAACAATAATATTAAATCTAGAACA
7450188 ATAAAATCC
66 ATAAAATCC
** * * * *
7450197 ATAAACAAGCCACAATATTAAAATGTCAAATTTCAAGATTCAAACTATAATATTAACTCTAGAAT
1 ATAAA-AAATCATAATATTAAAATGTCAAATTTCAAGATTCAAACAATAATATTAAATCTAGAAC
*
7450262 AATGAAATCC
65 AATAAAATCC
* * *
7450272 ATAATAAAATCATAATATTAAAGTGTTAAATCTT-ACA-ATTCAAACCATAATATTAAATCTAGA
1 ATAA-AAAATCATAATATTAAAATGTCAAAT-TTCA-AGATTCAAACAATAATATTAAATCTAGA
7450335 A
63 A
7450336 AACATAATGA
Statistics
Matches: 113, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
70 5 0.04
71 6 0.05
72 1 0.01
73 1 0.01
74 3 0.03
75 93 0.82
76 4 0.04
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (74 bp):
ATAAAAAATCATAATATTAAAATGTCAAATTTCAAGATTCAAACAATAATATTAAATCTAGAACA
ATAAAATCC
Found at i:7451299 original size:23 final size:23
Alignment explanation
Indices: 7451230--7451299 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
7451220 TTCATTAAAT
*
7451230 GAACATAAACGAACACGAACGAAC
1 GAACATAAACGAACAC-AACAAAC
* *
7451254 GAACGTAAACGAACACAATAAAC
1 GAACATAAACGAACACAACAAAC
7451277 GAACATAAACGAACA-ACACAAAC
1 GAACATAAACGAACACA-ACAAAC
7451300 ACACAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 1 0.03
23 24 0.60
24 15 0.38
ACGTcount: A:0.57, C:0.24, G:0.13, T:0.06
Consensus pattern (23 bp):
GAACATAAACGAACACAACAAAC
Found at i:7451574 original size:14 final size:16
Alignment explanation
Indices: 7451555--7451586 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
7451545 GCCCTCTGTT
7451555 CGAACATA-AAT-GAA
1 CGAACATATAATCGAA
7451569 CGAACATATAATCGAA
1 CGAACATATAATCGAA
7451585 CG
1 CG
7451587 TTCACGAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:7455491 original size:2 final size:2
Alignment explanation
Indices: 7455481--7455558 Score: 56
Period size: 2 Copynumber: 39.5 Consensus size: 2
7455471 AAATTAAAAA
* *
7455481 AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
7455521 AA ACT AT AT AT AT AT AT AT AA ACT AT AT TT AT AT -T AT A
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A
7455559 AACTATATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
1 4 0.07
2 54 0.90
3 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7455505 original size:19 final size:19
Alignment explanation
Indices: 7455487--7455676 Score: 105
Period size: 19 Copynumber: 10.8 Consensus size: 19
7455477 AAAAATATAA
7455487 TATATATATATATATATAA-
1 TATATATATATATATA-AAC
* *
7455506 TATA-AGTTTGTATATAAAC
1 TATATA-TATATATATAAAC
7455525 TATATATATATATATAAAC
1 TATATATATATATATAAAC
*
7455544 TATATTTATAT-TATAAAC
1 TATATATATATATATAAAC
7455562 TATATA-AT-TAT-T--A-
1 TATATATATATATATAAAC
7455575 TA-AGT-TATATATATAAA-
1 TATA-TATATATATATAAAC
* *
7455592 T-TATGT-T-TATATGAAC
1 TATATATATATATATAAAC
* *
7455608 TATATATATAAACTATAAAA
1 TATATATATATA-TATAAAC
* *
7455628 AATATATA-ATTTATAAAC
1 TATATATATATATATAAAC
*
7455646 TATA-AT-T-TATATTAA-
1 TATATATATATATATAAAC
7455661 TATAGTATATATATAT
1 TATA-TATATATATAT
7455677 TATTCAAAGT
Statistics
Matches: 131, Mismatches: 18, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
12 1 0.01
13 5 0.04
14 4 0.03
15 12 0.09
16 11 0.08
17 15 0.11
18 26 0.20
19 44 0.34
20 13 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:7455573 original size:18 final size:18
Alignment explanation
Indices: 7455518--7455589 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
7455508 TAAGTTTGTA
7455518 TATAAACTATATATATAT
1 TATAAACTATATATATAT
*
7455536 ATATAAACTATATTTATAT
1 -TATAAACTATATATATAT
7455555 TATAAACTATATA-ATTAT
1 TATAAACTATATATA-TAT
**
7455573 TATAAGTTATATATATA
1 TATAAACTATATATATA
7455590 AATTATGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.02
18 28 0.60
19 18 0.38
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAT
Found at i:7455799 original size:20 final size:20
Alignment explanation
Indices: 7455754--7455829 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 20
7455744 TTTATTTGGG
* *
7455754 AATTTAGAGGGAATTTG-AG
1 AATTTAGAGGGAAATTGAAA
7455773 AATTTAGAGGGAAATTGAAA
1 AATTTAGAGGGAAATTGAAA
* *
7455793 AACTTAGAGGG-AATAGAAA
1 AATTTAGAGGGAAATTGAAA
*
7455812 AATTTGGAGGGAAATTGA
1 AATTTAGAGGGAAATTGA
7455830 GAATTGAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (20 bp):
AATTTAGAGGGAAATTGAAA
Found at i:7456028 original size:2 final size:2
Alignment explanation
Indices: 7456021--7456144 Score: 69
Period size: 2 Copynumber: 62.5 Consensus size: 2
7456011 TTTAGTTTTC
* * * *
7456021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
7456063 TA TG TA TA TA AA CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
7456106 GTT TA TA AA T- TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
7456145 GTATGTATAA
Statistics
Matches: 90, Mismatches: 23, Indels: 18
0.69 0.18 0.14
Matches are distributed among these distances:
1 5 0.06
2 80 0.89
3 5 0.06
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7456340 original size:2 final size:2
Alignment explanation
Indices: 7456302--7456331 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7456292 ATAAACCATG
7456302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7456332 AACTATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7456758 original size:20 final size:19
Alignment explanation
Indices: 7456735--7456833 Score: 87
Period size: 18 Copynumber: 5.3 Consensus size: 19
7456725 ATATGTATGC
*
7456735 ATAAACCATGTATAGTATAT
1 ATAAACCATATATA-TATAT
*
7456755 ATAAACTATATATATATAT
1 ATAAACCATATATATATAT
* *
7456774 ATATA-TATATATATATAT
1 ATAAACCATATATATATAT
* *
7456792 ATATA-TATATATATATAT
1 ATAAACCATATATATATAT
* *
7456810 ATATA-TATATATATACTAT
1 ATAAACCATATATATA-TAT
7456829 ATAAA
1 ATAAA
7456834 GTAAATTACT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
18 46 0.62
19 16 0.22
20 12 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAAACCATATATATATAT
Found at i:7456849 original size:2 final size:2
Alignment explanation
Indices: 7456745--7456831 Score: 138
Period size: 2 Copynumber: 42.0 Consensus size: 2
7456735 ATAAACCATG
*
7456745 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7456789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
7456832 AAGTAAATTA
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 75 0.94
3 5 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Done.