Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 190 of 352
Found at i:62445170 original size:37 final size:37
Alignment explanation
Indices: 62445117--62445293 Score: 318
Period size: 37 Copynumber: 4.8 Consensus size: 37
62445107 CGAATAGTCC
* **
62445117 CCACACGTAGTTATCGGGTCTTACCCGGACAGGATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62445154 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
62445191 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62445228 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62445265 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62445294 ATATATTTCC
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:62445486 original size:48 final size:48
Alignment explanation
Indices: 62445426--62445771 Score: 575
Period size: 48 Copynumber: 7.2 Consensus size: 48
62445416 TGGCCACAAT
* * * *
62445426 ATATACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAA
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
62445474 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
62445522 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
62445570 ATATATATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
62445618 CTATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
62445666 ATATACAGATCTCATATATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
62445714 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCATTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
62445762 ACATATATAT
1 ATATACATAT
62445772 ATTTTTCTTG
Statistics
Matches: 279, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 279 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:62449798 original size:40 final size:40
Alignment explanation
Indices: 62449752--62450037 Score: 430
Period size: 40 Copynumber: 7.2 Consensus size: 40
62449742 CCGAATACAC
* * * *
62449752 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
62449792 AACACCAGCACGAATGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * ** * *
62449832 AACTCTAGCACGAATGCTCTTCAAGACTTAGCTCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
62449872 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
62449912 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
62449952 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
62449992 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
62450032 ATCACT
1 ATCACT
62450038 CTCAATTCTC
Statistics
Matches: 226, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 222 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:62451371 original size:37 final size:37
Alignment explanation
Indices: 62451315--62451454 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
62451305 CGAATAGTCC
* * * *
62451315 CCACACATAGTTATTGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
62451352 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62451389 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62451426 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62451455 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:62451655 original size:48 final size:48
Alignment explanation
Indices: 62451591--62451980 Score: 636
Period size: 48 Copynumber: 8.1 Consensus size: 48
62451581 CACAATATAC
* * *
62451591 ACATATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
62451639 ACATATATCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
62451687 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
* * *
62451735 ACATATCTCATATATATTTCACATTAGCCATTAGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
* * *
62451783 ATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
62451831 ACATATCTCATACATATTTCACACTACCCATTCGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
* * *
62451879 ACATATCTCATATATATTTCATAATAGCCATTCGGCTTTACCACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
62451927 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
62451975 ATATAT
1 ACATAT
62451981 TTGTCTTGTA
Statistics
Matches: 317, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 317 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
Found at i:62455212 original size:26 final size:28
Alignment explanation
Indices: 62455171--62455235 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
62455161 GGGCATAATC
62455171 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCATTTTACCATACAAGGGGTATTACG
*
62455198 GTCA-TTTACCCTACAAGGGGTATTACG
1 GTCATTTTACCATACAAGGGGTATTACG
* *
62455225 ATTATTTTACC
1 GTCATTTTACC
62455236 TATTTTGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.27
27 18 0.55
28 6 0.18
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (28 bp):
GTCATTTTACCATACAAGGGGTATTACG
Found at i:62456641 original size:16 final size:17
Alignment explanation
Indices: 62456616--62456648 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62456606 AGAGAGGAAA
62456616 AAAAAACAAAG-CAAGG
1 AAAAAACAAAGCCAAGG
*
62456632 AAAAACCAAAGCCAAGG
1 AAAAAACAAAGCCAAGG
62456649 TCCCCAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.18, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAGCCAAGG
Found at i:62458838 original size:36 final size:36
Alignment explanation
Indices: 62458791--62458863 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
62458781 TTACTGTATG
* * *
62458791 AAAACACAGTTTAAAATCATTAGGAGTCATCACACT
1 AAAACACAGTTTAAAACCATCAAGAGTCATCACACT
*
62458827 AAAACACAGTTTAAAACCGTCAAGAGTCATCACACT
1 AAAACACAGTTTAAAACCATCAAGAGTCATCACACT
62458863 A
1 A
62458864 TTATAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (36 bp):
AAAACACAGTTTAAAACCATCAAGAGTCATCACACT
Found at i:62461886 original size:68 final size:68
Alignment explanation
Indices: 62461766--62461892 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
62461756 GCTACATTTA
* * * *
62461766 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATA
1 TCTCATAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
62461831 ATG
66 ATG
* * *
62461834 TCTCATAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCATAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
62461893 ATACCATTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (68 bp):
TCTCATAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:62465965 original size:23 final size:23
Alignment explanation
Indices: 62465921--62466149 Score: 109
Period size: 22 Copynumber: 10.0 Consensus size: 23
62465911 TAAGTATATA
62465921 TGTTTA-AGGGTAT-ATTGGTTG
1 TGTTTAGAGGGTATAATTGGTTG
*
62465942 TGTTTAGAGGGTATACTTGGTTG
1 TGTTTAGAGGGTATAATTGGTTG
* * * * *
62465965 TGTTCAAATGTTATATATATGGTGG
1 TGTTTAGAGGGTATA-AT-TGGTTG
* * * * *
62465990 TGTTTTGCA-AGTACATTTGGTTA
1 TGTTTAG-AGGGTATAATTGGTTG
**
62466013 TGTTCGGAGGGTA-AATTGGTTG
1 TGTTTAGAGGGTATAATTGGTTG
*
62466035 TGTTTAGAGGGTATACTTGGTTG
1 TGTTTAGAGGGTATAATTGGTTG
** * *
62466058 TGTTCGGAGGTTAAATATATGGTTG
1 TGTTTAGAGGGTATA-AT-TGGTTG
* * *
62466083 TGTTT-GAATGGTA-CATTAGTTG
1 TGTTTAG-AGGGTATAATTGGTTG
* *
62466105 TGTCT-GAAGGGTA-AATTGGTTA
1 TGTTTAG-AGGGTATAATTGGTTG
62466127 TGTTTCA-AGGGTA-AATTGGTTG
1 TGTTT-AGAGGGTATAATTGGTTG
62466149 T
1 T
62466150 TTTTGATGGG
Statistics
Matches: 155, Mismatches: 41, Indels: 23
0.71 0.19 0.11
Matches are distributed among these distances:
21 6 0.04
22 67 0.43
23 51 0.33
24 4 0.03
25 26 0.17
26 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.43
Consensus pattern (23 bp):
TGTTTAGAGGGTATAATTGGTTG
Found at i:62466055 original size:45 final size:47
Alignment explanation
Indices: 62465927--62466087 Score: 161
Period size: 48 Copynumber: 3.5 Consensus size: 47
62465917 TATATGTTTA
**
62465927 AGGGT-ATAT-TGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCAA
1 AGGGTAATATATGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCGG
* * * * * * * *
62465972 ATGTTATATATATGGTGGTGTTTTGCA-AGTACATTTGGTTATGTTCGG
1 AGGGTA-ATATATGGTTGTGTTTAG-AGGGTATACTTGGTTGTGTTCGG
62466020 AGGGTAA-AT-TGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCGG
1 AGGGTAATATATGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCGG
*
62466065 AGGTTAAATATATGGTTGTGTTT
1 AGGGT-AATATATGGTTGTGTTT
62466088 GAATGGTACA
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
44 1 0.01
45 35 0.39
46 4 0.04
47 7 0.08
48 41 0.46
49 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.32, T:0.43
Consensus pattern (47 bp):
AGGGTAATATATGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCGG
Found at i:62466086 original size:93 final size:91
Alignment explanation
Indices: 62465926--62466149 Score: 267
Period size: 93 Copynumber: 2.4 Consensus size: 91
62465916 ATATATGTTT
* * *
62465926 AAGGGTATATTGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCAAATGTTATATATATGGTGGT
1 AAGGGTAAATTGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCAAAGGTTAAATATATGGTGGT
*
62465991 GTTTTGCAA-GTACATTTGGTTATGT-TCG
66 G-TTTG-AAGGTACA-TTAGTTATGTCT-G
* ** *
62466019 GAGGGTAAATTGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCGGAGGTTAAATATATGGTTGT
1 AAGGGTAAATTGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCAAAGGTTAAATATATGGTGGT
*
62466084 GTTTGAATGGTACATTAGTTGTGTCTG
66 GTTTGAA-GGTACATTAGTTATGTCTG
* *
62466111 AAGGGTAAATTGGTTATGTTTCA-AGGGTA-AATTGGTTGT
1 AAGGGTAAATTGGTTGTGTTT-AGAGGGTATACTTGGTTGT
62466150 TTTTGATGGG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
91 11 0.10
92 38 0.33
93 66 0.57
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.42
Consensus pattern (91 bp):
AAGGGTAAATTGGTTGTGTTTAGAGGGTATACTTGGTTGTGTTCAAAGGTTAAATATATGGTGGT
GTTTGAAGGTACATTAGTTATGTCTG
Found at i:62466160 original size:22 final size:22
Alignment explanation
Indices: 62466006--62466160 Score: 123
Period size: 22 Copynumber: 6.9 Consensus size: 22
62465996 GCAAGTACAT
* * *
62466006 TTGGTTATGTTCGGAGGGTAAA
1 TTGGTTGTGTTTGAAGGGTAAA
*
62466028 TTGGTTGTGTTT-AGAGGGTATAC
1 TTGGTTGTGTTTGA-AGGGTA-AA
* * *
62466051 TTGGTTGTGTTCGGAGGTTAAATA
1 TTGGTTGTGTTTGAAGGGT-AA-A
* *
62466075 TATGGTTGTGTTTGAATGGTACA
1 T-TGGTTGTGTTTGAAGGGTAAA
* *
62466098 TTAGTTGTGTCTGAAGGGTAAA
1 TTGGTTGTGTTTGAAGGGTAAA
* *
62466120 TTGGTTATGTTTCAAGGGTAAA
1 TTGGTTGTGTTTGAAGGGTAAA
* *
62466142 TTGGTTGTTTTTGATGGGT
1 TTGGTTGTGTTTGAAGGGT
62466161 GATAGCTTTA
Statistics
Matches: 102, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
22 66 0.65
23 19 0.19
24 3 0.03
25 14 0.14
ACGTcount: A:0.21, C:0.04, G:0.33, T:0.43
Consensus pattern (22 bp):
TTGGTTGTGTTTGAAGGGTAAA
Found at i:62468284 original size:17 final size:17
Alignment explanation
Indices: 62468262--62468298 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
62468252 ATGCAGGTTG
62468262 AAGAGCTATTGGTTATT
1 AAGAGCTATTGGTTATT
*
62468279 AAGAGCTGTTGGTTATT
1 AAGAGCTATTGGTTATT
62468296 AAG
1 AAG
62468299 GTAAGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (17 bp):
AAGAGCTATTGGTTATT
Found at i:62475567 original size:26 final size:26
Alignment explanation
Indices: 62475537--62475588 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62475527 GATAAACTTT
62475537 ATAGAGATGTTCCGTTAGAGGTGCAA
1 ATAGAGATGTTCCGTTAGAGGTGCAA
62475563 ATAGAGATGTTCCGTTAGAGGTGCAA
1 ATAGAGATGTTCCGTTAGAGGTGCAA
62475589 GGGGCAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (26 bp):
ATAGAGATGTTCCGTTAGAGGTGCAA
Found at i:62478524 original size:29 final size:29
Alignment explanation
Indices: 62478469--62478563 Score: 113
Period size: 28 Copynumber: 3.3 Consensus size: 29
62478459 GTGAGCATGA
* *
62478469 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATCTGGGCCTAATGGGCC
62478497 ATATAAATGTGATCTGGGCCTAATGGGCC
1 ATATAAATGTGATCTGGGCCTAATGGGCC
* * * *
62478526 ATATGAATATTAT-TGGGCTTAATGGGCC
1 ATATAAATGTGATCTGGGCCTAATGGGCC
*
62478554 ATATACATGT
1 ATATAAATGT
62478564 ATGTGAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.56
29 25 0.44
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATCTGGGCCTAATGGGCC
Found at i:62478548 original size:28 final size:29
Alignment explanation
Indices: 62478481--62478558 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
62478471 ATGAATGTGA
* *
62478481 CTGGGCCTAACGGGCCATATAAATGTGAT
1 CTGGGCCTAATGGGCCATATAAATATGAT
* *
62478510 CTGGGCCTAATGGGCCATATGAATATTAT
1 CTGGGCCTAATGGGCCATATAAATATGAT
*
62478539 -TGGGCTTAATGGGCCATATA
1 CTGGGCCTAATGGGCCATATA
62478559 CATGTATGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (29 bp):
CTGGGCCTAATGGGCCATATAAATATGAT
Found at i:62484641 original size:16 final size:16
Alignment explanation
Indices: 62484620--62484650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62484610 GTAACGCCCT
62484620 AAAAATCCCGAAATCC
1 AAAAATCCCGAAATCC
*
62484636 AAAAATCTCGAAATC
1 AAAAATCCCGAAATC
62484651 TTGAATTTTC
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:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:62486123 original size:29 final size:29
Alignment explanation
Indices: 62486071--62486140 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
62486061 GTGAAAATGA
62486071 ATATGAATATGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATCTGGGCCTAACGGGCC
* *
62486099 ATATAAATATGATTTGGGCCTAACGGGCC
1 ATATGAATATGATCTGGGCCTAACGGGCC
62486128 ATATGAATATGAT
1 ATATGAATATGAT
62486141 AGGGCTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (29 bp):
ATATGAATATGATCTGGGCCTAACGGGCC
Found at i:62487264 original size:24 final size:24
Alignment explanation
Indices: 62487237--62487294 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
62487227 TTGGAGGCCT
62487237 AGCCTCTTTTGAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
62487261 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
62487286 AGCCCTTTT
1 AGCCCTTTT
62487295 CGCCCTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 14 0.45
25 16 0.52
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:62487369 original size:11 final size:11
Alignment explanation
Indices: 62487350--62487401 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
62487340 GTATATCATA
62487350 GCATATCATGT
1 GCATATCATGT
*
62487361 GCATCTCA--T
1 GCATATCATGT
*
62487370 ACATATCATGT
1 GCATATCATGT
62487381 GCATATCATGT
1 GCATATCATGT
62487392 -CATATCATGT
1 GCATATCATGT
62487402 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.20
10 10 0.29
11 18 0.51
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (11 bp):
GCATATCATGT
Found at i:62487376 original size:20 final size:20
Alignment explanation
Indices: 62487342--62487401 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
62487332 TCTAATGAGT
62487342 ATATCATAGCATATCATGTGC
1 ATATCATA-CATATCATGTGC
*
62487363 ATCTCATACATATCATGTGC
1 ATATCATACATATCATGTGC
*
62487383 ATATCATGTCATATCATGT
1 ATATCAT-ACATATCATGT
62487402 ATAACAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
ATATCATACATATCATGTGC
Found at i:62487485 original size:25 final size:26
Alignment explanation
Indices: 62487438--62487487 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
62487428 AGAATTAAAC
* *
62487438 CCTAGGGGGTACAATGGTCATTTTTA
1 CCTAGGGGGTAAAATAGTCATTTTTA
*
62487464 CCTA-GGGGTAAAATAGTTATTTTT
1 CCTAGGGGGTAAAATAGTCATTTTT
62487488 CATATTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (26 bp):
CCTAGGGGGTAAAATAGTCATTTTTA
Found at i:62495333 original size:24 final size:24
Alignment explanation
Indices: 62495287--62495357 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
62495277 CCTTATCATG
*
62495287 TAACTGGAGGCCTAG-CCTCTTTTGA
1 TAACTGG-GGCATAGCCCT-TTTTGA
*
62495312 TAACTGGGGCATAGCCCTTTTTGG
1 TAACTGGGGCATAGCCCTTTTTGA
*
62495336 TAAACTGGGGCAAAGCCCTTTT
1 T-AACTGGGGCATAGCCCTTTT
62495358 CACACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 12 0.29
25 29 0.71
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (24 bp):
TAACTGGGGCATAGCCCTTTTTGA
Found at i:62495432 original size:21 final size:21
Alignment explanation
Indices: 62495405--62495465 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
62495395 TATAATGAGT
62495405 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* **
62495426 ATCTCATAAAATATCATGTGC
1 ATATCATAGCATATCATGTGC
62495447 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
62495466 ATAACAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:62495464 original size:10 final size:10
Alignment explanation
Indices: 62495405--62495465 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
62495395 TATAATGAGT
62495405 ATATCATAG-C
1 ATATCAT-GTC
62495415 ATATCATGTGC
1 ATATCATGT-C
* ***
62495426 ATCTCATAAA
1 ATATCATGTC
62495436 ATATCATGTGC
1 ATATCATGT-C
62495447 ATATCATGTC
1 ATATCATGTC
62495457 ATATCATGT
1 ATATCATGT
62495466 ATAACAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.03
10 23 0.57
11 16 0.40
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:62504568 original size:27 final size:27
Alignment explanation
Indices: 62504537--62504714 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62504527 TAAATTGTAC
*
62504537 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
62504564 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
62504590 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
62504618 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
62504645 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
62504673 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
62504700 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62504715 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:62504598 original size:54 final size:55
Alignment explanation
Indices: 62504537--62504714 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
62504527 TAAATTGTAC
* **
62504537 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
62504592 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
62504645 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
62504700 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62504715 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:62517333 original size:38 final size:39
Alignment explanation
Indices: 62517212--62517335 Score: 126
Period size: 39 Copynumber: 3.2 Consensus size: 39
62517202 CTTTAACCCA
** * *
62517212 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGAGGACCTCATGTCCG
* * * * *
62517251 GATATATTTCTAGCATATAGCCTGTA-GATCTAATGTCCA
1 GATATTTTTCCAGCATATAGCCTG-AGGACCTCATGTCCG
* *
62517290 GATATTTTTCCAGCTTATAG-CTGAGGACCTCATGTCTG
1 GATATTTTTCCAGCATATAGCCTGAGGACCTCATGTCCG
62517328 GATATTTT
1 GATATTTT
62517336 CAATCTCATA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
37 1 0.01
38 20 0.30
39 46 0.69
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGAGGACCTCATGTCCG
Found at i:62519760 original size:23 final size:23
Alignment explanation
Indices: 62519734--62519852 Score: 141
Period size: 23 Copynumber: 5.2 Consensus size: 23
62519724 CAAAGTGCCA
* * *
62519734 CACTGTAATATAGCCGAAGCTAT
1 CACTGTATTGTAGCCGAAGCTAC
* **
62519757 CACTTTAACGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
*
62519780 CACT-TATTGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* *
62519802 CACTGTATTATAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
*
62519825 CACTATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
62519848 CACTG
1 CACTG
62519853 AGATGTAGCC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
22 19 0.23
23 64 0.77
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (23 bp):
CACTGTATTGTAGCCGAAGCTAC
Found at i:62528265 original size:38 final size:38
Alignment explanation
Indices: 62528202--62528302 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 38
62528192 ATTTGATATG
* *
62528202 TATCCGGGCTTAAAGACTCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
62528242 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* *
62528280 TATCCAGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
62528303 CTAGTGTTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 42 0.76
39 5 0.09
40 8 0.15
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:62528314 original size:38 final size:38
Alignment explanation
Indices: 62528220--62528320 Score: 121
Period size: 38 Copynumber: 2.7 Consensus size: 38
62528210 CTTAAAGACT
* * ** * *
62528220 CGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCC
1 CGCAGGCCTAGTGCTGGTATTATATCCAGGATAAATCC
* *
62528258 CGCAGGCTTCGTGCTGGTATTATATCCAGGATAAATCC
1 CGCAGGCCTAGTGCTGGTATTATATCCAGGATAAATCC
*
62528296 CGCAGGCCTAGTGTTGGTATTATAT
1 CGCAGGCCTAGTGCTGGTATTATAT
62528321 TTGGGCCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
CGCAGGCCTAGTGCTGGTATTATATCCAGGATAAATCC
Found at i:62528371 original size:43 final size:43
Alignment explanation
Indices: 62528318--62528472 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
62528308 GTTGGTATTA
*
62528318 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
62528361 TATTCGGGCCTTCGTGCCTAACAGGCTTCATGCCAGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
62528404 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
62528447 TAATCGAGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
62528473 GTAATGCCGG
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:62528480 original size:86 final size:86
Alignment explanation
Indices: 62528318--62528485 Score: 264
Period size: 86 Copynumber: 2.0 Consensus size: 86
62528308 GTTGGTATTA
* * * *
62528318 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAAC
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTAATCGAGCCTTCGTGCCTAAC
* *
62528383 AGGCTTCATGCCAGTGATATG
66 AGGCGTAATGCCAGTGATATG
*
62528404 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTAATCGAGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTAATCGAGCCTTCGTGCCTAAC
*
62528469 AGGCGTAATGCCGGTGA
66 AGGCGTAATGCCAGTGA
62528486 AATGATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.29
Consensus pattern (86 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTAATCGAGCCTTCGTGCCTAAC
AGGCGTAATGCCAGTGATATG
Found at i:62541394 original size:27 final size:27
Alignment explanation
Indices: 62541364--62541423 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
62541354 CGACTTGTAA
62541364 AATTACCAAAGTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
**** *
62541391 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
62541418 AATTAC
1 AATTAC
62541424 TATTTTACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCAATTTACAG
Found at i:62541429 original size:27 final size:27
Alignment explanation
Indices: 62541375--62541567 Score: 260
Period size: 27 Copynumber: 7.1 Consensus size: 27
62541365 ATTACCAAAG
*
62541375 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
62541402 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
62541429 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
62541456 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
62541483 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
62541510 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
62541537 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
62541564 TACC
1 TACC
62541568 TCTATGGTGT
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:62541468 original size:81 final size:81
Alignment explanation
Indices: 62541348--62541567 Score: 278
Period size: 81 Copynumber: 2.7 Consensus size: 81
62541338 ATTACTAAAA
* * *** * *
62541348 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
* *
62541413 TACAGAATTACTATTT
66 TACAAAATTACCATTT
* **
62541429 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
*
62541494 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
* * * * *
62541510 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACC
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACC
62541568 TCTATGGTGT
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 118 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:62541936 original size:27 final size:26
Alignment explanation
Indices: 62541896--62541955 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
62541886 ACATATATAT
* *
62541896 ATATCTATTCTGGTGGCCTCGCCACA
1 ATATCTGTTCTGGTGACCTCGCCACA
* * *
62541922 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTCGCCACA
62541949 ATATCTG
1 ATATCTG
62541956 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTCGCCACA
Found at i:62542109 original size:31 final size:31
Alignment explanation
Indices: 62542074--62542152 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
62542064 TTGCATTCAC
* * *
62542074 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
62542105 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
62542136 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
62542153 AATTCTCATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:62542113 original size:6 final size:6
Alignment explanation
Indices: 62542074--62542179 Score: 74
Period size: 6 Copynumber: 17.3 Consensus size: 6
62542064 TTGCATTCAC
* * *
62542074 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
62542123 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCTC ATTTTG ATTCT-
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
62542171 AGTTCTG AT
1 A-TTCTG AT
62542180 AATGTTTCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
5 4 0.05
6 65 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:62550144 original size:27 final size:27
Alignment explanation
Indices: 62550112--62550272 Score: 117
Period size: 27 Copynumber: 6.0 Consensus size: 27
62550102 AAACATACAT
* *
62550112 CACATAAGGGCAAAACAATCATTTTGA
1 CACATAAGGGCAAAACAGTCATTTTAA
* * * *
62550139 CACATAAAGGTAAAACCGTCAATTTAA
1 CACATAAGGGCAAAACAGTCATTTTAA
** * * * **
62550166 CGTATAAGGGAAAAATAGACATTTTTC
1 CACATAAGGGCAAAACAGTCATTTTAA
** * *
62550193 CACAT-AGGAGTGAAACTGTCAATTTAA
1 CACATAAGG-GCAAAACAGTCATTTTAA
* **
62550220 CACATAAGGGCAAAATAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAA
*
62550247 CACATAAGGGCAAAACTGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
62550273 CCCTACGCGG
Statistics
Matches: 96, Mismatches: 36, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAA
Found at i:62550175 original size:54 final size:54
Alignment explanation
Indices: 62550112--62550272 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 54
62550102 AAACATACAT
* * * *
62550112 CACATAAGGGCAAAACAATCATTTTGACACATAAAGGTAAAACCGTCAATTTAA
1 CACATAAGGGCAAAATAATCATTTTGCCACATAAGGGTAAAACTGTCAATTTAA
** * * *
62550166 CGTATAAGGGAAAAATAGA-CATTTTTCCACAT-AGGAGTGAAACTGTCAATTTAA
1 CACATAAGGGCAAAATA-ATCATTTTGCCACATAAGG-GTAAAACTGTCAATTTAA
* * *
62550220 CACATAAGGGCAAAATAGTCATTTTGCCACATAAGGGCAAAACTGTCATTTTA
1 CACATAAGGGCAAAATAATCATTTTGCCACATAAGGGTAAAACTGTCAATTTA
62550273 CCCTACGCGG
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
53 2 0.02
54 80 0.93
55 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAATAATCATTTTGCCACATAAGGGTAAAACTGTCAATTTAA
Found at i:62550656 original size:27 final size:27
Alignment explanation
Indices: 62550622--62550718 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
62550612 AATCACTTTG
*
62550622 ACACATAAGGGTAAAACTGTCAATTTA
1 ACACATAAGGGCAAAACTGTCAATTTA
* *
62550649 ACGA-ATAAGGGCAAAA-TAGTCATTTTT
1 AC-ACATAAGGGCAAAACT-GTCAATTTA
* *
62550676 CCACATAAGGGCAAAACCGTCAATTTA
1 ACACATAAGGGCAAAACTGTCAATTTA
*
62550703 ACACATAAGGACAAAA
1 ACACATAAGGGCAAAA
62550719 TATTCATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.04
27 54 0.95
28 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
ACACATAAGGGCAAAACTGTCAATTTA
Found at i:62550665 original size:54 final size:54
Alignment explanation
Indices: 62550603--62550757 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 54
62550593 CATCACATCG
* **
62550603 GGGCAAAATAATCACTTTGACACATAAGGGTAAAACTGTCAATTTAACGA-ATAA
1 GGGCAAAATAATCATTTTTCCACATAAGGGTAAAACTGTCAATTTAAC-ACATAA
* * *
62550657 GGGCAAAATAGTCATTTTTCCACATAAGGGCAAAACCGTCAATTTAACACATAA
1 GGGCAAAATAATCATTTTTCCACATAAGGGTAAAACTGTCAATTTAACACATAA
* * * *
62550711 GGACAAAATATTCATTTTTTCCACATAAGGGTAAAACTATCATTTTA
1 GGGCAAAATAATCA-TTTTTCCACATAAGGGTAAAACTGTCAATTTA
62550758 CCCTACACGG
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 58 0.67
55 28 0.32
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (54 bp):
GGGCAAAATAATCATTTTTCCACATAAGGGTAAAACTGTCAATTTAACACATAA
Found at i:62550746 original size:28 final size:27
Alignment explanation
Indices: 62550653--62550756 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
62550643 AATTTAACGA
62550653 ATAAGGGCAAAATAGTCATTTTTCCAC
1 ATAAGGGCAAAATAGTCATTTTTCCAC
** * **
62550680 ATAAGGGCAAAACCGTCAATTTAACAC
1 ATAAGGGCAAAATAGTCATTTTTCCAC
* *
62550707 ATAAGGACAAAATATTCATTTTTTCCAC
1 ATAAGGGCAAAATAGTCA-TTTTTCCAC
*
62550735 ATAAGGGTAAAACTA-TCATTTT
1 ATAAGGGCAAAA-TAGTCATTTT
62550757 ACCCTACACG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
27 40 0.66
28 19 0.31
29 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (27 bp):
ATAAGGGCAAAATAGTCATTTTTCCAC
Found at i:62550810 original size:485 final size:485
Alignment explanation
Indices: 62549796--62551219 Score: 2221
Period size: 485 Copynumber: 2.9 Consensus size: 485
62549786 CAAACAGAAA
* * *
62549796 ATCCTACCCATCCA-TCTTCTACACTCCACTCCATCTAGCCCTACACTCCATATGAGGATAAAAT
1 ATCCTACCCATCCATTC-TCTACACTCCACTCCGTCCAGCCCTACACTCCATATGGGGATAAAAT
* * * *
62549860 CGACCCACCCATCACTACAC-TCTAAATATAGCACCGGTTGTAGCACTAACCAGTAATTGCATCA
65 CGACCCACCCATCCCTACACTTC-AAATATAGCACCGGTTGCAGCACTAATCAGTAATTGCAACA
* * * * *
62549924 GGGCTGCCAGTATGATAGGCTTAGGGCCATCAGTGATTTGCAGCAGAGTTGCCAGTATAGTACAC
129 GAGCTGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGCAGCAGAGTTGCCAGTACAATACAC
* *
62549989 TTCCTTCAATCATATATAACCTCATCCCCATGCAATGCATCATGCAACATGTCATGTCATATCAT
194 TTCC-TC---CA-ATA-AGCC-CATCCCCATGCAATGCACCATGCAACATGTCATGTCATATCAT
*
62550054 AATATTAAACATGTACTCAATACAGTTACACATAGCATGCTAAAATATAAACATACATCACATAA
252 AATATTAAACATGTACTCAATACAGTTACACATAGCATGCTAAAATATAAACATACATCACATAG
* *
62550119 GGGCAAAACAATCATTTTGACACATAAAGGTAAAACCGTCAATTTAACGTATAAGGGAAAAATAG
317 GGGCAAAACAATCATTTTGACACATAAAGGTAAAACTGTCAATTTAACGAATAAGGGAAAAATAG
* ** *
62550184 ACATTTTTCCACAT-AGGAGTGAAACTGTCAATTTAACACATAAGGGCAAAATAGTCA-TTTTGC
382 TCATTTTTCCACATAAGG-GCAAAACCGTCAATTTAACACATAA-GGCAAAATAGTCATTTTTGC
* *
62550247 CACATAAGGGCAAAACTGTCATTTTACCCTACGCGGGTATT
445 CACATAAGGGCAAAACTATCATTTTACCCTACACGGGTATT
* * *
62550288 ATCCTACCCATCCATCCTCTACACTTCACTTCGTCCAGCCCTACACTCCATATGGGGATAAAATC
1 ATCCTACCCATCCATTCTCTACACTCCACTCCGTCCAGCCCTACACTCCATATGGGGATAAAATC
*
62550353 GACCCACTCATCCCTACACTTCAAATATAGCACCGGTTGCAGCACTAATCAGTAATTGCAACAGA
66 GACCCACCCATCCCTACACTTCAAATATAGCACCGGTTGCAGCACTAATCAGTAATTGCAACAGA
*
62550418 GCTGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGCAGCAGAGCTGCCAGTACAATACACTT
131 GCTGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGCAGCAGAGTTGCCAGTACAATACACTT
* *
62550483 CCTCCGATAAGCCCATCCCTATGCAATGCACCATGCAACATGTCATGTCATATCATAATATTAAA
196 CCTCCAATAAGCCCATCCCCATGCAATGCACCATGCAACATGTCATGTCATATCATAATATTAAA
* *
62550548 CATGTACTCAATACAGTTACACATAGCATGCT-AAATATAAACATACATCACATCGGGGCAAAAT
261 CATGTACTCAATACAGTTACACATAGCATGCTAAAATATAAACATACATCACATAGGGGCAAAAC
* * *
62550612 AATCACTTTGACACATAAGGGTAAAACTGTCAATTTAACGAATAAGGGCAAAATAGTCATTTTTC
326 AATCATTTTGACACATAAAGGTAAAACTGTCAATTTAACGAATAAGGGAAAAATAGTCATTTTTC
* *
62550677 CACATAAGGGCAAAACCGTCAATTTAACACATAAGGACAAAATATTCATTTTTTCCACATAAGGG
391 CACATAAGGGCAAAACCGTCAATTTAACACATAAGG-CAAAATAGTCATTTTTGCCACATAAGGG
*
62550742 TAAAACTATCATTTTACCCTACACGGGTATT
455 CAAAACTATCATTTTACCCTACACGGGTATT
* * *
62550773 ATCCTACCCATCCATTCTCTACACTCCACTCCGTCCAGCCCTACACTCCTTGTGGGGATAAAATT
1 ATCCTACCCATCCATTCTCTACACTCCACTCCGTCCAGCCCTACACTCCATATGGGGATAAAATC
* * *
62550838 GACCCACCCATCCCTACAGTCCAAATATAGCACCGGTTGCAGCACTAATCAGTAATTACAACAGA
66 GACCCACCCATCCCTACACTTCAAATATAGCACCGGTTGCAGCACTAATCAGTAATTGCAACAGA
*
62550903 GCTGCCAGTATAATAGGCTTAGAGCCATCAGTAATTTGCAGCAGAGTTGCCAGTACAATACACTT
131 GCTGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGCAGCAGAGTTGCCAGTACAATACACTT
* *
62550968 CCTCCAATAAGCCCATCCCCATGCAATGCACCATGTAACATGCCATGTCATATCATAATATTAAA
196 CCTCCAATAAGCCCATCCCCATGCAATGCACCATGCAACATGTCATGTCATATCATAATATTAAA
*
62551033 CATGTACTCAATAGAGTTACACATAGCATGCTAAAATATAAACATACATCACATAGGGGCAAAAC
261 CATGTACTCAATACAGTTACACATAGCATGCTAAAATATAAACATACATCACATAGGGGCAAAAC
* *
62551098 AGTCATTTTGACACATAAAGGTAAAACTGTCAATTTAACGCATAAGGGAAAAATAGTCATTTTTC
326 AATCATTTTGACACATAAAGGTAAAACTGTCAATTTAACGAATAAGGGAAAAATAGTCATTTTTC
* *
62551163 CACATAAGGGCAAAATCGTCAATTTAACACATAAAGGTAAAATAGTCA-TTTTGCCAC
391 CACATAAGGGCAAAACCGTCAATTTAACACAT-AAGGCAAAATAGTCATTTTTGCCAC
62551220 GAGAAAAATC
Statistics
Matches: 859, Mismatches: 66, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
483 2 0.00
484 125 0.15
485 411 0.48
486 133 0.15
487 7 0.01
488 1 0.00
491 2 0.00
492 175 0.20
493 3 0.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (485 bp):
ATCCTACCCATCCATTCTCTACACTCCACTCCGTCCAGCCCTACACTCCATATGGGGATAAAATC
GACCCACCCATCCCTACACTTCAAATATAGCACCGGTTGCAGCACTAATCAGTAATTGCAACAGA
GCTGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGCAGCAGAGTTGCCAGTACAATACACTT
CCTCCAATAAGCCCATCCCCATGCAATGCACCATGCAACATGTCATGTCATATCATAATATTAAA
CATGTACTCAATACAGTTACACATAGCATGCTAAAATATAAACATACATCACATAGGGGCAAAAC
AATCATTTTGACACATAAAGGTAAAACTGTCAATTTAACGAATAAGGGAAAAATAGTCATTTTTC
CACATAAGGGCAAAACCGTCAATTTAACACATAAGGCAAAATAGTCATTTTTGCCACATAAGGGC
AAAACTATCATTTTACCCTACACGGGTATT
Found at i:62551123 original size:27 final size:27
Alignment explanation
Indices: 62551093--62551214 Score: 111
Period size: 27 Copynumber: 4.5 Consensus size: 27
62551083 ACATAGGGGC
*
62551093 AAAACAGTCATTTTGACACATAAAGGT
1 AAAACAGTCATTTTAACACATAAAGGT
* * * * *
62551120 AAAACTGTCAATTTAACGCATAAGGGA
1 AAAACAGTCATTTTAACACATAAAGGT
* ** * *
62551147 AAAATAGTCATTTTTCCACATAAGGGC
1 AAAACAGTCATTTTAACACATAAAGGT
*
62551174 AAAATC-GTCAATTTAACACATAAAGGT
1 AAAA-CAGTCATTTTAACACATAAAGGT
*
62551201 AAAATAGTCATTTT
1 AAAACAGTCATTTT
62551215 GCCACGAGAA
Statistics
Matches: 72, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (27 bp):
AAAACAGTCATTTTAACACATAAAGGT
Found at i:62551158 original size:54 final size:54
Alignment explanation
Indices: 62551082--62551215 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 54
62551072 AAACATACAT
* * * *
62551082 CACATAGGGGCAAAACAGTCATTTTGACACATAAAGGTAAAA-CTGTCAATTTAA
1 CACATAAGGGAAAAATAGTCATTTTGACACATAAAGGCAAAATC-GTCAATTTAA
* ** *
62551136 CGCATAAGGGAAAAATAGTCATTTTTCCACATAAGGGCAAAATCGTCAATTTAA
1 CACATAAGGGAAAAATAGTCATTTTGACACATAAAGGCAAAATCGTCAATTTAA
* *
62551190 CACATAAAGGTAAAATAGTCATTTTG
1 CACATAAGGGAAAAATAGTCATTTTG
62551216 CCACGAGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (54 bp):
CACATAAGGGAAAAATAGTCATTTTGACACATAAAGGCAAAATCGTCAATTTAA
Found at i:62551687 original size:16 final size:16
Alignment explanation
Indices: 62551666--62551696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62551656 CCCACTTTTT
*
62551666 GACTTTTTAGCCTTTC
1 GACTTTTCAGCCTTTC
62551682 GACTTTTCAGCCTTT
1 GACTTTTCAGCCTTT
62551697 GCAGTTTCAC
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:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (16 bp):
GACTTTTCAGCCTTTC
Found at i:62552434 original size:17 final size:18
Alignment explanation
Indices: 62552396--62552434 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
62552386 AATAGAAAAT
62552396 AAAATGAAAGAAGAGCCA
1 AAAATGAAAGAAGAGCCA
*
62552414 AAAATGAATTGAAGAG-CA
1 AAAATGAA-AGAAGAGCCA
62552432 AAA
1 AAA
62552435 CATCAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.62, C:0.08, G:0.21, T:0.10
Consensus pattern (18 bp):
AAAATGAAAGAAGAGCCA
Found at i:62554572 original size:56 final size:56
Alignment explanation
Indices: 62554468--62554575 Score: 132
Period size: 56 Copynumber: 1.9 Consensus size: 56
62554458 CCATTGCATC
** *
62554468 GATATATGTGTGCGAGTAAGACCATGTTTTATATGTTGGCATCAATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCATGTTGGATATGTTGGAATCAATATGTGACTCT
*
62554524 GATATATGTGTGCGAGTAAGACTC-TGTCTAGGATA-G-TGGAATCGATATGTGA
1 GATATATGTGTGCGAGTAAGAC-CATGT-T-GGATATGTTGGAATCAATATGTGA
62554576 TTACATGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 39 0.87
57 3 0.07
58 3 0.07
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCATGTTGGATATGTTGGAATCAATATGTGACTCT
Found at i:62572213 original size:47 final size:47
Alignment explanation
Indices: 62572162--62572399 Score: 243
Period size: 47 Copynumber: 5.1 Consensus size: 47
62572152 TAAACACGTA
* *
62572162 TTACACTAGCTATCATCATCGAGGCCAATGCATGTCCCAGACAT-GTC
1 TTACACTGGCTATCAT-ATCGAGGCCGATGCATGTCCCAGACATGGTC
* * * * *
62572209 TTACACTGGCTCTCCTTTCTACGCCGATGCCATGTCCCAGACATGGTC
1 TTACACTGGCTATCATATCGAGGCCGATG-CATGTCCCAGACATGGTC
* * *
62572257 TTACACTGGCTATCATAAT-GTGGCTGATGTATGTCCCAGACATGGTC
1 TTACACTGGCTATCAT-ATCGAGGCCGATGCATGTCCCAGACATGGTC
* *
62572304 TTACACTGGCTATCATAAT-GTGGCTGATGCATGTCCCAGACAT-GTC
1 TTACACTGGCTATCAT-ATCGAGGCCGATGCATGTCCCAGACATGGTC
* ** * *
62572350 TTTA-ACTAGCCCTCATATCAATGCCGATGCATGTCCCAGACATGGTC
1 -TTACACTGGCTATCATATCGAGGCCGATGCATGTCCCAGACATGGTC
62572397 TTA
1 TTA
62572400 TATTGGCTCT
Statistics
Matches: 162, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 44 0.27
47 92 0.57
48 23 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
TTACACTGGCTATCATATCGAGGCCGATGCATGTCCCAGACATGGTC
Found at i:62582865 original size:15 final size:16
Alignment explanation
Indices: 62582845--62582874 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62582835 GAAAATTGCC
62582845 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
62582860 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
62582875 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:62587996 original size:95 final size:95
Alignment explanation
Indices: 62587890--62588081 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 95
62587880 AAACTAAAAC
62587890 AAATAGAGAGAGAGCTAGGTAGAAATCGGCCCAAATATCCAAATGAGAAGAGAGGGAAGAAGGTG
1 AAATAGAGAGAGAGCTAGGTAGAAATCGGCCCAAATATCCAAATGAGAAGAGAGGGAAGAAGGTG
62587955 TAATCGTTCAAAGGGAAAGTCAATTAAGAG
66 TAATCGTTCAAAGGGAAAGTCAATTAAGAG
*
62587985 AAATGGAGAGAGAGCTAGGTAGAAATCGGCCCAAATATCCAAATGAGAAGAGAGGGAAGAAGGTG
1 AAATAGAGAGAGAGCTAGGTAGAAATCGGCCCAAATATCCAAATGAGAAGAGAGGGAAGAAGGTG
62588050 TAATCGTTCAAAGGGAAAGTCAATTAAGAG
66 TAATCGTTCAAAGGGAAAGTCAATTAAGAG
62588080 AA
1 AA
62588082 GAAAGGAAGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.44, C:0.10, G:0.30, T:0.16
Consensus pattern (95 bp):
AAATAGAGAGAGAGCTAGGTAGAAATCGGCCCAAATATCCAAATGAGAAGAGAGGGAAGAAGGTG
TAATCGTTCAAAGGGAAAGTCAATTAAGAG
Found at i:62589963 original size:22 final size:21
Alignment explanation
Indices: 62589914--62589966 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
62589904 CAATTCACGT
* *
62589914 AGGTATCGAT-ATTGTATCAA
1 AGGTATCAATAATTATATCAA
62589934 AGGTATCAATAATTATATCAA
1 AGGTATCAATAATTATATCAA
62589955 ATGGTATCAATA
1 A-GGTATCAATA
62589967 CTGCTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 9 0.31
21 10 0.34
22 10 0.34
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (21 bp):
AGGTATCAATAATTATATCAA
Found at i:62591560 original size:27 final size:25
Alignment explanation
Indices: 62591530--62591609 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 25
62591520 GTGACTAGAT
*
62591530 ACAGATAATCATGGCAGAGCCACCAG
1 ACAGATAAT-GTGGCAGAGCCACCAG
62591556 CACAGATATATGTGGCAGAGCCACCAG
1 -ACAGATA-ATGTGGCAGAGCCACCAG
* *
62591583 ATCAAATAATTGTGGCATAGCCACCAG
1 A-CAGATAA-TGTGGCAGAGCCACCAG
62591610 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 43 0.91
28 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (25 bp):
ACAGATAATGTGGCAGAGCCACCAG
Found at i:62599216 original size:27 final size:27
Alignment explanation
Indices: 62599172--62599330 Score: 145
Period size: 27 Copynumber: 6.1 Consensus size: 27
62599162 TGGCCGTAGC
*
62599172 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
* * *
62599199 CCAGATCAAATAATTGTGGGAGAGACA
1 CCAGATCAGATAATTGTGGCAGAGCCA
*
62599226 CCAGATCAGATAA-T-T----GAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
62599247 CCAGATAAAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
* *
62599275 CCAGAACAGAT-ATATGTGGCAAAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
62599302 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
62599329 CC
1 CC
62599331 GGGACGCTTC
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
21 11 0.10
22 6 0.06
24 1 0.01
25 1 0.01
26 3 0.03
27 71 0.66
28 14 0.13
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:62599500 original size:28 final size:26
Alignment explanation
Indices: 62599438--62599500 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
62599428 AAAGTAACCC
** * *
62599438 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
62599464 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
62599492 TAGGGGTAT
1 TAGGGGTAT
62599501 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:62601371 original size:14 final size:15
Alignment explanation
Indices: 62601354--62601382 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62601344 ACTCATTTAA
62601354 GCATATA-TCACATT
1 GCATATATTCACATT
62601368 GCATATATTCACATT
1 GCATATATTCACATT
62601383 TTATGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (15 bp):
GCATATATTCACATT
Found at i:62602043 original size:68 final size:68
Alignment explanation
Indices: 62601934--62602069 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
62601924 CATATAAGCT
62601934 ACTACTCAATTCCCAATTTATGTAATGAATCGTAGAAGGTCAAACTAGCCTCTCCTTAACTCGTA
1 ACTACTCAATTCCCAATTTATGTAATGAATCGTAGAAGGTCAAACTAGCCTCTCCTTAACTCGTA
62601999 GAA
66 GAA
62602002 ACTACTCAATTCCCAATTTATGTAATGAATCGTAGAAGGTCAAACTAGCCTCTCCTTAACTCGTA
1 ACTACTCAATTCCCAATTTATGTAATGAATCGTAGAAGGTCAAACTAGCCTCTCCTTAACTCGTA
62602067 GAA
66 GAA
62602070 GGTCCTAACG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (68 bp):
ACTACTCAATTCCCAATTTATGTAATGAATCGTAGAAGGTCAAACTAGCCTCTCCTTAACTCGTA
GAA
Found at i:62609912 original size:34 final size:34
Alignment explanation
Indices: 62609836--62609912 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
62609826 GATTGCATTT
*
62609836 CTGTTACTGTTACTGTAATAGGCTAAGGCCCACA
1 CTGTTACTGATACTGTAATAGGCTAAGGCCCACA
* * *
62609870 CTGCTACTGATACTGTATTGGGCTAAGGCCCTA-A
1 CTGTTACTGATACTGTAATAGGCTAAGGCCC-ACA
62609904 CTGTTACTG
1 CTGTTACTG
62609913 GACTGTTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (34 bp):
CTGTTACTGATACTGTAATAGGCTAAGGCCCACA
Found at i:62613195 original size:15 final size:15
Alignment explanation
Indices: 62613177--62613205 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62613167 AGAAATGTGG
62613177 TAATGAGAAGTGCAA
1 TAATGAGAAGTGCAA
62613192 TAATGAGAAGTGCA
1 TAATGAGAAGTGCA
62613206 TGTTTAAGAT
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:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (15 bp):
TAATGAGAAGTGCAA
Found at i:62615622 original size:20 final size:20
Alignment explanation
Indices: 62615597--62615637 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
62615587 GGGCTATATG
*
62615597 ATAGACTATAATATTTGGAT
1 ATAGACTAGAATATTTGGAT
62615617 ATAGACTAGAATATTTGGAT
1 ATAGACTAGAATATTTGGAT
62615637 A
1 A
62615638 ATTTCTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (20 bp):
ATAGACTAGAATATTTGGAT
Found at i:62628806 original size:29 final size:28
Alignment explanation
Indices: 62628770--62628847 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
62628760 TCATGAGATT
62628770 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
62628800 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
62628827 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
62628848 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:62636768 original size:20 final size:18
Alignment explanation
Indices: 62636721--62636819 Score: 63
Period size: 17 Copynumber: 5.8 Consensus size: 18
62636711 CAAGATAAAC
62636721 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
62636738 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
62636758 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
* *
62636774 ACT--ATTAAGA--TAAGT
1 ATTAAATTAATATTTAA-T
62636789 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
62636806 ATTAAAATAATATT
1 ATTAAATTAATATT
62636820 ATTTATGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
14 8 0.12
15 3 0.05
16 6 0.09
17 23 0.35
18 7 0.11
19 3 0.05
20 15 0.23
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:62642050 original size:42 final size:42
Alignment explanation
Indices: 62641988--62642152 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 42
62641978 TAGGGTTATG
*
62641988 TGTGATTTCATGTAATACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
62642030 TGTGATTTCGTGTAAGACCATTTCTGGGACATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
** ** * * * * * *
62642072 -CAGACATCGTGTGAGACTATAGCTAGGCTATTGGCATCGATATA
1 TGTGATTTCATGTAAGACCATATCTGGGATA-TGGCATCG--ATA
*
62642116 TGTGATCTCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
62642153 TAGCATCTTA
Statistics
Matches: 94, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 19 0.20
42 46 0.49
44 9 0.10
45 20 0.21
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:62645456 original size:29 final size:29
Alignment explanation
Indices: 62645411--62645526 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
62645401 TACTTGTATC
*
62645411 TGGCCCATTATGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
62645439 TGGCCCCTTTAGGCCCAAATCACCTGT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
*** *
62645469 TGGCCCATTAGGCCCAAATGTGATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
62645498 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
62645526 T
1 T
62645527 TCATTCTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 13 0.19
29 43 0.61
30 13 0.19
31 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:62650041 original size:45 final size:45
Alignment explanation
Indices: 62649984--62650071 Score: 142
Period size: 45 Copynumber: 1.9 Consensus size: 45
62649974 TATGTAATTT
*
62649984 GAACTCATTGAGTTGTGGTCTGAGT-TCATGATATATGTGACATCC
1 GAACTCAATGAGTTGTGGTCTGA-TATCATGATATATGTGACATCC
62650029 GAACTCAATGAGTTGTGGTCTGATCATCATGATATATGTGACA
1 GAACTCAATGAGTTGTGGTCTGAT-ATCATGATATATGTGACA
62650072 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 1 0.03
45 22 0.55
46 17 0.43
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GAACTCAATGAGTTGTGGTCTGATATCATGATATATGTGACATCC
Found at i:62651965 original size:21 final size:21
Alignment explanation
Indices: 62651936--62651979 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
62651926 GTGAAATGGC
62651936 TGAAGATGAAATGGCATGATT
1 TGAAGATGAAATGGCATGATT
* * *
62651957 TGAATATGAATTGGCATGTTT
1 TGAAGATGAAATGGCATGATT
62651978 TG
1 TG
62651980 GTTGCCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (21 bp):
TGAAGATGAAATGGCATGATT
Found at i:62654627 original size:37 final size:37
Alignment explanation
Indices: 62654577--62654655 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62654567 TTATTACGAA
* * *
62654577 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62654614 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62654651 GTCTT
1 GTCTT
62654656 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62654861 original size:47 final size:47
Alignment explanation
Indices: 62654774--62655202 Score: 606
Period size: 47 Copynumber: 9.1 Consensus size: 47
62654764 CCTTTCGGGA
* * * * * * * * *
62654774 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62654821 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
62654868 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62654915 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62654962 CCTATCACACATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62655009 CTTATCACGTATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62655056 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62655103 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62655150 CCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62655199 CTTA
1 CTTA
62655203 CTATCATTTC
Statistics
Matches: 352, Mismatches: 28, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 311 0.88
49 41 0.12
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62658708 original size:40 final size:40
Alignment explanation
Indices: 62658664--62658821 Score: 190
Period size: 40 Copynumber: 4.0 Consensus size: 40
62658654 GAATACACGT
* *
62658664 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
* ** * * *
62658704 CACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATAC
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
* * * * *
62658744 CACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
62658784 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACAT
62658822 CATTCAAATA
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:62659163 original size:29 final size:29
Alignment explanation
Indices: 62659124--62659202 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
62659114 CTTAATAATC
*
62659124 AACCACGCACACTTAGTGCCATATACTTT-A
1 AACC-CGCACACTTAGTGCCATACA-TTTCA
* *
62659154 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATACATTTCA
*
62659183 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62659203 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACATTTCA
Found at i:62659245 original size:43 final size:43
Alignment explanation
Indices: 62659184--62659284 Score: 193
Period size: 43 Copynumber: 2.3 Consensus size: 43
62659174 TGCATTTCAA
62659184 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
62659227 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
62659270 GCTCGCACACTTAGT
1 GCCCGCACACTTAGT
62659285 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:62661179 original size:37 final size:37
Alignment explanation
Indices: 62661129--62661207 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62661119 TTATTACGAA
* * *
62661129 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62661166 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62661203 GTCTT
1 GTCTT
62661208 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62661413 original size:47 final size:47
Alignment explanation
Indices: 62661326--62661838 Score: 762
Period size: 47 Copynumber: 10.9 Consensus size: 47
62661316 CCTTTCGGGA
* * * * * * * * *
62661326 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62661373 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62661420 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
62661466 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62661513 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62661560 C-TATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62661606 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62661653 C-TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62661699 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62661746 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62661793 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
62661839 CCTTACTATC
Statistics
Matches: 437, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 133 0.30
47 269 0.62
49 35 0.08
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62661486 original size:93 final size:93
Alignment explanation
Indices: 62661370--62661838 Score: 753
Period size: 93 Copynumber: 5.0 Consensus size: 93
62661360 TTGGCCACTC
* *
62661370 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62661435 CACTTTCACATTCATCACATCGGCATTA
66 CACTTTCACATTCATCACATCGGCATTA
* * * *
62661463 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62661528 CACTTTCACATTCATCACATCGGCTATTA
66 CACTTTCACATTCATCACATCGGC-ATTA
* * *
62661557 GGCC-TATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62661621 CACTTTCACATTCATCACATCGGCTATTA
66 CACTTTCACATTCATCACATCGGC-ATTA
*
62661650 GGCC-TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62661714 CACTTTCACATTCATCACATCGGCCATTA
66 CACTTTCACATTCATCACATCGG-CATTA
** *
62661743 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
62661808 TACACTTTCACATTCATCACATCGGCCATTA
64 TACACTTTCACATTCATCACATCGG-CATTA
62661839 CCTTACTATC
Statistics
Matches: 356, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
93 262 0.74
94 59 0.17
96 35 0.10
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (93 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCATTA
Found at i:62661603 original size:140 final size:140
Alignment explanation
Indices: 62661370--62661838 Score: 771
Period size: 140 Copynumber: 3.3 Consensus size: 140
62661360 TTGGCCACTC
* *
62661370 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
62661435 CACTTTCACATTCATCACATCGGCATTAGGCCTTATCACACACATACACTTTCACATTCATCACG
66 CACTTTCACATTCATCACATCGGCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
62661500 TCGGCTATTA
131 TCGGCTATTA
* *
62661510 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC-TATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
62661574 CACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
66 CACTTTCACATTCATCACATCGGC-ATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
62661639 ATCGGCTATTA
130 ATCGGCTATTA
*
62661650 GGCC-TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
**
62661714 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCAC
66 CACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
*
62661779 ATCGGCCATTA
130 ATCGGCTATTA
* *
62661790 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTA
62661839 CCTTACTATC
Statistics
Matches: 308, Mismatches: 15, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
139 80 0.26
140 186 0.60
141 7 0.02
143 35 0.11
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (140 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCTATTA
Found at i:62665309 original size:40 final size:39
Alignment explanation
Indices: 62665260--62665353 Score: 122
Period size: 36 Copynumber: 2.5 Consensus size: 39
62665250 CACATAACAC
* * *
62665260 AGCACGAATGCTCTTCGGGGTTTAGCACGGATATACCACT
1 AGCATGAATGCTCTTCGGGGATTAGC-CGGATACACCACT
*
62665300 AGCATGAATGCTC--C-GGGATTAGCCGGATACATCACT
1 AGCATGAATGCTCTTCGGGGATTAGCCGGATACACCACT
62665336 AGCATGAATGCTCTTCGG
1 AGCATGAATGCTCTTCGG
62665354 ACTTAGCCCG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 24 0.51
37 8 0.17
38 2 0.04
39 1 0.02
40 12 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
AGCATGAATGCTCTTCGGGGATTAGCCGGATACACCACT
Found at i:62665778 original size:39 final size:38
Alignment explanation
Indices: 62665727--62665801 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 38
62665717 CAAGCCCGCA
62665727 CACTTGTGCAATCTCACAACCGTGAA-ACTTATTGCCG
1 CACTTGTGCAATCTCACAACCGTGAACACTTATTGCCG
62665764 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CACTT-GTG-CAATCTCACAACCGTGAACACTTATTGC
62665802 TGCGCACACT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 5 0.14
38 3 0.09
39 18 0.51
40 9 0.26
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.27
Consensus pattern (38 bp):
CACTTGTGCAATCTCACAACCGTGAACACTTATTGCCG
Found at i:62668119 original size:48 final size:48
Alignment explanation
Indices: 62668016--62668226 Score: 253
Period size: 48 Copynumber: 4.5 Consensus size: 48
62668006 CCTTGTACAT
* *
62668016 ATATACACTTT-ACATTCATCACAT-GGCCATTAGGCCT-T-ACACAT
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACAC
*
62668060 ATATACACTTTCACATTCAT-AGCATCGGCTATTAGGCTTATCACAACAC
1 ATATACACTTTCACATTCATCA-CATCGGCTATTAGGCCTATCAC-ACAC
*
62668109 ATA-ACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC-C
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCC-TATCACACAC
*
62668156 ATATACACTTTCACATTCATCACAATGGGCTATTAGGCCTAT--CACA-
1 ATATACACTTTCACATTCATCAC-ATCGGCTATTAGGCCTATCACACAC
62668202 ATATACACCTTTTCACATTCATCAC
1 ATATACA-C-TTTCACATTCATCAC
62668227 GGCGCTACTT
Statistics
Matches: 147, Mismatches: 7, Indels: 22
0.84 0.04 0.12
Matches are distributed among these distances:
44 12 0.08
45 11 0.07
46 21 0.14
47 6 0.04
48 71 0.48
49 26 0.18
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (48 bp):
ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACAC
Found at i:62669263 original size:16 final size:16
Alignment explanation
Indices: 62669244--62669274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62669234 TTTGGGTAGA
*
62669244 TATTTTTTTCTTTTTT
1 TATTTTTTCCTTTTTT
62669260 TATTTTTTCCTTTTT
1 TATTTTTTCCTTTTT
62669275 CTAGGAAGTC
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:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (16 bp):
TATTTTTTCCTTTTTT
Found at i:62678918 original size:68 final size:66
Alignment explanation
Indices: 62678846--62679023 Score: 250
Period size: 68 Copynumber: 2.6 Consensus size: 66
62678836 CATCATGTGT
* *
62678846 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTAACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTAACATGTGTGATACGGGATGTATCCCAT
62678910 GTAG
63 GTAG
*
62678914 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTAACATGTGTGATACGGGATGTATCCCATG
62678979 TAG
64 TAG
*
62678982 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTAACATG
62679024 ACTGATTCCA
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
68 94 0.90
69 5 0.05
70 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTAACATGTGTGATACGGGATGTATCCCATGTA
G
Found at i:62689170 original size:26 final size:27
Alignment explanation
Indices: 62689135--62689260 Score: 191
Period size: 27 Copynumber: 4.7 Consensus size: 27
62689125 ACCTTACAAC
* *
62689135 GGTATTTCGGTAATTCTATCCTACA-G
1 GGTATTTCGATAATTCTACCCTACAGG
* *
62689161 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62689188 GGTATTTCAATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62689215 GGTATTTCGATAATTCTACCTTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
62689242 GGTATTTCGATAATTCTAC
1 GGTATTTCGATAATTCTAC
62689261 AACTTATCCA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 23 0.25
27 69 0.75
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:62695013 original size:23 final size:22
Alignment explanation
Indices: 62694982--62695058 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
62694972 TAGCTCGTAT
*
62694982 GAGCGTACCGTTTCAGCTCTTC-
1 GAGCTTACCGTTT-AGCTCTTCG
*
62695004 GAGGCTTACCAGTTTAGCTCTACG
1 GA-GCTTACC-GTTTAGCTCTTCG
62695028 GAGCTTACCGTTTAGCTC-TCG
1 GAGCTTACCGTTTAGCTCTTCG
62695049 GAGCTTACCG
1 GAGCTTACCG
62695059 ATCATAGCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.24
22 11 0.22
23 20 0.41
24 6 0.12
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.30
Consensus pattern (22 bp):
GAGCTTACCGTTTAGCTCTTCG
Found at i:62695265 original size:25 final size:25
Alignment explanation
Indices: 62695200--62695279 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
62695190 AATTTTATGA
*
62695200 TATAAGAGCTATATGATTTACATGAAT
1 TATAAGA--TATATGAATTACATGAAT
* * *
62695227 TATAAGTTACATGAATTACATGGAT
1 TATAAGATATATGAATTACATGAAT
* * *
62695252 TTTATGATATATGAATTACATAAAT
1 TATAAGATATATGAATTACATGAAT
62695277 TAT
1 TAT
62695280 GTGAGTAATA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 36 0.86
27 6 0.14
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.40
Consensus pattern (25 bp):
TATAAGATATATGAATTACATGAAT
Found at i:62699128 original size:40 final size:40
Alignment explanation
Indices: 62699084--62699275 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
62699074 GGATATAGCT
* * * *
62699084 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
62699124 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
62699164 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
62699204 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
62699244 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
62699276 TTATCATCCT
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 139 0.99
41 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:62702810 original size:32 final size:32
Alignment explanation
Indices: 62702750--62702814 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
62702740 AAGCATTTAC
*
62702750 ATGCTTAGTAAGCTCAAATAACTGGAAAGTAA
1 ATGCTTAGTAAGCTCAAATAACTAGAAAGTAA
62702782 ATGCTTAGTAAGCTCAAATAA-TCAGAAAGTAA
1 ATGCTTAGTAAGCTCAAATAACT-AGAAAGTAA
62702814 A
1 A
62702815 CTTACCAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (32 bp):
ATGCTTAGTAAGCTCAAATAACTAGAAAGTAA
Found at i:62705850 original size:27 final size:27
Alignment explanation
Indices: 62705812--62705867 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
62705802 CAAATCTGTG
* **
62705812 AAGCTTAAAAAGATGACAGTGAGTTGC
1 AAGCTCAAAAAGATGACAGCAAGTTGC
62705839 AAGCTCAAAAAGATGACAGCAAGTTGC
1 AAGCTCAAAAAGATGACAGCAAGTTGC
62705866 AA
1 AA
62705868 CAATTTGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (27 bp):
AAGCTCAAAAAGATGACAGCAAGTTGC
Found at i:62706316 original size:46 final size:47
Alignment explanation
Indices: 62706255--62706388 Score: 157
Period size: 46 Copynumber: 2.9 Consensus size: 47
62706245 ATCGGTATTG
* * *
62706255 AGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-TA
1 AGACGATAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTATA
* *
62706301 AGACG-TATGCCAGTGTAAGACATGTCTAGGACATGCATC-GGCTATG
1 AGACGATA-GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTATA
* *
62706347 AGATGATAGTCAGTGTAAGACCATGTCTAGGACATGGCATCA
1 AGACGATAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCA
62706389 ATTTGAGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
45 4 0.05
46 50 0.67
47 16 0.21
48 5 0.07
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGACGATAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTATA
Found at i:62706396 original size:47 final size:47
Alignment explanation
Indices: 62706311--62706433 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 47
62706301 AGACGTATGC
**
62706311 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTATGAGATGAT-AG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGAATATGAGAT-ATGAG
*
62706356 TCAGTGTAAGACCATGTCTAGGACATGGCATC-AATTTGAGATATGAG
1 -CAGTGTAAGACCATGTCTAGGACATGGCATCGAATATGAGATATGAG
*
62706403 CTAGTGTAAGACCATGTCTGGGACATGGCAT
1 C-AGTGTAAGACCATGTCTAGGACATGGCAT
62706434 TGGCACCTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
46 13 0.19
47 51 0.74
48 5 0.07
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGAATATGAGATATGAG
Found at i:62706421 original size:140 final size:140
Alignment explanation
Indices: 62706169--62706429 Score: 332
Period size: 140 Copynumber: 1.9 Consensus size: 140
62706159 ACTTGTGTGA
* * *
62706169 GCCAGTGTAAGACATGCCTGGGACATGCATCGACCACATTATGAGAGCTAGTATAAGACCATGTT
1 GCCAGTGTAAGACATGCCTAGGACATGCATCGACCACATGATGAGAGCTAGTATAAGACCATGTC
* * **
62706234 TGGGATATGGCATCGGTATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT
66 TAGGACATGGCATCAATATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT
62706299 TAAGACGTAT
131 TAAGACGTAT
* * * * * *
62706309 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCTATGA-GATGATAG-TCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGCCTAGGACATGCATCGACCA-CATGATGAGAGCT-AGTATAAGACCATG
*
62706372 TCTAGGACATGGCATCAAT-TTGAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACATG
64 TCTAGGACATGGCATCAATATTGAGACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATG
62706430 GCATTGGCAC
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 80 0.78
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (140 bp):
GCCAGTGTAAGACATGCCTAGGACATGCATCGACCACATGATGAGAGCTAGTATAAGACCATGTC
TAGGACATGGCATCAATATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT
TAAGACGTAT
Found at i:62707331 original size:37 final size:37
Alignment explanation
Indices: 62707272--62707391 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
62707262 AGCTCAGACG
* *
62707272 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
62707309 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
62707346 TACTCCCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62707383 TAATCTCCA
1 AAATCTCCA
62707392 AGTTTCATGT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:62707653 original size:48 final size:48
Alignment explanation
Indices: 62707527--62707711 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
62707517 GCACATCGCC
* *
62707527 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC--A
* *
62707577 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
*
62707625 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
62707673 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
62707712 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:62707716 original size:98 final size:97
Alignment explanation
Indices: 62707527--62707710 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
62707517 GCACATCGCC
*
62707527 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
62707592 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
*
62707625 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
62707688 AGCCATTCAGCTTTACCACATAT
66 A-CCATTCAGCTTTACCACATAT
62707711 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:62707760 original size:47 final size:47
Alignment explanation
Indices: 62707681--62707874 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
62707671 CATACATATT
* * * * *
62707681 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
62707728 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
62707775 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * ** *
62707822 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTGA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
62707869 TCACAT
1 TCACAT
62707875 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:62707801 original size:22 final size:22
Alignment explanation
Indices: 62707774--62707845 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
62707764 GCTCACATTC
62707774 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
62707796 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
62707820 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
62707843 ATC
1 ATC
62707846 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:62707864 original size:94 final size:94
Alignment explanation
Indices: 62707634--62707874 Score: 272
Period size: 94 Copynumber: 2.6 Consensus size: 94
62707624 ATACATATTT
* * * *
62707634 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* *
62707696 AGCTTTACCACATATATGCATGTTCATATTCAC
62 AGCCTTACCACATATATGCATGTTCACATTCAC
* ** * *
62707729 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCAGCC
* *
62707794 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * * *
62707823 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTGATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
62707875 AAAATCCTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
93 1 0.01
94 91 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCAGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:62718133 original size:46 final size:46
Alignment explanation
Indices: 62717984--62718245 Score: 169
Period size: 47 Copynumber: 5.6 Consensus size: 46
62717974 CACTTGTGTG
* * * * * *
62717984 AGCCAGTGTAAGACATGTCTGGGGCATGTATCGGCCAC-ATTACGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAT
* * * * * ** *
62718030 AGCTAGTATAAGACCATGTCTGGGATATGGCATCGAC-ATTGAGACAAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAT
* * *
62718078 AACTAGTGTAAGACATGTCTGGGACATTCATCGGCCT-CGAGATG-T
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGAT
* *
62718123 ATGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGGGATGAT
1 A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAT
* *
62718170 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTA--AGAT-AT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGAT
* *
62718216 GAGCTAGTGTAAGACCGTGTCTGGGACATG
1 -AGCCAGTGTAAGA-CATGTCTGGGACATG
62718246 GCATTGGCAC
Statistics
Matches: 174, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 69 0.40
47 71 0.41
48 28 0.16
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAT
Found at i:62718225 original size:47 final size:47
Alignment explanation
Indices: 62718029--62718249 Score: 213
Period size: 47 Copynumber: 4.7 Consensus size: 47
62718019 CACATTACGA
* * * *
62718029 GAGCTAGTATAAGACCATGTCTGGGATATGGCATCGACATTGAGACAA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATAT
* * * * *
62718077 GAACTAGTGTAAGA-CATGTCTGGGACAT-TCATCGGCCTCGAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATAT
* * *
62718123 -ATGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGGGATGAT
1 GA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-AT
*
62718170 -AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAAGATAT
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
*
62718216 GAGCTAGTGTAAGACCGTGTCTGGGACATGGCAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
62718250 TGGCACCTTA
Statistics
Matches: 143, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
45 4 0.03
46 53 0.37
47 65 0.45
48 21 0.15
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
Found at i:62718237 original size:140 final size:140
Alignment explanation
Indices: 62717985--62718244 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 140
62717975 ACTTGTGTGA
* * **
62717985 GCCAGTGTAAGACATGTCTGGGGCATGTATCGGCCACATTACGAGAGCTAGTATAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGACGAGAGCTAGTATAAGACCATGTC
* *
62718050 TGGGATATGGCATCGACATTGAGACAAGAACTAGTGTAAGACATGTCTGGGACATTCATCGGCCT
66 TGGGACATGGCATCGACATTAAGACAAGAACTAGTGTAAGACATGTCTGGGACATTCATCGGCCT
62718115 CGAGATGTAT
131 CGAGATGTAT
* ** * * *
62718125 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGGGATGATAG-TCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGACGAGAGCT-AGTATAAGACCATGT
* * * *
62718189 CTGGGACATGGCATCGAC-TTAAGATATGAGCTAGTGTAAGACCGTGTCTGGGACAT
65 CTGGGACATGGCATCGACATTAAGACAAGAACTAGTGTAAGA-CATGTCTGGGACAT
62718245 GGCATTGGCA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
139 20 0.20
140 82 0.80
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGACGAGAGCTAGTATAAGACCATGTC
TGGGACATGGCATCGACATTAAGACAAGAACTAGTGTAAGACATGTCTGGGACATTCATCGGCCT
CGAGATGTAT
Found at i:62721844 original size:23 final size:23
Alignment explanation
Indices: 62721817--62721902 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
62721807 GACTCACCAT
62721817 AGCTCGTAT-GAGCTTACCATTTC
1 AGCTC-TATGGAGCTTACCATTTC
* * *
62721840 AGCTCTTTGGGGCTTACCGTTTC
1 AGCTCTATGGAGCTTACCATTTC
* * * * *
62721863 AGCTCCACGAAGCTTATC-GTTC
1 AGCTCTATGGAGCTTACCATTTC
*
62721885 AGCTCTTTGGAGCTTACC
1 AGCTCTATGGAGCTTACC
62721903 GTTTATCAGC
Statistics
Matches: 47, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
22 18 0.38
23 29 0.62
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (23 bp):
AGCTCTATGGAGCTTACCATTTC
Found at i:62721898 original size:22 final size:22
Alignment explanation
Indices: 62721826--62721905 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
62721816 TAGCTCGTAT
*
62721826 GAGCTTACCATTTCAGCTCTTTG
1 GAGCTTACC-GTTCAGCTCTTTG
* ***
62721849 GGGCTTACCGTTTCAGCTCCACG
1 GAGCTTACCG-TTCAGCTCTTTG
* *
62721872 AAGCTTATCGTTCAGCTCTTTG
1 GAGCTTACCGTTCAGCTCTTTG
62721894 GAGCTTACCGTT
1 GAGCTTACCGTT
62721906 TATCAGCTCA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (22 bp):
GAGCTTACCGTTCAGCTCTTTG
Found at i:62726927 original size:16 final size:16
Alignment explanation
Indices: 62726908--62726939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62726898 AATTGTTTTA
62726908 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
62726924 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
62726940 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:62727202 original size:50 final size:50
Alignment explanation
Indices: 62727148--62727529 Score: 270
Period size: 50 Copynumber: 7.6 Consensus size: 50
62727138 CTTTGGTATG
* *
62727148 CATAGTAGCCTGGC-TTTAGTACTACACATGTGACCTATCAATCTGGTACA
1 CATAGTAGCCT-GCACTTAGTACTACACACGTGACCTATCAATCTGGTACA
* * * * * * *
62727198 CATAGTAGTCTGTACTTATTACTACACACATGACTTATCCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACA
* ** * * * *
62727248 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTGCG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACA
* * * **
62727299 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACA
** * * * * * **
62727349 TGTAGTAGCCTGCACTTAGTAGTACACACGTGA-TTGAAACTATCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--ATCAATCTGGTACA
* * * * *
62727400 CATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAACCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACA
* * * * * *
62727450 CGTAGTAGCCTACACTTAGCACTTCACACGTGACCTA--AAACTGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG--GT--ACA
*
62727502 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
62727530 TGTGTTCTCA
Statistics
Matches: 252, Mismatches: 69, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
48 5 0.02
49 4 0.02
50 143 0.57
51 71 0.28
52 29 0.12
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACA
Found at i:62727354 original size:101 final size:101
Alignment explanation
Indices: 62727244--62727482 Score: 336
Period size: 101 Copynumber: 2.4 Consensus size: 101
62727234 ATCCATCTGA
** *
62727244 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTGCGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCC
* *
62727309 TGCACTTAGTACTACACATGCGACCTACCAATCC-AG
66 TACACTTAGTACTACACATGCGACCTAACAA-CCTAG
* * * * *
62727345 TACATGTAGTAGCCTGCACTTAGTAGTACACACGTGATTGAAACTATCGGGTATGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCC
*
62727410 TACACTTAGTACTACACATGCGACCTAACAACCTGG
66 TACACTTAGTACTACACATGCGACCTAACAACCTAG
* * *
62727446 TACACGTAGTAGCCTACACTTAGCACTTCACACGTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
62727483 CCTAAAACTG
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 2 0.02
101 119 0.98
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (101 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCC
TACACTTAGTACTACACATGCGACCTAACAACCTAG
Found at i:62727914 original size:19 final size:20
Alignment explanation
Indices: 62727886--62727932 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62727876 AAGAACATGT
62727886 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
62727907 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
62727926 TATATAT
1 TATATAT
62727933 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:62730522 original size:15 final size:14
Alignment explanation
Indices: 62730497--62730556 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
62730487 TATAGATAAC
*
62730497 AAGAAAACCAAGATT
1 AAGAAATCCAAGA-T
*
62730512 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
62730526 AGAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
62730541 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
62730556 A
1 A
62730557 CAGTATCATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
14 3 0.08
15 37 0.93
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:62730532 original size:30 final size:30
Alignment explanation
Indices: 62730498--62730556 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
62730488 ATAGATAACA
*
62730498 AGAAAACCAAGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
*
62730528 AGAAATCCAAGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
62730557 CAGTATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:62734125 original size:19 final size:19
Alignment explanation
Indices: 62734101--62734138 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
62734091 TGATTTCTGG
*
62734101 AAAATGATTTTCTTTTCTA
1 AAAATGATTTACTTTTCTA
62734120 AAAATGATTTACTTTTCTA
1 AAAATGATTTACTTTTCTA
62734139 GTGTTTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (19 bp):
AAAATGATTTACTTTTCTA
Found at i:62734241 original size:18 final size:18
Alignment explanation
Indices: 62734215--62734256 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
62734205 AAAAACTATT
*
62734215 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
62734233 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
*
62734251 TATATA
1 TTTATA
62734257 CTTTAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:62734274 original size:28 final size:27
Alignment explanation
Indices: 62734243--62734298 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
62734233 TTTATATATA
62734243 TTAATAAATATATACTTTAAATTGTTTT
1 TTAATAAATATATACTTTAAATT-TTTT
*
62734271 TTAATAAATTTATACTTTAAATTTTTT
1 TTAATAAATATATACTTTAAATTTTTT
62734298 T
1 T
62734299 ACATATATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTAATAAATATATACTTTAAATTTTTT
Found at i:62735569 original size:21 final size:21
Alignment explanation
Indices: 62735545--62735586 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62735535 TCAATATCAT
62735545 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
62735566 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
62735587 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:62735620 original size:21 final size:21
Alignment explanation
Indices: 62735555--62735620 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
62735545 TATCCAACCA
62735555 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
62735576 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
62735601 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
62735621 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:62735621 original size:32 final size:32
Alignment explanation
Indices: 62735594--62735654 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
62735584 CAACAAGCTT
* *
62735594 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
62735626 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
62735655 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:62738972 original size:48 final size:48
Alignment explanation
Indices: 62738905--62739242 Score: 516
Period size: 48 Copynumber: 7.0 Consensus size: 48
62738895 TACAAGATAA
* * *
62738905 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
62738953 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
62739001 ATACGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * *
62739049 ATATATATATGTGGTAAAGCCGAATGGCTATTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
62739097 ATATGTATACGTGGTAAAGCCGAATGGGTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
62739145 ATACGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * * *
62739193 ATATATATATGTGGTAAATCCGAATGGCTAATGA-GCAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAT-ATGAAATATGTATGAG
62739241 AT
1 AT
62739243 GTGTGTATAT
Statistics
Matches: 264, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
48 263 1.00
49 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:62739165 original size:144 final size:144
Alignment explanation
Indices: 62738905--62739242 Score: 604
Period size: 144 Copynumber: 2.3 Consensus size: 144
62738895 TACAAGATAA
* *
62738905 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACGTGGTAA
62738970 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
62739035 GAAATATGTATGAG
131 GAAATATGTATGAG
*
62739049 ATATATATATGTGGTAAAGCCGAATGGCTATTGTGAAATATGTATGAGATATGTATACGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACGTGGTAA
*
62739114 AGCCGAATGGGTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
62739179 GAAATATGTATGAG
131 GAAATATGTATGAG
* * * *
62739193 ATATATATATGTGGTAAATCCGAATGGCTAATGAGCAATATGTAGGAGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
62739243 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 185 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (144 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAACAT
GAAATATGTATGAG
Found at i:62739345 original size:47 final size:47
Alignment explanation
Indices: 62739294--62739398 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
62739284 TAGTATTAAT
*
62739294 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
62739341 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
62739388 CATGTGATAAG
1 TATGTGATAAG
62739399 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:62744729 original size:17 final size:17
Alignment explanation
Indices: 62744699--62744742 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
62744689 TTCTTGTGTG
62744699 TGGGATTC-AAAACTGA
1 TGGGATTCAAAAACTGA
62744715 TGGGATTCAAAAACTGA
1 TGGGATTCAAAAACTGA
62744732 TGGGATTCAAA
1 TGGGATTCAAA
62744743 TCTATATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (17 bp):
TGGGATTCAAAAACTGA
Found at i:62746825 original size:29 final size:29
Alignment explanation
Indices: 62746764--62746853 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
62746754 CACATACTTG
* *
62746764 TATATGGCCCACTAGG-CCTAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
62746792 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
62746821 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
62746850 TATA
1 TATA
62746854 GTCATGCTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 15 0.26
29 42 0.74
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Done.