Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 128 of 290
Found at i:43466126 original size:56 final size:56
Alignment explanation
Indices: 43466059--43466266 Score: 285
Period size: 56 Copynumber: 3.7 Consensus size: 56
43466049 GAATTATATG
* * *
43466059 TGGCATCGATATGTGACTCTAATATATGTTTACGAATAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
* * *
43466115 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
* * * *
43466171 TGGCATCGAAATGTGACTCTGATATATCTGTGCGAGTAA-TACGACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGT-CCACGTTTAATACGT
*
43466227 TGGCATCGATATATGACT-TCGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCT-GATATATGTGTACGAGTAAG
43466267 ACCCTGTCTG
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
55 1 0.01
56 133 0.99
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
Found at i:43466256 original size:112 final size:112
Alignment explanation
Indices: 43466059--43466269 Score: 316
Period size: 112 Copynumber: 1.9 Consensus size: 112
43466049 GAATTATATG
* * *
43466059 TGGCATCGATATGTGACTCTAATATATGTTTACGAATAAGTCCACGTTTAATACGTTGGCATCGA
1 TGGCATCGAAATGTGACTCTAATATATCTGTACGAATAAGTCCACGTTTAATACGTTGGCATCGA
* *
43466124 TATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
66 TATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * *
43466171 TGGCATCGAAATGTGACTCTGATATATCTGTGCGAGTAA-TACGACGTTTAATACGTTGGCATCG
1 TGGCATCGAAATGTGACTCTAATATATCTGTACGAATAAGT-CCACGTTTAATACGTTGGCATCG
*
43466235 ATATATGACTTCGATATATGTGTACGAGTAAGACC
65 ATATATGACTCCGATATATGTGTACGAGTAAGACC
43466270 CTGTCTGGGG
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 87 0.99
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (112 bp):
TGGCATCGAAATGTGACTCTAATATATCTGTACGAATAAGTCCACGTTTAATACGTTGGCATCGA
TATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
Found at i:43485554 original size:21 final size:21
Alignment explanation
Indices: 43485530--43485582 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
43485520 CGTTCTGTAC
* *
43485530 TCTTTCTTCTTCTTTTTCTTT
1 TCTTTCTTCTTATTTTTCCTT
*
43485551 TCTTTCTTTTTATTTTTCCTT
1 TCTTTCTTCTTATTTTTCCTT
*
43485572 TCTTTCCTCTT
1 TCTTTCTTCTT
43485583 TTTACTTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTCTTCTTATTTTTCCTT
Found at i:43485559 original size:15 final size:17
Alignment explanation
Indices: 43485539--43485576 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
43485529 CTCTTTCTTC
43485539 TTCTTTTT-CTTTT-CT
1 TTCTTTTTACTTTTCCT
*
43485554 TTCTTTTTATTTTTCCT
1 TTCTTTTTACTTTTCCT
43485571 TTCTTT
1 TTCTTT
43485577 CCTCTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTTACTTTTCCT
Found at i:43491486 original size:71 final size:64
Alignment explanation
Indices: 43491332--43491487 Score: 222
Period size: 64 Copynumber: 2.3 Consensus size: 64
43491322 TTTTTTGGAA
* *
43491332 GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTATTTGTTTTTT
1 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTATTTATTTTTT
*
43491396 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTTTATTTTT
1 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAA--GTATTTATTTTT
43491461 T
64 T
43491462 AGGAGAGGAGGTTGAAACTATGGTTA
1 --G-G-GG-GGTTGAAACTATGGTTA
43491488 AAATAGTTAT
Statistics
Matches: 82, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
64 50 0.61
66 11 0.13
68 1 0.01
69 1 0.01
70 2 0.02
71 17 0.21
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (64 bp):
GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTATTTATTTTTT
Found at i:43491820 original size:59 final size:60
Alignment explanation
Indices: 43491748--43491948 Score: 185
Period size: 59 Copynumber: 3.4 Consensus size: 60
43491738 TTTGGTGAGA
* * *
43491748 GTTGAAACTATGGTTAGAATATTTGTAAAATTGAGAATCTAGATAAGTGTTATTT-TAGG
1 GTTGAAACTATGGTTAGAAAATTTGTAAAATTGAGAAACTAAATAAGTGTTATTTGTAGG
* * * * * *
43491807 GTTGAAACTATGGTTAAAAAAATTGTAAAATTGAGAAACTAAAAAATGTTTTTTTTGTGGG
1 GTTGAAACTATGGTTAGAAAATTTGTAAAATTGAGAAACTAAATAA-GTGTTATTTGTAGG
* * * * * * * *
43491868 GGTGAAACTATTGTTAGAAGATTTATAAAATTAAGAAGCTAAATAAGTATT-TTTGGA-G
1 GTTGAAACTATGGTTAGAAAATTTGTAAAATTGAGAAACTAAATAAGTGTTATTTGTAGG
* * *
43491926 G-TGAAATTATGATTAGAAGATTT
1 GTTGAAACTATGGTTAGAAAATTT
43491949 ATGAAATTTA
Statistics
Matches: 116, Mismatches: 24, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
57 19 0.16
58 2 0.02
59 44 0.38
60 11 0.09
61 40 0.34
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (60 bp):
GTTGAAACTATGGTTAGAAAATTTGTAAAATTGAGAAACTAAATAAGTGTTATTTGTAGG
Found at i:43491898 original size:61 final size:61
Alignment explanation
Indices: 43491499--43492575 Score: 444
Period size: 61 Copynumber: 17.2 Consensus size: 61
43491489 AATAGTTATA
* ** * * * * * *
43491499 AAACTATGGTTAGAAGATTTGTTTAATTAAGAAGAT-AAAAAGGTGTTTTTTG-GGAGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTTTTTTGTGGGGGTG
* * * * * * * * * *
43491558 AAATTATGGTTAAAAGAATTGTGAAGTTGAG-AGATGAAAGAACTATATATATT-T-GGGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCT-AAA-AAATGTTTTTTTTGTGGGGGTG
* * * * * * * *
43491618 AAACTATTGTTAGAAGATTTTTGAAATTAAGAAGCTAAAGTAGTGTTTTTCTTCAGAGGAGTAAG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAA-AAATGTTTTT-TT-TGTGG-G---G
43491683 GTG
59 GTG
* * * ** * *
43491686 AAACTGTGGTTAAAAGATTTGTAAAATTAAGAAATTAAAGAACTGTTTTTTTTTTGGTGAGAGTT
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAA-AAATGTTTTTTTTGTGG-G-G-G-T
43491751 G
61 G
* * * * * * * * * *
43491752 AAACTATGGTTAGAATATTTGTAAAATTGAGAATCTAGATAA-GTGTTATTT-TAGGGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTTTTTTGTGGGGGTG
* * * *
43491811 AAACTATGGTTAAAAAAATTGTAAAATTGAGAAACTAAAAAATGTTTTTTTTGTGGGGGTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTTTTTTGTGGGGGTG
* * * * * * * *
43491872 AAACTATTGTTAGAAGATTTATAAAATTAAGAAGCTAAATAA-G--TATTTT-TGGAGGTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTTTTTTGTGGGGGTG
* * * * * ** * *
43491929 AAATTATGATTAGAAGATTTATGAAATTTAGAAGCTTAAAAAGCGTCTTTTTTGGGGGGAGGGTT
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGC-TAAAAAATGT-TTTTTT-TGTGG-GGG-T
*
43491994 A
61 G
* * * * **
43491995 AAACTATGGTTAAAAGAGTTGTGAAATTGATAA-CAAAAACAACAGTGTTGATTTG-GGGGG-G
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAA-AA-TGT-TTTTTTTGTGGGGGTG
* ** * * * *
43492056 GATTTATTGTTAAAAGAGTTATGAAATTGAGAAGC-AAAAGAATTGCTTTTTTTTTGTTGGGGTT
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAA-AA-TG--TTTTTTTTG-TGGGGGT
43492120 G
61 G
* * * * * * *
43492121 AAACTATTGTTAGAATATTTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAATAAGGAAGGT
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAA-TGTTTTTTTT-GT--GG--GGG
43492186 TG
60 TG
* * * *****
43492188 AAAATATGGTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAA-GTTTTCTTTT-TTTTTTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTT-TTTTGTGGGGGTG
* * * * * * *
43492248 AAACTATTGTTAGAAGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTTAGGGGGGAAG
1 AAACTATGGTTAAAAGATTT-GTGAAATTGAGAAGCTAAA-AAATGT-TTTTTTT--GTGGG--G
43492313 GTTG
59 G-TG
** *
43492317 AAGTTATGGCTAAAAG-TGTTGTGAAATTGAGAAGCTAAAGAAAT-TTTTTTTT-T---GGTG
1 AAACTATGGTTAAAAGAT-TTGTGAAATTGAGAAGCTAAA-AAATGTTTTTTTTGTGGGGGTG
* * * * *
43492374 AAATTATGGTTAGAAGATTTGTGAAATTGAGAAGTTAAATAA-GTATTTTTTT-TAGGGGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGT-TTTTTTTGT-GGGGGTG
* * *
43492435 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAGAACTCTTTCTTATTTG-GGGGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAA-AAATGTTT-TT-TTTGTGGGGGTG
** * **
43492498 AAACTATTATTAAAAGAGTTGTGAAATTGAGAAATTAAAGAAATGTTTTTTTTTGTGGGGGTTG
1 AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAA-AAATG-TTTTTTTTGTGGGGG-TG
43492562 AAACTATGG-TAAAA
1 AAACTATGGTTAAAA
43492576 TTGAGAAGTC
Statistics
Matches: 770, Mismatches: 181, Indels: 130
0.71 0.17 0.12
Matches are distributed among these distances:
56 3 0.00
57 80 0.10
58 17 0.02
59 63 0.08
60 67 0.09
61 141 0.18
62 21 0.03
63 80 0.10
64 41 0.05
65 48 0.06
66 85 0.11
67 44 0.06
68 65 0.08
69 15 0.02
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (61 bp):
AAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAAAATGTTTTTTTTGTGGGGGTG
Found at i:43492154 original size:65 final size:63
Alignment explanation
Indices: 43492060--43492568 Score: 285
Period size: 63 Copynumber: 8.0 Consensus size: 63
43492050 GGGGGGGATT
*
43492060 TATTGTTAAAAGAGTTATGAAATTGAGAAGC-AAAAGAATTGCTTTTTTTTTGTTGGGGTTGAAA
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAA-AATTG-TTTTTTTTT-TTGGGGTTGAAA
43492124 C
63 C
* * * * **
43492125 TATTGTTAGAATATTTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAATAAGGAAGGTTGAA
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAAAATTGTTTTTTTT--TTTGG--GGTTGAA
*
43492190 AA
62 AC
* *
43492192 TATGGTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTT-TTCTTTTTTTTT----TTGAAAC
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAAAA-TTGTT-TTTTTTTTTGGGGTTGAAAC
* * * * ****
43492252 TATTGTTAGAAGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTTAGGGGGGAAGGTTG
1 TATTGTTAAAAGAGTTA-TGAAATTAAGAAGCTAAA-AAAT-TGTTTTTTT-TTTTGG--GGTTG
**
43492317 AAGT
60 AAAC
* * * * * *
43492321 TATGGCTAAAAGTGTTGTGAAATTGAGAAGCTAAAGAAA----TTTTTTTTTT--GG-TGAAAT
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAA-AAATTGTTTTTTTTTTTGGGGTTGAAAC
* * * * * * * * *
43492378 TATGGTTAGAAGATTTGTGAAATTGAGAAGTTAAATAA--GTATTTTTTTTAGGGGTTGAAAC
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAAAATTGTTTTTTTTTTTGGGGTTGAAAC
* * * * * * * * * *
43492439 TATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAGAACTCTTTCTTATTTGGGGGTTGAAAC
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAAAATTGTTTTTTTTTTTGGGGTTGAAAC
* * * ** *
43492502 TATTATTAAAAGAGTTGTGAAATTGAGAAATTAAAGAAA-TGTTTTTTTTTGTGGGGGTTGAAAC
1 TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAA-AAATTGTTTTTTTTT-TTGGGGTTGAAAC
43492566 TAT
1 TAT
43492569 GGTAAAATTG
Statistics
Matches: 348, Mismatches: 69, Indels: 55
0.74 0.15 0.12
Matches are distributed among these distances:
56 2 0.01
57 35 0.10
58 10 0.03
60 22 0.06
61 57 0.16
62 8 0.02
63 64 0.18
64 26 0.07
65 33 0.09
66 6 0.02
67 43 0.12
68 26 0.07
69 16 0.05
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (63 bp):
TATTGTTAAAAGAGTTATGAAATTAAGAAGCTAAAAAATTGTTTTTTTTTTTGGGGTTGAAAC
Found at i:43492300 original size:60 final size:60
Alignment explanation
Indices: 43492185--43492302 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 60
43492175 ATAAGGAAGG
* * *
43492185 TTGAAAATATGGTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTTTTCTTTTTTTTT
1 TTGAAAATATGGTTAAAAGAGTTATGAAAGTAAGAAGCTAAAAAAGTTGTCTTTTTTTTT
* * * * * *
43492245 TTGAAACTATTGTTAGAAGATTTATTGAAAGTAAGAAGCTAAAGAAG-TGTGTTTTTTT
1 TTGAAAATATGGTTAAAAGAGTTA-TGAAAGTAAGAAGCTAAAAAAGTTGTCTTTTTTT
43492303 AGGGGGGAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
60 29 0.60
61 19 0.40
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (60 bp):
TTGAAAATATGGTTAAAAGAGTTATGAAAGTAAGAAGCTAAAAAAGTTGTCTTTTTTTTT
Found at i:43492346 original size:129 final size:124
Alignment explanation
Indices: 43492066--43492476 Score: 404
Period size: 129 Copynumber: 3.3 Consensus size: 124
43492056 GATTTATTGT
* *
43492066 TAAAAGAGTTATGAAATTGAGAAGCAAAAGAATTGCTTTTTTTTTGTTGGGGTTGAAACTATTGT
1 TAAAAGAGTTATGAAATTGAGAAGCTAAAGAA----ATTTTTTTT-TT---GTTGAAACTATTGT
* ****
43492131 TAGAATATTTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAATAAGGAAGGTTGAAAATATG
58 TAGAAGATTTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAGGGGGGAAGGTTGAAAATATG
*
43492196 GT
123 GC
*
43492198 TAAAAGAGTTATGAAATTGAGAAGCTAAA-AAAGTTTTCTTTTTTTTTTTGAAACTATTGTTAGA
1 TAAAAGAGTTATGAAATTGAGAAGCTAAAGAAA---TT-TTTTTTTTGTTGAAACTATTGTTAGA
* * **
43492262 AGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTTAGGGGGGAAGGTTGAAGTTATGGC
62 AGATTTA-TGAAATTAAGAAGCTAAAAAAGTGT-TTTTTTTAGGGGGGAAGGTTGAAAATATGGC
* * * * *
43492327 TAAAAGTGTTGTGAAATTGAGAAGCTAAAGAAATTTTTTTTTTGGTGAAATTATGGTTAGAAGAT
1 TAAAAGAGTTATGAAATTGAGAAGCTAAAGAAATTTTTTTTTTGTTGAAACTATTGTTAGAAGAT
* * * * * * *
43492392 TTGTGAAATTGAGAAGTTAAATAAGTATTTTTTTTA----GG--GGTTGAAACTATGGT
66 TTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAGGGGGGAAGGTTGAAAATATGGC
* *
43492445 TAAAAGATTTGTGAAATTGAGAAGCTAAAGAA
1 TAAAAGAGTTATGAAATTGAGAAGCTAAAGAA
43492477 CTCTTTCTTA
Statistics
Matches: 242, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
118 42 0.17
120 2 0.01
124 8 0.03
125 20 0.08
126 28 0.12
127 25 0.10
128 23 0.10
129 51 0.21
130 7 0.03
131 8 0.03
132 28 0.12
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (124 bp):
TAAAAGAGTTATGAAATTGAGAAGCTAAAGAAATTTTTTTTTTGTTGAAACTATTGTTAGAAGAT
TTATGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTAGGGGGGAAGGTTGAAAATATGGC
Found at i:43492777 original size:23 final size:23
Alignment explanation
Indices: 43492749--43492792 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43492739 AAATTTAAAA
*
43492749 GTTAAAGAAGAGTTTTTTTTTTG
1 GTTAAAAAAGAGTTTTTTTTTTG
*
43492772 GTTAAAAAAGTGTTTTTTTTT
1 GTTAAAAAAGAGTTTTTTTTT
43492793 GAGAGAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (23 bp):
GTTAAAAAAGAGTTTTTTTTTTG
Found at i:43493888 original size:29 final size:31
Alignment explanation
Indices: 43493846--43493908 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
43493836 TAATAAAGGT
* *
43493846 AAAATTACACTTTAGCCCATT-AAAATTATA
1 AAAATTACAATTTAACCCATTAAAAATTATA
* *
43493876 AAAATT-CAATTTAATCCTTTAAAAATTATA
1 AAAATTACAATTTAACCCATTAAAAATTATA
43493906 AAA
1 AAA
43493909 GATTGTAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (31 bp):
AAAATTACAATTTAACCCATTAAAAATTATA
Found at i:43495100 original size:30 final size:31
Alignment explanation
Indices: 43495066--43495128 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43495056 ACTTATTTTC
*
43495066 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTATTATTATTTTAAAGGCAT
*
43495096 TTGTTAATTTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTTATTATTATTTTAAAGGCAT
43495127 TT
1 TT
43495129 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAAAGGCAT
Found at i:43498830 original size:42 final size:41
Alignment explanation
Indices: 43498765--43498851 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
43498755 CATATTATAG
**
43498765 TAAATCATTATTGTAGGAAAGTGTGAA-ATTTTATTAATTTTA
1 TAAATCATTATTGTA-GAAAGTGTGAACA-TCCATTAATTTTA
43498807 TAAATCATTATTGTCA-AATAGTGTGAACATCCATTAATTTTA
1 TAAATCATTATTGT-AGAA-AGTGTGAACATCCATTAATTTTA
43498849 TAA
1 TAA
43498852 TTATGATGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
41 2 0.05
42 36 0.90
43 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (41 bp):
TAAATCATTATTGTAGAAAGTGTGAACATCCATTAATTTTA
Found at i:43500503 original size:19 final size:19
Alignment explanation
Indices: 43500479--43500523 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
43500469 GATGAACAGT
43500479 AAAAAAATGCTAAAAACAA
1 AAAAAAATGCTAAAAACAA
* *
43500498 AAAAAAA-GCTGAAAACGA
1 AAAAAAATGCTAAAAACAA
43500516 AAAAAAAT
1 AAAAAAAT
43500524 AAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAATGCTAAAAACAA
Found at i:43500684 original size:3 final size:3
Alignment explanation
Indices: 43500669--43500743 Score: 75
Period size: 3 Copynumber: 26.0 Consensus size: 3
43500659 TTCGGGAACA
* * * * *
43500669 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG ACG AAG GA- AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
43500714 CAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
43500744 GAGGAGGAGG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.07
3 53 0.93
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43500748 original size:3 final size:3
Alignment explanation
Indices: 43500742--43500767 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43500732 AAGAAGAAGA
43500742 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
43500768 CCGGTCGGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:43501538 original size:17 final size:17
Alignment explanation
Indices: 43501516--43501561 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
43501506 AATAAAATAC
43501516 GAAAATAATATATTTTA
1 GAAAATAATATATTTTA
43501533 GAAAATAATATATTTTA
1 GAAAATAATATATTTTA
*
43501550 AAAAATAATATA
1 GAAAATAATATA
43501562 CGAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
GAAAATAATATATTTTA
Found at i:43501568 original size:165 final size:166
Alignment explanation
Indices: 43501376--43501712 Score: 523
Period size: 165 Copynumber: 2.0 Consensus size: 166
43501366 ATGAAAAATT
* * *
43501376 TATATTTTAAAAAATAAAATCCGAAAATAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTT
1 TATATTTTAAAAAATAATATACGAAAATAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTT
* * * * *
43501441 ATTAAATTAATATAAAAAAACTTAAATAATATATTTGAAACATTTTTTGCTAAAATAATATAAA-
66 ATTAAATAAATATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAG
*
43501505 AAATAAAATACGAAAATAATATATTTTAGAAAATAA
131 AAATAAAATACGAAAATAATATATTTTAAAAAATAA
* * *
43501541 TATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTT
1 TATATTTTAAAAAATAATATACGAAAATAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTT
* *
43501606 ATTAAAAAAATATAAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATATAAAG
66 ATTAAATAAATATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAG
43501671 AAATAAAATACGAAAAATAATATATTTTAAAAAATAA
131 AAATAAAATACG-AAAATAATATATTTTAAAAAATAA
*
43501708 GATAT
1 TATAT
43501713 GAAAATAAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
165 116 0.75
166 12 0.08
167 27 0.17
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (166 bp):
TATATTTTAAAAAATAATATACGAAAATAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTT
ATTAAATAAATATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAG
AAATAAAATACGAAAATAATATATTTTAAAAAATAA
Found at i:43501693 original size:150 final size:151
Alignment explanation
Indices: 43501533--43502059 Score: 810
Period size: 150 Copynumber: 3.5 Consensus size: 151
43501523 ATATATTTTA
* * *
43501533 GAAAATAATATATTTTAAAAAATAATATACGAAAAT-AAAAAATACGAATAAAGTGCTAAAATCA
1 GAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCA
** *
43501597 AGGTTATTTATTAAAAAAATATAAAAAA-ACTTAAATAATACATTTAAAACATTATGTACTAAAA
66 AGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAA
43501661 TAATATAAAGAAATAAAATAC
131 TAATATAAAGAAATAAAATAC
* *
43501682 GAAAAATAATATATTTTAAAAAATAAGATATGAAAATAAAAAAATAAGAAGAAAGTGCCAAAATC
1 G-AAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
* * * * * *
43501747 AGGGTTATTTATTAAATTAATATAAAAAATATTTAAATAATACATTTGAAACATTCTTTGCTAAA
65 AAGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAA
*
43501812 ATAATATAAA-AAATAAAATAA
130 ATAATATAAAGAAATAAAATAC
* * * * *
43501833 GAAAATAATATATTTTAAAAAATAATATATGAAAAT-AAAAAATACGAATAAAGTTCTAAAATCA
1 GAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCA
* *
43501897 GGGTTATTTATTAAATTACTATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAA
66 AGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAA
43501962 ATAATATAAAGAAATAAAATAC
130 ATAATATAAAGAAATAAAATAC
43501984 GAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCA
1 GAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCA
43502049 AGGTTATTTAT
66 AGGTTATTTAT
43502060 GATAGTTTGA
Statistics
Matches: 340, Mismatches: 32, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
149 46 0.14
150 114 0.34
151 105 0.31
152 75 0.22
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (151 bp):
GAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCA
AGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAA
TAATATAAAGAAATAAAATAC
Found at i:43501824 original size:12 final size:13
Alignment explanation
Indices: 43501809--43501844 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
43501799 ATTCTTTGCT
43501809 AAAATAATATAA-
1 AAAATAATATAAG
*
43501821 AAAATAAAATAAG
1 AAAATAATATAAG
43501834 AAAATAATATA
1 AAAATAATATA
43501845 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:43502641 original size:16 final size:16
Alignment explanation
Indices: 43502620--43502651 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43502610 ATCTGTTAAA
43502620 AAATAAACAAACTTTC
1 AAATAAACAAACTTTC
43502636 AAATAAACAAACTTTC
1 AAATAAACAAACTTTC
43502652 TCAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAACAAACTTTC
Found at i:43503541 original size:87 final size:87
Alignment explanation
Indices: 43503395--43503575 Score: 328
Period size: 87 Copynumber: 2.1 Consensus size: 87
43503385 TTGTCATTTC
43503395 TAACAATATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATCAACCTAAAACGGGTTT
1 TAACAATATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATCAACCTAAAACGGGTTT
*
43503460 TTTACCCTAATAATATAAAAAA
66 TTTAACCTAATAATATAAAAAA
* *
43503482 TAACAATATCTATAACATGTCAAATAAATTTTATAAATATTATCTAATCAACCTAAAACGGGTTT
1 TAACAATATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATCAACCTAAAACGGGTTT
43503547 TTTAACCTAATAATATAAAAAA
66 TTTAACCTAATAATATAAAAAA
43503569 TAA-AATA
1 TAACAATA
43503576 AAATAGCAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 4 0.04
87 87 0.96
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (87 bp):
TAACAATATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATCAACCTAAAACGGGTTT
TTTAACCTAATAATATAAAAAA
Found at i:43507063 original size:20 final size:19
Alignment explanation
Indices: 43507018--43507065 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
43507008 TCAAGTTCGA
43507018 GTTTGGGGTTCAAGGTTTAG
1 GTTT-GGGTTCAAGGTTTAG
43507038 GATTTGGGTTCAAGGTTTAG
1 G-TTTGGGTTCAAGGTTTAG
43507058 TGTTTGGG
1 -GTTTGGG
43507066 GTTTAGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.40, T:0.42
Consensus pattern (19 bp):
GTTTGGGTTCAAGGTTTAG
Found at i:43522035 original size:26 final size:27
Alignment explanation
Indices: 43522006--43522057 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
43521996 CTAATTATTT
*
43522006 AAATTTTAGGA-ATTTTG-GTGTTTTGC
1 AAATTTT-GGACATTTTGACTGTTTTGC
43522032 AAATTTTGGACATTTTGACTGTTTTG
1 AAATTTTGGACATTTTGACTGTTTTG
43522058 GTTTGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (27 bp):
AAATTTTGGACATTTTGACTGTTTTGC
Found at i:43534066 original size:6 final size:6
Alignment explanation
Indices: 43534052--43534121 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
43534042 TATTAATTAT
* * * * * *
43534052 AGATGC AGATAC AGATTC AGATTC -GCCTAC AGATGC AGATGC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AG-ATAC AGATAC AGATAC AGATAC
*
43534100 AGATAC AGATAC AGATTC AGAT
1 AGATAC AGATAC AGATAC AGAT
43534122 CCTACCTCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
5 1 0.02
6 52 0.96
7 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (6 bp):
AGATAC
Found at i:43534100 original size:18 final size:18
Alignment explanation
Indices: 43534052--43534121 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
43534042 TATTAATTAT
*
43534052 AGATGCAGATACAGATTC
1 AGATGCAGATACAGATAC
* * *
43534070 AGATTC-GCCTACAGATGC
1 AGATGCAG-ATACAGATAC
43534088 AGATGCAGATACAGATAC
1 AGATGCAGATACAGATAC
* *
43534106 AGATACAGATTCAGAT
1 AGATGCAGATACAGAT
43534122 CCTACCTCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.02
18 40 0.95
19 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (18 bp):
AGATGCAGATACAGATAC
Found at i:43536853 original size:41 final size:41
Alignment explanation
Indices: 43536808--43536893 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
43536798 CATTATGATC
* * * *
43536808 AATTGTCTATAGTTGTTGACTTTCAAGATTGATGGGGACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
43536849 AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
43536890 AATT
1 AATT
43536894 ATTCTGGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (41 bp):
AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
Found at i:43538771 original size:20 final size:20
Alignment explanation
Indices: 43538746--43538784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43538736 AACCTTAAAC
* *
43538746 CTTGAACCTTAAATTTGAAG
1 CTTGAACCCTAAACTTGAAG
43538766 CTTGAACCCTAAACTTGAA
1 CTTGAACCCTAAACTTGAA
43538785 CCCTAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
CTTGAACCCTAAACTTGAAG
Found at i:43538782 original size:13 final size:13
Alignment explanation
Indices: 43538766--43538794 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43538756 AAATTTGAAG
43538766 CTTGAACCCTAAA
1 CTTGAACCCTAAA
43538779 CTTGAACCCTAAA
1 CTTGAACCCTAAA
43538792 CTT
1 CTT
43538795 AAATCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (13 bp):
CTTGAACCCTAAA
Found at i:43541063 original size:32 final size:32
Alignment explanation
Indices: 43541022--43541116 Score: 127
Period size: 34 Copynumber: 2.9 Consensus size: 32
43541012 TTTCAAAAAA
43541022 TAAATTAGGGTTTAGTGTTTTTTAAAATTAAT
1 TAAATTAGGGTTTAGTGTTTTTTAAAATTAAT
* *
43541054 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGTGTTTTT--TAAAATTAAT
* *
43541088 TAAATTAGGATTTAGTTTTTTTTCAAAAT
1 TAAATTAGGGTTTAGTGTTTTTT-AAAAT
43541117 AACTTTGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 21 0.39
33 5 0.09
34 28 0.52
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (32 bp):
TAAATTAGGGTTTAGTGTTTTTTAAAATTAAT
Found at i:43541404 original size:126 final size:127
Alignment explanation
Indices: 43541170--43541444 Score: 392
Period size: 126 Copynumber: 2.2 Consensus size: 127
43541160 AATAAGGATT
* * * *
43541170 TTTTTTTCTGCAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTGAA
1 TTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAGTGTCAA
* * * *
43541235 AAACGCTTCAAGCAGGATGCACTGTCAACAAAATTGAT-GAAAAAAGCTCCCACGTGGACAC
66 AAAAGCTTCAAGCAAGATGCACTGTCAACAAAATTGATAAAAAAAAGCTCCCACATGGACAC
43541296 TTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTG-ACAAATAGTGTCAA
1 TTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAGTGTCAA
* * * * * *
43541360 AAAAGCTTCAAGCAAGATGCATTGTTAGCAAAATTGATAAAAAAAAAGTTTCCACATGGACGC
66 AAAAGCTTCAAGCAAGATGCACTGTCAACAAAATTGAT-AAAAAAAAGCTCCCACATGGACAC
*
43541423 TCTTTTTCTACAGTAGTTCCTG
1 TTTTTTTCTACAGTAGTTCCTG
43541445 TTTGGCCTTA
Statistics
Matches: 132, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 46 0.35
126 47 0.36
127 39 0.30
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (127 bp):
TTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAGTGTCAA
AAAAGCTTCAAGCAAGATGCACTGTCAACAAAATTGATAAAAAAAAGCTCCCACATGGACAC
Found at i:43545000 original size:18 final size:19
Alignment explanation
Indices: 43544959--43545000 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
43544949 GATTGGAAAA
* *
43544959 AGGAAACATATAAGGGTTT
1 AGGATACATATAAGGGTCT
43544978 A-GATACATATAAGGG-CT
1 AGGATACATATAAGGGTCT
43544995 AGGATA
1 AGGATA
43545001 TGCACCTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (19 bp):
AGGATACATATAAGGGTCT
Found at i:43558134 original size:7 final size:7
Alignment explanation
Indices: 43558089--43558114 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43558079 ATAATTAGAC
43558089 TTAAATT
1 TTAAATT
43558096 TTAAATT
1 TTAAATT
43558103 TTAAATT
1 TTAAATT
43558110 TTAAA
1 TTAAA
43558115 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:43561285 original size:14 final size:15
Alignment explanation
Indices: 43561268--43561296 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43561258 CATAAATGTT
43561268 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
43561282 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
43561297 TGGGGACTTG
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:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:43569979 original size:31 final size:31
Alignment explanation
Indices: 43569918--43569980 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
43569908 TAGGTCCAAC
* * *
43569918 TATATTTTTATTTTTTTAAAAATATTTATAT
1 TATATTATTATTTATTTAAAAATATATATAT
43569949 TATATTATT-TTTATTTAAAAATTATATATAT
1 TATATTATTATTTATTTAAAAA-TATATATAT
43569980 T
1 T
43569981 TTGCATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATATTATTATTTATTTAAAAATATATATAT
Found at i:43575425 original size:32 final size:31
Alignment explanation
Indices: 43575388--43575454 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
43575378 AATTTTTTGA
*
43575388 ATTTTTATGAA-CTATTTATATATTATTT-ATTT
1 ATTTTTATGAAGAT-TTTATA-ATT-TTTAATTT
*
43575420 ATTTTTTTGAAGATTTTATAATTTTTAATTT
1 ATTTTTATGAAGATTTTATAATTTTTAATTT
43575451 ATTT
1 ATTT
43575455 GTTGATGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 3 0.10
31 11 0.35
32 16 0.52
33 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (31 bp):
ATTTTTATGAAGATTTTATAATTTTTAATTT
Found at i:43583892 original size:36 final size:36
Alignment explanation
Indices: 43583852--43583925 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
43583842 CGTTGACTCT
43583852 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
1 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
*
43583888 TTTTATGCTTCAGGGATAAGGTTAGCCTACGATTAA
1 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
43583924 TT
1 TT
43583926 AGTAGCTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (36 bp):
TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
Found at i:43585346 original size:21 final size:21
Alignment explanation
Indices: 43585320--43585365 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43585310 AAGAAGATGG
*
43585320 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
43585341 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
43585362 AAGA
1 AAGA
43585366 TCTGGAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:43586249 original size:932 final size:932
Alignment explanation
Indices: 43584353--43587148 Score: 4982
Period size: 932 Copynumber: 3.0 Consensus size: 932
43584343 TAATATCTTG
* * *
43584353 GACAAGATGATGCAACTGTACAGAAGAAGATGGAAGAGATGAAT-ATTGAGTTGCAATAGAAGAT
1 GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGA-TGAGTTGCAAGAGAAGAT
* ** *
43584417 TGATGATCTGCAAGATCTGAAGTCAACAAAAAAAGCTTTATTTTTTAGTTATAATAGTCCGAGAT
65 TGATGATCTGCAAGATCTGGAGTCAAC-AAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATAT
* * * * *
43584482 AAGACAGAGATTTGATTTCGTGAACTTTGCAGGGAAGATGTTTGAAAGAACTAGAAAAGTATCTA
129 AAGACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGTATCTA
* ** * * * * *
43584547 GGTTTGCCGAATGTGGTCAAAAAACAGAAGAGGGGGAGTTTTCAAGGCTTAAGGGATAGAATGAC
194 GGTTTGCCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGC
* ** * *
43584612 AAAATGTGTTAATAATTGGTGTGTTAAGGCACTATCACAAGGTGGGAAAGAGGTTTTTATTCAAA
259 AGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAA
* * * * **
43584677 GTGTGTTACAAACAATCCAAAACTTATGCTATGTTGTGTTTTCCGTTACCAAATTCTTTATGCCA
324 GTGTGTTACAAGCAAACC-CAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTATGCCA
43584742 TGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATT
388 TGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATT
43584807 GGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGT
453 GGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGT
* * * *
43584872 TTAATATGGCCCTTCTCGTAAAACATGGCTAGCAATTATTAGAGTATCCCGATTCGTTACTTGCA
518 TTAATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCA
43584937 CTGACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCC
583 CTGACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCC
* *
43585002 TTTTTATACTTGGTGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGT
648 TTTTTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGT
* * *
43585067 TGGTAATGGTAATAACATCTCAGTTTGGCAAGATGCTTGTGTTCCTGAACTAGAAAACCAAAGAA
713 TGGTAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAA
*
43585132 TTCAAGAGTCAGCTAGTGATTACAGTGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGA
778 TTCAAGAGTCAGCTAGTGATTACAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTCAAGA
*
43585197 CAGTATAAGGACGAAGTAATTACTTGACTTTTTAGTAATAAAAAGGCAGAGGCGATCATGAAGAT
843 CAGTATAAGGAGGAAGTAATTACTTGACTTTTTAGTAATAAAAAGGCAGAGGCGATCATGAAGAT
43585262 TCTGTTGGTGAAACACCTGCAGGAC
908 TCTGTTGGTGAAACACCTGCAGGAC
43585287 GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGAGAAGATT
1 GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGAGAAGATT
43585352 GATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATATAA
66 GATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATATAA
*
43585417 GACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAATTAGAAAAGTATCTAGG
131 GACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGTATCTAGG
43585482 TTTGCCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGCAG
196 TTTGCCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGCAG
*
43585547 AATGTGTTAATAATTGGTGCATTAAGGTATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAAGT
261 AATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAAGT
*
43585612 GTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTTTGCCATGA
326 GTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTATGCCATGA
43585677 AATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATTGGT
391 AATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATTGGT
43585742 GCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGTTTA
456 GCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGTTTA
43585807 ATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTG
521 ATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTG
43585872 ACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTT
586 ACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTT
43585937 TTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGG
651 TTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGG
*
43586002 TAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTC
716 TAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAATTC
*
43586067 AAGAGTCAGCTAGTGATTACAATGTAACAAAAGTGGCAAACTTGATTGATTTAAATTCAAGACAG
781 AAGAGTCAGCTAGTGATTACAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTCAAGACAG
*
43586132 TATAAGGAGGAAGTAATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCT
846 TATAAGGAGGAAGTAATTACTTGACTTTTTAGTAATAAAAAGGCAGAGGCGATCATGAAGATTCT
43586197 GTTGGTGAAACACCTGCAGGAC
911 GTTGGTGAAACACCTGCAGGAC
43586219 GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGAGAAGATT
1 GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGAGAAGATT
43586284 GATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATATAA
66 GATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATATAA
*
43586349 GATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGTATCTAGG
131 GACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGTATCTAGG
*
43586414 TTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGCAG
196 TTTGCCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGCAG
43586479 AATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAAGT
261 AATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAAGT
43586544 GTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTATGCCATGA
326 GTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTATGCCATGA
43586609 AATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATTGGT
391 AATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATTGGT
*
43586674 GCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCTTGAGTTTA
456 GCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGTTTA
43586739 ATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTG
521 ATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTG
43586804 ACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTT
586 ACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTT
43586869 TTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGG
651 TTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGG
43586934 TAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAATTC
716 TAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAATTC
* * * *
43586999 AAAAGTTAGCTAGTGATTATAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTTAAGACAG
781 AAGAGTCAGCTAGTGATTACAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTCAAGACAG
* ** * * * *
43587064 TGTAAACAGGAATTAATTACTAGACTTTTTAGTAATAAAAAAGGCAGAGGCTATCATGGAGATTC
846 TATAAGGAGGAAGTAATTACTTGACTTTTTAGTAAT-AAAAAGGCAGAGGCGATCATGAAGATTC
*
43587129 CGTTGGTGAAACACCTGCAG
910 TGTTGGTGAAACACCTGCAG
43587149 AAGGACAAAA
Statistics
Matches: 1791, Mismatches: 69, Indels: 5
0.96 0.04 0.00
Matches are distributed among these distances:
932 1436 0.80
933 269 0.15
934 85 0.05
935 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (932 bp):
GACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGAGAAGATT
GATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCCGATATAA
GACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGTATCTAGG
TTTGCCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGAATGGCAG
AATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTATTAAAAGT
GTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTATGCCATGA
AATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATGCATTGGT
GCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCTGAGTTTA
ATATGGCCCTTCTCGCAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTG
ACATTAAAGGTTAAATATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTT
TTATACCTGGCGAAACATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGG
TAATGGTGATAACATCTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAATTC
AAGAGTCAGCTAGTGATTACAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTCAAGACAG
TATAAGGAGGAAGTAATTACTTGACTTTTTAGTAATAAAAAGGCAGAGGCGATCATGAAGATTCT
GTTGGTGAAACACCTGCAGGAC
Found at i:43586278 original size:21 final size:21
Alignment explanation
Indices: 43586252--43586297 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43586242 AAGAAGATGG
*
43586252 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
43586273 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
43586294 AAGA
1 AAGA
43586298 TCTGGAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:43590191 original size:21 final size:21
Alignment explanation
Indices: 43590165--43590210 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43590155 AAGAAGATGG
*
43590165 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
43590186 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
43590207 AAGA
1 AAGA
43590211 TCTGGAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:43591123 original size:21 final size:21
Alignment explanation
Indices: 43591097--43591142 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43591087 AAGAAGATGG
*
43591097 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
43591118 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
43591139 AAGA
1 AAGA
43591143 TCTGGAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:43591539 original size:932 final size:932
Alignment explanation
Indices: 43589735--43592925 Score: 6085
Period size: 932 Copynumber: 3.4 Consensus size: 932
43589725 TTGATGTGCT
*
43589735 CAAAACATGGCTGGAAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
1 CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
43589800 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
66 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
43589865 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
131 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
* *
43589930 CTCAGTTTGGCAAGATGCTTGTGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
196 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
43589995 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
261 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
43590060 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
326 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
43590125 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
391 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
43590190 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
456 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
*
43590255 GATATAAGACAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
521 GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
43590320 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
586 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
43590385 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
651 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
43590450 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
716 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
43590515 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
781 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
43590580 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
846 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
43590645 GAGTTTAATATGGCCCTTCTCG
911 GAGTTTAATATGGCCCTTCTCG
* * *
43590667 TAAAACATGGCTAGCAATTATTAGAGTATCCCGATTCGTTACTTGCACTGACATTAAAGGTTAAA
1 CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
* *
43590732 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACTTGGTGAAA
66 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
43590797 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
131 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
43590862 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
196 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
43590927 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
261 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
43590992 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
326 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
43591057 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
391 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
43591122 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
456 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
43591187 GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
521 GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
43591252 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
586 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
43591317 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
651 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
43591382 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
716 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
43591447 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
781 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
43591512 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
846 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
43591577 GAGTTTAATATGGCCCTTCTCG
911 GAGTTTAATATGGCCCTTCTCG
43591599 CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
1 CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
43591664 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
66 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
43591729 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
131 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
43591794 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
196 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
43591859 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
261 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
43591924 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
326 ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
43591989 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
391 GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
43592054 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
456 GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
43592119 GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
521 GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
43592184 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
586 ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
43592249 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
651 ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
43592314 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
716 TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
43592379 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
781 GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
*
43592444 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCTT
846 CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
*
43592509 GAGTTTAATATGGTCCTTCTCG
911 GAGTTTAATATGGCCCTTCTCG
* *
43592531 CAAAACATGGCTGGCAATTATTAGAGTATCCTGATTCGTTACTTGCACTGACATTAAAGGTTAAA
1 CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
* *
43592596 TATTATCCTCAAACAGACTTTATGTAAGTAGAGTTAGGAAACTTCCTTTTTTATACCTGGCGAAA
66 TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
*
43592661 CATTTGGGCAAAAGGAAAGTCTTGCAATAAGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
131 CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
* * *
43592726 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAAGAATTCAAAAGTTAGCTAGTG
196 CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
* * * * * ** *
43592791 ATTATAGTGTAACAAAAGTGGCAAACTTGATTGATTTAAATTTAAGACAGTGTAAACAGGAATTA
261 ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
* * * * *
43592856 ATTACTAGACTTTTTAGTAATAAAAAAGGCAGAGGCTATCATGGAGATTCCGTTGGTGAAACACC
326 ATTACTTGACTTTTTAGTAAT-GAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACC
43592921 TGCAG
390 TGCAG
43592926 AAGGACAAAA
Statistics
Matches: 2221, Mismatches: 37, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
932 2177 0.98
933 44 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (932 bp):
CAAAACATGGCTGGCAATTATTAGAGTATCCCGATTCATTACTTGCACTGACATTAAAGGTTAAA
TATTATCCTCAAACAGACTTTATGTAAGCAGAGTTAGGAAACTTCCCTTTTTATACCTGGCGAAA
CATTTGGGCAAAAGGAAAGTCTTGCAATATGGTATGGCTTGGAGAGTTGGTAATGGTGATAACAT
CTCAGTTTGGCAAGATGCCTGGGTTCCTGAACTAGAAAACCAAATAATTCAAGAGTCAGCTAGTG
ATTACAATGTAACAAAAGTGGCAATCTTGATTGATTTAAATTCAAGACAGTATAAGGAGGAAGTA
ATTACTTGACTTTTTAGTAATGAAAAGGCAGAGGCGATCATGAAGATTCTGTTGGTGAAACACCT
GCAGGACGACAAGATGATACAGCTGTACAGAAGAAGATGGAAGAGATGAATGATGAGTTGCAAGA
GAAGATTGATGATCTGCAAGATCTGGAGTCAACAAAAAAGCTTTATTTTTTAGTGCTAATAGTCC
GATATAAGATAGAGATTTGATTTCGTGAACTTTGCAAGTAAGATTTTTGGAGGAACTAGAAAAGT
ATCTAGGTTTGTCGAATATGGTTGAAAAATAGAAGAGGAGGAGTTTTCAGGGCTTAAGGGATTGA
ATGGCAGAATGTGTTAATAATTGGTGCATTAAGGCATTATCACAAGGTGGGAAAGAGGTTTTTAT
TAAAAGTGTGTTACAAGCAAACCCAACCTATGCTATGTTGTGTTTTCTTTTACCAAATTCTTTAT
GCCATGAAATGGAGCAGATTATTTACAAGTTTTGATGGCAAAAATAGAAGGGGAAGCGGTGAATG
CATTGGTGCAATTGAAGTTATGTGCGTTAAAATTAGATGGTGGGATGGGTTTTCATAGTTTGCCT
GAGTTTAATATGGCCCTTCTCG
Found at i:43592055 original size:21 final size:21
Alignment explanation
Indices: 43592029--43592074 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43592019 AAGAAGATGG
*
43592029 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
43592050 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
43592071 AAGA
1 AAGA
43592075 TCTGGAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:43596208 original size:14 final size:15
Alignment explanation
Indices: 43596178--43596209 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43596168 TTTTTAGTTT
43596178 AATTTTTCTTTTCTA
1 AATTTTTCTTTTCTA
43596193 AATTTTTCTTTT-TA
1 AATTTTTCTTTTCTA
43596207 AAT
1 AAT
43596210 GCTTCTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTTCTTTTCTA
Found at i:43607925 original size:13 final size:14
Alignment explanation
Indices: 43607907--43607935 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43607897 ATATATATAT
43607907 AAAAGAA-AAGAAA
1 AAAAGAAGAAGAAA
43607920 AAAAGAAGAAGAAA
1 AAAAGAAGAAGAAA
43607934 AA
1 AA
43607936 GAATAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:43608023 original size:16 final size:16
Alignment explanation
Indices: 43607979--43608017 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43607969 AGAGAGCAGG
* *
43607979 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
43607995 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
43608011 GGAAAAA
1 GGAAAAA
43608018 GGGAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:43609151 original size:46 final size:46
Alignment explanation
Indices: 43609099--43609328 Score: 352
Period size: 46 Copynumber: 5.0 Consensus size: 46
43609089 AGTGTGCTCT
*
43609099 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
43609145 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43609191 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
43609237 GTGACATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
43609283 GTGACATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43609329 ATGACAGAAA
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 176 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:43611641 original size:27 final size:27
Alignment explanation
Indices: 43611622--43611778 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
43611612 ATTACCAAAG
**
43611622 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
43611649 TATCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
43611676 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
43611703 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
43611730 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
43611757 TACCTTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
43611779 TAAAATACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:43611713 original size:81 final size:81
Alignment explanation
Indices: 43611622--43611778 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
43611612 ATTACCAAAG
* * * *
43611622 TACCCTCGATTTATAGAATTA-CAATTTTATCCTCGATTTACAGAATTACCGTTTTACCTTCGAT
1 TACCCTCGATTTATAAAATTATC-ATTTTACCCTCGATTTACAAAATTACCATTTTACCTTCGAT
* *
43611686 TTATAGAATTACCGTTT
65 TTACAAAATTACCGTTT
* * * *
43611703 TACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTATAAAATTACTATTTTACCTTTGATT
1 TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTACAAAATTACCATTTTACCTTCGATT
43611768 TACAAAATTAC
66 TACAAAATTAC
43611779 TAAAATACCC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTACAAAATTACCATTTTACCTTCGATT
TACAAAATTACCGTTT
Found at i:43611787 original size:27 final size:27
Alignment explanation
Indices: 43611730--43612089 Score: 112
Period size: 27 Copynumber: 13.3 Consensus size: 27
43611720 ATTATCGTTT
* * ***
43611730 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
43611757 TACCTTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
43611784 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
43611811 TATCCC-CGA-TCAGTAAAATTA-TCAAAA
1 TA-CCCTTGATTTA-CAAAATTACT-AAAA
* * ** *
43611838 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** ***
43611864 TACCCCT-AGTTTGTAAAATTACCGGAA
1 TACCCTTGA-TTTACAAAATTACTAAAA
** ** *
43611891 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
43611918 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACTAAAA
* *** **
43611945 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACTAAAA
* ** *
43611972 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GATTTACAAAATTACTAAAA
* *
43611999 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
*
43612026 TACCCTTGACTTT-CTAAAAATTA-TGGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-AAAA
* * *
43612055 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
43612082 TACCCTTG
1 TACCCTTG
43612090 GTTTGTAGAT
Statistics
Matches: 260, Mismatches: 51, Indels: 44
0.73 0.14 0.12
Matches are distributed among these distances:
25 1 0.00
26 25 0.10
27 201 0.77
28 15 0.06
29 18 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:43611788 original size:54 final size:53
Alignment explanation
Indices: 43611609--43611805 Score: 169
Period size: 54 Copynumber: 3.7 Consensus size: 53
43611599 CTCAAATTGT
* *
43611609 AAAATTACCAAAGTACCCTCGATTTATAGAATTACAATTTTATCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAAAATTACAATTTTA-CCTCGATTTAC
* *** * * ** *
43611663 AGAATTACCGTTTTACCTTCGATTTATAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTATAAAATTACAATTTTA-CCTCGATTTAC
* *** * *
43611717 AAAATTATCGTTTTACCCTCGATTTATAAAATTACTATTTTACCTTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAAAATTACAATTTTACC-TCGATTTAC
* * * * *
43611771 AAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACCAAATTACCCTCGATTTATAAAATTAC
43611806 CAAAATATCC
Statistics
Matches: 115, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
53 2 0.02
54 113 0.98
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.40
Consensus pattern (53 bp):
AAAATTACCAAATTACCCTCGATTTATAAAATTACAATTTTACCTCGATTTAC
Found at i:43611788 original size:81 final size:81
Alignment explanation
Indices: 43611609--43611805 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 81
43611599 CTCAAATTGT
* * * * *
43611609 AAAATTACCAAAGTACCCTCGATTTATAGAATTACAATTTTATCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACAATTTTACCCTCGATTTACAAAATTACCAT
*
43611674 TTTACCTTCGATTTAT
66 TTTACCTTCGATTTAC
* **** * * *
43611690 AGAATTACCGTTTTACCCTCGATTTATAAAATTATC-GTTTTACCCTCGATTTATAAAATTACTA
1 AAAATTACCAAAATACCCTCGATTTATAAAATTA-CAATTTTACCCTCGATTTACAAAATTACCA
*
43611754 TTTTACCTTTGATTTAC
65 TTTTACCTTCGATTTAC
* * * *
43611771 AAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTAC
43611806 CAAAATATCC
Statistics
Matches: 92, Mismatches: 23, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
80 1 0.01
81 90 0.98
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.40
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAAAATTACAATTTTACCCTCGATTTACAAAATTACCAT
TTTACCTTCGATTTAC
Found at i:43611921 original size:54 final size:53
Alignment explanation
Indices: 43611771--43612003 Score: 236
Period size: 54 Copynumber: 4.3 Consensus size: 53
43611761 TTTGATTTAC
* * ** * **
43611771 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATATCCCCGA-TCAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATA-CCCCTAGTTTGT
* * * *
43611825 AAAATTATCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
** *
43611878 AAAATTACCGGAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
* * * * *
43611932 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCTTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGT
43611986 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
43612004 CTGATTTACA
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
52 5 0.03
53 40 0.27
54 102 0.68
55 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
Found at i:43611957 original size:81 final size:80
Alignment explanation
Indices: 43611771--43612005 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 80
43611761 TTTGATTTAC
** * * ** *
43611771 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATATCCC-CGATCAGTAAAATTATCA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCA
43611835 AAATA-CCCTAGTCTGT
64 AAATACCCCTAGTCTGT
* * *
43611851 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCGGAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
43611916 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
* * *
43611932 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
43611997 AATACCCCT
65 AATACCCCT
43612006 GATTTACAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.02
80 53 0.40
81 78 0.58
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:43612026 original size:54 final size:54
Alignment explanation
Indices: 43611927--43612029 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
43611917 ATACCCCTAG
* ** *
43611927 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCTTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCTTCAA
* *
43611981 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTATAGAAATACC
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTACAGAAATACC
43612030 CTTGACTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 39 0.93
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCTTCAA
Found at i:43616015 original size:25 final size:26
Alignment explanation
Indices: 43615918--43616037 Score: 172
Period size: 26 Copynumber: 4.7 Consensus size: 26
43615908 GAGGAAGTGC
*
43615918 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
43615944 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
43615970 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
43615996 AAAATGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
43616021 AAAAGGG-TTTTGCCCCA
1 AAAAGGGCTTATGCCCCA
43616038 ATTATTAAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 2 0.02
25 27 0.31
26 57 0.66
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:43616244 original size:42 final size:42
Alignment explanation
Indices: 43616185--43616276 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
43616175 TAGTCTCCCC
* ** *
43616185 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
43616227 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
43616269 AAATGGGC
1 AAATGGGC
43616277 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:43618036 original size:16 final size:16
Alignment explanation
Indices: 43617992--43618030 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43617982 AGAGAGCAGG
* *
43617992 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
43618008 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
43618024 GGAAAAA
1 GGAAAAA
43618031 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:43620181 original size:46 final size:46
Alignment explanation
Indices: 43620126--43620338 Score: 284
Period size: 46 Copynumber: 4.6 Consensus size: 46
43620116 ATGAAATGTG
* *
43620126 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGGAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAAAGAA
*
43620172 TAAGACCATGGTTGAAAGATACCATGGCAACGTGAA-ATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCT-AATATGAAAAGAA
* * * * *
43620218 TAAGACCATGGTTGAAAGATATCATGGCAACGTGACATGAAGAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAAAGAA
* **
43620264 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAAAGAA
* * *
43620310 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
43620339 TCATGTCAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 145 0.98
47 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAAAGAA
Found at i:43624592 original size:12 final size:12
Alignment explanation
Indices: 43624575--43624607 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
43624565 TCCCAACACC
43624575 ACACGGCCGGTA
1 ACACGGCCGGTA
43624587 ACACGGCCGGTA
1 ACACGGCCGGTA
43624599 ACACGGCCG
1 ACACGGCCG
43624608 TGCTTAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.36, G:0.33, T:0.06
Consensus pattern (12 bp):
ACACGGCCGGTA
Found at i:43632599 original size:43 final size:43
Alignment explanation
Indices: 43632473--43632581 Score: 175
Period size: 43 Copynumber: 2.5 Consensus size: 43
43632463 AGTGCAGGGG
*
43632473 ACACACGGCCATA-ACACACGCCCATGGGTGTGAACCGTGTGTT
1 ACACACGGCC-TAGACACACGCCCATGGGTGTGAACCGTGTGTC
* *
43632516 ACACACGGCCTAGACACACACCCATGGGTGTGAACAGTGTGTC
1 ACACACGGCCTAGACACACGCCCATGGGTGTGAACCGTGTGTC
43632559 ACACACGGCCTAGACACACGCCC
1 ACACACGGCCTAGACACACGCCC
43632582 GTGTGTCTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 2 0.03
43 59 0.97
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.15
Consensus pattern (43 bp):
ACACACGGCCTAGACACACGCCCATGGGTGTGAACCGTGTGTC
Found at i:43633417 original size:47 final size:45
Alignment explanation
Indices: 43633265--43633619 Score: 183
Period size: 47 Copynumber: 7.6 Consensus size: 45
43633255 TTGCCAATGC
43633265 CATGTCCCAGACATGGTCTTACACTGGC-TCT-TAT-ATACGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCTCTATCA-A-GC---C-GATG
* * ** *
43633314 CATGTCCCAAACATGTCTTACACTAGCACAACTCT-T--AGCTGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCTTCTCTATCAAGCCGATG
** * *
43633358 TGTGTCCTAGACACGTCTTACACTGGCTGTCTCTATCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TCTCTATCAA-GCCGATG
* * *
43633405 CATGTCCCAGACATGTCTTACACTGGC-ACTCATCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCTC-TATC-AAGCCGATG
* * *
43633451 CCATGTCGCAGACATGGTCTTACACTGGCTATC-ATAGT-ATAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCTCTA-TCA-AGCCGATG
* * * * * * *
43633499 CATGTCCCAAACATGTCTTACACTAGC-CCTCGTTTGGATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCTC-TAT-CAAGCCGATG
* ** *
43633545 CCATATCCCAGACATGGTCTTACACTGGC-TCTCATAATGTAGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCTC-T-ATCAAGCCGATG
43633593 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
43633620 GCACAAATCA
Statistics
Matches: 238, Mismatches: 44, Indels: 51
0.71 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 25 0.11
45 4 0.02
46 44 0.18
47 82 0.34
48 54 0.23
49 17 0.07
50 2 0.01
51 3 0.01
52 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCTCTATCAAGCCGATG
Found at i:43633504 original size:94 final size:93
Alignment explanation
Indices: 43633261--43633616 Score: 334
Period size: 94 Copynumber: 3.8 Consensus size: 93
43633251 TATATTGCCA
*
43633261 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTTA-TATACGCGTGCTGATGCATGTCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATA-GC---C-GATGCATGTCCCA
*
43633323 AACATGTCTTACACTAGCA--CAACTCTTAGCTG
61 AACATGTCTTACACTAGCACTCATCTC-TAGCTG
** * * * * *
43633355 ATG-TGTGTCCTAGACA-CGTCTTACACTGGCTGTC-T-CTATCAAGGCCGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTAT--A-GCCGATGCATGTCCCAAA
* *
43633416 CATGTCTTACACTGGCACTCATCTCTACGCCG
63 CATGTCTTACACTAGCACTCATCTCTA-GCTG
* *
43633448 ATGCCATGTCGCAGACATGGTCTTACACTGGCTATCATAGTATAGCTGATGCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATAGCCGATGCATGTCCCAAACAT
* * * **
43633513 GTCTTACACTAGCCCTCGTTTGGATGCTG
66 GTCTTACACTAGCACTCATCTCTA-GCTG
* * * * * *
43633542 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCCGAAGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATAGCCGATGCATGTCCCAAACAT
43633607 GTCTTACACT
66 GTCTTACACT
43633617 GGCGCACAAA
Statistics
Matches: 216, Mismatches: 34, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
91 30 0.14
92 16 0.07
93 25 0.12
94 121 0.56
95 20 0.09
96 1 0.00
97 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATAGCCGATGCATGTCCCAAACAT
GTCTTACACTAGCACTCATCTCTAGCTG
Found at i:43633518 original size:141 final size:140
Alignment explanation
Indices: 43633261--43633619 Score: 329
Period size: 141 Copynumber: 2.6 Consensus size: 140
43633251 TATATTGCCA
* * * * * * *
43633261 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATACGCGT-GCTGATGCATGTCCCAAA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCACTCATA-A-TC-TAGCCGAAGCATGTCCCAGA
* * * ** * * *
43633325 CATGTCTTACACTAGC-A-CA-ACTCTTAGCTGATGTGTGTCCTAGACACGTCTTACACTGGCTG
63 CATGTCTTACACTGGCTATCATAGT-ATAGCTGATGCATGTCCCAAACACGTCTTACACTAGC--
*
43633387 TCTC-TATCAAGGCCG
125 CCTCGTATCAAGGCCG
* * * *
43633402 ATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTACGCCGATGCCATGTCGCAGAC
1 ATGCCATATCCCAGACATGGTCTTACACTGGCACTCATAATCTA-GCCGAAG-CATGTCCCAGAC
*
43633464 ATGGTCTTACACTGGCTATCATAGTATAGCTGATGCATGTCCCAAACATGTCTTACACTAGCCCT
64 AT-GTCTTACACTGGCTATCATAGTATAGCTGATGCATGTCCCAAACACGTCTTACACTAGCCCT
* ** * *
43633529 CGTTTGGATGCTG
128 CGTATCAAGGCCG
* *
43633542 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCCGAAGCATGTCCCAGACAT
1 ATGCCATATCCCAGACATGGTCTTACACTGGCACTCATAATCTAGCCGAAGCATGTCCCAGACAT
43633607 GTCTTACACTGGC
66 GTCTTACACTGGC
43633620 GCACAAATCA
Statistics
Matches: 179, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
135 1 0.01
136 1 0.01
137 6 0.03
138 12 0.07
139 32 0.18
140 37 0.21
141 61 0.34
142 26 0.15
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCACTCATAATCTAGCCGAAGCATGTCCCAGACAT
GTCTTACACTGGCTATCATAGTATAGCTGATGCATGTCCCAAACACGTCTTACACTAGCCCTCGT
ATCAAGGCCG
Found at i:43637357 original size:222 final size:224
Alignment explanation
Indices: 43637007--43637411 Score: 625
Period size: 222 Copynumber: 1.8 Consensus size: 224
43636997 TTTTTTTCGG
* * * *
43637007 GCTCTATTTTTATTAAAAGGTAGGTGTGGATCAAGCGGTAAAGACTCCTCCACCTTTCTTTTGCA
1 GCTCTACTTTTATTAAAAGGTAGGTGTGGATCAA-CGGTAAAAACTCATCCACCTTTCTCTTGCA
* * * *
43637072 TGTATTTTGGGGTTGAAGTCATGTTGACACATCAAGGATGAGCTTGTAACAGTAGTTTACTTTTT
65 TGCATTTTGGGGTTGAAGTCATATTGACACATCAAGGATGAGCTTATAACAGCAGTTTACTTTTT
* *
43637137 CCAATTTCCCACCCAAACCCAGCAGCTATTTAGTGCAATGGAAAGATGCATAAGTGATAACAAAC
130 CCAATTTCCCACCCAAACCCAACAGCTATTTAGTGCAATAGAAAGATGCATAAGTGATAACAAAC
43637202 TTATTACTTATTTTTGGACTCTATTTTTGT
195 TTATTACTTATTTTTGGACTCTATTTTTGT
* * *
43637232 GCTCTACTTTTCTTAAAAGGTAGGTGTTGCTC-A-GGTAAAAACTCATCCACCTTTCTCTTGCAT
1 GCTCTACTTTTATTAAAAGGTAGGTGTGGATCAACGGTAAAAACTCATCCACCTTTCTCTTGCAT
* *
43637295 GCATTTTGGGGTTGAAGTCTTATTGACACATTAAGGATGAGCTTATAACAGCAGTTTACTTTTTC
66 GCATTTTGGGGTTGAAGTCATATTGACACATCAAGGATGAGCTTATAACAGCAGTTTACTTTTTC
** *
43637360 CTGTTTCCCACCCAAACCCAACAGCTATTTAGTGTAATAGAAAGATGCATAA
131 CAATTTCCCACCCAAACCCAACAGCTATTTAGTGCAATAGAAAGATGCATAA
43637412 ACAATGATGA
Statistics
Matches: 162, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
222 133 0.82
224 1 0.01
225 28 0.17
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (224 bp):
GCTCTACTTTTATTAAAAGGTAGGTGTGGATCAACGGTAAAAACTCATCCACCTTTCTCTTGCAT
GCATTTTGGGGTTGAAGTCATATTGACACATCAAGGATGAGCTTATAACAGCAGTTTACTTTTTC
CAATTTCCCACCCAAACCCAACAGCTATTTAGTGCAATAGAAAGATGCATAAGTGATAACAAACT
TATTACTTATTTTTGGACTCTATTTTTGT
Found at i:43642083 original size:28 final size:27
Alignment explanation
Indices: 43642027--43642083 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
43642017 GAGTGCCATA
** *
43642027 AAGAACCAAGTATGGGGACTGATGTTT
1 AAGAACCAAGTATGGCAACTGATGATT
43642054 AAGAACCGAAGTA-GGCAACTGATTGATT
1 AAGAACC-AAGTATGGCAACTGA-TGATT
43642082 AA
1 AA
43642084 ATAGACAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (27 bp):
AAGAACCAAGTATGGCAACTGATGATT
Found at i:43645280 original size:36 final size:36
Alignment explanation
Indices: 43645233--43645301 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
43645223 AGTTTTTTAG
*
43645233 GAATTAATCATATTGTGGTTTCCCTAAGAAGAGTAA
1 GAATTAATCATACTGTGGTTTCCCTAAGAAGAGTAA
* *
43645269 GAATTAATCATACTGTGGTTTCCTTGAGAAGAG
1 GAATTAATCATACTGTGGTTTCCCTAAGAAGAG
43645302 CAACACCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (36 bp):
GAATTAATCATACTGTGGTTTCCCTAAGAAGAGTAA
Found at i:43645600 original size:38 final size:39
Alignment explanation
Indices: 43645540--43645622 Score: 150
Period size: 38 Copynumber: 2.1 Consensus size: 39
43645530 TCTTCAAATC
43645540 CAAATCATAATTACCAATCTAAACCAGATCGTATATACCA
1 CAAA-CATAATTACCAATCTAAACCAGATCGTATATACCA
43645580 CAAACAT-ATTACCAATCTAAACCAGATCGTATATACCA
1 CAAACATAATTACCAATCTAAACCAGATCGTATATACCA
43645618 CAAAC
1 CAAAC
43645623 TATCCTTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 36 0.84
39 3 0.07
40 4 0.09
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.23
Consensus pattern (39 bp):
CAAACATAATTACCAATCTAAACCAGATCGTATATACCA
Found at i:43646541 original size:14 final size:13
Alignment explanation
Indices: 43646506--43646547 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
43646496 TAAAAATCAT
*
43646506 AAAAATTATAAAC
1 AAAAATTATAAAA
*
43646519 AAAATTTATAAAA
1 AAAAATTATAAAA
43646532 AAAAAGTTATAAAA
1 AAAAA-TTATAAAA
43646546 AA
1 AA
43646548 TCTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:43648812 original size:18 final size:19
Alignment explanation
Indices: 43648773--43648813 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
43648763 TAGATTAAAT
43648773 AAATTAAAGACATTATATA
1 AAATTAAAGACATTATATA
*
43648792 AAATTTAAGA-ATTCATA-A
1 AAATTAAAGACATT-ATATA
43648810 AAAT
1 AAAT
43648814 CATTTAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATTAAAGACATTATATA
Found at i:43653588 original size:13 final size:13
Alignment explanation
Indices: 43653567--43653624 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
43653557 AAATTTTTCC
43653567 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
43653580 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* * * *
43653593 AAAGTATTTTTTA
1 AAAGCACTTCTCA
*
43653606 AAAGCACTTTTCA
1 AAAGCACTTCTCA
43653619 AAAGCA
1 AAAGCA
43653625 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:43657102 original size:21 final size:21
Alignment explanation
Indices: 43657076--43657128 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
43657066 TAATTTTTTT
43657076 AAAATGTAAA-ATGGATAATG
1 AAAATGTAAATATGGATAATG
*
43657096 ATAAATGATAAATTTGGATAATG
1 A-AAATG-TAAATATGGATAATG
*
43657119 AATATGTAAA
1 AAAATGTAAA
43657129 GGTTAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 8 0.29
23 10 0.36
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (21 bp):
AAAATGTAAATATGGATAATG
Found at i:43659705 original size:29 final size:28
Alignment explanation
Indices: 43659673--43659771 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 28
43659663 GGCTATTGAT
* *
43659673 TATGAAAAGGATGGTGACGATTATCGAAC
1 TATGAAAAGGATGGT-TCGACTATCGAAC
* **
43659702 TATGACAAGGGATGGCTTCGACTATTAAAC
1 TATGA-AAAGGATGG-TTCGACTATCGAAC
*
43659732 TATGAAAAGGGATGGTTTCAACTATCGAAC
1 TATGAAAA-GGATGG-TTCGACTATCGAAC
*
43659762 TACGAAAAGG
1 TATGAAAAGG
43659772 GATAGCTTCG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 9 0.16
30 46 0.82
31 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (28 bp):
TATGAAAAGGATGGTTCGACTATCGAAC
Found at i:43659733 original size:30 final size:30
Alignment explanation
Indices: 43659699--43659800 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
43659689 ACGATTATCG
*
43659699 AACTATGACAAGGGATGGCTTCGACTATTA
1 AACTATGAAAAGGGATGGCTTCGACTATTA
* * **
43659729 AACTATGAAAAGGGATGGTTTCAACTATCG
1 AACTATGAAAAGGGATGGCTTCGACTATTA
* * *
43659759 AACTACGAAAAGGGATAGCTTCGGCTATTA
1 AACTATGAAAAGGGATGGCTTCGACTATTA
*
43659789 AATTATGGAAAA
1 AACTAT-GAAAA
43659801 AGATGGTGAC
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
30 52 0.91
31 5 0.09
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (30 bp):
AACTATGAAAAGGGATGGCTTCGACTATTA
Found at i:43659829 original size:60 final size:59
Alignment explanation
Indices: 43659647--43659834 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 59
43659637 TTGACAAATG
* * * *
43659647 GAAAAGAGATAGCTTTGGCTATT-GATTATGAAAAGGATGGTGACGATTATCGAACTAT
1 GAAAAGGGATAGCTTCGGCTATTAAATTATGAAAAGGATGGTGACGACTATCGAACTAT
* * * * ** * *
43659705 GACAAGGGATGGCTTCGACTATTAAACTATGAAAAGGGATGGTTTCAACTATCGAACTAC
1 GAAAAGGGATAGCTTCGGCTATTAAATTATGAAAA-GGATGGTGACGACTATCGAACTAT
* *
43659765 GAAAAGGGATAGCTTCGGCTATTAAATTATGGAAAAAGATGGTGACGACCATCGAA-TAAT
1 GAAAAGGGATAGCTTCGGCTATTAAATTAT-GAAAAGGATGGTGACGACTATCGAACT-AT
*
43659825 GAAAATGGAT
1 GAAAAGGGAT
43659835 GGTGACGACC
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
58 18 0.17
59 10 0.10
60 70 0.68
61 5 0.05
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (59 bp):
GAAAAGGGATAGCTTCGGCTATTAAATTATGAAAAGGATGGTGACGACTATCGAACTAT
Found at i:43659836 original size:30 final size:30
Alignment explanation
Indices: 43659802--43659864 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
43659792 TATGGAAAAA
*
43659802 GATGGTGACGACCATC-GAATAATGAAAATG
1 GATGGTGACGACCATCAG-ATAATGAAAAGG
*
43659832 GATGGTGACGACCATCAGATTATGAAAAGG
1 GATGGTGACGACCATCAGATAATGAAAAGG
43659862 GAT
1 GAT
43659865 AGCTTTGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.21
Consensus pattern (30 bp):
GATGGTGACGACCATCAGATAATGAAAAGG
Found at i:43659884 original size:30 final size:30
Alignment explanation
Indices: 43659850--43659924 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
43659840 CGACCATCAG
* * *
43659850 ATTATGAAAAGGGATAGCTTTGGCTGTCGA
1 ATTATGAAAAGGGATAACTTTGACTATCGA
*
43659880 ATTATGAAAAGGGATAACTTTGATTATCGA
1 ATTATGAAAAGGGATAACTTTGACTATCGA
*
43659910 ATTACGAAAAGGGAT
1 ATTATGAAAAGGGAT
43659925 GGGTCAACCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
ATTATGAAAAGGGATAACTTTGACTATCGA
Found at i:43667452 original size:46 final size:46
Alignment explanation
Indices: 43667385--43667476 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
43667375 GAGATGCTCT
43667385 CTTATTGAAAGATATTCTTAAGGAATATGAAATTTGTACTAGCCAA
1 CTTATTGAAAGATATTCTTAAGGAATATGAAATTTGTACTAGCCAA
43667431 CTTATTGAAAGATATTCTTAAGGAATATGAAATTTGTACTAGCCAA
1 CTTATTGAAAGATATTCTTAAGGAATATGAAATTTGTACTAGCCAA
43667477 AATATGAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (46 bp):
CTTATTGAAAGATATTCTTAAGGAATATGAAATTTGTACTAGCCAA
Found at i:43670805 original size:24 final size:22
Alignment explanation
Indices: 43670771--43670825 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
43670761 AAAACATAAT
* *
43670771 AAAAATATATAAATTGAATATATCA
1 AAAAAT-TATAAATTCAA-AT-TAA
43670796 AAAAATTATAAATTCAAATTAA
1 AAAAATTATAAATTCAAATTAA
43670818 AAAAATTA
1 AAAAATTA
43670826 CAATATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.36
23 2 0.07
24 10 0.36
25 6 0.21
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATTATAAATTCAAATTAA
Found at i:43672551 original size:16 final size:16
Alignment explanation
Indices: 43672502--43672563 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
43672492 GGAAAGAAAA
43672502 TTTATATTTT-TTATCCT
1 TTTA-ATTTTCTT-TCCT
* **
43672519 TTTAGTTTTCTACCCT
1 TTTAATTTTCTTTCCT
43672535 TTTAATTTTCTTTCCT
1 TTTAATTTTCTTTCCT
**
43672551 TCCAATTTTCTTT
1 TTTAATTTTCTTT
43672564 TCACTCTACC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 31 0.86
17 5 0.14
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTAATTTTCTTTCCT
Found at i:43673570 original size:31 final size:31
Alignment explanation
Indices: 43673533--43673600 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
43673523 TTAATAGCCT
* *
43673533 AATGACTTAAATAAAAACTTTTGAATAGTTC
1 AATGACTTAAATAAAAACTTTTAAATAATTC
* *
43673564 AGTGACTTAAATGAAAACTTTTAAATAATTC
1 AATGACTTAAATAAAAACTTTTAAATAATTC
43673595 AATGAC
1 AATGAC
43673601 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTTAAATAATTC
Found at i:43681197 original size:132 final size:131
Alignment explanation
Indices: 43680932--43681321 Score: 462
Period size: 132 Copynumber: 3.0 Consensus size: 131
43680922 ATTATTCATT
* * *
43680932 TAAAAATTCTTTAAAACGAAGGTGA-GATTTGATATTTGGCAATTCGCGGAATTGTGCCCTAACG
1 TAAAAATCCTTTAAAACGAAGGTGATG-TTTGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
* * * * * * * *
43680996 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTCCGCTTATGTC
65 TGCTGGGTTGTAATTT-CCGTTTGTTCAAAATAATCGAAGATCTCTTTAGAATTTCACTCATGTC
43681061 TTC
129 TTC
*
43681064 TAAAAATCCTTTAAAACGAAGGCGATGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
1 TAAAAATCCTTTAAAACGAAGGTGATGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
* * *
43681129 GCTGGGTTGTAATTTCTCGTTTGTTCAAAATAATCGAAGGTCTCTTTTGAATTTCACTCATGTTT
66 GCTGGGTTGTAATTTC-CGTTTGTTCAAAATAATCGAAGATCTCTTTAGAATTTCACTCATGTCT
43681194 TC
130 TC
* * * * * * * * *
43681196 TAAAAA-CTCTTCAAAACAAAGGTAATATTCGATGTTTGGCAATTTGGGGAATCGTACCCTATCG
1 TAAAAATC-CTTTAAAACGAAGGTGATGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
* * *
43681260 TGCTGGGTTGTGATTTCCTGTTTGTCCAAAATGATCGAAGAT-TCCTTTAGAATTTCACTCAT
65 TGCTGGGTTGTAATTTCC-GTTTGTTCAAAATAATCGAAGATCT-CTTTAGAATTTCACTCAT
43681322 ACTCTCTAAA
Statistics
Matches: 223, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
131 4 0.02
132 218 0.98
133 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TAAAAATCCTTTAAAACGAAGGTGATGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
GCTGGGTTGTAATTTCCGTTTGTTCAAAATAATCGAAGATCTCTTTAGAATTTCACTCATGTCTT
C
Found at i:43693013 original size:133 final size:133
Alignment explanation
Indices: 43692783--43693177 Score: 538
Period size: 133 Copynumber: 3.0 Consensus size: 133
43692773 GAATTTTACC
* * * * * * *
43692783 GATCTTGTCTCTCTGAAGTTACAGTGGAGCAAATCGACGACGGCGAATCTCGTCTTCCTGAAGTG
1 GATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTAGTCTTCCTGAAGTT
* * * *
43692848 GCAGTGAAGCAGATTTAGGCCATCATCTTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAATATC
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
43692913 GTA
131 GTA
* * * *
43692916 GATCTTGTTTCCCTAAAGTTACAGTGGAGTAGATCGAAGACGGCAAATCTAGGCTTCCTAAAGTT
1 GATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTAGTCTTCCTGAAGTT
** *
43692981 GCAGCAAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
43693046 GTA
131 GTA
* * * * *
43693049 GATCTTGTTCCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGACAAATCTTGTCTTCCTGAAGTT
1 GATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTAGTCTTCCTGAAGTT
* * * * *
43693114 GCAGTGAAGCAGATTTAAGCCACCATCCTATCTCACTAAAGTTGCAGTGGAATAGCCTGAAGAT
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
43693178 TACGGATCTC
Statistics
Matches: 228, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 228 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (133 bp):
GATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTAGTCTTCCTGAAGTT
GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
GTA
Found at i:43696163 original size:132 final size:131
Alignment explanation
Indices: 43695915--43696302 Score: 499
Period size: 132 Copynumber: 2.9 Consensus size: 131
43695905 TATTCGTTTA
* * *
43695915 AAAATTCTTTAAAACGAAGGTGA-GATTTGATATTTGGCAATTCGCGGAATTGTGCCCTAACGTG
1 AAAATCCTTTAAAACGAAGGTGATG-TTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGTG
* * * * * * *
43695979 CTGGGTTGTAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCGCTTATGTCTT
65 CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTT
43696044 CT
130 CT
* *
43696046 ACAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTG
1 A-AAATCCTTTAAAACGAAGGTGATGTTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGTG
* * * *
43696111 CTGGGTTGCAATTTCTTGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTT
43696176 CT
130 CT
* * * * * * *
43696178 AAAAACTCTTCAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTG
1 AAAATC-CTTTAAAACGAAGGTGATGTTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGTG
* * * *
43696243 CTGGGTTGCGATTTCCTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
65 CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCAT
43696303 ACTCTCTAAA
Statistics
Matches: 222, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
131 5 0.02
132 216 0.97
133 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (131 bp):
AAAATCCTTTAAAACGAAGGTGATGTTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGTGC
TGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTCTTC
T
Found at i:43704044 original size:31 final size:31
Alignment explanation
Indices: 43704006--43704067 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
43703996 GTTTGGCTCT
* **
43704006 TTTTTAAAAGATTGGGGGTTAAATTTAACTC
1 TTTTTAAAAGATTGAGAATTAAATTTAACTC
*
43704037 TTTTTAAAAGGTTGAGAATTAAATTTAACTC
1 TTTTTAAAAGATTGAGAATTAAATTTAACTC
43704068 AAAAAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (31 bp):
TTTTTAAAAGATTGAGAATTAAATTTAACTC
Found at i:43705406 original size:148 final size:148
Alignment explanation
Indices: 43705138--43705436 Score: 589
Period size: 148 Copynumber: 2.0 Consensus size: 148
43705128 ATTATATAAT
43705138 TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
1 TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
43705203 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
66 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
43705268 TAAGTTCTATAGTATAGG
131 TAAGTTCTATAGTATAGG
43705286 TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
1 TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
*
43705351 AAAAAGAATATTTTCTGTCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
66 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
43705416 TAAGTTCTATAGTATAGG
131 TAAGTTCTATAGTATAGG
43705434 TAT
1 TAT
43705437 CTAATTTAGT
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 150 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (148 bp):
TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
TAAGTTCTATAGTATAGG
Found at i:43714713 original size:35 final size:35
Alignment explanation
Indices: 43714667--43714772 Score: 203
Period size: 35 Copynumber: 3.0 Consensus size: 35
43714657 AAGAAAATAT
43714667 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
43714702 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
*
43714737 ATTTTGTTTAACTTGACTTGCAAACAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
43714772 A
1 A
43714773 ATTTAGGTCA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:43715412 original size:105 final size:105
Alignment explanation
Indices: 43715230--43715441 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 105
43715220 CTGTAACTAG
*
43715230 TAGGTATCATCATATTATGAAGTTTTTATTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
1 TAGGTATCATCATATTATGAAGTTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
*
43715295 AGGTATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
66 AGATATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
43715335 TAGGTATCATCATATTATGAAGTTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
1 TAGGTATCATCATATTATGAAGTTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
43715400 AGATATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
66 AGATATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
43715440 TA
1 TA
43715442 TTTAACTTTA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (105 bp):
TAGGTATCATCATATTATGAAGTTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
AGATATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
Found at i:43716479 original size:15 final size:15
Alignment explanation
Indices: 43716459--43716510 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
43716449 ACTACAAAAC
43716459 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
43716474 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
43716493 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
43716508 ATT
1 ATT
43716511 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:43716626 original size:16 final size:16
Alignment explanation
Indices: 43716608--43716648 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
43716598 ATTAAAATAA
43716608 TATATT-AT-ATTTAT
1 TATATTAATAATTTAT
43716622 TATATTAATAATTTAT
1 TATATTAATAATTTAT
*
43716638 TATATGAATAA
1 TATATTAATAA
43716649 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTAATAATTTAT
Found at i:43716630 original size:22 final size:22
Alignment explanation
Indices: 43716585--43716642 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 22
43716575 TAAAATTGAA
43716585 ATATTAATAGTTTATTAAAATAAT
1 ATATT-ATA-TTTATTAAAATAAT
43716609 ATATTATATTTATTATATTAATAAT
1 ATATTATATTTATTA-A--AATAAT
*
43716634 TTATTATAT
1 ATATTATAT
43716643 GAATAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 5 0.17
25 14 0.47
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTATATTTATTAAAATAAT
Found at i:43721503 original size:13 final size:13
Alignment explanation
Indices: 43721485--43721511 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43721475 ACTAAGGCAA
43721485 TAATACAAGAGAT
1 TAATACAAGAGAT
43721498 TAATACAAGAGAT
1 TAATACAAGAGAT
43721511 T
1 T
43721512 TGATTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (13 bp):
TAATACAAGAGAT
Found at i:43724777 original size:35 final size:35
Alignment explanation
Indices: 43724738--43724808 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
43724728 CGTCGTGCCC
*
43724738 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
43724773 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
43724808 A
1 A
43724809 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:43725489 original size:16 final size:15
Alignment explanation
Indices: 43725428--43725491 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
43725418 TAGTAAATTT
*
43725428 TAATTATTT-ATAAAA
1 TAATT-TTTAATATAA
43725443 TAATATTTTATATATAA
1 TAAT-TTTTA-ATATAA
43725460 -AATTTTATAA-ATAA
1 TAATTTT-TAATATAA
43725474 TACATTTTTAATATAA
1 TA-ATTTTTAATATAA
43725490 TA
1 TA
43725492 TAATATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
14 4 0.10
15 15 0.37
16 17 0.41
17 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTTTAATATAA
Found at i:43725507 original size:12 final size:12
Alignment explanation
Indices: 43725487--43725524 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
43725477 ATTTTTAATA
43725487 TAATATAATATAT
1 TAAT-TAATATAT
43725500 TAATTAATATAT
1 TAATTAATATAT
43725512 TAATT-ATATAT
1 TAATTAATATAT
43725523 TA
1 TA
43725525 TCTGTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 8 0.32
12 13 0.52
13 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTAATATAT
Found at i:43726922 original size:17 final size:18
Alignment explanation
Indices: 43726897--43726946 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43726887 AATAAATTTT
43726897 ATTTATTTTTAAAAAAATA
1 ATTT-TTTTTAAAAAAATA
**
43726916 ATTTTTTTGT--TCAAATA
1 ATTTTTTT-TAAAAAAATA
43726933 ATTTTTTTTAAAAA
1 ATTTTTTTTAAAAA
43726947 TTATTCCGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 7
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.04
17 13 0.54
18 5 0.21
19 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTTTTTTAAAAAAATA
Found at i:43734798 original size:24 final size:23
Alignment explanation
Indices: 43734720--43734807 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
43734710 TTAATGTTCA
**
43734720 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
* * *
43734743 TGAATATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
*
43734766 CGAACATGTTCAAGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
43734790 CGAACATGTTCACGAACA
1 CGAACATGTTCACGAACA
43734808 ATGTTAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 30 0.57
24 20 0.38
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:43734805 original size:12 final size:12
Alignment explanation
Indices: 43734748--43734812 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
43734738 TTAATTGAAT
43734748 ATGTTCACGAAC
1 ATGTTCACGAAC
**
43734760 AT-TAAACGAAC
1 ATGTTCACGAAC
*
43734771 ATGTTCAAGAAC
1 ATGTTCACGAAC
* *
43734783 AT-ATAATCGAAC
1 ATGTTCA-CGAAC
43734795 ATGTTCACGAAC
1 ATGTTCACGAAC
43734807 AATGTT
1 -ATGTT
43734813 AATAAATAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
11 11 0.28
12 21 0.54
13 7 0.18
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (12 bp):
ATGTTCACGAAC
Found at i:43734855 original size:4 final size:4
Alignment explanation
Indices: 43734848--43734878 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
43734838 CAAATAATAA
43734848 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
43734879 TGTTGTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:43735858 original size:8 final size:9
Alignment explanation
Indices: 43735822--43735855 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
43735812 TTAATTAGAA
43735822 AATTAATTT
1 AATTAATTT
*
43735831 AGTTAATTT
1 AATTAATTT
43735840 AATTAA-TT
1 AATTAATTT
43735848 AATTAATT
1 AATTAATT
43735856 AATATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:43746304 original size:21 final size:21
Alignment explanation
Indices: 43746280--43746321 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43746270 TTTGCCTAAG
*
43746280 ATATGAATTGGATTAAATTGA
1 ATATGAATTAGATTAAATTGA
*
43746301 ATATGAATTATATTAAATTGA
1 ATATGAATTAGATTAAATTGA
43746322 TATTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGAATTAGATTAAATTGA
Found at i:43746330 original size:21 final size:21
Alignment explanation
Indices: 43746291--43746330 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43746281 TATGAATTGG
*
43746291 ATTAAATTGAATATGAATTAT
1 ATTAAATTGAATATAAATTAT
43746312 ATTAAATTG-ATATTAAATT
1 ATTAAATTGAATA-TAAATT
43746331 CATTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTAAATTGAATATAAATTAT
Found at i:43746979 original size:25 final size:25
Alignment explanation
Indices: 43746944--43747013 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
43746934 GGCTCTTATG
* * *
43746944 AGCTTCTCGTTATATAGCTTAGATA
1 AGCTTCCCGTTATATAGCTCACATA
* *
43746969 AGCTTCCCGTTATATGGCTCACATG
1 AGCTTCCCGTTATATAGCTCACATA
* *
43746994 AGCTTCCTGTTATATGGCTC
1 AGCTTCCCGTTATATAGCTC
43747014 GAGAAAGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCTCACATA
Found at i:43747983 original size:42 final size:42
Alignment explanation
Indices: 43747932--43748056 Score: 232
Period size: 42 Copynumber: 3.0 Consensus size: 42
43747922 AGACACGGGC
*
43747932 GTGTGTCCCAGTCGTGTGTGACACACGGCATAGCACATGGGT
1 GTGTATCCCAGTCGTGTGTGACACACGGCATAGCACATGGGT
43747974 GTGTATCCCAGTCGTGTGTGACACACGGCATAGCACATGGGT
1 GTGTATCCCAGTCGTGTGTGACACACGGCATAGCACATGGGT
*
43748016 GTGTATCCCAGTCGTGTGTGACACACGGCCTAGCACATGGG
1 GTGTATCCCAGTCGTGTGTGACACACGGCATAGCACATGGG
43748057 CATGTGTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (42 bp):
GTGTATCCCAGTCGTGTGTGACACACGGCATAGCACATGGGT
Found at i:43761205 original size:24 final size:24
Alignment explanation
Indices: 43761076--43761235 Score: 126
Period size: 24 Copynumber: 6.7 Consensus size: 24
43761066 CAACCGATTT
* ** *
43761076 CGCACACATAGTGCTAAACAAATT
1 CGCACACATAGTGCCATTCAAATC
* *
43761100 CGCACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
43761124 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
43761148 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
43761172 AGCACACATAGTGCCATTCAATTC
1 CGCACACATAGTGCCATTCAAATC
43761196 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
43761220 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
43761236 ACGTAAACCC
Statistics
Matches: 102, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 94 0.92
25 5 0.05
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:43762252 original size:2 final size:2
Alignment explanation
Indices: 43762247--43762278 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43762237 TATATATATT
43762247 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43762279 GCTTAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:43762748 original size:63 final size:64
Alignment explanation
Indices: 43762665--43762866 Score: 232
Period size: 63 Copynumber: 3.2 Consensus size: 64
43762655 TTCCCAAAAT
* * * * * * *
43762665 AGTAAGTTACACGGCTTGGACATACGCCCGTGTCTCTGGCCCGTGTGACCCT-AATTCATAAAC
1 AGTAAGTTACATGACCTGGACACATGCCCGTGTCTTTAGCCCGTGTGACCCTAAATTCATAAAC
*
43762728 AGTAAGTTACATGACCTGGACACATGCCCGTTTCTTTAGCCCGTGTGACCCTAAATTCA-AAAC
1 AGTAAGTTACATGACCTGGACACATGCCCGTGTCTTTAGCCCGTGTGACCCTAAATTCATAAAC
* * * * * *
43762791 AATGAGTTACA-CAGCCTAGACACATGCCCGTGTCTTTAGTCCGTGTGACTCTAAATTC-TAAAC
1 AGTAAGTTACATGA-CCTGGACACATGCCCGTGTCTTTAGCCCGTGTGACCCTAAATTCATAAAC
*
43762854 AGTGAGTTACATG
1 AGTAAGTTACATG
43762867 GCATACGGCC
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
62 1 0.01
63 111 0.94
64 6 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (64 bp):
AGTAAGTTACATGACCTGGACACATGCCCGTGTCTTTAGCCCGTGTGACCCTAAATTCATAAAC
Found at i:43764962 original size:16 final size:17
Alignment explanation
Indices: 43764928--43764968 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
43764918 CCTACTCCCT
43764928 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
43764945 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
43764961 CCCAATTT
1 CCCAATTT
43764969 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:43765897 original size:16 final size:16
Alignment explanation
Indices: 43765876--43765909 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
43765866 AATTATTGAA
*
43765876 TATATTGTAATTAATG
1 TATATTATAATTAATG
43765892 TATATTATAATTAATG
1 TATATTATAATTAATG
43765908 TA
1 TA
43765910 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:43769031 original size:24 final size:24
Alignment explanation
Indices: 43768974--43769032 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
43768964 GGTTTAATGC
* *
43768974 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
43768998 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
43769022 AAATGGATATA
1 AAATGGATATA
43769033 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:43769124 original size:20 final size:20
Alignment explanation
Indices: 43769099--43769162 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
43769089 ATATTTTTAA
43769099 TTATGTAGTGATTCAAAGAT
1 TTATGTAGTGATTCAAAGAT
* ***
43769119 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCAAAGAT
43769136 TTATGTAGTGATTCAAAGAT
1 TTATGTAGTGATTCAAAGAT
43769156 TTATGTA
1 TTATGTA
43769163 ATATTTTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 5 0.15
20 15 0.45
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAT
Found at i:43769135 original size:37 final size:37
Alignment explanation
Indices: 43769085--43769185 Score: 202
Period size: 37 Copynumber: 2.7 Consensus size: 37
43769075 TCAAGACTTG
43769085 TGTAATATTTTTAATTATGTAGTGATTCAAAGATTTA
1 TGTAATATTTTTAATTATGTAGTGATTCAAAGATTTA
43769122 TGTAATATTTTTAATTATGTAGTGATTCAAAGATTTA
1 TGTAATATTTTTAATTATGTAGTGATTCAAAGATTTA
43769159 TGTAATATTTTTAATTATGTAGTGATT
1 TGTAATATTTTTAATTATGTAGTGATT
43769186 TAATTCGGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (37 bp):
TGTAATATTTTTAATTATGTAGTGATTCAAAGATTTA
Found at i:43769141 original size:17 final size:17
Alignment explanation
Indices: 43769085--43769179 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 17
43769075 TCAAGACTTG
43769085 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
43769102 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
43769122 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
43769139 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
43769159 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
43769176 TGTA
1 TGTA
43769180 GTGATTTAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 20 0.36
18 10 0.18
19 10 0.18
20 16 0.29
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.51
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:43769229 original size:9 final size:9
Alignment explanation
Indices: 43769186--43769295 Score: 139
Period size: 9 Copynumber: 11.6 Consensus size: 9
43769176 TGTAGTGATT
43769186 TAATTCGGG
1 TAATTCGGG
43769195 TAATTTTCGGG
1 TAA--TTCGGG
43769206 TAATTTTCGGG
1 TAA--TTCGGG
*
43769217 TAATTCAGG
1 TAATTCGGG
*
43769226 TAATTTGGG
1 TAATTCGGG
43769235 TAATTTTCGGG
1 TAA--TTCGGG
43769246 TAATTCGGG
1 TAATTCGGG
43769255 TAATTCGGG
1 TAATTCGGG
*
43769264 TAAGTCGGG
1 TAATTCGGG
43769273 TAATTCGGG
1 TAATTCGGG
43769282 TAATTCGGG
1 TAATTCGGG
43769291 TAATT
1 TAATT
43769296 TTTAACCAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
9 63 0.69
11 28 0.31
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:43769245 original size:29 final size:29
Alignment explanation
Indices: 43769187--43769295 Score: 122
Period size: 29 Copynumber: 3.8 Consensus size: 29
43769177 GTAGTGATTT
43769187 AATTCGGGTAATTTTCGGGTAATTTTCGGGT
1 AATTCGGGTAATTTTCGGGTAA--TTCGGGT
*
43769218 AATTCAGGTAA-TTT-GGGTAATTTTCGGGT
1 AATTCGGGTAATTTTCGGGTAA--TTCGGGT
*
43769247 AATTCGGGTAA--TTCGGGTAAGTCGGGT
1 AATTCGGGTAATTTTCGGGTAATTCGGGT
43769274 AATTCGGGTAA--TTCGGGTAATT
1 AATTCGGGTAATTTTCGGGTAATT
43769296 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
27 27 0.37
28 2 0.03
29 31 0.42
30 3 0.04
31 10 0.14
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (29 bp):
AATTCGGGTAATTTTCGGGTAATTCGGGT
Found at i:43776361 original size:17 final size:17
Alignment explanation
Indices: 43776339--43776371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43776329 CCTTTTTTTT
43776339 TTTTATA-CTTTTAACTA
1 TTTTATATC-TTTAACTA
43776356 TTTTATATCTTTAACT
1 TTTTATATCTTTAACT
43776372 TTCTCATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATCTTTAACTA
Found at i:43776455 original size:5 final size:5
Alignment explanation
Indices: 43776417--43776454 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
43776407 TATCATTACC
*
43776417 AAATT AAATT AAATT AAATT AAATT AAATT AAAGT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
43776455 GGTATGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (5 bp):
AAATT
Found at i:43776506 original size:15 final size:15
Alignment explanation
Indices: 43776482--43776527 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
43776472 TTAAGTACTG
*
43776482 AATTTTTAAT-ATTC
1 AATTTTTAATCATTA
43776496 AATTTTATAATCATTA
1 AATTTT-TAATCATTA
*
43776512 AATTTAT-ATCATTA
1 AATTTTTAATCATTA
43776526 AA
1 AA
43776528 AATTAAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
15 5 0.18
16 8 0.29
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTTAATCATTA
Done.