Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 226 of 343
Found at i:74462388 original size:16 final size:16
Alignment explanation
Indices: 74462351--74462392 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
74462341 TTAATCATAT
*
74462351 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
74462367 TT-AAATATATTATAA
1 TTAAAATATATTATAA
74462382 TTAAAATATAT
1 TTAAAATATAT
74462393 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:74462399 original size:14 final size:15
Alignment explanation
Indices: 74462360--74462508 Score: 55
Period size: 15 Copynumber: 9.9 Consensus size: 15
74462350 TTTAAACATA
*
74462360 ATTATTATTAAATAT
1 ATTATAATTAAATAT
74462375 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
74462391 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
74462407 TTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* * *
74462423 CTTAT-A-TGAATTT
1 ATTATAATTAAATAT
*
74462436 ACTCA-AATTATAATAT
1 A-TTATAATTA-AATAT
*
74462452 A-GATAATTTAACATA-
1 ATTATAA-TTAA-ATAT
*
74462467 ATTATTATTAAATAT
1 ATTATAATTAAATAT
74462482 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
74462496 A-TATAATTTAATA
1 ATTATAATTAAATA
74462509 AAATTCTTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 35
0.66 0.11 0.23
Matches are distributed among these distances:
13 11 0.11
14 19 0.19
15 34 0.34
16 27 0.27
17 4 0.04
18 5 0.05
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:74462471 original size:107 final size:108
Alignment explanation
Indices: 74462349--74462559 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
74462339 ATTTAATCAT
*
74462349 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
74462414 ATTAATATTCTTATATGAATTTACTCAAATTATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
74462457 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
74462521 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
74462560 TAATACTATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 95 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:74462497 original size:16 final size:16
Alignment explanation
Indices: 74462441--74462499 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
74462431 AATTTACTCA
* *
74462441 AATTATAATATA-GAT
1 AATTAAAATATATTAT
*
74462456 AATTTAACATA-ATTAT
1 AA-TTAAAATATATTAT
*
74462472 TATT-AAATATATTAT
1 AATTAAAATATATTAT
74462487 AATTAAAATATAT
1 AATTAAAATATAT
74462500 AATTTAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.12
15 13 0.38
16 17 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:74462610 original size:107 final size:107
Alignment explanation
Indices: 74462352--74462615 Score: 335
Period size: 107 Copynumber: 2.5 Consensus size: 107
74462342 TAATCATATT
* * * *
74462352 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * * *
74462417 AATATTCTTATATGAATTTACTCAAATTATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
74462460 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
74462525 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
74462568 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
74462616 ATATGATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
102 5 0.04
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 97 0.68
108 12 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:74463377 original size:13 final size:13
Alignment explanation
Indices: 74463359--74463385 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74463349 TGAATAAAAG
74463359 TATATGGTTGGAT
1 TATATGGTTGGAT
74463372 TATATGGTTGGAT
1 TATATGGTTGGAT
74463385 T
1 T
74463386 TCTAAGGTGG
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:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:74466815 original size:28 final size:29
Alignment explanation
Indices: 74466782--74466836 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
74466772 ATCTGAAATA
74466782 CTGATA-TCATGGCCCGAAGCCAAATCAG
1 CTGATATTCATGGCCCGAAGCCAAATCAG
74466810 CTGATATTCATGGCCCGAAGCCAAATC
1 CTGATATTCATGGCCCGAAGCCAAATC
74466837 GGTATAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (29 bp):
CTGATATTCATGGCCCGAAGCCAAATCAG
Found at i:74474351 original size:13 final size:13
Alignment explanation
Indices: 74474333--74474359 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74474323 CCGAAAGAAA
74474333 AACTTTTAACACT
1 AACTTTTAACACT
74474346 AACTTTTAACACT
1 AACTTTTAACACT
74474359 A
1 A
74474360 TGTTTAGCAG
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:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (13 bp):
AACTTTTAACACT
Found at i:74476256 original size:40 final size:42
Alignment explanation
Indices: 74476186--74476268 Score: 134
Period size: 40 Copynumber: 2.0 Consensus size: 42
74476176 AATATGAATA
* *
74476186 AAAATACAAGTACTTTAATTGATTCACAATGGCAAGTTCCAC
1 AAAATAAAAGTACTTTAATTGATTCACAATGGCAAGTCCCAC
74476228 AAAATAAAAGTAC-TT-ATTGATTCACAATGGCAAGTCCCAC
1 AAAATAAAAGTACTTTAATTGATTCACAATGGCAAGTCCCAC
74476268 A
1 A
74476269 TACCCATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 25 0.64
41 2 0.05
42 12 0.31
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (42 bp):
AAAATAAAAGTACTTTAATTGATTCACAATGGCAAGTCCCAC
Found at i:74478006 original size:31 final size:31
Alignment explanation
Indices: 74477971--74478035 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
74477961 TACAATTTGA
**
74477971 TCATTGAACTATTTGAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
*
74478002 TCATTGATCTATTCAAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
74478033 TCA
1 TCA
74478036 CTAAGTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTTATTTAAG
Found at i:74483981 original size:59 final size:58
Alignment explanation
Indices: 74483916--74484103 Score: 157
Period size: 59 Copynumber: 3.2 Consensus size: 58
74483906 ATTTTATTAA
74483916 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATA-TAATTATATT-AAATTATATTTTATAGT
* * ** * * * ** * * *
74483975 ATCATATATTATGATTTTAGTA-AATTCATATAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATAATTATATT-A-AATTA-TATTTTA-TAGT
* * *
74484035 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATAATTATATTAAATTATATTTTATAGT
74484094 ATCATATATT
1 ATCATATATT
74484104 ATGATTTGAG
Statistics
Matches: 93, Mismatches: 29, Indels: 14
0.68 0.21 0.10
Matches are distributed among these distances:
57 5 0.05
58 11 0.12
59 35 0.38
60 26 0.28
61 8 0.09
62 8 0.09
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATAATTATATTAAATTATATTTTATAGT
Found at i:74484030 original size:119 final size:120
Alignment explanation
Indices: 74483905--74484201 Score: 508
Period size: 119 Copynumber: 2.5 Consensus size: 120
74483895 AATTATTTTA
* *
74483905 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
74483969 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
*
74484024 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
74484089 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
*
74484144 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
74484202 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 109 0.64
120 54 0.32
121 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
Found at i:74484051 original size:18 final size:17
Alignment explanation
Indices: 74484025--74484059 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74484015 GATTATTAGA
*
74484025 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
74484042 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
74484060 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:74484161 original size:59 final size:58
Alignment explanation
Indices: 74483979--74484161 Score: 139
Period size: 63 Copynumber: 3.1 Consensus size: 58
74483969 TATAGTATCA
*
74483979 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGA-TATTAAGAATTTTATTAAAT
* * * * *
74484037 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATATTAAGA--AT-TTTAT-TA-AA
74484095 T
58 T
*
74484096 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGA-TATTAAGAATTTTATTAAAT
74484157 TATAT
1 TATAT
74484162 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 12, Indels: 37
0.66 0.08 0.26
Matches are distributed among these distances:
55 9 0.10
56 14 0.15
57 10 0.11
58 9 0.10
59 7 0.07
61 6 0.06
62 12 0.13
63 16 0.17
64 10 0.11
65 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATATTAAGAATTTTATTAAAT
Found at i:74484179 original size:16 final size:16
Alignment explanation
Indices: 74484158--74484199 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
74484148 TTATTAAATT
*
74484158 ATATATTTTAATTATA
1 ATATATTTTAATAATA
74484174 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
74484189 AT-TATGTTTAA
1 ATATAT-TTTAA
74484200 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:74484184 original size:15 final size:15
Alignment explanation
Indices: 74484149--74484190 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
74484139 TTAAGAATTT
*
74484149 TATTAAATTAT-ATA
1 TATTTAATTATAATA
74484163 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
74484177 TATTTAATAATAAT
1 TATTTAATTATAAT
74484191 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:74484384 original size:39 final size:40
Alignment explanation
Indices: 74484327--74484431 Score: 106
Period size: 45 Copynumber: 2.5 Consensus size: 40
74484317 TTCCATTATG
* *
74484327 CTATTACACCTCTCTTCCATTCAACCAAACACA-AGA-TTA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGATTTA
* *
74484366 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTG
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAATAGATTTA
74484411 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
74484432 ACGCCTCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 14 0.25
40 5 0.09
43 1 0.02
44 17 0.31
45 18 0.33
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGATTTA
Found at i:74484424 original size:45 final size:44
Alignment explanation
Indices: 74484344--74484433 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
74484334 ACCTCTCTTC
74484344 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
74484388 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
74484433 C
1 C
74484434 GCCTCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:74484477 original size:16 final size:16
Alignment explanation
Indices: 74484413--74484469 Score: 105
Period size: 16 Copynumber: 3.6 Consensus size: 16
74484403 TTGATTTGCT
*
74484413 ATTACGCCTCTATTCC
1 ATTACGCCTCTAATCC
74484429 ATTACGCCTCTAATCC
1 ATTACGCCTCTAATCC
74484445 ATTACGCCTCTAATCC
1 ATTACGCCTCTAATCC
74484461 ATTACGCCT
1 ATTACGCCT
74484470 ATATTCCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.23, C:0.37, G:0.07, T:0.33
Consensus pattern (16 bp):
ATTACGCCTCTAATCC
Found at i:74487561 original size:34 final size:36
Alignment explanation
Indices: 74487517--74487591 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
74487507 TGTGAGAAGA
74487517 ATGAAGACTCTAG-TGATGATGAGGTGAATATGGCT
1 ATGAAGACTCTAGATGATGATGAGGTGAATATGGCT
74487552 ATGAA-ACTCTAGTAATGATGATGAGGTGAATATGGCT
1 ATGAAGACTCTAG--ATGATGATGAGGTGAATATGGCT
74487589 ATG
1 ATG
74487592 TTTGCAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
34 7 0.19
35 5 0.14
37 25 0.68
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (36 bp):
ATGAAGACTCTAGATGATGATGAGGTGAATATGGCT
Found at i:74487932 original size:21 final size:21
Alignment explanation
Indices: 74487908--74487948 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
74487898 GAATTAAATT
74487908 AATATACATTTGAAGAATTAC
1 AATATACATTTGAAGAATTAC
* * *
74487929 AATATTCCTTTGATGAATTA
1 AATATACATTTGAAGAATTA
74487949 GCTATAGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
AATATACATTTGAAGAATTAC
Found at i:74494260 original size:6 final size:6
Alignment explanation
Indices: 74494249--74494388 Score: 280
Period size: 6 Copynumber: 23.3 Consensus size: 6
74494239 ATCATGCATG
74494249 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
74494297 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
74494345 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CA
74494389 TCATGTTTAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 134 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
CACATA
Found at i:74494882 original size:27 final size:27
Alignment explanation
Indices: 74494852--74494906 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
74494842 CAAGAAGCCT
74494852 AAGATATTTCTCCTATATGTAGGAGGA
1 AAGATATTTCTCCTATATGTAGGAGGA
74494879 AAGATATTTCTCCTATATGTAGGAGGA
1 AAGATATTTCTCCTATATGTAGGAGGA
74494906 A
1 A
74494907 CAAATCCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
AAGATATTTCTCCTATATGTAGGAGGA
Found at i:74495475 original size:27 final size:27
Alignment explanation
Indices: 74495436--74495521 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
74495426 TTTATACAAA
*
74495436 TAATTCGGTTAATTAGGTTAATTTGGG
1 TAATTCGGTTAATTCGGTTAATTTGGG
* * **
74495463 TAATTTGGGTAATTCGAG-TAATTCAGG
1 TAATTCGGTTAATTCG-GTTAATTTGGG
* *
74495490 TAATTCGGTTAATTCGATTAATTTGGT
1 TAATTCGGTTAATTCGGTTAATTTGGG
74495517 TAATT
1 TAATT
74495522 TTATACTTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGGG
Found at i:74495522 original size:9 final size:9
Alignment explanation
Indices: 74495436--74495521 Score: 77
Period size: 9 Copynumber: 9.6 Consensus size: 9
74495426 TTTATACAAA
74495436 TAATTCGGT
1 TAATTCGGT
*
74495445 TAATTAGGT
1 TAATTCGGT
* *
74495454 TAATTTGGG
1 TAATTCGGT
* *
74495463 TAATTTGGG
1 TAATTCGGT
74495472 TAATTCGAG-
1 TAATTCG-GT
74495481 TAATTCAGG-
1 TAATTC-GGT
74495490 TAATTCGGT
1 TAATTCGGT
*
74495499 TAATTCGAT
1 TAATTCGGT
*
74495508 TAATTTGGT
1 TAATTCGGT
74495517 TAATT
1 TAATT
74495522 TTATACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
8 2 0.03
9 63 0.94
10 2 0.03
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:74500187 original size:26 final size:26
Alignment explanation
Indices: 74500158--74500208 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
74500148 CAAAATTTGA
*
74500158 TGTCAATTTC-TGTTTCTTCATTTTTC
1 TGTCAAATTCTTGTTTCTT-ATTTTTC
*
74500184 TGTCAAATTCTTTTTTCTTATTTTT
1 TGTCAAATTCTTGTTTCTTATTTTT
74500209 TCTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.14, C:0.16, G:0.06, T:0.65
Consensus pattern (26 bp):
TGTCAAATTCTTGTTTCTTATTTTTC
Found at i:74510469 original size:78 final size:78
Alignment explanation
Indices: 74510367--74510689 Score: 420
Period size: 78 Copynumber: 4.1 Consensus size: 78
74510357 GAAATTAAAA
* * * * * * *
74510367 AGTAAAATAAAAAAATTGTTTTGGGCTTGATTTCCGTCGTTCCACGATTTTATTCTAAATTTGTT
1 AGTAAAAT--AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTT
74510432 TTATTTCCAAAAAATG
64 TTATTTCC-AAAAATG
* * *
74510448 AGTAAAAT-AAAACCGTTTTGGGATCGATTCCAGTCGTTCAACGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
74510512 ATTTCCAAAAA-G
66 ATTTCCAAAAATG
*
74510524 AAGTAAAATAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAATGATTTTATTCCAAATTT-TTT
1 -AGTAAAATAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
74510588 TATTTCCAAAAGTG
65 TATTTCCAAAAATG
** * * *
74510602 AGTAAAATAAAAATCGTTTCAGGATTGATTCCCACCATTCAACGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
74510667 ATTTCCAAAAATG
66 ATTTCCAAAAATG
*
74510680 AG-AAATTAAA
1 AGTAAAATAAA
74510690 TTATATAAAA
Statistics
Matches: 217, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.00
77 88 0.41
78 120 0.55
81 8 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAATG
Found at i:74510643 original size:155 final size:157
Alignment explanation
Indices: 74510283--74510677 Score: 447
Period size: 155 Copynumber: 2.4 Consensus size: 157
74510273 TAAAAATAGG
* *
74510283 TAAAATCTGTTTCAGGATTGATTCCCACCGTTCAACGGGTTTTATTCCATTAATTTAATTTTATT
1 TAAAATC-GTTTCAGGATTGATTCCCACCGTTCAAC-GATTTTATTCCA--AATTT-GTTTTATT
* * * * * *
74510348 TCCAAACGAGAAATTAAAAAGTAAAATAAAAAAATTGTTTTGGGCTTGATTTCCGTCGTTCCACG
61 T-C---C---AAA--AAAAAGTAAAAT-AAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACG
*
74510413 ATTTTATTCTAAATTTGTTTTATTTCCAAAAAATGAGTAAAA
116 ATTTTATTCCAAATTTGTTTTATTTCCAAAAAATGAGTAAAA
* ** * *
74510455 TAAAACCGTTTTGGGATCGATT-CCAGTCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCA
1 TAAAATCGTTTCAGGATTGATTCCCA-CCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCA
* *
74510519 AAAAGAAGTAAAAT-AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAATGATTTTATTCCAAAT
65 AAAAAAAGTAAAATAAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAAT
*
74510583 TT-TTTTATTTCC-AAAAGTGAGTAAAA
130 TTGTTTTATTTCCAAAAAATGAGTAAAA
*
74510609 TAAAAATCGTTTCAGGATTGATTCCCACCATTCAACGATTTTATTCCAAATTTGTTTTATTTCCA
1 T-AAAATCGTTTCAGGATTGATTCCCACCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCA
74510674 AAAA
65 AAAA
74510678 TGAGAAATTA
Statistics
Matches: 197, Mismatches: 23, Indels: 23
0.81 0.09 0.09
Matches are distributed among these distances:
154 14 0.07
155 67 0.34
156 47 0.24
158 11 0.06
160 3 0.02
163 1 0.01
166 1 0.01
167 8 0.04
168 5 0.03
170 14 0.07
171 20 0.10
172 6 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (157 bp):
TAAAATCGTTTCAGGATTGATTCCCACCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
AAAAAAGTAAAATAAAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATT
TGTTTTATTTCCAAAAAATGAGTAAAA
Found at i:74510763 original size:86 final size:87
Alignment explanation
Indices: 74510673--74510839 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 87
74510663 TTTTATTTCC
* * *
74510673 AAAAATGAGAAATTAAATTATATAAAATCTGTTTCGAGATTTATTCCCATCGTTTAATAAGA-TT
1 AAAAATGAGAAATTAAATAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTTAATAAGATTT
74510737 TATTTGAT-TTGATTTTGTTGCT
66 TATTTGATATTG-TTTTGTTGCT
74510759 AAAAATGAGAAATTAAATAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTTAATAAGATTT
1 AAAAATGAGAAATTAAATAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTTAATAAGATTT
74510824 TATTTGATATTGTTTT
66 TATTTGATATTGTTTT
74510840 ATTTCCAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
86 59 0.78
87 14 0.18
88 3 0.04
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (87 bp):
AAAAATGAGAAATTAAATAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTTAATAAGATTT
TATTTGATATTGTTTTGTTGCT
Found at i:74510910 original size:57 final size:59
Alignment explanation
Indices: 74510822--74510944 Score: 223
Period size: 57 Copynumber: 2.1 Consensus size: 59
74510812 TTAATAAGAT
*
74510822 TTTATTTGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTC-GG-
1 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
74510879 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
1 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
74510938 TTTATTC
1 TTTATTC
74510945 TTTCCGTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 54 0.86
58 2 0.03
59 7 0.11
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (59 bp):
TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
Found at i:74515305 original size:15 final size:15
Alignment explanation
Indices: 74515269--74515311 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
74515259 TTATATTAAT
74515269 ATTG-ATTATTAAAA
1 ATTGAATTATTAAAA
74515283 A-TGTAATTATTAAAA
1 ATTG-AATTATTAAAA
*
74515298 ATTGAATTTTTAAA
1 ATTGAATTATTAAA
74515312 TAAACTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 1 0.04
15 20 0.80
16 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
ATTGAATTATTAAAA
Found at i:74515959 original size:17 final size:16
Alignment explanation
Indices: 74515928--74515971 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
74515918 AATCTATAGT
74515928 TATTAAATATTATTCA
1 TATTAAATATTATTCA
*
74515944 TATTAATATTTTATTCA
1 TATTAA-ATATTATTCA
74515961 -ATTAAA-ATTAT
1 TATTAAATATTAT
74515972 CACATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 11 0.44
17 9 0.36
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTAAATATTATTCA
Found at i:74516098 original size:19 final size:19
Alignment explanation
Indices: 74516074--74516118 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
74516064 CAATAAAATG
74516074 TTAGAATGTTATCTAAAAC
1 TTAGAATGTTATCTAAAAC
74516093 TTAGAATGTTATCTAAAAC
1 TTAGAATGTTATCTAAAAC
74516112 TTAGAAT
1 TTAGAAT
74516119 AATTAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAGAATGTTATCTAAAAC
Found at i:74516171 original size:20 final size:21
Alignment explanation
Indices: 74516146--74516185 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
74516136 TCTATTGTTA
74516146 AAATAATATATT-TTAAAATT
1 AAATAATATATTATTAAAATT
*
74516166 AAATAATATTTTATTAAAAT
1 AAATAATATATTATTAAAAT
74516186 ACTAAGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATAATATATTATTAAAATT
Found at i:74521811 original size:14 final size:14
Alignment explanation
Indices: 74521789--74521826 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
74521779 TCTAGTTAGC
*
74521789 AAATTTAAAATTTA
1 AAATATAAAATTTA
74521803 AAATATAAAATTTA
1 AAATATAAAATTTA
74521817 ATAA-ATAAAA
1 A-AATATAAAA
74521827 AATCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATAAAATTTA
Found at i:74522764 original size:25 final size:25
Alignment explanation
Indices: 74522722--74522770 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
74522712 ATTCAAAAAA
* * *
74522722 TTTATAAAAATTCCAAAATTTATAT
1 TTTAAAAAAATTACAAAAATTATAT
*
74522747 TTTAAAAAAATTATAAAAATTATA
1 TTTAAAAAAATTACAAAAATTATA
74522771 AAAATCTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTAAAAAAATTACAAAAATTATAT
Found at i:74523306 original size:13 final size:13
Alignment explanation
Indices: 74523275--74523306 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
74523265 AGAGAGAAGA
74523275 TTAAGAGAGAGTT
1 TTAAGAGAGAGTT
74523288 TT--GAGAGAGTT
1 TTAAGAGAGAGTT
74523299 TTAAGAGA
1 TTAAGAGA
74523307 TTTTAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
TTAAGAGAGAGTT
Found at i:74523696 original size:26 final size:26
Alignment explanation
Indices: 74523641--74523696 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
74523631 TTCATTCGAT
*** *
74523641 TCGACTTGAATCAAATTTTATTTCAC
1 TCGACTTGAATCAAATAAAATTTCAA
74523667 TCGACTTGAATCAAA-AAAATTTCAAA
1 TCGACTTGAATCAAATAAAATTTC-AA
74523693 TCGA
1 TCGA
74523697 GTTAGGATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
TCGACTTGAATCAAATAAAATTTCAA
Found at i:74525993 original size:41 final size:42
Alignment explanation
Indices: 74525888--74526050 Score: 127
Period size: 44 Copynumber: 3.8 Consensus size: 42
74525878 TATGTGTTAT
* * *
74525888 CGTGTAAGACCAC-ATCTGGGACGTTGGCATCG-ACTTATGGTTTA
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCGTA-TT-T-GATTA
* * *
74525932 TGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGATT-
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTA
* * * *
74525973 CGTGTAAGACCCTGTTTGGGATAGTGGCATCAATATTTGATTA
1 CGTGTAAGACCCTGTCTGGGACATTGGCATC-GTATTTGATTA
* * *
74526016 CATGTAAGACCAC-GTCTGGGACGTTGGCATTGTAT
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCGTAT
74526051 GAGCTTTCCA
Statistics
Matches: 96, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 25 0.26
42 15 0.16
43 24 0.25
44 31 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTA
Found at i:74526036 original size:43 final size:41
Alignment explanation
Indices: 74525934--74526045 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
74525924 ATGGTTTATG
** * * *
74525934 TGTAAGACCATATCTGGGACATTGGCATCGTATTTGATTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCATATTTGATTCA
* *
74525975 TGTAAGACC-CTGTTTGGGATAGTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATTTGATT-CA
74526018 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
74526046 TGTATGAGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
41 23 0.40
42 10 0.18
43 23 0.40
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCATATTTGATTCA
Found at i:74538189 original size:18 final size:18
Alignment explanation
Indices: 74538166--74538255 Score: 108
Period size: 18 Copynumber: 5.0 Consensus size: 18
74538156 CCCAACTACT
*
74538166 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
74538184 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
74538202 ATATACATGAATAGTACT
1 GTATACGTGAATAGTACC
*
74538220 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
74538238 GTATACATAAATAGTACC
1 GTATACGTGAATAGTACC
74538256 ATAAACGGTC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:74538218 original size:36 final size:36
Alignment explanation
Indices: 74538167--74538255 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
74538157 CCAACTACTG
* *
74538167 TATACGTGAACAGTACCGTATACGTGAATAGTGCCA
1 TATACATGAATAGTACCGTATACGTGAATAGTGCCA
* *
74538203 TATACATGAATAGTACTGTATACGTGAATAGTGCCG
1 TATACATGAATAGTACCGTATACGTGAATAGTGCCA
*
74538239 TATACATAAATAGTACC
1 TATACATGAATAGTACC
74538256 ATAAACGGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (36 bp):
TATACATGAATAGTACCGTATACGTGAATAGTGCCA
Found at i:74539254 original size:10 final size:9
Alignment explanation
Indices: 74539234--74539301 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
74539224 ATTATGTAAG
74539234 TAAAAATTTA
1 TAAAAA-TTA
74539244 TTAAAAATTA
1 -TAAAAATTA
*
74539254 TAAAAATCA
1 TAAAAATTA
*
74539263 TAAAATTTA
1 TAAAAATTA
* *
74539272 TTATAATTTA
1 -TAAAAATTA
74539282 TAAAATATTA
1 TAAAA-ATTA
*
74539292 TGAAAATTA
1 TAAAAATTA
74539301 T
1 T
74539302 TATTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 24 0.50
10 18 0.38
11 6 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (9 bp):
TAAAAATTA
Found at i:74539268 original size:28 final size:30
Alignment explanation
Indices: 74539236--74539303 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 30
74539226 TATGTAAGTA
74539236 AAAATTTATTAAAAATTATAAAA-ATCAT-
1 AAAATTTATTAAAAATTATAAAATATCATG
* * *
74539264 AAAATTTATTATAATTTATAAAATATTATG
1 AAAATTTATTAAAAATTATAAAATATCATG
74539294 AAAA-TTATTA
1 AAAATTTATTA
74539304 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.60
29 10 0.29
30 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AAAATTTATTAAAAATTATAAAATATCATG
Found at i:74539381 original size:19 final size:19
Alignment explanation
Indices: 74539357--74539393 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
74539347 TTTTTCTAAA
74539357 AAAAAG-TATTAAAAATATT
1 AAAAAGTTA-TAAAAATATT
74539376 AAAAAGTTATAAAAATAT
1 AAAAAGTTATAAAAATAT
74539394 ATAACTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAGTTATAAAAATATT
Found at i:74541001 original size:30 final size:30
Alignment explanation
Indices: 74540957--74541019 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
74540947 GCTTGACAAG
*
74540957 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
74540987 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
74541017 CAA
1 CAA
74541020 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:74541498 original size:14 final size:14
Alignment explanation
Indices: 74541479--74541505 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74541469 ATTTTTATTT
74541479 TCATTTTTAAAATA
1 TCATTTTTAAAATA
74541493 TCATTTTTAAAAT
1 TCATTTTTAAAAT
74541506 TTTCAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TCATTTTTAAAATA
Found at i:74545139 original size:308 final size:308
Alignment explanation
Indices: 74544581--74545202 Score: 1208
Period size: 308 Copynumber: 2.0 Consensus size: 308
74544571 ATGGAGCTAA
74544581 AAATTTAAGGGTGTCACTGGAGTCGCCCTAATGTGGCTGAGTACTGGATGGAGGCTACTAAGAGG
1 AAATTTAAGGGTGTCACTGGAGTCGCCCTAATGTGGCTGAGTACTGGATGGAGGCTACTAAGAGG
74544646 ATAATGGATGATTTAGACTGTACCCCTAAGTAGAAATTGAGGGGTGCTGTCTCGTTGCTTCGCAA
66 ATAATGGATGATTTAGACTGTACCCCTAAGTAGAAATTGAGGGGTGCTGTCTCGTTGCTTCGCAA
*
74544711 TGAGGCCTATTAGTGGTGGCTGACCGCTAAGGAGGGCACTCAGCCCGACCGTCTTTCTTGGTAGT
131 TGAGGCCTATTAGTGGTGGCTGACCGCTAAGGAGGGCACTCAGCCCGACCGTCTGTCTTGGTAGT
74544776 TCTTTAAGTCTACCTTCCAAAGGAAGTATGTGGGAGCAAGTTACATCGATGCTCGTAGAAGTGGG
196 TCTTTAAGTCTACCTTCCAAAGGAAGTATGTGGGAGCAAGTTACATCGATGCTCGTAGAAGTGGG
* *
74544841 TTTTTGAACCTCACTCAGGGAGGCCGATCAATGGTTAAGTAAGAGGCC
261 TTTTTGAACCTCACTCAAGGAGACCGATCAATGGTTAAGTAAGAGGCC
*
74544889 AAATTTAAGGGTGTCACTGGAGTCGCCTTAATGTGGCTGAGTACTGGATGGAGGCTACTAAGAGG
1 AAATTTAAGGGTGTCACTGGAGTCGCCCTAATGTGGCTGAGTACTGGATGGAGGCTACTAAGAGG
74544954 ATAATGGATGATTTAGACTGTACCCCTAAGTAGAAATTGAGGGGTGCTGTCTCGTTGCTTCGCAA
66 ATAATGGATGATTTAGACTGTACCCCTAAGTAGAAATTGAGGGGTGCTGTCTCGTTGCTTCGCAA
74545019 TGAGGCCTATTAGTGGTGGCTGACCGCTAAGGAGGGCACTCAGCCCGACCGTCTGTCTTGGTAGT
131 TGAGGCCTATTAGTGGTGGCTGACCGCTAAGGAGGGCACTCAGCCCGACCGTCTGTCTTGGTAGT
74545084 TCTTTAAGTCTACCTTCCAAAGGAAGTATGTGGGAGCAAGTTACATCGATGCTCGTAGAAGTGGG
196 TCTTTAAGTCTACCTTCCAAAGGAAGTATGTGGGAGCAAGTTACATCGATGCTCGTAGAAGTGGG
74545149 TTTTTGAACCTCACTCAAGGAGACCGATCAATGGTTAAGTAAGAGGCC
261 TTTTTGAACCTCACTCAAGGAGACCGATCAATGGTTAAGTAAGAGGCC
74545197 AAATTT
1 AAATTT
74545203 TTTAGACTGA
Statistics
Matches: 310, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
308 310 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (308 bp):
AAATTTAAGGGTGTCACTGGAGTCGCCCTAATGTGGCTGAGTACTGGATGGAGGCTACTAAGAGG
ATAATGGATGATTTAGACTGTACCCCTAAGTAGAAATTGAGGGGTGCTGTCTCGTTGCTTCGCAA
TGAGGCCTATTAGTGGTGGCTGACCGCTAAGGAGGGCACTCAGCCCGACCGTCTGTCTTGGTAGT
TCTTTAAGTCTACCTTCCAAAGGAAGTATGTGGGAGCAAGTTACATCGATGCTCGTAGAAGTGGG
TTTTTGAACCTCACTCAAGGAGACCGATCAATGGTTAAGTAAGAGGCC
Found at i:74547535 original size:19 final size:19
Alignment explanation
Indices: 74547511--74547548 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
74547501 ACCTCCTAAC
74547511 CCAGAAGGAGTTGAACCTT
1 CCAGAAGGAGTTGAACCTT
74547530 CCAGAAGGAGTTGAACCTT
1 CCAGAAGGAGTTGAACCTT
74547549 AGGTAGCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (19 bp):
CCAGAAGGAGTTGAACCTT
Found at i:74563218 original size:37 final size:36
Alignment explanation
Indices: 74563177--74563276 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 36
74563167 TAAACACTAG
* *
74563177 TCAGTATAATAGTAAAATTTGCTCTGTTGAG-TTCCAT
1 TCAGTATAA-AGTAAGATTTGCTCGGTTGAGCTT-CAT
* * *
74563214 TCAGTATAACGATATGACTTGCTCGGTTGAGCTTCAT
1 TCAGTATAAAG-TAAGATTTGCTCGGTTGAGCTTCAT
74563251 TCAGTATAACAGTAAGATTTGGCTCG
1 TCAGTATAA-AGTAAGATTT-GCTCG
74563277 ATAGAGCCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
36 1 0.02
37 42 0.82
38 8 0.16
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (36 bp):
TCAGTATAAAGTAAGATTTGCTCGGTTGAGCTTCAT
Found at i:74565860 original size:70 final size:72
Alignment explanation
Indices: 74565746--74565896 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
74565736 GGGGAATCAT
* *
74565746 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
74565810 GATATCG
66 GATATCG
***
74565817 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
74565881 GATATCG
66 GATATCG
74565888 CACTTAGCA
1 CACTTAGCA
74565897 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:74565927 original size:103 final size:103
Alignment explanation
Indices: 74565816--74566037 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
74565806 AATGGATATC
74565816 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
74565881 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
74565919 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
74565984 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
74566022 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
74566038 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:74565939 original size:26 final size:26
Alignment explanation
Indices: 74565909--74565959 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
74565899 ACCAATGAAC
*
74565909 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
74565935 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
74565960 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:74566399 original size:29 final size:29
Alignment explanation
Indices: 74566366--74566429 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
74566356 TAATCCACCA
74566366 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
74566395 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
74566425 CCCAA
1 CCCAA
74566430 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:74566403 original size:30 final size:30
Alignment explanation
Indices: 74566373--74566429 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
74566363 CCACCCAACT
74566373 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
74566402 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
74566430 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:74573492 original size:104 final size:104
Alignment explanation
Indices: 74573366--74573592 Score: 377
Period size: 104 Copynumber: 2.2 Consensus size: 104
74573356 TACAATGGAT
74573366 ATCA-CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
74573430 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGA
66 TGGTGGATCA-CGCACATAGCACCACCAATAAACCGGGGA
74573469 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
74573534 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGA
66 TGGTGGATCACGCACATAGCACCACCAATAAACCGGGGA
**
74573573 ATCAGCACACAGCAACCCCT
1 ATCAGCACTTAGCAACCCCT
74573593 TTTATATACA
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 4 0.03
104 111 0.96
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
TGGTGGATCACGCACATAGCACCACCAATAAACCGGGGA
Found at i:74573954 original size:29 final size:29
Alignment explanation
Indices: 74573921--74573984 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
74573911 TAATCCACCA
74573921 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
74573950 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
74573980 CCCAA
1 CCCAA
74573985 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:74573958 original size:30 final size:30
Alignment explanation
Indices: 74573928--74573984 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
74573918 CCACCCAACT
74573928 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
74573957 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
74573985 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:74576710 original size:28 final size:28
Alignment explanation
Indices: 74576678--74576734 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
74576668 ATAAATGCAT
74576678 AATCAATGTTACCATTGAGAAACAATTA
1 AATCAATGTTACCATTGAGAAACAATTA
74576706 AATCAATGTTACCATTGAGAAACAATTA
1 AATCAATGTTACCATTGAGAAACAATTA
74576734 A
1 A
74576735 CTTAACATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (28 bp):
AATCAATGTTACCATTGAGAAACAATTA
Found at i:74580801 original size:15 final size:17
Alignment explanation
Indices: 74580783--74580814 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
74580773 TAGCATAATT
74580783 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
74580798 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
74580815 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:74584647 original size:41 final size:41
Alignment explanation
Indices: 74584549--74584649 Score: 193
Period size: 41 Copynumber: 2.5 Consensus size: 41
74584539 ATCAATGGGC
*
74584549 CTGCTCACACAAGCTGCCAGTCAAGACGTAGCTACTTGGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACTTGGTG
74584590 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACTTGGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACTTGGTG
74584631 CTGCTCACACAAGCTGTCA
1 CTGCTCACACAAGCTGTCA
74584650 AGTAATCGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (41 bp):
CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACTTGGTG
Found at i:74585631 original size:13 final size:13
Alignment explanation
Indices: 74585613--74585637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74585603 TATGTGATAT
74585613 GTGTGAAAATTTC
1 GTGTGAAAATTTC
74585626 GTGTGAAAATTT
1 GTGTGAAAATTT
74585638 TATCTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:74586832 original size:42 final size:41
Alignment explanation
Indices: 74586724--74586851 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 41
74586714 TTCTGATCTG
* * *
74586724 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTTTGGGACATTAGCATCGATA
*
74586765 TGAGATTTACGTGTAAGACCATGTTTGGGACATTAGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTTTGGGACATTAGCATCG-ATA
* * * *
74586810 TGATTTTGTGTAAGACCCTGTTTGGGTCAGTGGCATCGATA
1 TGATTTCGTGTAAGACCCTGTTTGGGACATTAGCATCGATA
74586851 T
1 T
74586852 TTGATAACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.07
42 27 0.37
43 10 0.14
44 28 0.38
45 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTTTGGGACATTAGCATCGATA
Found at i:74588003 original size:41 final size:41
Alignment explanation
Indices: 74587945--74588142 Score: 360
Period size: 41 Copynumber: 4.8 Consensus size: 41
74587935 TTAAACAGAT
**
74587945 TCACCGGCATTTTGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
74587986 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
74588027 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
74588068 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
* *
74588109 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 TCACCGGCATTAAGCCTGCTAGACATATAGTCTG
74588143 TATTACATTC
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 153 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
Found at i:74599255 original size:13 final size:13
Alignment explanation
Indices: 74599237--74599263 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74599227 CCCTCATCTA
74599237 AAGATAAGATATT
1 AAGATAAGATATT
74599250 AAGATAAGATATT
1 AAGATAAGATATT
74599263 A
1 A
74599264 GAAAAATTAT
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:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
AAGATAAGATATT
Found at i:74604278 original size:17 final size:15
Alignment explanation
Indices: 74604256--74604313 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 15
74604246 GAAGTCTAAG
74604256 AAAATAACAATAAACAT
1 AAAATAA-AATAAA-AT
74604273 AAAATAGAAATAAAACT
1 AAAATA-AAATAAAA-T
74604290 AAAAATAAAATAAAAT
1 -AAAATAAAATAAAAT
74604306 AAAATAAA
1 AAAATAAA
74604314 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.21
16 2 0.05
17 21 0.55
18 7 0.18
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:74604301 original size:5 final size:5
Alignment explanation
Indices: 74604256--74604313 Score: 71
Period size: 5 Copynumber: 10.6 Consensus size: 5
74604246 GAAGTCTAAG
74604256 AAAAT AACAAT AAACAT AAAAT AGAAAT AAAACT AAAAAT AAAAT AAAAT
1 AAAAT AA-AAT AAA-AT AAAAT A-AAAT AAAA-T -AAAAT AAAAT AAAAT
74604306 AAAAT AAA
1 AAAAT AAA
74604314 TGGACTCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
5 27 0.56
6 17 0.35
7 4 0.08
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:74624078 original size:30 final size:30
Alignment explanation
Indices: 74624044--74624104 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
74624034 CCCCTAGTAC
74624044 AAACTTTGGCAAAATTATCA-TTTTGCCCCT
1 AAACTTTGGCAAAATTA-CACTTTTGCCCCT
* * *
74624074 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
74624104 A
1 A
74624105 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:74627739 original size:16 final size:17
Alignment explanation
Indices: 74627707--74627739 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74627697 CCTTCTCACC
74627707 TTTTCTTTTCTTCCATA
1 TTTTCTTTTCTTCCATA
74627724 TTTTCTTTTC-TCCATA
1 TTTTCTTTTCTTCCATA
74627740 GTCGAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCTTTTCTTCCATA
Found at i:74628869 original size:27 final size:26
Alignment explanation
Indices: 74628801--74628911 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
74628791 GGAAGCGTTT
74628801 TGGTGGCTATGCCACAAATATCTGTTTC
1 TGGTGGCTATGCCAC-AATATCTG-TTC
74628829 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTATGCCAC-AATATCTGTTC
** *
74628856 TGGTGGCTCCGCCACAATATTTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TC
** * *
74628883 TGGTAACTCTGTCACAATATCTGTTC
1 TGGTGGCTATGCCACAATATCTGTTC
74628909 TGG
1 TGG
74628912 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 13 0.18
27 37 0.50
28 24 0.32
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTC
Found at i:74632317 original size:42 final size:42
Alignment explanation
Indices: 74632258--74632346 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
74632248 TCCTAATTGG
74632258 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
74632300 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
74632342 TAAAA
1 GAAAA
74632347 ATATACCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:74632393 original size:19 final size:18
Alignment explanation
Indices: 74632371--74632410 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
74632361 TGAATAAAAC
74632371 TTATCTACCTAAATAACAT
1 TTATCTACCTAAATAA-AT
74632390 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
74632408 TTA
1 TTA
74632411 AATTATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:74639409 original size:30 final size:30
Alignment explanation
Indices: 74639368--74639425 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
74639358 TGGCTCATTT
*
74639368 CATCTATAAGAATTTCCATTACCATGATCA
1 CATCTACAAGAATTTCCATTACCATGATCA
74639398 CATCTACAAGAATTTCCATTACCATGAT
1 CATCTACAAGAATTTCCATTACCATGAT
74639426 TATAATCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (30 bp):
CATCTACAAGAATTTCCATTACCATGATCA
Found at i:74639604 original size:216 final size:215
Alignment explanation
Indices: 74639183--74639611 Score: 678
Period size: 215 Copynumber: 2.0 Consensus size: 215
74639173 TGGCTCATTT
* *
74639183 CATCTACAAGAATTTTCATTACCATGATTATAATCAGGCTTTTGTGTAATTTTTATAAACCTACA
1 CATCTACAAGAATTTCCATTACCATGATTATAATCAGGCTTTTGTGTAATTTTTATAAACCCACA
* * * * **
74639248 CCACACTTTTAGCTTAAAATCATTATTTTTTTCCACCAATGTTGGCTACCATTTTTTTCTCTCAT
66 CCACACGTTCAGCTTAAAATCATTATTTTTTCCCACCAATATCAGCTACCATTTTTTTCTCTCAT
74639313 TTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTGGCTCATTTCATCTATAAG
131 TTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTGGCTCATTTCATCTATAAG
74639378 AATTTCCATTACCATGATCA
196 AATTTCCATTACCATGATCA
* * *
74639398 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCATA
1 CATCTACAAGAATTTCCATTACCATGATTATAATCAGGCTTTTGTGTAATTTTTATAAACCCACA
* * * * * *
74639463 CCTCACGTTCAGCTTAAAATCATTGTTTTTTCCCTCCACTATCAGCTGCCATTTTTTTCCTCTGA
66 CCACACGTTCAGCTTAAAATCATTATTTTTTCCCACCAATATCAGCTACCATTTTTTT-CTCTCA
*
74639528 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAATATATGGTTGGCTCATTTCATCTATAA
130 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTGGCTCATTTCATCTATAA
*
74639593 GAATTTCCATTACTATGAT
195 GAATTTCCATTACCATGAT
74639612 TATAATAATG
Statistics
Matches: 194, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
215 107 0.55
216 87 0.45
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (215 bp):
CATCTACAAGAATTTCCATTACCATGATTATAATCAGGCTTTTGTGTAATTTTTATAAACCCACA
CCACACGTTCAGCTTAAAATCATTATTTTTTCCCACCAATATCAGCTACCATTTTTTTCTCTCAT
TTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTGGCTCATTTCATCTATAAG
AATTTCCATTACCATGATCA
Found at i:74639762 original size:187 final size:185
Alignment explanation
Indices: 74639398--74639939 Score: 728
Period size: 187 Copynumber: 2.9 Consensus size: 185
74639388 ACCATGATCA
*
74639398 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCATA
1 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
* * * * * * *
74639463 CCTCACGTTCAGCTTAAAATCATTGTTTTTTCCCTCCACTATCAGCTGCCATTTTTTTCCTCTGA
66 CCACACTTTCAACTTAAAATCATTGTTTTTTCCCTCAACTGTCGGCTGCCATTTTTTT-CTCTCA
* *
74639528 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAATATATGGTTGGCTCATTT
130 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
* * * *
74639584 CATCTATAAGAATTTCCATTACTATGATTATAATAATGCTTTTGTGTAATTTTTGTAAACGCACA
1 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
* *
74639649 CCACACTTTCAACTTAAAATAATTGGTTTTTTCCCTCAATTGTCGGCTGCCATTTTTTCTCTCTC
66 CCACACTTTCAACTTAAAATCATT-GTTTTTTCCCTCAACTGTCGGCTGCCATTTTTT-TCTCTC
*
74639714 ATTTTCTCTCTTCCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
129 ATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
** * * * * * * **
74639771 TGTCTGCAAGAATTTCCATCACGATGATTACAATCATGCTTTCGTGCAATTTTTTTGTAAACTTA
1 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAA--TTTTTGTAAACCCA
* * **
74639836 CACCACACTTTCAACTTAAAATCATTG-TTTTTACCT-TACTGTCGATTGCCATTTTTTTCTCTC
64 CACCACACTTTCAACTTAAAATCATTGTTTTTTCCCTCAACTGTCGGCTGCCATTTTTTTCTCTC
* *
74639899 ATTTTCTCTCTTGCCAAACAACATTTTTATTCTTCAAAACA
129 ATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACA
74639940 AAACATCTGG
Statistics
Matches: 314, Mismatches: 38, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
185 44 0.14
186 97 0.31
187 134 0.43
188 2 0.01
189 37 0.12
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.42
Consensus pattern (185 bp):
CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
CCACACTTTCAACTTAAAATCATTGTTTTTTCCCTCAACTGTCGGCTGCCATTTTTTTCTCTCAT
TTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
Found at i:74643268 original size:24 final size:23
Alignment explanation
Indices: 74643217--74643269 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
74643207 ATAGCTCATG
* * *
74643217 AGTTTTTTTCTAAAAATAGACTA
1 AGTTTTCTTCTAAAAATAAACAA
74643240 AGTTTTCTTCTAAAAATAAACAA
1 AGTTTTCTTCTAAAAATAAACAA
74643263 ATGTTTT
1 A-GTTTT
74643270 AATATGACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (23 bp):
AGTTTTCTTCTAAAAATAAACAA
Found at i:74645051 original size:31 final size:30
Alignment explanation
Indices: 74644978--74645051 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
74644968 AATATTTCCT
* *
74644978 TATTTATTATTAA-AATAAAAATATTACAT
1 TATTTATGATTAATAATAAAAATATTACAA
* *
74645007 TATATATGTTTAATAATACTAAAA-ATTACAA
1 TATTTATGATTAATAATA--AAAATATTACAA
74645038 TATTTATGATTAAT
1 TATTTATGATTAAT
74645052 TATGTTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 10 0.28
30 4 0.11
31 18 0.50
32 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (30 bp):
TATTTATGATTAATAATAAAAATATTACAA
Found at i:74645368 original size:26 final size:26
Alignment explanation
Indices: 74645317--74645373 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
74645307 ATTTATGTTT
* **
74645317 TTAAATAATATAAGAAAATATTAAAA
1 TTAAAAAATATAAGAAAATAAGAAAA
74645343 TTAAAAAATAT-AGAAAAATAAGAAAA
1 TTAAAAAATATAAG-AAAATAAGAAAA
*
74645369 ATAAA
1 TTAAA
74645374 GGAATAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (26 bp):
TTAAAAAATATAAGAAAATAAGAAAA
Found at i:74645624 original size:23 final size:23
Alignment explanation
Indices: 74645598--74645677 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 23
74645588 TTTAGAATTT
74645598 AAATTTTTTATATTTATTTTTAA
1 AAATTTTTTATATTTATTTTTAA
* *
74645621 AAATTTAATCTCTTTATTT-TTTAGAATTTA
1 AAATTT--T-T-TATATTTATTT----TTAA
74645651 AAATTTTTTATATTTATTTTTAA
1 AAATTTTTTATATTTATTTTTAA
74645674 AAAT
1 AAAT
74645678 CCAAGTTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 13 0.30
25 1 0.02
26 10 0.23
27 10 0.23
28 1 0.02
30 9 0.20
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (23 bp):
AAATTTTTTATATTTATTTTTAA
Found at i:74646053 original size:21 final size:21
Alignment explanation
Indices: 74646023--74646064 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
74646013 TTAAATATTA
74646023 ACTCCCTTAAAGGATACATTC
1 ACTCCCTTAAAGGATACATTC
* *
74646044 ACTCCTTTAAGGGATACATTC
1 ACTCCCTTAAAGGATACATTC
74646065 TTACACCCTT
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:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (21 bp):
ACTCCCTTAAAGGATACATTC
Found at i:74659608 original size:19 final size:20
Alignment explanation
Indices: 74659584--74659621 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74659574 AATTAGATTT
74659584 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
74659603 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
74659622 TGAAAACGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:74659816 original size:17 final size:17
Alignment explanation
Indices: 74659789--74659828 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
74659779 ATTTACTTAT
74659789 TATATAAGTAAATAATAA
1 TATA-AAGTAAATAATAA
*
74659807 TATAAAGTAAATTATAA
1 TATAAAGTAAATAATAA
74659824 TATAA
1 TATAA
74659829 TAATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TATAAAGTAAATAATAA
Found at i:74659833 original size:8 final size:8
Alignment explanation
Indices: 74659790--74659856 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
74659780 TTTACTTATT
74659790 ATATAAGTA
1 ATATAA-TA
74659799 A-ATAATA
1 ATATAATA
74659806 ATATAAAGTA
1 ATAT-AA-TA
*
74659816 A-ATTATA
1 ATATAATA
74659823 ATATAATA
1 ATATAATA
74659831 ATATAAT-
1 ATATAATA
*
74659838 ATTTAATA
1 ATATAATA
*
74659846 ATATGATA
1 ATATAATA
74659854 ATA
1 ATA
74659857 AAAGAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 12 0.25
8 28 0.58
9 5 0.10
10 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:74659899 original size:18 final size:19
Alignment explanation
Indices: 74659859--74659900 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
74659849 TGATAATAAA
* *
74659859 AGAATAAAGAAATAAAAAT
1 AGAATAAAGAAAGAAAAAG
*
74659878 AGAA-AAAGAAAGAAATAG
1 AGAATAAAGAAAGAAAAAG
74659896 AGAAT
1 AGAAT
74659901 TGAAAACGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (19 bp):
AGAATAAAGAAAGAAAAAG
Found at i:74659906 original size:22 final size:23
Alignment explanation
Indices: 74659864--74659911 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
74659854 ATAAAAGAAT
74659864 AAAGAAATAAAAATAGAAAAA-G
1 AAAGAAATAAAAATAGAAAAACG
* *
74659886 AAAGAAATAGAGAATTG-AAAACG
1 AAAGAAATA-AAAATAGAAAAACG
74659909 AAA
1 AAA
74659912 CAGGAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (23 bp):
AAAGAAATAAAAATAGAAAAACG
Found at i:74661337 original size:16 final size:18
Alignment explanation
Indices: 74661316--74661348 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
74661306 TGTACCTAGG
74661316 TTATTT-TAA-TGCTATC
1 TTATTTATAAGTGCTATC
74661332 TTATTTATAAGTGCTAT
1 TTATTTATAAGTGCTAT
74661349 TAGTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (18 bp):
TTATTTATAAGTGCTATC
Found at i:74663779 original size:6 final size:6
Alignment explanation
Indices: 74663768--74663989 Score: 274
Period size: 6 Copynumber: 37.5 Consensus size: 6
74663758 ACTAAAAAAC
* * *
74663768 AAACAA AAACAA AAACAA AAACAA AAACAA AAATAA AAATAA AAATAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA
*
74663816 AAATAA AAACAA AAACAA AAACAA AAACAA AAACAA AAAC-A AAA-AA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA
74663862 AAACAA AAACAA AAACAA AAACAA AAA-AA AAAC-- AAACAA AAACAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA
* * * * * *
74663907 AAACAA AAACAA AAACAAA AAACAG AAACAG AAACAA AAATAG AAATAG
1 AAACAA AAACAA AAAC-AA AAACAA AAACAA AAACAA AAACAA AAACAA
* * *
74663956 AAACAG AAACAG AAACAA AAACAG AAACAGA AAA
1 AAACAA AAACAA AAACAA AAACAA AAACA-A AAA
74663990 AAATAAATAA
Statistics
Matches: 199, Mismatches: 10, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
4 4 0.02
5 13 0.07
6 173 0.87
7 9 0.05
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.03
Consensus pattern (6 bp):
AAACAA
Found at i:74663946 original size:1 final size:1
Alignment explanation
Indices: 74663761--74663928 Score: 102
Period size: 1 Copynumber: 168.0 Consensus size: 1
74663751 AGTGCATACT
* * * * * * * * * * *
74663761 AAAAAACAAACAAAAACAAAAACAAAAACAAAAACAAAAATAAAAATAAAAATAAAAATAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
74663826 AAAAACAAAAACAAAAACAAAAACAAAAACAAAAAAAAACAAAAACAAAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
74663891 AAACAAACAAAAACAAAAACAAAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
74663929 CAGAAACAGA
Statistics
Matches: 115, Mismatches: 52, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 115 1.00
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:74664123 original size:17 final size:16
Alignment explanation
Indices: 74664101--74664134 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
74664091 TAAAAATAAT
74664101 ACATGGTCATGTGAGCC
1 ACATGGTCATGT-AGCC
*
74664118 ACATGGTCGTGTAGCC
1 ACATGGTCATGTAGCC
74664134 A
1 A
74664135 GGTCGTGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (16 bp):
ACATGGTCATGTAGCC
Found at i:74670295 original size:47 final size:47
Alignment explanation
Indices: 74670227--74670444 Score: 187
Period size: 47 Copynumber: 4.7 Consensus size: 47
74670217 ATCGTGGGTT
*
74670227 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-GATGAGAGCC
* * * * *
74670273 AGTGTAAGACCATGTCTAGGACATGGAATCGG-CATCAAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AGATGAGAGCC
* * * *
74670321 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AGATGAGAGCC
** * * ***
74670367 AGTGTAAGACCATGTCCAGAACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAGATGA-GAGCC
*
74670414 AGTGTAAGACCATGTCTGGGACACGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
74670445 ACACCCTACC
Statistics
Matches: 135, Mismatches: 29, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
46 32 0.24
47 72 0.53
48 30 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAGATGAGAGCC
Found at i:74670391 original size:94 final size:94
Alignment explanation
Indices: 74670226--74670397 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
74670216 TATCGTGGGT
* *
74670226 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTA
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCCA
*
74670291 GGACATGGAATCGGCATCAAGACGAGTGC
66 GAACATGGAATCGGCATCAAGACGAGTGC
* * * *
74670320 TAGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCC
*
74670384 AGAACATGGCATCG
65 AGAACATGGAATCG
74670398 ACTTGAGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCCA
GAACATGGAATCGGCATCAAGACGAGTGC
Found at i:74670428 original size:94 final size:94
Alignment explanation
Indices: 74670227--74670436 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 94
74670217 ATCGTGGGTT
* *
74670227 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCCAG
* * * *
74670292 GACATGGAATCGGCATCAAGACGAGTGCT
66 AACATGGAATCGACATCAAGACGAGAGCC
* * * *
74670321 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCCA
* ** *
74670385 GAACATGGCATCGAC-TTGAGA-TATGAGCC
65 GAACATGGAATCGACATCAAGACGA-GAGCC
74670414 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
74670437 CGGCATCGAC
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.01
93 16 0.16
94 80 0.82
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCCAG
AACATGGAATCGACATCAAGACGAGAGCC
Found at i:74676927 original size:15 final size:15
Alignment explanation
Indices: 74676899--74676928 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
74676889 TCTTTATAAA
74676899 AAAATTTTGTTTTTG
1 AAAATTTTGTTTTTG
74676914 AAAATCTTTGTTTTT
1 AAAAT-TTTGTTTTT
74676929 TTTTGTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (15 bp):
AAAATTTTGTTTTTG
Found at i:74679668 original size:26 final size:26
Alignment explanation
Indices: 74679637--74679744 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
74679627 TGAAATTCCC
* *
74679637 ATCATGGAACATGTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
74679663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
74679689 ATCATGAAATACTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
74679715 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74679741 ATCA
1 ATCA
74679745 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74683836 original size:7 final size:8
Alignment explanation
Indices: 74683816--74683846 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
74683806 TTTTGTAGTT
74683816 TTTTTTCAA
1 TTTTTT-AA
74683825 TTTTTTAA
1 TTTTTTAA
74683833 TTTTTTAA
1 TTTTTTAA
74683841 TTTTTT
1 TTTTTT
74683847 TAAAGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:74690046 original size:32 final size:32
Alignment explanation
Indices: 74690004--74690068 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
74689994 AACTGTGAAA
* * *
74690004 TAAAATGGTTACTAAGAGTAACGAGGAAGATG
1 TAAAAGGGTTACTAAGAGTAACAAAGAAGATG
* *
74690036 TAAAAGGGTTATTGAGAGTAACAAAGAAGATG
1 TAAAAGGGTTACTAAGAGTAACAAAGAAGATG
74690068 T
1 T
74690069 GAAATAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (32 bp):
TAAAAGGGTTACTAAGAGTAACAAAGAAGATG
Found at i:74694091 original size:22 final size:22
Alignment explanation
Indices: 74694045--74694103 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
74694035 TCAAATTTCA
74694045 AAAATTAAACATAATATAATATTT
1 AAAA-TAAA-ATAATATAATATTT
* *
74694069 AACATAGAAATAA-ATATTATTT
1 AAAATA-AAATAATATAATATTT
74694091 AAAATAAAATAAT
1 AAAATAAAATAAT
74694104 TTTTTTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.20
22 13 0.43
23 6 0.20
24 5 0.17
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATAAAATAATATAATATTT
Found at i:74694175 original size:42 final size:43
Alignment explanation
Indices: 74694123--74694261 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 43
74694113 GTTCATGATT
*
74694123 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAT-GTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTATGGTC
* * * *
74694165 TTTAGTGGCGTTTGTGTG-AAAGCACCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTATGGTC
* * *
74694207 TTTAGCGGCATTTGT-AAAAAATGCGCCGCTAAAAGTTATGGCC
1 TTTAGCGGCGTTTGTGAGAAAA-GCGCCGCTAAAAGTTATGGTC
74694250 TTTAGCGGCGTT
1 TTTAGCGGCGTT
74694262 CTTTTAAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 17 0.21
42 35 0.43
43 29 0.36
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTATGGTC
Found at i:74695786 original size:20 final size:22
Alignment explanation
Indices: 74695761--74695800 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
74695751 TCCCTACAAG
74695761 AAGTATCGAT-AT-TTTTCAAA
1 AAGTATCGATGATGTTTTCAAA
74695781 AAGTATCGATGATGTTTTCA
1 AAGTATCGATGATGTTTTCA
74695801 TCGCAACGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (22 bp):
AAGTATCGATGATGTTTTCAAA
Found at i:74703053 original size:23 final size:25
Alignment explanation
Indices: 74703027--74703073 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
74703017 TATCATTCAT
*
74703027 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
74703050 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
74703074 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:74703394 original size:46 final size:46
Alignment explanation
Indices: 74703334--74703598 Score: 323
Period size: 46 Copynumber: 5.9 Consensus size: 46
74703324 TTTGACGTGA
* * * * * *
74703334 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
** * * *
74703380 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* * *
74703426 TGCCATGGTATCTTTCGACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
74703472 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
74703518 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
74703556 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
74703599 GAGAGCACAC
Statistics
Matches: 193, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 147 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:74703567 original size:38 final size:38
Alignment explanation
Indices: 74703516--74703588 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
74703506 TTCATATCAA
74703516 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
74703554 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
74703589 TTTCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:74711201 original size:16 final size:16
Alignment explanation
Indices: 74711180--74711211 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
74711170 CTACTTTAGT
74711180 GTTGTGTAAATTGTCA
1 GTTGTGTAAATTGTCA
74711196 GTTGTGTAAATTGTCA
1 GTTGTGTAAATTGTCA
74711212 ATTTAAACTT
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:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (16 bp):
GTTGTGTAAATTGTCA
Found at i:74723406 original size:7 final size:7
Alignment explanation
Indices: 74723394--74723433 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
74723384 GTTATGGGGC
74723394 AGTTAGT
1 AGTTAGT
74723401 AGTTAGT
1 AGTTAGT
74723408 AGTTAGT
1 AGTTAGT
*
74723415 AGTTAAT
1 AGTTAGT
74723422 -GCTTAGT
1 AG-TTAGT
74723429 AGTTA
1 AGTTA
74723434 TTGCAGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (7 bp):
AGTTAGT
Found at i:74727156 original size:22 final size:22
Alignment explanation
Indices: 74727131--74727181 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
74727121 AAACAGGGTC
*
74727131 ACACGCCCGTGTGGACATAGGG
1 ACACGCCCGTGTGGAAATAGGG
74727153 ACACGCCCGTGTGGAAATAGGG
1 ACACGCCCGTGTGGAAATAGGG
74727175 ACACGCC
1 ACACGCC
74727182 TGTTTCCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.33, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGAAATAGGG
Found at i:74729265 original size:46 final size:47
Alignment explanation
Indices: 74729081--74729350 Score: 200
Period size: 46 Copynumber: 5.7 Consensus size: 47
74729071 GGGTATAATA
* * **
74729081 CCGATGCCATGTCCCAAACATAGTCTTACACTGAC-TATCAAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-CTTA-C-ATCTCGAGG
* * * * * * * *
74729130 CTGACGCCATGCCCCTGGCATGGTCATACACTAGCTCTCACATATCTG-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCT-T-ACATCTC-GAGG
*
74729180 CCGATGCCATGTCCTAGACATGGTCTTACACTGAC--ACATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-CTTACATCTCG-AGG
*
74729226 CCGATG-CATGTCCCAGACAT-GTCTTACATTAGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTTACATCTCGAGG
* * *
74729272 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCT-TACATCTCGAGG
*
74729318 CCGATGCCATGTCCTAGACATGGTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
74729351 GCACACAACT
Statistics
Matches: 180, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 67 0.37
47 15 0.08
48 10 0.06
49 26 0.14
50 32 0.18
51 3 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGCTTACATCTCGAGG
Found at i:74739555 original size:196 final size:196
Alignment explanation
Indices: 74739207--74739597 Score: 692
Period size: 196 Copynumber: 2.0 Consensus size: 196
74739197 GTTATCAAAG
* * *
74739207 TATGAAAATTAGGTTATGGATGAATATGCTGAAAATTTAAAATTTATGGTAGAAAACGAAAAGTT
1 TATGAAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAACGAAAAGTT
74739272 GTTGATAGATAAATAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
66 GTTGATAGATAAATAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
*
74739337 AAAGTTGTGAAAATTGAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTACATT
131 AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTACATT
74739402 T
196 T
* * *
74739403 TATGGAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAATGAAAGGTT
1 TATGAAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAACGAAAAGTT
* *
74739468 GTTGATAGATAAATAATTTTTACAAAGTGATTTTTGATGAAAATATGATTTAGGTACTAAAATGT
66 GTTGATAGATAAATAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
*
74739533 AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTTATAGAAAATATGTGCTGTAAATTCTACATT
131 AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTACATT
74739598 GAAATTTCGG
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
196 185 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (196 bp):
TATGAAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAACGAAAAGTT
GTTGATAGATAAATAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTACATT
T
Found at i:74753006 original size:45 final size:44
Alignment explanation
Indices: 74752927--74753096 Score: 135
Period size: 45 Copynumber: 3.8 Consensus size: 44
74752917 CTGGTTGAAG
* * * * *
74752927 GATGCTATAGTGTTTTTCCACCA-AGGTATTATTCATTCTTGACTT
1 GATGCCATAGTGTCTTTCAACCATA-GTCTTATTCATTC-TAACTT
* * * *
74752972 GATGCCATTGTGTCTTTCAACTATAGTCTTATTCACTGCTAATTT
1 GATGCCATAGTGTCTTTCAACCATAGTCTTATTCA-TTCTAACTT
* * * *
74753017 GATTCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTACATCGT
1 GATGCCATAGTGTCTTTCAACCATAGTCTTATTCATTCTA-A-CTT
* * * *
74753063 GTTGCCATAATGTATTTCAACCATGGTCTTATTC
1 GATGCCATAGTGTCTTTCAACCATAGTCTTATTC
74753097 GTTTGATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
44 3 0.03
45 63 0.63
46 34 0.34
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (44 bp):
GATGCCATAGTGTCTTTCAACCATAGTCTTATTCATTCTAACTT
Found at i:74753144 original size:45 final size:45
Alignment explanation
Indices: 74753085--74753233 Score: 122
Period size: 45 Copynumber: 3.3 Consensus size: 45
74753075 TATTTCAACC
* * *
74753085 ATGGTCTTATTCGTTTGATTCATGATGCTATAGCGTCTTTCAGCT
1 ATGGTCTTACTCGTTAGATTCATGATGCTATAACGTCTTTCAGCT
* * * *** *
74753130 ATGGTTTTACTCGTTAGAATCGTGATG-TCATAATAACTTTCGGCT
1 ATGGTCTTACTCGTTAGATTCATGATGCT-ATAACGTCTTTCAGCT
* * * * *
74753175 ATGGTCTTATTCATTAAAATT-ATGATGCCATAACGTCTTTTAGCT
1 ATGGTCTTACTCGTT-AGATTCATGATGCTATAACGTCTTTCAGCT
*
74753220 ATGGTTTTACTCGT
1 ATGGTCTTACTCGT
74753234 CTCCGGTATG
Statistics
Matches: 76, Mismatches: 25, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
44 1 0.01
45 72 0.95
46 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (45 bp):
ATGGTCTTACTCGTTAGATTCATGATGCTATAACGTCTTTCAGCT
Found at i:74758434 original size:25 final size:25
Alignment explanation
Indices: 74758392--74758439 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
74758382 ATATAAACGG
*
74758392 GAAGCTCTTCTGACCCATATAACAC
1 GAAGCTCATCTGACCCATATAACAC
* * *
74758417 GAAGCTCATGTGAGCCATGTAAC
1 GAAGCTCATCTGACCCATATAAC
74758440 GGAAAGCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (25 bp):
GAAGCTCATCTGACCCATATAACAC
Found at i:74763149 original size:8 final size:8
Alignment explanation
Indices: 74763138--74763181 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
74763128 TCGAAAAGTC
74763138 GAAAAGCT
1 GAAAAGCT
* *
74763146 GAAATGCC
1 GAAAAGCT
74763154 GAAAAGCT
1 GAAAAGCT
* *
74763162 GAAATGCC
1 GAAAAGCT
74763170 GAAAAGCT
1 GAAAAGCT
74763178 GAAA
1 GAAA
74763182 GTTTGGCTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.48, C:0.16, G:0.25, T:0.11
Consensus pattern (8 bp):
GAAAAGCT
Found at i:74763149 original size:16 final size:16
Alignment explanation
Indices: 74763130--74763181 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
74763120 TCGAAATGTC
*
74763130 GAAAAGTCGAAAAGCT
1 GAAAAGCCGAAAAGCT
*
74763146 GAAATGCCGAAAAGCT
1 GAAAAGCCGAAAAGCT
*
74763162 GAAATGCCGAAAAGCT
1 GAAAAGCCGAAAAGCT
74763178 GAAA
1 GAAA
74763182 GTTTGGCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.25, T:0.12
Consensus pattern (16 bp):
GAAAAGCCGAAAAGCT
Found at i:74763173 original size:24 final size:24
Alignment explanation
Indices: 74763115--74763173 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
74763105 ATGAATCGGT
* *
74763115 AAAAGTCGAAATGTCGAAAAGTCG
1 AAAAGCCGAAATGCCGAAAAGTCG
*
74763139 AAAAGCTGAAATGCCGAAAAG-CTG
1 AAAAGCCGAAATGCCGAAAAGTC-G
*
74763163 AAATGCCGAAA
1 AAAAGCCGAAA
74763174 AGCTGAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.14
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGTCG
Found at i:74767279 original size:16 final size:16
Alignment explanation
Indices: 74767253--74767295 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
74767243 ATGAATCGGC
* *
74767253 AAAAGTCGAAATGCTG
1 AAAAGCCGAAATGCCG
*
74767269 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
74767285 AAAAGCCGAAA
1 AAAAGCCGAAA
74767296 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:74767615 original size:28 final size:29
Alignment explanation
Indices: 74767518--74767625 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
74767508 TGAAAGTGAC
** * * *
74767518 TGGGCCTAACAGGCTATATAAATGTGATT
1 TGGGCCTAATGGGCCATATACATATGATT
* *
74767547 TGGGCCTAATTGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATATGATT
74767576 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATATGATT
* *
74767604 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
74767626 GGTATGTGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.28
29 48 0.70
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATATGATT
Found at i:74768659 original size:22 final size:22
Alignment explanation
Indices: 74768625--74768669 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
74768615 TAAATCAAAA
**
74768625 TTTTTTAAGTTAATTAAGGTTT
1 TTTTTTAAGTTAAGAAAGGTTT
**
74768647 TTTTTTATTTTAAGAAAGGTTT
1 TTTTTTAAGTTAAGAAAGGTTT
74768669 T
1 T
74768670 CAATGAAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (22 bp):
TTTTTTAAGTTAAGAAAGGTTT
Found at i:74769960 original size:48 final size:48
Alignment explanation
Indices: 74769915--74770025 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
74769905 CTTATGGCTC
74769915 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
1 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
* * * * * * *
74769963 GAATCCAACTCAATGAATCTCGCACCCGAAGTTCTAATATTATAGCCT
1 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
74770011 GAAGCCAACTCAATG
1 GAAGCCAACTCAATG
74770026 TAACCTCATG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (48 bp):
GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
Found at i:74771827 original size:34 final size:34
Alignment explanation
Indices: 74771779--74771845 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
74771769 TAGGGGGTAG
74771779 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
1 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
* *
74771813 CAGTGGCAGTCTGGGCCTTAGCCCATTTCAGTA
1 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTA
74771846 TAGTATGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (34 bp):
CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
Found at i:74780471 original size:48 final size:48
Alignment explanation
Indices: 74780400--74780551 Score: 207
Period size: 48 Copynumber: 3.2 Consensus size: 48
74780390 GGATGCTCAG
* * *
74780400 GAATCTTGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAAT
1 GAATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCGAT
* **
74780448 GAATCTCGTACCCAAAGTGCCAATATCATGGCCTGAAGCCAACTCGAT
1 GAATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCGAT
* * *
74780496 GAATCTCACACCCGAAGTGCCAATATCATGG-CCAGAAGCTAACTCGAT
1 GAATCTCGCACCCAAAGTGCCAATATCATGGCCCA-AAGCCAACTCGAT
74780544 GAATCTCG
1 GAATCTCG
74780552 TGCCAGAAGA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.01
48 89 0.99
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (48 bp):
GAATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCGAT
Found at i:74780569 original size:48 final size:48
Alignment explanation
Indices: 74780414--74780576 Score: 206
Period size: 48 Copynumber: 3.4 Consensus size: 48
74780404 CTTGCACCCT
*
74780414 AAGTGCCAATATCATGGCCCA-AAGCCAACTCAATGAATCTCGTACCCA-
1 AAGTGCCAATATCATGG-CCAGAAGCCAACTCGATGAATCTCGTA-CCAG
* ** *
74780462 AAGTGCCAATATCATGGCCTGAAGCCAACTCGATGAATCTCACACCCG
1 AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
* *
74780510 AAGTGCCAATATCATGGCCAGAAGCTAACTCGATGAATCTCGTGCCAG
1 AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
*
74780558 AAGAT-CTAATATCATGGCC
1 AAG-TGCCAATATCATGGCC
74780577 CATAGTAAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 4 0.04
48 95 0.95
49 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
Done.