Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 156 of 204
Found at i:46896575 original size:14 final size:13
Alignment explanation
Indices: 46896558--46896620 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
46896548 ATATTATTAA
46896558 TTTTATCATTTATT
1 TTTTAT-ATTTATT
*
46896572 TTTTAT-TTTATCA
1 TTTTATATTTAT-T
46896585 TTTTATATTTATT
1 TTTTATATTTATT
* *
46896598 ATTAATA-TTATT
1 TTTTATATTTATT
46896610 CTTTTATATTT
1 -TTTTATATTT
46896621 TAAATATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 10 0.26
13 16 0.41
14 13 0.33
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATATTTATT
Found at i:46896594 original size:26 final size:27
Alignment explanation
Indices: 46896543--46896620 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 27
46896533 AAATAGGGGT
*
46896543 TTATT-ATATTATTAATTTTATCATTTA
1 TTATTAATATTATTCATTTTAT-ATTTA
* * *
46896570 TTTTTTATTTTA-TCATTTTATATTTA
1 TTATTAATATTATTCATTTTATATTTA
46896596 TTATTAATATTATTC-TTTTATATTT
1 TTATTAATATTATTCATTTTATATTT
46896621 TAAATATGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 24 0.56
27 14 0.33
28 5 0.12
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTAATATTATTCATTTTATATTTA
Found at i:46896595 original size:19 final size:19
Alignment explanation
Indices: 46896549--46896597 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
46896539 GGGTTTATTA
*
46896549 TATTATTAATTTTATCATT
1 TATTATTTATTTTATCATT
*
46896568 TATTTTTTATTTTATCATT
1 TATTATTTATTTTATCATT
46896587 T-TATATTTATT
1 TAT-TATTTATT
46896598 ATTAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTTTATCATT
Found at i:46898726 original size:64 final size:64
Alignment explanation
Indices: 46898647--46898780 Score: 268
Period size: 64 Copynumber: 2.1 Consensus size: 64
46898637 TGTGTGACTC
46898647 ATATACTTTGATGCATTAATAACATGTGTTCAATTAATAATAGAGTCAAAAGGTGGTACATTGG
1 ATATACTTTGATGCATTAATAACATGTGTTCAATTAATAATAGAGTCAAAAGGTGGTACATTGG
46898711 ATATACTTTGATGCATTAATAACATGTGTTCAATTAATAATAGAGTCAAAAGGTGGTACATTGG
1 ATATACTTTGATGCATTAATAACATGTGTTCAATTAATAATAGAGTCAAAAGGTGGTACATTGG
46898775 ATATAC
1 ATATAC
46898781 GACTTCTACA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (64 bp):
ATATACTTTGATGCATTAATAACATGTGTTCAATTAATAATAGAGTCAAAAGGTGGTACATTGG
Found at i:46900654 original size:8 final size:8
Alignment explanation
Indices: 46900641--46900668 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
46900631 TTCTCTAATC
46900641 GAGTTTTT
1 GAGTTTTT
46900649 GAGTTTTT
1 GAGTTTTT
46900657 GAGTTTTT
1 GAGTTTTT
46900665 GAGT
1 GAGT
46900669 GTGGCTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (8 bp):
GAGTTTTT
Found at i:46907358 original size:9 final size:9
Alignment explanation
Indices: 46907337--46907374 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
46907327 ATCTCCACTC
46907337 TTTTAAA-T
1 TTTTAAATT
46907345 TTTTAAATT
1 TTTTAAATT
46907354 TTTTAAATT
1 TTTTAAATT
46907363 TTTTAAATT
1 TTTTAAATT
46907372 TTT
1 TTT
46907375 GTTGTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAAATT
Found at i:46910737 original size:29 final size:28
Alignment explanation
Indices: 46910704--46910790 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
46910694 TCATAAGAAC
46910704 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
46910733 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
46910757 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
46910787 ATTT
1 ATTT
46910791 CAAATTTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:46910952 original size:67 final size:66
Alignment explanation
Indices: 46910877--46911089 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
46910867 ATTATAATGT
46910877 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
46910941 AA
65 AA
* * ** * * * * * * *
46910943 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
46911003 AATTAAAA
61 -ATT-AAA
* * *
46911011 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATT-AAATATTTATTATTGATATTAATAATCTTAT
46911076 TAAA
63 TAAA
46911080 ATTTAAATAA
1 ATTTAAATAA
46911090 CATTAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 17 0.16
69 20 0.19
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:46910983 original size:137 final size:138
Alignment explanation
Indices: 46910833--46911098 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 138
46910823 TAAGAATATG
* * *
46910833 AATTATTAAGAATTTTATTAGATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
46910898 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
46910963 TTTCTGCT
131 TTTCTGCT
****
46910971 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
46911035 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
46911099 TAATCATTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 112 0.96
138 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:46911009 original size:18 final size:17
Alignment explanation
Indices: 46910981--46911015 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46910971 AATTATAAGA
*
46910981 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46910998 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46911016 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:46911080 original size:70 final size:69
Alignment explanation
Indices: 46910867--46911081 Score: 176
Period size: 70 Copynumber: 3.1 Consensus size: 69
46910857 ATATACCAAA
* * * *
46910867 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
46910932 ATCTT
65 ATCTT
* ** * ** * * *
46910937 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
46910996 -AT-ATTTT
61 AATAATCTT
46911003 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
46911068 AATCTT
64 AATCTT
46911074 ATTAAAAT
1 ATTAAAAT
46911082 TTAAATAACA
Statistics
Matches: 107, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.36
71 10 0.09
72 1 0.01
73 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:46911131 original size:137 final size:145
Alignment explanation
Indices: 46910866--46911283 Score: 491
Period size: 137 Copynumber: 2.9 Consensus size: 145
46910856 TATATACCAA
* * * *
46910866 AATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAAT
* * ** * *
46910931 AATCTTATTAAAATTTAAATAACAATAACAA-ATTTC-TGCTAATTATAAGAATTTTAT--TAA-
66 AATCTTATTAAAATTTAAATAACAATAACAATA-ATCAT--TTACCAAAACAATTTTATGCTAAT
*
46910991 -ATTA-TA-T-ATT-T-T
128 TATAATTATTAATTATAT
*
46911003 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAAT
* *
46911068 AATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAACAATTTTCTGCTAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
46911133 AAGAATTTTATTAAATTATATATTTT
131 ---AA--TTATT-AA-T-TATA---T
*
46911159 AATTAAAATATATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAAT
46911224 AATCTTATT-AAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
46911284 GGGTATTCTA
Statistics
Matches: 241, Mismatches: 18, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
136 12 0.05
137 92 0.38
138 5 0.02
140 2 0.01
143 1 0.00
146 2 0.01
147 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
155 49 0.20
156 73 0.30
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (145 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
AATTATTAATTATAT
Found at i:46911136 original size:156 final size:155
Alignment explanation
Indices: 46910957--46911283 Score: 600
Period size: 156 Copynumber: 2.1 Consensus size: 155
46910947 AAATAACAAT
*
46910957 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
46911022 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATT-AAATTTAAA
*
46911087 TAACATTAACAATAATCATTTACCAA
130 TAACAATAACAATAATCATTTACCAA
*
46911113 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
46911178 ATAATTATGTTTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAATTTAAAT
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAATTTAAAT
46911243 AACAATAACAATAATCATTTACCAA
131 AACAATAACAATAATCATTTACCAA
*
46911268 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
46911284 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
155 49 0.30
156 117 0.70
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (155 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAATTTAAAT
AACAATAACAATAATCATTTACCAA
Found at i:46911165 original size:18 final size:18
Alignment explanation
Indices: 46911137--46911185 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
46911127 AATTATAAGA
46911137 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
46911154 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
46911170 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
46911186 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:46911171 original size:16 final size:16
Alignment explanation
Indices: 46911137--46911191 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
46911127 AATTATAAGA
46911137 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
46911154 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
46911170 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
46911184 ATGTTTAA
1 AT-TTTAA
46911192 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:46911400 original size:44 final size:45
Alignment explanation
Indices: 46911335--46911425 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
46911325 ACCTCTATTC
* * *
46911335 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
46911379 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
46911424 CA
1 CA
46911426 CATCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:46911431 original size:16 final size:16
Alignment explanation
Indices: 46911406--46911474 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
46911396 GATTAGCTAT
46911406 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
46911422 TACACATCTAATCCCAA
1 TACACCTCTAAT-CCAA
46911439 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46911455 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46911471 TACA
1 TACA
46911475 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46911448 original size:33 final size:32
Alignment explanation
Indices: 46911406--46911474 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
46911396 GATTAGCTAT
46911406 TACACCTCTAATCCAATACACATCTAATCCCAA
1 TACACCTCTAATCCAATACACATCTAAT-CCAA
*
46911439 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACATCTAATCCAA
46911471 TACA
1 TACA
46911475 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACATCTAATCCAA
Found at i:46911947 original size:24 final size:21
Alignment explanation
Indices: 46911926--46911968 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46911916 AATTTAAATT
46911926 TAATATTTATCATAAAAATAAA
1 TAATA-TTATCATAAAAATAAA
* *
46911948 TACTATTATTATAAAAATAAA
1 TAATATTATCATAAAAATAAA
46911969 AAAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATTATCATAAAAATAAA
Found at i:46912550 original size:12 final size:12
Alignment explanation
Indices: 46912535--46912561 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46912525 TTAAATTTTC
46912535 TATTAATATACA
1 TATTAATATACA
46912547 TATTAATATACA
1 TATTAATATACA
46912559 TAT
1 TAT
46912562 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:46912712 original size:16 final size:16
Alignment explanation
Indices: 46912691--46912722 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46912681 TTGAAAATGG
46912691 TTGAAAAGTCCACAAA
1 TTGAAAAGTCCACAAA
*
46912707 TTGAAAAGTTCACAAA
1 TTGAAAAGTCCACAAA
46912723 AGTCCACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (16 bp):
TTGAAAAGTCCACAAA
Found at i:46913850 original size:14 final size:13
Alignment explanation
Indices: 46913831--46913860 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
46913821 TGTTTACACA
46913831 AAAATAAATAACAT
1 AAAATAAATAA-AT
46913845 AAAATAAATAAAT
1 AAAATAAATAAAT
46913858 AAA
1 AAA
46913861 TCCAAGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:46917876 original size:40 final size:40
Alignment explanation
Indices: 46917823--46917898 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
46917813 GTTTGGACAA
*
46917823 AAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTACAC
1 AAAACGCCACTAAAAATCAAGCATTAGCAGCGCTTTACAC
* *
46917863 AAAACGCCACTAAAGATCAAGCATTAGCGGCGCTTT
1 AAAACGCCACTAAAAATCAAGCATTAGCAGCGCTTT
46917899 TAGGAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.18
Consensus pattern (40 bp):
AAAACGCCACTAAAAATCAAGCATTAGCAGCGCTTTACAC
Found at i:46917996 original size:41 final size:41
Alignment explanation
Indices: 46917939--46918138 Score: 355
Period size: 41 Copynumber: 4.9 Consensus size: 41
46917929 TTTTGACCTA
* *
46917939 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
46917980 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
46918021 TCAGATCTTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGC
46918063 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
46918104 TCAGAGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
46918139 AAAAATATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
41 113 0.73
42 41 0.27
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:46918077 original size:83 final size:82
Alignment explanation
Indices: 46917939--46918138 Score: 355
Period size: 83 Copynumber: 2.4 Consensus size: 82
46917929 TTTTGACCTA
* *
46917939 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
46918004 AAAAGCGCCGCTAATGC
66 AAAAGCGCCGCTAATGC
46918021 TCAGATCTTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
1 TCAGATCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
46918086 AAAAAGCGCCGCTAATGC
65 AAAAAGCGCCGCTAATGC
* *
46918104 TCAGAGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
46918139 AAAAATATTT
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
82 34 0.30
83 79 0.70
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (82 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
AAAAGCGCCGCTAATGC
Found at i:46924510 original size:43 final size:43
Alignment explanation
Indices: 46924413--46924703 Score: 313
Period size: 43 Copynumber: 6.8 Consensus size: 43
46924403 AGGTTATGTT
* * * *
46924413 TTTAGCGGCGTTT-TTGCTAGAAGCGTCGCTAAAGGTTTA--TTC
1 TTTAGCGGCGTTTGTGGCTA-AAGCGCCGCTAAAGG-TCACGATC
* *
46924455 TTTAGCGGCGTTTGTGGCTAAAGCGTCGCTAAAGCTCACGATC
1 TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
* ** *
46924498 TTTAGCGACGTTTGTATCTAAAGCGCCGCTAAAGATCACGATC
1 TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
46924541 TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
1 TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
* * * * *
46924584 TTTAGTGGCGTTTGT-GATAAAAACACCGCTAAAGGTCAAGATC
1 TTTAGCGGCGTTTGTGGCT-AAAGCGCCGCTAAAGGTCACGATC
* * * *
46924627 TTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
* **
46924670 TTTAGTGGCGTTTGT-TATAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGCT-AAAGCGCCGCTAAAG
46924704 TTAGCGGCGT
Statistics
Matches: 212, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 29 0.14
43 180 0.85
44 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATC
Found at i:46924563 original size:86 final size:85
Alignment explanation
Indices: 46924453--46924703 Score: 358
Period size: 86 Copynumber: 2.9 Consensus size: 85
46924443 AAAGGTTTAT
* * * * *
46924453 TCTTTAGCGGCGTTTGTGGCTAAAGCGTCGCTAAAGCTCACGATCTTTAGCGACGTTTGTATCTA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATCTTTAGTGGCGTTTGTAT-AA
*
46924518 AAGCGCCGCTAAAGATCACGA
65 AAGCGCCGCTAAAGATCAAGA
46924539 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATCTTTAGTGGCGTTTGTGATAA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATCTTTAGTGGCGTTTGT-ATAA
* * *
46924604 AAACACCGCTAAAGGTCAAGA
65 AAGCGCCGCTAAAGATCAAGA
* * * *
46924625 TCTTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTGTTATAA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATCTTTAGTGGCGTTTG-TATAA
46924690 AAGCGCCGCTAAAG
65 AAGCGCCGCTAAAG
46924704 TTAGCGGCGT
Statistics
Matches: 148, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
86 145 0.98
87 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (85 bp):
TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGGTCACGATCTTTAGTGGCGTTTGTATAAA
AGCGCCGCTAAAGATCAAGA
Found at i:46931641 original size:66 final size:66
Alignment explanation
Indices: 46931563--46931747 Score: 230
Period size: 66 Copynumber: 2.8 Consensus size: 66
46931553 GTCAGTAGGC
** *
46931563 TCACAC-GACCTAGC-CTATGGGCGTGTGGCTTGGTTGTGTGTCCCAAGTCAGTATACCCACCAT
1 TCACACAG-CCTAGCAC-ATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACAT
*
46931626 TTT
64 TGT
* * * * *
46931629 TCACATAGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGTCACAAGTCAGTATACTCAACATTG
1 TCACACAGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACATTG
46931694 T
66 T
* * *
46931695 TCACACGGCCTAGCACATGGGGGTGTGGCTTGGCCGTGTGACCCAAGTCAGTA
1 TCACACAGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTA
46931748 AGCTCACTAG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
66 99 0.98
67 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (66 bp):
TCACACAGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACATTG
T
Found at i:46943807 original size:13 final size:13
Alignment explanation
Indices: 46943791--46943820 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
46943781 ATTGTCATGT
46943791 AATTGTTTTTCTG
1 AATTGTTTTTCTG
46943804 AATTGTTTTTCTG
1 AATTGTTTTTCTG
46943817 AATT
1 AATT
46943821 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:46944991 original size:16 final size:16
Alignment explanation
Indices: 46944970--46945037 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
46944960 GATTTGCTAT
*
46944970 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
46944986 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
46945002 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
46945018 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46945034 TACA
1 TACA
46945038 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46946564 original size:34 final size:34
Alignment explanation
Indices: 46946526--46946623 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 34
46946516 TAAAGTTTTT
* *
46946526 TTTTAAAAAAATTAATTAAATTAGGTTTTAGGGG
1 TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
* * * *
46946560 TTTTAAATAAATAAACTAAATTAGGATTTAGAGT
1 TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
* * *
46946594 TTTTAATAAAATTTATTAAATTAGGGTTTA
1 TTTTAAAAAAATTAATTAAATTAGGATTTA
46946624 TTTTTTAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (34 bp):
TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
Found at i:46948957 original size:46 final size:46
Alignment explanation
Indices: 46948890--46949142 Score: 415
Period size: 46 Copynumber: 5.6 Consensus size: 46
46948880 TTTGAGTACT
*
46948890 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
46948936 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
46948982 TCTGATCAAGTGACAATGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
46949027 TCTGATCAAATGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
46949073 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
46949118 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
46949143 ATCATACGTA
Statistics
Matches: 195, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 60 0.31
46 118 0.61
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:46949046 original size:91 final size:91
Alignment explanation
Indices: 46948890--46949142 Score: 429
Period size: 91 Copynumber: 2.8 Consensus size: 91
46948880 TTTGAGTACT
* *
46948890 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
46948955 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
* *
46948982 TCTGATCAAGTGACAATGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAATGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
*
46949047 ATAAGTGGTAGTTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
*
46949073 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
46949136 ATAAGTG
66 ATAAGTG
46949143 ATCATACGTA
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
89 12 0.08
90 4 0.03
91 107 0.70
92 30 0.20
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:46949911 original size:14 final size:14
Alignment explanation
Indices: 46949889--46949927 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
46949879 ACAGTAGTTC
46949889 TTGAAAAAATAATT
1 TTGAAAAAATAATT
* *
46949903 TTGACAAAATGATT
1 TTGAAAAAATAATT
46949917 TTGAAAAAATA
1 TTGAAAAAATA
46949928 GTGTCAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (14 bp):
TTGAAAAAATAATT
Found at i:46949977 original size:126 final size:126
Alignment explanation
Indices: 46949772--46950256 Score: 536
Period size: 124 Copynumber: 3.9 Consensus size: 126
46949762 TTAGAAAACT
* * * * * * * * *
46949772 TAATTTTGAGAAGACGTTTTTGAAAAGATAATGTCAAAAACGCTTCAAGTAGGATGCATTATCAG
1 TAATTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAG
* *
46949837 CAAAATTACTGAAAAAAGCTTCCACCTGGACGCTCTTTGTCTACAGTAGTTCTTGAAAAAA
66 CAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAA
* * *
46949898 TAATTTTGACAAAATGATTTTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAG
1 TAATTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAG
* * * * * * *
46949963 CAAAATTATTGAAAAAGGATTTCATGTGGACGCTCTTTTTCTACAATAGTTCCT--AAAAA
66 CAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAA
* * *
46950022 TAATTTTGAGAAAAT-AGTTCTGAAAAAATAGTGTAAAAAACACTTCAAGTAGGATGCACTGTCA
1 TAATTTTGAGAAAATGA-TTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCA
* * *
46950086 GCAAAATTACTGAAAAAA-CTCCCACGTGGACGCT-TTTTTCTATAGTAATT-TATGAAAAAA
65 GCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTTCT-TGAAAAAA
* * * * * **
46950146 TAATTTTGAGAAGACGGTTCTGAAAAGATAGTGTCTAAAACATTTCAAGCAGGATGC-CTTGTCA
1 TAATTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC-TGTCA
** * *
46950210 GCAAAATTACAAAAAAAAGC-TCTCACGTAGACGCTCTTTTTGTACAG
65 GCAAAATTACTGAAAAAAGCTTC-CACGTGGACGCTCTTTTTCTACAG
46950257 CAATTCCTAC
Statistics
Matches: 301, Mismatches: 49, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
122 14 0.05
123 14 0.05
124 152 0.50
125 12 0.04
126 109 0.36
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
TAATTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAG
CAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAA
Found at i:46950245 original size:248 final size:249
Alignment explanation
Indices: 46949792--46950255 Score: 614
Period size: 248 Copynumber: 1.9 Consensus size: 249
46949782 AAGACGTTTT
* * * *
46949792 TGAAAAGATAATGTCAAAAACGCTTCAAGTAGGATGCATTATCAGCAAAATTACTGAAAAAAGCT
1 TGAAAAAATAATGTAAAAAACACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCT
* * * *
46949857 TCCACCTGGACGCTCTTTGTCTACAGTAGTTCTTGAAAAAATAATTTTGACAAAATGATTTTGAA
66 CCCACCTGGACGCTCTTTGTCTACAGTAATTCTTGAAAAAATAATTTTGACAAAACGATTCTGAA
*** * *
46949922 AAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTATTGAAAAAGGATTTCA
131 AAAATAGTGTCAAAAAT-CTTCAAGCAGGATGCACTGTCAGCAAAATTACAAAAAAAAGATCTCA
* *
46949987 TGTGGACGCTCTTTTTCTACAATAGTTCCTAAAAATAATTTTGAGAAAATAGTTC
195 CGTAGACGCTCTTTTTCTACAATAGTTCCTAAAAATAATTTTGAGAAAATAGTTC
* *
46950042 TGAAAAAATAGTGTAAAAAACACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CT
1 TGAAAAAATAATGTAAAAAACACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCT
* * * * * *
46950106 CCCACGTGGACGCT-TTTTTCTATAGTAATT-TATGAAAAAATAATTTTGAGAAGACGGTTCTGA
66 CCCACCTGGACGCTCTTTGTCTACAGTAATTCT-TGAAAAAATAATTTTGACAAAACGATTCTGA
* *
46950169 AAAGATAGTGTCTAAAACAT-TTCAAGCAGGATGC-CTTGTCAGCAAAATTACAAAAAAAAGCTC
130 AAAAATAGTGTC-AAAA-ATCTTCAAGCAGGATGCAC-TGTCAGCAAAATTACAAAAAAAAGATC
*
46950232 TCACGTAGACGCTCTTTTTGTACA
192 TCACGTAGACGCTCTTTTTCTACA
46950256 GCAATTCCTA
Statistics
Matches: 184, Mismatches: 26, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
247 2 0.01
248 106 0.58
249 18 0.10
250 58 0.32
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (249 bp):
TGAAAAAATAATGTAAAAAACACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCT
CCCACCTGGACGCTCTTTGTCTACAGTAATTCTTGAAAAAATAATTTTGACAAAACGATTCTGAA
AAAATAGTGTCAAAAATCTTCAAGCAGGATGCACTGTCAGCAAAATTACAAAAAAAAGATCTCAC
GTAGACGCTCTTTTTCTACAATAGTTCCTAAAAATAATTTTGAGAAAATAGTTC
Found at i:46952810 original size:19 final size:19
Alignment explanation
Indices: 46952757--46952811 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
46952747 ATTTCAAAAT
46952757 AGTAATTCATCAAT-ATTTA
1 AGTAATT-ATCAATCATTTA
* * *
46952776 ACTAA-TATCATCTCATTTC
1 AGTAATTATCA-ATCATTTA
46952795 AGTAATTATCAATCATT
1 AGTAATTATCAATCATT
46952812 CATATTCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 17 0.61
20 5 0.18
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (19 bp):
AGTAATTATCAATCATTTA
Found at i:46955315 original size:19 final size:19
Alignment explanation
Indices: 46955261--46955316 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
46955251 AATTTCAGAA
46955261 CAGTAATTCATCAA-CATTT
1 CAGTAATT-ATCAATCATTT
* * *
46955280 AACTAA-TATCATCTCATTT
1 CAGTAATTATCA-ATCATTT
46955299 CAGTAATTATCAATCATT
1 CAGTAATTATCAATCATT
46955317 CATAGTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 4 0.14
18 1 0.04
19 18 0.64
20 5 0.18
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.39
Consensus pattern (19 bp):
CAGTAATTATCAATCATTT
Found at i:46957197 original size:27 final size:27
Alignment explanation
Indices: 46957159--46957223 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
46957149 AAATTCATAC
46957159 AATTTAGTACAAACCCATGTTTAACCA
1 AATTTAGTACAAACCCATGTTTAACCA
*
46957186 AATTTAGTACAAACCCATGTTTAACCG
1 AATTTAGTACAAACCCATGTTTAACCA
*
46957213 AATTTAATACA
1 AATTTAGTACA
46957224 TGTTACTAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTTAGTACAAACCCATGTTTAACCA
Found at i:46958802 original size:5 final size:5
Alignment explanation
Indices: 46958780--46958849 Score: 115
Period size: 5 Copynumber: 14.2 Consensus size: 5
46958770 TTTTTATGTT
*
46958780 TTATA -TATA TTATT TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
46958829 TTGTA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
46958850 AAATTAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.07
5 56 0.93
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:46960017 original size:21 final size:20
Alignment explanation
Indices: 46959991--46960054 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
46959981 GGCTTTGCCG
46959991 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCAC-TTATGTGTCGT
**
46960012 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCA-CTTATGTGTCGT
*
46960033 TTCAGGCACTTATGTGTCGT
1 ATCAGGCACTTATGTGTCGT
46960053 AT
1 AT
46960055 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 11 0.31
21 24 0.67
22 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
ATCAGGCACTTATGTGTCGT
Found at i:46961210 original size:16 final size:16
Alignment explanation
Indices: 46961191--46961221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46961181 AATAGGACAA
46961191 ACTATAAAAATATTTT
1 ACTATAAAAATATTTT
*
46961207 ACTATTAAAATATTT
1 ACTATAAAAATATTT
46961222 AGAACAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ACTATAAAAATATTTT
Found at i:46962461 original size:28 final size:28
Alignment explanation
Indices: 46962428--46962485 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
46962418 TAAATCTATG
46962428 TAATAATTGTAAAATCTAATATAAATTT
1 TAATAATTGTAAAATCTAATATAAATTT
46962456 TAATAATTGTAAAATCTAATATAAATTT
1 TAATAATTGTAAAATCTAATATAAATTT
46962484 TA
1 TA
46962486 CCTCATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
TAATAATTGTAAAATCTAATATAAATTT
Found at i:46962475 original size:16 final size:16
Alignment explanation
Indices: 46962428--46962476 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
46962418 TAAATCTATG
46962428 TAATAATTGTAAAATC
1 TAATAATTGTAAAATC
* *
46962444 TAAT-A---TAAATTT
1 TAATAATTGTAAAATC
46962456 TAATAATTGTAAAATC
1 TAATAATTGTAAAATC
46962472 TAATA
1 TAATA
46962477 TAAATTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (16 bp):
TAATAATTGTAAAATC
Found at i:46966094 original size:3 final size:3
Alignment explanation
Indices: 46966086--46966110 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46966076 AAGTTGAATA
46966086 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
46966111 TGGAGCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46974168 original size:24 final size:24
Alignment explanation
Indices: 46974114--46974159 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
46974104 GGCACCAGCT
46974114 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
46974138 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
46974160 CAAATCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:46979042 original size:13 final size:14
Alignment explanation
Indices: 46979024--46979060 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
46979014 AATGGCATAT
46979024 AAATAATATAAAC-
1 AAATAATATAAACG
46979037 AAATAA-ATAAACG
1 AAATAATATAAACG
46979050 AAATGAATATA
1 AAAT-AATATA
46979061 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:46979666 original size:20 final size:20
Alignment explanation
Indices: 46979616--46979666 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
46979606 ATACATATAT
46979616 ATAAGTTAAAAAAATAATTAC
1 ATAA-TTAAAAAAATAATTAC
*
46979637 ATAA-AAAAAACAATAATTAC
1 ATAATTAAAAA-AATAATTAC
46979657 ATAATTAAAA
1 ATAATTAAAA
46979667 TTAACTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (20 bp):
ATAATTAAAAAAATAATTAC
Found at i:46980826 original size:14 final size:14
Alignment explanation
Indices: 46980803--46980840 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
46980793 TTTCCTGAAT
46980803 CTGT-TTTGGGCCA
1 CTGTATTTGGGCCA
*
46980816 CTGTATTTGGGCCT
1 CTGTATTTGGGCCA
46980830 CTGTAGTTTGG
1 CTGTA-TTTGG
46980841 TTTATTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 5 0.23
ACGTcount: A:0.08, C:0.18, G:0.32, T:0.42
Consensus pattern (14 bp):
CTGTATTTGGGCCA
Found at i:46989680 original size:23 final size:25
Alignment explanation
Indices: 46989618--46989681 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
46989608 CTGAACACTT
*
46989618 TTAAAATACCCTAACCCATAAAAATC
1 TTAAAA-ACCCTAACCCATAAAAATA
**
46989644 TTAAAAACTTTAACCC-TAAAAA-A
1 TTAAAAACCCTAACCCATAAAAATA
*
46989667 TTAAAAGCCCTAACC
1 TTAAAAACCCTAACC
46989682 TTGGAGAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 12 0.38
24 6 0.19
25 8 0.25
26 6 0.19
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (25 bp):
TTAAAAACCCTAACCCATAAAAATA
Found at i:46990091 original size:61 final size:61
Alignment explanation
Indices: 46990026--46990145 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
46990016 ATATAAAAAA
* * * * *
46990026 TTCAACAAATTTAGCCTTCAATATTTACAAAAT-TTGACATTTTAGTTCTAATTCTAAAATT
1 TTCAACAAATTTAGCCCTCAACATTTACAAAATCTT-ACAATTTAGTCCTAACTCTAAAATT
* * *
46990087 TTCAATAAATTTGGCCCTCAACATTTACAAAATCTTTCAATTTAGTCCTAACTCTAAAA
1 TTCAACAAATTTAGCCCTCAACATTTACAAAATCTTACAATTTAGTCCTAACTCTAAAA
46990146 AATAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (61 bp):
TTCAACAAATTTAGCCCTCAACATTTACAAAATCTTACAATTTAGTCCTAACTCTAAAATT
Found at i:46995365 original size:45 final size:46
Alignment explanation
Indices: 46995294--46995408 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
46995284 ACGTATGATG
* *
46995294 ACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
46995337 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
46995383 ACTTATCACTTTGTCACTTGATCAGA
1 ACTTATCACTTTGTCACTTGATCAGA
46995409 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 9 0.13
44 5 0.07
45 20 0.30
46 33 0.49
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
Found at i:46997749 original size:34 final size:34
Alignment explanation
Indices: 46997704--46997802 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
46997694 TTTTAAAAAA
* * *
46997704 TAAACCCTAATTTAATAAATTTTATTAAAAACTC
1 TAAAACCTAATTTAATTAATTTTATTAAAAACCC
* * * *
46997738 TAAATCCTAATTTAGTTTA-TTTATTTAAAACCCC
1 TAAAACCTAATTTAATTAATTTTA-TTAAAAACCC
*
46997772 TAAAACCTAATTTAATTAATTTTTTTAAAAA
1 TAAAACCTAATTTAATTAATTTTATTAAAAA
46997803 AAATAAACCC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
33 4 0.08
34 45 0.87
35 3 0.06
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (34 bp):
TAAAACCTAATTTAATTAATTTTATTAAAAACCC
Found at i:46997819 original size:34 final size:34
Alignment explanation
Indices: 46997698--46997819 Score: 109
Period size: 34 Copynumber: 3.6 Consensus size: 34
46997688 AAATATTTTT
* *
46997698 AAAAAATAAACCCTAATTTAATAAATTTTATTAA
1 AAAAAATAAACCCTAATTTAATTAATTTTTTTAA
*** * * * *
46997732 AAACTCTAAATCCTAATTTAGTTTATTTATTTAA
1 AAAAAATAAACCCTAATTTAATTAATTTTTTTAA
**** *
46997766 AACCCCTAAAACCTAATTTAATTAATTTTTTTAA
1 AAAAAATAAACCCTAATTTAATTAATTTTTTTAA
*
46997800 AAAAAATAAACCCTGATTTA
1 AAAAAATAAACCCTAATTTA
46997820 TTTTTAAAAA
Statistics
Matches: 67, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (34 bp):
AAAAAATAAACCCTAATTTAATTAATTTTTTTAA
Found at i:47001411 original size:30 final size:32
Alignment explanation
Indices: 47001372--47001431 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
47001362 AGAGGTGGGA
*
47001372 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAAAG
*
47001403 TGGG-AGGGAGTAAAAATTTTGAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
47001432 GAATAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAAG
Found at i:47004469 original size:18 final size:18
Alignment explanation
Indices: 47004446--47004482 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47004436 AGCACAATTT
47004446 AGTAAAATCATACTCAAA
1 AGTAAAATCATACTCAAA
47004464 AGTAAAATCATACTCAAA
1 AGTAAAATCATACTCAAA
47004482 A
1 A
47004483 TATATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.16, G:0.05, T:0.22
Consensus pattern (18 bp):
AGTAAAATCATACTCAAA
Found at i:47025017 original size:52 final size:52
Alignment explanation
Indices: 47024938--47025070 Score: 230
Period size: 52 Copynumber: 2.6 Consensus size: 52
47024928 AGTTATAAAT
* * *
47024938 TTTATAACAGTATATTAAAACAATATATTACATTAATAATTAAGGTGTAGTA
1 TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
*
47024990 TTTATAATAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
1 TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
47025042 TTTATAACAGTATATTAAAACAGTATATT
1 TTTATAACAGTATATTAAAACAGTATATT
47025071 TATAACAGTT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (52 bp):
TTTATAACAGTATATTAAAACAGTATATTACATTAAAAATTAAGGTGCAGTA
Found at i:47025065 original size:13 final size:13
Alignment explanation
Indices: 47025037--47025185 Score: 166
Period size: 13 Copynumber: 11.8 Consensus size: 13
47025027 AATTAAGGTG
*
47025037 CAGTAT-TTATAA
1 CAGTATATTAAAA
47025049 CAGTATATTAAAA
1 CAGTATATTAAAA
*
47025062 CAGTATATTTATAA
1 CAGTATA-TTAAAA
47025076 CAGT-TATTAAAA
1 CAGTATATTAAAA
*
47025088 CATTATATTAAAA
1 CAGTATATTAAAA
*
47025101 CAGTATATTTATAA
1 CAGTATA-TTAAAA
47025115 CAGTATATTAAAA
1 CAGTATATTAAAA
47025128 CAGTATATTAAAA
1 CAGTATATTAAAA
* *
47025141 CAATATATTACAA
1 CAGTATATTAAAA
*
47025154 -A-T-T-TTATAA
1 CAGTATATTAAAA
47025163 CAGTATATTAAAA
1 CAGTATATTAAAA
*
47025176 CAATATATTA
1 CAGTATATTA
47025186 CATTAAAAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
9 5 0.04
10 2 0.02
11 2 0.02
12 16 0.14
13 71 0.61
14 21 0.18
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (13 bp):
CAGTATATTAAAA
Found at i:47025095 original size:39 final size:39
Alignment explanation
Indices: 47025047--47025184 Score: 194
Period size: 39 Copynumber: 3.6 Consensus size: 39
47025037 CAGTATTTAT
*
47025047 AACAGTATATTAAAACAGTATATTTATAACAGTTATTAA
1 AACAGTATATTAAAACAATATATTTATAACAGTTATTAA
* *
47025086 AACATTATATTAAAACAGTATATTTATAACAGTATATTAA
1 AACAGTATATTAAAACAATATATTTATAACAGT-TATTAA
* *
47025126 AACAGTATATTAAAACAATATA-TTACAA-A-TT-TTAT
1 AACAGTATATTAAAACAATATATTTATAACAGTTATTAA
47025161 AACAGTATATTAAAACAATATATT
1 AACAGTATATTAAAACAATATATT
47025185 ACATTAAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
35 25 0.27
36 2 0.02
37 1 0.01
38 1 0.01
39 37 0.40
40 26 0.28
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (39 bp):
AACAGTATATTAAAACAATATATTTATAACAGTTATTAA
Found at i:47026037 original size:23 final size:25
Alignment explanation
Indices: 47025985--47026043 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
47025975 CCTAAAACAA
*
47025985 TTTTTATTTAATATAATAATTTGGT
1 TTTTTATTTAATATAATAAATTGGT
*
47026010 ATTTTATTTAATA-AA-AAGATT-GT
1 TTTTTATTTAATATAATAA-ATTGGT
*
47026033 TTTTTAATTAA
1 TTTTTATTTAA
47026044 AATTGATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 13 0.45
24 4 0.14
25 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (25 bp):
TTTTTATTTAATATAATAAATTGGT
Found at i:47026612 original size:28 final size:28
Alignment explanation
Indices: 47026568--47026650 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
47026558 TGCAAAGAAT
*
47026568 AATATGTAAACACAATCAAAATCCCTCC
1 AATATGTAAACACAATCAAAATCCCCCC
*
47026596 AATATGTAAACATAATCAAAATCCCCCC
1 AATATGTAAACACAATCAAAATCCCCCC
*
47026624 GATATGTAAACACAATCAAAATCCCCC
1 AATATGTAAACACAATCAAAATCCCCC
47026651 TGAAGATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.46, C:0.29, G:0.05, T:0.20
Consensus pattern (28 bp):
AATATGTAAACACAATCAAAATCCCCCC
Found at i:47028942 original size:12 final size:12
Alignment explanation
Indices: 47028925--47028950 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47028915 AAAATATGCA
47028925 AAATAACACAAT
1 AAATAACACAAT
47028937 AAATAACACAAT
1 AAATAACACAAT
47028949 AA
1 AA
47028951 TTTTAACGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAACACAAT
Found at i:47030770 original size:3 final size:3
Alignment explanation
Indices: 47030762--47030788 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47030752 ATCCTCGGAG
47030762 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
47030789 TTGAATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47039593 original size:15 final size:15
Alignment explanation
Indices: 47039573--47039624 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
47039563 ATACAATATT
47039573 AATATTTTAATAATA
1 AATATTTTAATAATA
*
47039588 AATATTTCTTACAATTATA
1 AATA-TT-TT--AATAATA
*
47039607 AATATATTAATAATA
1 AATATTTTAATAATA
47039622 AAT
1 AAT
47039625 GCTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:47052332 original size:22 final size:21
Alignment explanation
Indices: 47052302--47052359 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
47052292 GAATGGTATC
47052302 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
47052323 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
47052346 TACATATCAAATCT
1 TACAAATCAAATCT
47052360 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:47057477 original size:22 final size:21
Alignment explanation
Indices: 47057447--47057504 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
47057437 GAATGGTATC
47057447 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
47057468 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
47057491 TACATATCAAATCT
1 TACAAATCAAATCT
47057505 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:47059518 original size:135 final size:135
Alignment explanation
Indices: 47059276--47059547 Score: 499
Period size: 135 Copynumber: 2.0 Consensus size: 135
47059266 GTCGAGGGTG
*
47059276 GTCACAACTGAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
1 GTCACAACCGAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
47059341 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
66 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
47059406 TCTAT
131 TCTAT
* * *
47059411 GTCACAACCGAATTTTTATTTAGATGATCTTTTGCTCATTTGATAATAAATAAGTGTCAAGTATA
1 GTCACAACCGAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
*
47059476 GTGGTTGAGTAGTGGTGGAGATGTCCTTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
66 GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
47059541 TCTAT
131 TCTAT
47059546 GT
1 GT
47059548 GGTGCAATTT
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (135 bp):
GTCACAACCGAATTTTTATTTAGATAATCTTTTACTCATTTGATAATAAATAAGTATCAAGTATA
GTGGTTGAGTAGTGGTGGAGATGTCATTGATGACCTATTTTCGAATCCCTTCCTTCACATTATTT
TCTAT
Found at i:47066975 original size:41 final size:41
Alignment explanation
Indices: 47066916--47067064 Score: 253
Period size: 41 Copynumber: 3.6 Consensus size: 41
47066906 TTTAACATAT
* * *
47066916 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
47066957 TTACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
47066998 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
47067039 TCACCGGCACTTAGCCTGCTAGGTTT
1 TCACCGGCACTTAGCCTGCTAGGTTT
47067065 TAAACATGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:47076042 original size:19 final size:21
Alignment explanation
Indices: 47076004--47076043 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
47075994 ATTCTAAAAT
47076004 TTAAAAATAATATATAAAAGA
1 TTAAAAATAATATATAAAAGA
47076025 TTAAAAA-AATAT-TAAAAGA
1 TTAAAAATAATATATAAAAGA
47076044 CAAACTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
TTAAAAATAATATATAAAAGA
Found at i:47076104 original size:22 final size:21
Alignment explanation
Indices: 47076078--47076125 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
47076068 TATAAATGTA
*
47076078 AAAAAATTA-AATATATATTTT
1 AAAAAATTACAATA-AAATTTT
47076099 AGAAAAATTACAATAAAATTTT
1 A-AAAAATTACAATAAAATTTT
47076121 AAAAA
1 AAAAA
47076126 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 15 0.62
23 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAATTACAATAAAATTTT
Found at i:47077670 original size:18 final size:18
Alignment explanation
Indices: 47077647--47077681 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47077637 TATTCTACAA
47077647 AATTTTCATAA-TTAATTC
1 AATTTTCA-AATTTAATTC
47077665 AATTTTCAAATTTAATT
1 AATTTTCAAATTTAATT
47077682 TATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTTCAAATTTAATTC
Found at i:47079237 original size:22 final size:22
Alignment explanation
Indices: 47079212--47079258 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
47079202 GAGCCGTGGA
*
47079212 GGACCGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGCGCC
**
47079234 GGACTTGAGGTGGATCGGCGCC
1 GGACCGGAGGTGGATCGGCGCC
47079256 GGA
1 GGA
47079259 GGTGGAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.21, G:0.49, T:0.15
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGCGCC
Found at i:47089404 original size:29 final size:29
Alignment explanation
Indices: 47089337--47089407 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
47089327 GGGTTTACGG
*
47089337 TTAGGGTTTTTGAAAAAATAAATTAGGGT
1 TTAGGGTTTTTTAAAAAATAAATTAGGGT
*
47089366 TTATGGTTTTTT-AAAAATAAATTAGGGT
1 TTAGGGTTTTTTAAAAAATAAATTAGGGT
47089394 TTAGGGTTTTTTAA
1 TTAGGGTTTTTTAA
47089408 TTGGTAAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 27 0.71
29 11 0.29
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTTTTAAAAAATAAATTAGGGT
Found at i:47089848 original size:25 final size:25
Alignment explanation
Indices: 47089815--47089880 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
47089805 TTGCAGTTAG
* *
47089815 AGAATTTGAATAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTCAAAAGAAT
47089840 AGAAATTGAAGAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTCAAAAGAAT
47089865 AGAAATTGAAGAAGTT
1 AGAAATTGAAGAAGTT
47089881 GAGAAGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAAAAGAAT
Found at i:47092886 original size:59 final size:59
Alignment explanation
Indices: 47092794--47092964 Score: 193
Period size: 59 Copynumber: 2.9 Consensus size: 59
47092784 GAAATAGTTC
* **** * *
47092794 CTATTTTATTAAATAAAACTATGA-AAAAATAATTTGTATC-GTTTTATTCAAAAGAATTT
1 CTATTTTATTAAATAAAACAAT-ATAAAAATAATTTGTA-CAAAAATATTCAAAACAACTT
* *
47092853 CTATTTTATTAAATGACACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
1 CTATTTTATTAAATAAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
* * * *
47092912 CTATTTTATTAAATAAAATAATATAAAAACAATTTGTACAAATATATTAAAAA
1 CTATTTTATTAAATAAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
47092965 AATCAATGCA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.02
59 93 0.98
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.37
Consensus pattern (59 bp):
CTATTTTATTAAATAAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTT
Found at i:47093853 original size:12 final size:12
Alignment explanation
Indices: 47093833--47093865 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
47093823 TTTGGTGTCC
*
47093833 ATTGAAACTATA
1 ATTGTAACTATA
47093845 ATTGTAACTATA
1 ATTGTAACTATA
47093857 ATTGTAACT
1 ATTGTAACT
47093866 GCACGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (12 bp):
ATTGTAACTATA
Found at i:47102884 original size:2 final size:2
Alignment explanation
Indices: 47102877--47102906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47102867 TTTCCATTTA
47102877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47102907 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47114609 original size:2 final size:2
Alignment explanation
Indices: 47114602--47114630 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47114592 TCTAAATTGA
47114602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47114631 CATTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47125032 original size:2 final size:2
Alignment explanation
Indices: 47125025--47125055 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
47125015 CCGCATGATA
*
47125025 TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
47125056 TAAGTTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:47128838 original size:4 final size:4
Alignment explanation
Indices: 47128829--47128861 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
47128819 TAACGAACAC
47128829 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
47128862 ACAACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:47129223 original size:21 final size:21
Alignment explanation
Indices: 47129198--47129238 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47129188 AAGTATGCAT
*
47129198 ATATATAACAAAATCTAAAAA
1 ATATATAACAAAACCTAAAAA
*
47129219 ATATATAACGAAACCTAAAA
1 ATATATAACAAAACCTAAAA
47129239 CACGGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (21 bp):
ATATATAACAAAACCTAAAAA
Found at i:47134400 original size:22 final size:22
Alignment explanation
Indices: 47134348--47134401 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
47134338 TCCAAACAAT
* * *
47134348 AACAACAAAATAGTAGTAATAT
1 AACAACGAAATAGTAGTAAAAC
* * *
47134370 AATAGCGAAATGGTAGTAAAAC
1 AACAACGAAATAGTAGTAAAAC
47134392 AACAACGAAA
1 AACAACGAAA
47134402 CAGTTGATTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (22 bp):
AACAACGAAATAGTAGTAAAAC
Found at i:47138217 original size:21 final size:21
Alignment explanation
Indices: 47138191--47138244 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
47138181 ACAGCGGTGA
*
47138191 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
47138212 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
47138233 CGGTGAGATTAG
1 CGGTGAGATTAG
47138245 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:47138365 original size:16 final size:16
Alignment explanation
Indices: 47138330--47138382 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
47138320 GACATCATAT
47138330 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
47138346 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
47138362 TAGAATTGATATATAA
1 TAGAATTGATATATAA
47138378 TAGAA
1 TAGAA
47138383 GTTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (16 bp):
TAGAATTGATATATAA
Found at i:47138365 original size:32 final size:32
Alignment explanation
Indices: 47138324--47138388 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
47138314 ATTAAGGACA
47138324 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
47138356 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
47138388 T
1 T
47138389 TAAATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TCATATTAGAATTGATATATAATAGAAGTTAT
Found at i:47138588 original size:22 final size:22
Alignment explanation
Indices: 47138537--47138588 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
47138527 TTTTATAGTT
*
47138537 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
47138560 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
47138582 ATAATAA
1 ATAATAA
47138589 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:47139245 original size:29 final size:29
Alignment explanation
Indices: 47139187--47139431 Score: 400
Period size: 29 Copynumber: 8.2 Consensus size: 29
47139177 GAATAAACCG
*
47139187 AATACAGTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
47139217 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
47139246 AATACAGTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
47139275 AATACACTAAATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
47139304 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
47139333 AATACACTACATATATATTTTTTTATTTTTAA
1 AATACACTAC--ATATA-TTTTTTATTTTTAA
47139365 AATACACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAA
*
47139395 AATACATTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
47139425 AATACAC
1 AATACAC
47139432 AAATACAATG
Statistics
Matches: 203, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
29 110 0.54
30 61 0.30
31 8 0.04
32 24 0.12
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:47139488 original size:17 final size:17
Alignment explanation
Indices: 47139463--47139501 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
47139453 TTCCCATCTT
* *
47139463 CCCTTTTCCATCGATTC
1 CCCTCTTCCACCGATTC
47139480 CCCTCTTCCACCGATTC
1 CCCTCTTCCACCGATTC
47139497 CCCTC
1 CCCTC
47139502 CTCCCATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.51, G:0.05, T:0.33
Consensus pattern (17 bp):
CCCTCTTCCACCGATTC
Found at i:47139515 original size:7 final size:7
Alignment explanation
Indices: 47139503--47139536 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
47139493 ATTCCCCTCC
47139503 TCCCATT
1 TCCCATT
47139510 TCCCA-T
1 TCCCATT
47139516 TCCCATT
1 TCCCATT
47139523 TCCCA-T
1 TCCCATT
47139529 TCCCATT
1 TCCCATT
47139536 T
1 T
47139537 ACGGTTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (7 bp):
TCCCATT
Found at i:47139521 original size:13 final size:13
Alignment explanation
Indices: 47139503--47139536 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
47139493 ATTCCCCTCC
47139503 TCCCATTTCCCAT
1 TCCCATTTCCCAT
47139516 TCCCATTTCCCAT
1 TCCCATTTCCCAT
47139529 TCCCATTT
1 TCCCATTT
47139537 ACGGTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:47140643 original size:29 final size:28
Alignment explanation
Indices: 47140593--47140655 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
47140583 CAAAGCCAAA
47140593 TATATTATGTTATAAAAAAATTATATTAAT
1 TATA-TATGTTATAAAAAAATTATA-TAAT
* *
47140623 TATATATGTTA-AATAATAATTATATATT
1 TATATATGTTATAA-AAAAATTATATAAT
47140651 TATAT
1 TATAT
47140656 TTATATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.33
29 16 0.53
30 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TATATATGTTATAAAAAAATTATATAAT
Found at i:47142203 original size:15 final size:14
Alignment explanation
Indices: 47142176--47142206 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
47142166 AAAATTTCAT
47142176 TTATGTTTATATTA
1 TTATGTTTATATTA
47142190 TTATGTTATATATTA
1 TTATGTT-TATATTA
47142205 TT
1 TT
47142207 TCAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTATGTTTATATTA
Found at i:47144034 original size:20 final size:20
Alignment explanation
Indices: 47143996--47144032 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
47143986 AAGCTCCATT
47143996 TTTTTTTAAAATTTATTTAA
1 TTTTTTTAAAATTTATTTAA
*
47144016 TTTTTTT-AGATTTATTT
1 TTTTTTTAAAATTTATTT
47144033 TAGGGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTTTAAAATTTATTTAA
Found at i:47157127 original size:26 final size:28
Alignment explanation
Indices: 47157096--47157153 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
47157086 TATTGTAAAC
**
47157096 AAAGGAAAGGAAGTG-GCAAAGGG-GTG
1 AAAGGAAAAAAAGTGAGCAAAGGGAGTG
47157122 AAAGGAAAAAAAGTGAAGCAAAGGGAGTG
1 AAAGGAAAAAAAGTG-AGCAAAGGGAGTG
47157151 AAA
1 AAA
47157154 TCTACCCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
28 8 0.30
29 6 0.22
ACGTcount: A:0.52, C:0.03, G:0.38, T:0.07
Consensus pattern (28 bp):
AAAGGAAAAAAAGTGAGCAAAGGGAGTG
Found at i:47157869 original size:21 final size:22
Alignment explanation
Indices: 47157845--47157899 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
47157835 TCCATCTATC
47157845 GTGCTCATGTT-TAGCACTTAT
1 GTGCTCATGTTCTAGCACTTAT
*
47157866 GTGCTCGAAT-TTCTAGCACTTTT
1 GTGCTC--ATGTTCTAGCACTTAT
*
47157889 GTGTTCATGTT
1 GTGCTCATGTT
47157900 GTTCTGCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 8 0.29
22 4 0.14
23 16 0.57
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.45
Consensus pattern (22 bp):
GTGCTCATGTTCTAGCACTTAT
Found at i:47157981 original size:16 final size:16
Alignment explanation
Indices: 47157962--47158000 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47157952 AAAGGTTAAT
47157962 TGAAGAAAGTGCTAAG
1 TGAAGAAAGTGCTAAG
* *
47157978 TGAAGTAAGTGTTAAG
1 TGAAGAAAGTGCTAAG
47157994 TGAAGAA
1 TGAAGAA
47158001 TTTATACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.23
Consensus pattern (16 bp):
TGAAGAAAGTGCTAAG
Found at i:47158213 original size:15 final size:15
Alignment explanation
Indices: 47158193--47158222 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47158183 TGTAGATTGC
47158193 ACAAAGTGATCGAGT
1 ACAAAGTGATCGAGT
*
47158208 ACAAAGTGTTCGAGT
1 ACAAAGTGATCGAGT
47158223 GTGGTTTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
ACAAAGTGATCGAGT
Found at i:47161017 original size:114 final size:114
Alignment explanation
Indices: 47160879--47161472 Score: 931
Period size: 114 Copynumber: 5.2 Consensus size: 114
47160869 GTTTACTCTC
* *
47160879 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGCATATTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
47160944 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGTGGCGCTTTGTGAA
66 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
* * * *
47160993 AAGCGTCGCAAAATATCTTAACCAAAATGCAGCGTTTAGTTTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
47161058 GCTTAAGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTTG-A
66 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTG-TGAA
* * *
47161107 AATCGCCGCAAAATATCTTAACCAAAATGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
47161172 GCTTATGGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTTTTGTGGA
66 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
* ** * * *
47161221 AATCGTTGCAAAATATCTTAACCAAAACGTAGCATTTGGTCTTGAGATATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
47161286 GCTTA-AGGAGAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
66 GCTTATGGGA-AAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
* *
47161335 AAGTGCCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
47161400 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
66 GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
*
47161449 AAGCGCCGTAAAATATCTTAACCA
1 AAGCGCCGCAAAATATCTTAACCA
47161473 TGCATTATAT
Statistics
Matches: 440, Mismatches: 36, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
113 4 0.01
114 431 0.98
115 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGGGAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTGAA
Found at i:47162754 original size:82 final size:82
Alignment explanation
Indices: 47162600--47162842 Score: 294
Period size: 83 Copynumber: 2.9 Consensus size: 82
47162590 TAATAGTAAT
* * * * *
47162600 AAAAATTTGATAGTGGCATTTTTAGGGGAAAA-GCCGCAATGATTGATTAACTTTTCCCAA-AGC
1 AAAAATTTAATAGTGGCGTTTTTA-AGGAAAACGCCGCAATGATTAATTAA-ATTTCCCAATA-C
*
47162663 GGCGCCGTTTCAGTGTTGGA
63 GGCGCCGTTTCAGTATTGGA
*
47162683 AAAAATTTTATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
1 AAAAATTTAATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
*
47162748 GCCGTTTCTGTATTGGA
66 GCCGTTTCAGTATTGGA
*
47162765 AAATAATTGAATAGTGGCGTTTTTTAA-GAAAACGCCGCAATGATTTATATATAAACTTTCCCAA
1 AAA-AATTTAATAGTGGCG-TTTTTAAGGAAAACGCCGCAATGA-TTA-AT-TAAA-TTTCCCAA
*
47162829 TGCGGCGCCGTTTC
60 TACGGCGCCGTTTC
47162843 TGAACTTCAT
Statistics
Matches: 142, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
82 36 0.25
83 69 0.49
84 10 0.07
85 2 0.01
86 4 0.03
87 21 0.15
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (82 bp):
AAAAATTTAATAGTGGCGTTTTTAAGGAAAACGCCGCAATGATTAATTAAATTTCCCAATACGGC
GCCGTTTCAGTATTGGA
Found at i:47164311 original size:22 final size:23
Alignment explanation
Indices: 47164283--47164331 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
47164273 GGGTAGTTAC
* *
47164283 TTAACGTATTGATATA-TATAAT
1 TTAACGTATTAATATATTAAAAT
47164305 TTAACGTATTAATATATTAAAAT
1 TTAACGTATTAATATATTAAAAT
47164328 TTAA
1 TTAA
47164332 TTTAATGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (23 bp):
TTAACGTATTAATATATTAAAAT
Found at i:47164336 original size:20 final size:21
Alignment explanation
Indices: 47164313--47164362 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
47164303 ATTTAACGTA
*
47164313 TTAATATATTAAAATTTA-AT
1 TTAATATATTAAAATGTATAT
* * *
47164333 TTAATGTAGTAATATGTATAT
1 TTAATATATTAAAATGTATAT
47164354 TTAATATAT
1 TTAATATAT
47164363 AAGCTATTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
TTAATATATTAAAATGTATAT
Found at i:47164406 original size:118 final size:118
Alignment explanation
Indices: 47164259--47164613 Score: 572
Period size: 120 Copynumber: 3.0 Consensus size: 118
47164249 AAATGTTCGA
* *
47164259 ATTAGTCTTAATTTGGGTAGTTACTTAACGTATTGATATATATAATTTAACGTATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATAATTTAACGTATTAATATATTA
* * *
47164324 AAATTTAATTTAATGTAGTAATATGTATATTTAATATATAAGCTATTTAATAT
66 AAATTTAATTTAAAGTATTAATATATATATTTAATATATAAGCTATTTAATAT
*
47164377 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATAAATATATATAATTTAACGTATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATAATTTAACGTATTAATATATTA
47164442 AAATTTAATTTAAAGTATTAATATATATATTTTTAATATATAAGCTATTTAATAT
66 AAATTTAATTTAAAGTATTAATATATATA--TTTAATATATAAGCTATTTAATAT
* *
47164497 ATTAGTCTTAATTTCGGTAGTTACTTAATGTATTAATATATATAATTTAACATATTAATATATTA
1 ATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATAATTTAACGTATTAATATATTA
* * *
47164562 AAATTTAATTTAACGTATTAATATATATTTTTAACATATAA--T-TTTAATAT
66 AAATTTAATTTAAAGTATTAATATATATATTTAATATATAAGCTATTTAATAT
47164612 AT
1 AT
47164614 AAGCTATCTA
Statistics
Matches: 223, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
115 10 0.04
116 1 0.00
118 99 0.44
120 113 0.51
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (118 bp):
ATTAGTCTTAATTTCGGTAGTTACTTAACGTATTAATATATATAATTTAACGTATTAATATATTA
AAATTTAATTTAAAGTATTAATATATATATTTAATATATAAGCTATTTAATAT
Found at i:47164429 original size:22 final size:23
Alignment explanation
Indices: 47164401--47164449 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
47164391 CGGTAGTTAC
*
47164401 TTAACGTATAAATATA-TATAAT
1 TTAACGTATAAATATATTAAAAT
*
47164423 TTAACGTATTAATATATTAAAAT
1 TTAACGTATAAATATATTAAAAT
47164446 TTAA
1 TTAA
47164450 TTTAAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAACGTATAAATATATTAAAAT
Found at i:47164451 original size:28 final size:28
Alignment explanation
Indices: 47164419--47164587 Score: 114
Period size: 28 Copynumber: 5.8 Consensus size: 28
47164409 TAAATATATA
47164419 TAATTTAACGTATTAATATATTAAAATT
1 TAATTTAACGTATTAATATATTAAAATT
* **
47164447 TAATTTAAAGTATTAATATA-TATATTTT
1 TAATTTAACGTATTAATATATTA-AAATT
*
47164475 TAATATATAA-GCTATTTAATATATT--AGTCT
1 TAAT-T-TAACG-TA-TTAATATATTAAAAT-T
* * *
47164505 TAATTTCGGTA-GTTACTTAATGTATTAATATATA
1 TAATTT---AACG-TA-TTAATATATTAA-A-ATT
*
47164539 TAATTTAACATATTAATATATTAAAATT
1 TAATTTAACGTATTAATATATTAAAATT
47164567 TAATTTAACGTATTAATATAT
1 TAATTTAACGTATTAATATAT
47164588 ATTTTTAACA
Statistics
Matches: 110, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.02
28 49 0.45
29 5 0.05
30 21 0.19
31 24 0.22
32 1 0.01
34 7 0.06
35 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (28 bp):
TAATTTAACGTATTAATATATTAAAATT
Found at i:47164595 original size:13 final size:13
Alignment explanation
Indices: 47164579--47164615 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
47164569 ATTTAACGTA
*
47164579 TTAATATATATTT
1 TTAATATATAATT
*
47164592 TTAACATATAATT
1 TTAATATATAATT
47164605 TTAATATATAA
1 TTAATATATAA
47164616 GCTATCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:47164613 original size:131 final size:131
Alignment explanation
Indices: 47164466--47164882 Score: 599
Period size: 131 Copynumber: 3.2 Consensus size: 131
47164456 GTATTAATAT
*
47164466 ATATATTTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAATGTATT
1 ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAATGTATT
*
47164531 AATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
66 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
47164596 C
131 C
* * * *
47164597 ATATAATTTTAATATATAAGCTATCTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATA
1 ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAATGTATT
47164662 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTA-T--TA-ATA----T--
66 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
47164717 -
131 C
*
47164717 ATAT--TTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTTGGTAGTTACTTAACGTATT
1 ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTT-A---A-T
*
47164780 AATATATATATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATAT
61 -GTAT-TA-ATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATAT
47164845 ATTTTTAAC
123 ATTTTTAAC
47164854 ATATAATTTTAATATATAAGCTATTTAAT
1 ATATAATTTTAATATATAAGCTATTTAAT
47164883 CTGTGCCATA
Statistics
Matches: 253, Mismatches: 12, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
118 48 0.19
119 1 0.00
120 4 0.02
122 1 0.00
123 1 0.00
124 3 0.01
125 1 0.00
126 47 0.19
127 4 0.02
128 2 0.01
129 2 0.01
130 4 0.02
131 107 0.42
134 1 0.00
137 4 0.02
139 23 0.09
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (131 bp):
ATATAATTTTAATATATAAGCTATTTAATATATTAGTCTTAATTTCGGTAGTTACTTAATGTATT
AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
C
Found at i:47164680 original size:22 final size:23
Alignment explanation
Indices: 47164652--47164700 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
47164642 CGATAGTTAC
*
47164652 TTAACGTATAAATATA-TATAAT
1 TTAACGTATAAATATATTAAAAT
*
47164674 TTAACGTATTAATATATTAAAAT
1 TTAACGTATAAATATATTAAAAT
47164697 TTAA
1 TTAA
47164701 TTTAACGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAACGTATAAATATATTAAAAT
Found at i:47164701 original size:118 final size:121
Alignment explanation
Indices: 47164259--47164859 Score: 670
Period size: 118 Copynumber: 4.9 Consensus size: 121
47164249 AAATGTTCGA
* * *
47164259 ATTAGTCTTAATTTGGGTAGTTACTTAACG-TAT-T-GATATATATAATTTAACGTATTAATATA
1 ATTAGTCTTAATTTCGATAGTTACTTAACGATATATATATATATATAATTTAACGTATTAATATA
* * * * * *
47164321 TTAAAATTTAATTTAATGTAGTAATATGT-ATATTTAATATATAAGCTATTTAATAT
66 TTAAAATTTAATATAACGTATTAACATATAAT-TTTAATATATAAGCTATCTAATAT
*
47164377 ATTAGTCTTAATTTCGGTAGTTACTTAACG-TATA-A-ATATATATAATTTAACGTATTAATATA
1 ATTAGTCTTAATTTCGATAGTTACTTAACGATATATATATATATATAATTTAACGTATTAATATA
* * * *
47164439 TTAAAATTTAATTTAAAGTATTAATATATATATTTTTAATATATAAGCTATTTAATAT
66 TTAAAATTTAATATAACGTATTAACATATA-A-TTTTAATATATAAGCTATCTAATAT
* * *
47164497 ATTAGTCTTAATTTCGGTAGTTACTTAATG-TAT-TA-ATATATATAATTTAACATATTAATATA
1 ATTAGTCTTAATTTCGATAGTTACTTAACGATATATATATATATATAATTTAACGTATTAATATA
*
47164559 TTAAAATTTAATTTAACGTATTAATATATATTTTTAACATATAATTTTAATATATAAGCTATCTA
66 TTAAAATTTAATATAACG----------TA---TTAACATATAATTTTAATATATAAGCTATCTA
47164624 ATAT
118 ATAT
47164628 ATTAGTCTTAATTTCGATAGTTACTTAACG-TATA-A-ATATATATAATTTAACGTATTAATATA
1 ATTAGTCTTAATTTCGATAGTTACTTAACGATATATATATATATATAATTTAACGTATTAATATA
* * * *
47164690 TTAAAATTTAATTTAACGTATTAATATATATTTTTAATATATAAGCTATTTAATAT
66 TTAAAATTTAATATAACGTATTAACATATAATTTTAATATATAAGCTATCTAATAT
* *
47164746 ATTAGTCTTAATTTTGGTAGTTACTTAACGTATTAATATATATATATATATAATTTAACGTATTA
1 ATTAGTCTTAATTTCGATAGTTACTTAACG-----ATATATATATATATATAATTTAACGTATTA
* * * *
47164811 ATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAACATATAA
61 ATATATTAAAATTTAATATAACGTATTAACATATAATTTTAATATATAA
47164860 TTTTAATATA
Statistics
Matches: 437, Mismatches: 18, Indels: 48
0.87 0.04 0.10
Matches are distributed among these distances:
118 146 0.33
120 101 0.23
121 3 0.01
124 4 0.01
125 1 0.00
126 70 0.16
130 2 0.00
131 100 0.23
132 1 0.00
133 9 0.02
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (121 bp):
ATTAGTCTTAATTTCGATAGTTACTTAACGATATATATATATATATAATTTAACGTATTAATATA
TTAAAATTTAATATAACGTATTAACATATAATTTTAATATATAAGCTATCTAATAT
Found at i:47164787 original size:57 final size:57
Alignment explanation
Indices: 47164608--47164789 Score: 140
Period size: 57 Copynumber: 3.1 Consensus size: 57
47164598 TATAATTTTA
* * * *
47164608 ATATATAAGCTATCTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATAAAT
1 ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAAT
** * * * **
47164665 ATATATAATTTAACGTATTAATATATTAAAAT-TTAATTTAACGTA-TTA-ATATA--TATTTTT
1 ATATATAAGCT-A--T-TTAATATATT--AGTCTTAATTT-AGGTAGTTACTTA-ACGTATTAAT
*
47164725 AATATATAAGCTATTTAATATATTAGTCTTAATTTTGGTAGTTACTTAACGTATTAAT
1 -ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAAT
47164783 ATATATA
1 ATATATA
47164790 TATATATAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
55 5 0.05
56 11 0.12
57 28 0.30
58 7 0.08
60 6 0.07
61 20 0.22
62 11 0.12
63 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (57 bp):
ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAAT
Found at i:47164791 original size:61 final size:61
Alignment explanation
Indices: 47164608--47164793 Score: 158
Period size: 61 Copynumber: 3.1 Consensus size: 61
47164598 TATAATTTTA
* * * *
47164608 ATATATAAGCTATCTAATATATTAGTCTTAATTTCGATAGTTACTTAACGTATAAATATAT
1 ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAATATAT
* * * * *
47164669 ATAATTTAA-CGTA-TTAATATATTAAAAT-TTAATTTAACGTA-TTA-ATATA--TATT--TTT
1 AT-ATATAAGC-TATTTAATATATT--AGTCTTAATTT-AGGTAGTTACTTA-ACGTATTAATAT
47164725 A-
60 AT
*
47164726 ATATATAAGCTATTTAATATATTAGTCTTAATTTTGGTAGTTACTTAACGTATTAATATAT
1 ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAATATAT
47164787 ATATATA
1 ATATATA
47164794 TATAATTTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
55 5 0.05
56 18 0.19
57 15 0.16
58 7 0.07
60 6 0.06
61 21 0.22
62 18 0.19
63 4 0.04
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (61 bp):
ATATATAAGCTATTTAATATATTAGTCTTAATTTAGGTAGTTACTTAACGTATTAATATAT
Found at i:47164827 original size:28 final size:30
Alignment explanation
Indices: 47164770--47164846 Score: 122
Period size: 28 Copynumber: 2.6 Consensus size: 30
47164760 TGGTAGTTAC
*
47164770 TTAACGTATTAATATATATATATATATAAT
1 TTAACGTATTAATATATATATAAATATAAT
*
47164800 TTAACGTATTAATATAT-TA-AAATTTAAT
1 TTAACGTATTAATATATATATAAATATAAT
47164828 TTAACGTATTAATATATAT
1 TTAACGTATTAATATATAT
47164847 TTTTAACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 24 0.55
29 3 0.07
30 17 0.39
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
TTAACGTATTAATATATATATAAATATAAT
Found at i:47164852 original size:13 final size:13
Alignment explanation
Indices: 47164836--47164872 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
47164826 ATTTAACGTA
*
47164836 TTAATATATATTT
1 TTAATATATAATT
*
47164849 TTAACATATAATT
1 TTAATATATAATT
47164862 TTAATATATAA
1 TTAATATATAA
47164873 GCTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:47164936 original size:126 final size:124
Alignment explanation
Indices: 47164531--47164938 Score: 402
Period size: 126 Copynumber: 3.2 Consensus size: 124
47164521 TTAATGTATT
47164531 AATATATATAATTTAACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
1 AATATATATAATTT-ACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
* * ** *
47164596 CATATAATTTTAATATATAAGCTATCTAATATATTAGTCTTAATTTCGAT-AGTTACTTAACGTA
65 CATATAATTTTAATATATAAGCTATTTAAT-T-TT-G-CAT-ATTTAAATAAGTTA-TTAAC-AA
47164660 TA
123 TA
*
47164662 AATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
1 AATATATATAATTT-ACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
* * * * * ** *
47164727 TATATAAGCTATTTAATATATTAG-T-CTTAATTTTG-GTAGTTACTTAACG-TATTAATATATA
65 CATATAA--T-TTTAATATATAAGCTATTTAATTTTGCATATTTAAATAA-GTTATTAACA-ATA
* *
47164788 TATATATATAATTTAACGTATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
1 AATATATATAATTT-ACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAA
* *
47164853 CATATAATTTTAATATATAAGCTATTTAATCTGTGCCATATTTTAAAATAATGTTATTGAA-AAA
65 CATATAATTTTAATATATAAGCTATTTAAT-TTTG-CATA-TTT-AAATAA-GTTATT-AACAAT
47164917 A
124 A
47164918 AAT-TA-ATAATTT-CATATTAAT
1 AATATATATAATTTACATATTAAT
47164939 GTTTCAATTT
Statistics
Matches: 237, Mismatches: 25, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
123 12 0.05
124 2 0.01
125 5 0.02
126 92 0.39
127 4 0.02
128 10 0.04
129 5 0.02
130 11 0.05
131 76 0.32
132 6 0.03
133 2 0.01
134 12 0.05
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (124 bp):
AATATATATAATTTACATATTAATATATTAAAATTTAATTTAACGTATTAATATATATTTTTAAC
ATATAATTTTAATATATAAGCTATTTAATTTTGCATATTTAAATAAGTTATTAACAATA
Found at i:47165728 original size:14 final size:15
Alignment explanation
Indices: 47165698--47165731 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
47165688 CTGTTTAGGG
*
47165698 TTTCATTTCTATCCA
1 TTTCATTGCTATCCA
47165713 TTTCATTGCT-TCCA
1 TTTCATTGCTATCCA
47165727 TTTCA
1 TTTCA
47165732 CTTTTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCATTGCTATCCA
Found at i:47166181 original size:16 final size:16
Alignment explanation
Indices: 47166157--47166192 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47166147 TTTACCTTCT
47166157 TATACATACATATATA
1 TATACATACATATATA
*
47166173 TATATATACATATATA
1 TATACATACATATATA
47166189 TATA
1 TATA
47166193 AGTGATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TATACATACATATATA
Found at i:47166235 original size:31 final size:31
Alignment explanation
Indices: 47166197--47166259 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
47166187 TATATAAGTG
47166197 ATGAAATGAGATAAGATCAAAGTGATACATT
1 ATGAAATGAGATAAGATCAAAGTGATACATT
47166228 ATGAAATGAGATAAGATCAAAGTGATACATT
1 ATGAAATGAGATAAGATCAAAGTGATACATT
47166259 A
1 A
47166260 GTAAAGAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.25
Consensus pattern (31 bp):
ATGAAATGAGATAAGATCAAAGTGATACATT
Found at i:47167500 original size:17 final size:17
Alignment explanation
Indices: 47167480--47167572 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 17
47167470 TTTTTTTCTA
47167480 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
47167497 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
47167511 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * *
47167527 TATTAGTATT-AAAATT
1 TATAAGTTTTCTAAATT
* *
47167543 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
*
47167558 TGTAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
47167573 AAAGTGTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
15 10 0.17
16 15 0.25
17 22 0.37
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:47167508 original size:30 final size:30
Alignment explanation
Indices: 47167473--47167529 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
47167463 TATTGTTTTT
*
47167473 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
*
47167503 TTTTCTAAATAATTTTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
47167530 TAGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:47167523 original size:13 final size:13
Alignment explanation
Indices: 47167473--47167525 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
47167463 TATTGTTTTT
*
47167473 TTTTCTATATAAG
1 TTTTCTAAATAAG
47167486 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
47167503 TTTTCTAAATAAT
1 TTTTCTAAATAAG
47167516 TTTTCTAAAT
1 TTTTCTAAAT
47167526 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:47167543 original size:16 final size:16
Alignment explanation
Indices: 47167522--47167555 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47167512 TAATTTTTCT
47167522 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
47167538 AAATTTATTAGTATTA
1 AAATTTATTAGTATTA
47167554 AA
1 AA
47167556 TTTGTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
AAATTTATTAGTATTA
Done.