Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 109 of 208
Found at i:32999523 original size:61 final size:61
Alignment explanation
Indices: 32999402--32999524 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
32999392 ATCTAATGCT
* *** * * *
32999402 CCAATCAATTCAGCAATATATATTTATATACGAATCAAATTCAACAATGAATATTGATATA
1 CCAAGCAATTCAGCAATATATAACCATATAAGAATCAAATTCAACAATGAATAATCATATA
* *** *
32999463 CCAAGCAATTCGGCAATATATAACCATATAAGAATCAAATTTGGCAATGTATAATCATATA
1 CCAAGCAATTCAGCAATATATAACCATATAAGAATCAAATTCAACAATGAATAATCATATA
32999524 C
1 C
32999525 AAATCAAATT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (61 bp):
CCAAGCAATTCAGCAATATATAACCATATAAGAATCAAATTCAACAATGAATAATCATATA
Found at i:32999598 original size:31 final size:31
Alignment explanation
Indices: 32999563--32999697 Score: 118
Period size: 31 Copynumber: 4.4 Consensus size: 31
32999553 AACAATTTAA
*
32999563 TTTCAACAATGTATAACCATATAAAAATTAT
1 TTTCAGCAATGTATAACCATATAAAAATTAT
** *
32999594 TTTCAGCAATGT-TCAACCATATACGAATCA-
1 TTTCAGCAATGTAT-AACCATATAAAAATTAT
* * *
32999624 TTTCATCAACT-TATATACC-TAT-ATAATTCAA
1 TTTCAGCAA-TGTATA-ACCATATAAAAATT-AT
* *
32999655 TTTCAGCAATGAATAACCATATAAATATTAT
1 TTTCAGCAATGTATAACCATATAAAAATTAT
32999686 TTTCAGCAATGT
1 TTTCAGCAATGT
32999698 TCAGCCATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
29 3 0.04
30 19 0.23
31 55 0.68
32 4 0.05
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (31 bp):
TTTCAGCAATGTATAACCATATAAAAATTAT
Found at i:32999679 original size:92 final size:91
Alignment explanation
Indices: 32999475--32999764 Score: 307
Period size: 92 Copynumber: 3.2 Consensus size: 91
32999465 AAGCAATTCG
* * * * * * * *
32999475 GCAATATATAACCATATAAGAATCAAATTT-GGCAATGTAT-AATCATATACAAATCAAATTCGA
1 GCAATGTATAACCATATAAAAAT-TATTTTCAGCAATGT-TCAACCATATACGAATC-ATTTCGA
* * * * *
32999538 CATCCTATATTCATAAACAATTTAATTTCA
63 CAACTTATA-TAATATACAATTCAATTTCA
*
32999568 ACAATGTATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTC-ATCA
1 GCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCGA-CA
* *
32999632 ACTTATATACCTATATAATTCAATTTCA
65 ACTTATATA-ATATACAATTCAATTTCA
* * * *
32999660 GCAATGAATAACCATATAAATATTATTTTCAGCAATGTTCAGCCATATATGAATCATTTCGACAA
1 GCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCGACAA
* *
32999725 CTTATGTAATATACAATTCAATATCA
66 CTTATATAATATACAATTCAATTTCA
32999751 GCAATGTATAACCA
1 GCAATGTATAACCA
32999765 AAAACAATTC
Statistics
Matches: 166, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
91 30 0.18
92 95 0.57
93 41 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (91 bp):
GCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCGACAA
CTTATATAATATACAATTCAATTTCA
Found at i:33004473 original size:24 final size:24
Alignment explanation
Indices: 33004446--33004494 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
33004436 ATGGCCATGG
33004446 ACTTGTCTTCAGAATGGTCATATC
1 ACTTGTCTTCAGAATGGTCATATC
*
33004470 ACTTGTCTTCAGAATGGTCGTATC
1 ACTTGTCTTCAGAATGGTCATATC
33004494 A
1 A
33004495 TAATTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (24 bp):
ACTTGTCTTCAGAATGGTCATATC
Found at i:33004998 original size:18 final size:18
Alignment explanation
Indices: 33004975--33005014 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
33004965 AATAATATAC
33004975 TAACCAAGTTAGCTATTG
1 TAACCAAGTTAGCTATTG
*
33004993 TAACCAAGTTAGTTATTG
1 TAACCAAGTTAGCTATTG
33005011 TAAC
1 TAAC
33005015 GACCTGGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
TAACCAAGTTAGCTATTG
Found at i:33007524 original size:54 final size:54
Alignment explanation
Indices: 33007403--33007514 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
33007393 ACGACCCAGT
* * *
33007403 GACACGGCCGTGTGACCCACCTCAAACGAGCTTAGCTCTCGCACATGATTAGGG
1 GACACGACCGTGTGACCCACCTCAAACGAGCTTAGCTCTCGCACAAGATCAGGG
* *
33007457 GACACGACCGTGTGACCCACCTCACACGGGCTT-GTCTCTCGCACAAGATCAGGG
1 GACACGACCGTGTGACCCACCTCAAACGAGCTTAG-CTCTCGCACAAGATCAGGG
33007511 GACA
1 GACA
33007515 TGGTTGTGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (54 bp):
GACACGACCGTGTGACCCACCTCAAACGAGCTTAGCTCTCGCACAAGATCAGGG
Found at i:33025437 original size:18 final size:18
Alignment explanation
Indices: 33025414--33025460 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
33025404 CGCCCCATAG
33025414 CCAGATACAAATAGAATA
1 CCAGATACAAATAGAATA
*
33025432 CCAGATA-TAATAGAATA
1 CCAGATACAAATAGAATA
*
33025449 ACAGATAACAAA
1 CCAGAT-ACAAA
33025461 ATGTATATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 14 0.58
18 8 0.33
19 2 0.08
ACGTcount: A:0.57, C:0.15, G:0.11, T:0.17
Consensus pattern (18 bp):
CCAGATACAAATAGAATA
Found at i:33031856 original size:16 final size:17
Alignment explanation
Indices: 33031814--33031849 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33031804 AGAGTAGAGC
*
33031814 AAAAAGTAAAAGAGAAG
1 AAAAAGAAAAAGAGAAG
33031831 AAAAAGAAAAAGA-AAG
1 AAAAAGAAAAAGAGAAG
33031847 AAA
1 AAA
33031850 CATAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGAGAAG
Found at i:33034343 original size:22 final size:22
Alignment explanation
Indices: 33034288--33034345 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
33034278 TCTTTTAACA
33034288 CATAA-ACATTCAATTATATTGG
1 CATAATACA-TCAATTATATTGG
*
33034310 CACAAT-CAATCAATTATATTGG
1 CATAATAC-ATCAATTATATTGG
33034332 CATAATACATCAAT
1 CATAATACATCAAT
33034346 GGCAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (22 bp):
CATAATACATCAATTATATTGG
Found at i:33038006 original size:16 final size:16
Alignment explanation
Indices: 33037985--33038020 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
33037975 TTTGGTTCGC
33037985 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33038001 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33038017 TGTA
1 TGTA
33038021 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33038352 original size:153 final size:155
Alignment explanation
Indices: 33038145--33038453 Score: 505
Period size: 153 Copynumber: 2.0 Consensus size: 155
33038135 GAATACCCTA
* *
33038145 AGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
1 AGCAGAAATTTGTTTTGGT-AA-GATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
* * *
33038210 ATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATTAAAATA
64 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
*
33038275 TATAATTTCATAAAATTCTTAATAATT
129 TATAATTTAATAAAATTCTTAATAATT
*
33038302 AGCAGAAATTTGTTTTGGT-A-ATTATTGTTATTGTTATTTAAGTTTTAATAAGATTATTAATAT
1 AGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
* *
33038365 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATA
66 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATATA
33038430 TAATTTAATAAAATTCTTAATAAT
131 TAATTTAATAAAATTCTTAATAAT
33038454 AATATTCTTA
Statistics
Matches: 143, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 124 0.87
155 1 0.01
157 18 0.13
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (155 bp):
AGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATATA
TAATTTAATAAAATTCTTAATAATT
Found at i:33038426 original size:16 final size:16
Alignment explanation
Indices: 33038389--33038430 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33038379 TTAATCATAT
*
33038389 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
33038405 TT-AAATATATTATAA
1 TTAAAATATATTATAA
33038420 TTAAAATATAT
1 TTAAAATATAT
33038431 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:33038437 original size:14 final size:15
Alignment explanation
Indices: 33038398--33038439 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33038388 TTTAAACATA
*
33038398 ATTATTATTAAATAT
1 ATTATAATTAAATAT
33038413 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
33038427 A-TATAATTTAATA
1 ATTATAATTAAATA
33038440 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:33038556 original size:14 final size:15
Alignment explanation
Indices: 33038507--33038558 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33038497 GTAAAATATA
33038507 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
33038522 TATTAAATATATTAT
1 AATTAAATATATTAT
33038537 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
33038550 AATTTAATA
1 AATTAAATA
33038559 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:33038675 original size:14 final size:15
Alignment explanation
Indices: 33038626--33038677 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33038616 GTAAAATATA
33038626 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
33038641 TATTAAATATATTAT
1 AATTAAATATATTAT
33038656 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
33038669 AATTTAATA
1 AATTAAATA
33038678 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:33038813 original size:120 final size:119
Alignment explanation
Indices: 33038392--33038802 Score: 720
Period size: 119 Copynumber: 3.4 Consensus size: 119
33038382 ATCATATTTA
33038392 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAT
33038457 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
33038511 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAT
33038576 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
33038630 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAA
*
33038695 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
65 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * * *
33038750 GAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
33038803 TAAAATAATT
Statistics
Matches: 283, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
119 187 0.66
120 94 0.33
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAT
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:33038889 original size:24 final size:25
Alignment explanation
Indices: 33038843--33038890 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33038833 TATGAATTTG
33038843 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
33038869 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
33038891 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:33038894 original size:92 final size:92
Alignment explanation
Indices: 33038798--33039026 Score: 218
Period size: 92 Copynumber: 2.5 Consensus size: 92
33038788 TGATTTAATA
* * *
33038798 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
33038860 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
33038890 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
33038955 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * * *
33038980 ATAATTTCATAAAATTCTTCATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
33039027 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:33040139 original size:11 final size:11
Alignment explanation
Indices: 33040123--33040160 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
33040113 GATTTTATCA
33040123 ATTGTTGAGAT
1 ATTGTTGAGAT
33040134 ATTGTTGAGAT
1 ATTGTTGAGAT
33040145 ATTGTTGAGAT
1 ATTGTTGAGAT
33040156 ATTGT
1 ATTGT
33040161 CATTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:33051148 original size:176 final size:183
Alignment explanation
Indices: 33050822--33051176 Score: 456
Period size: 176 Copynumber: 1.9 Consensus size: 183
33050812 TAAGCTCACC
* * **
33050822 TATATTATTATTTTTAAATTCTTTTAAAAATTATATTATTTTTAATTTAATGTTTAAAATTTTTT
1 TATATTATTATTTTTAAATTCTTTAAAAAAGTATATTATTTTTAATTTAATGTTTAAAATAATTT
** *
33050887 TATATGTTTTTTGTTTTATGAAAATTTTAACCATAAACAATTTAACACAATTTTTTTTTATATCT
66 TATA----TTTCCTTTTATGAAAATTTTAACCAT-AACAA-TTAACACAA--TTTTTTTATATAT
* *
33050952 ATATTGCACTATTATATATTTAATTTAATTTTATATAAATTATATAATACATAAAATAAAA
123 AAATTGCAATATTATATATTTAATTTAATTTTATATAAATTATATAATACATAAAATAAAA
* *
33051013 TATATATATTCTTTTTTAATTCTTTAAAAAAGTATATTATTTTTAATTTAATG-TTAAAA-AATT
1 TATAT-TATTATTTTTAAATTCTTTAAAAAAGTATATTATTTTTAATTTAATGTTTAAAATAATT
*
33051076 TTATA-TTCCTTTTATGAAAATTTTAACCAT-A-GA-TAACAC-A-TTTTTTATATATAAATTGC
65 TTATATTTCCTTTTATGAAAATTTTAACCATAACAATTAACACAATTTTTTTATATATAAATTGC
*
33051135 AATATTATATATTTAATTTAATTTTATATAAATTATTTAATA
130 AATATTATATATTTAATTTAATTTTATATAAATTATATAATA
33051177 TATGATAATA
Statistics
Matches: 150, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
176 57 0.38
179 1 0.01
180 6 0.04
182 1 0.01
183 1 0.01
185 23 0.15
190 7 0.05
191 11 0.07
192 43 0.29
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (183 bp):
TATATTATTATTTTTAAATTCTTTAAAAAAGTATATTATTTTTAATTTAATGTTTAAAATAATTT
TATATTTCCTTTTATGAAAATTTTAACCATAACAATTAACACAATTTTTTTATATATAAATTGCA
ATATTATATATTTAATTTAATTTTATATAAATTATATAATACATAAAATAAAA
Found at i:33052429 original size:9 final size:9
Alignment explanation
Indices: 33052407--33052444 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
33052397 GGTTTTTAGA
33052407 TTTTAGGG-
1 TTTTAGGGT
33052415 TTTTAGGGT
1 TTTTAGGGT
*
33052424 TTTTAGGAT
1 TTTTAGGGT
*
33052433 TTTTCGGGT
1 TTTTAGGGT
33052442 TTT
1 TTT
33052445 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.11, C:0.03, G:0.29, T:0.58
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:33055005 original size:46 final size:46
Alignment explanation
Indices: 33054930--33055179 Score: 411
Period size: 46 Copynumber: 5.5 Consensus size: 46
33054920 TTCTGATCAG
* *
33054930 TGAT-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTGCACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
33054975 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
33055021 TGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
33055066 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
33055112 TGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
33055157 TGATC-AGGGACAAA-TGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
33055180 ATCTTACGTA
Statistics
Matches: 196, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
43 9 0.05
44 8 0.04
45 66 0.34
46 113 0.58
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:33055090 original size:91 final size:91
Alignment explanation
Indices: 33054930--33055179 Score: 425
Period size: 91 Copynumber: 2.8 Consensus size: 91
33054920 TTCTGATCAG
* * *
33054930 TGAT-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTGCACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGTGA
33054994 TAAGTGGTAGCTTTAGCTACACTTATC
65 TAAGTGGTAGCTTTAGCTACACTTATC
33055021 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
33055086 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* *
33055112 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATTTGATC-AGGGACAAA-TGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
33055175 AAGTG
66 AAGTG
33055180 ATCTTACGTA
Statistics
Matches: 153, Mismatches: 5, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
89 9 0.06
90 8 0.05
91 112 0.73
92 24 0.16
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (91 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
AAGTGGTAGCTTTAGCTACACTTATC
Found at i:33057941 original size:37 final size:37
Alignment explanation
Indices: 33057900--33057970 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
33057890 GTTTTCCGGC
* * * *
33057900 TTAGACATCTTTTCTGTGAATATTTAAAGCATTCAAA
1 TTAGACATCTGTTCTATAAATATATAAAGCATTCAAA
33057937 TTAGACATCTGTTCTATAAATATATAAAGCATTC
1 TTAGACATCTGTTCTATAAATATATAAAGCATTC
33057971 GTATTTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (37 bp):
TTAGACATCTGTTCTATAAATATATAAAGCATTCAAA
Found at i:33059697 original size:9 final size:9
Alignment explanation
Indices: 33059617--33059774 Score: 50
Period size: 10 Copynumber: 16.6 Consensus size: 9
33059607 TTTCTTAGAC
33059617 TTTATAAATT
1 TTTAT-AATT
*
33059627 TTTTTATATT
1 TTTATA-ATT
* *
33059637 TTTGTATTTT
1 TTTATA-ATT
*
33059647 TTTATTGATT
1 TTTA-TAATT
*
33059657 TTTATAAAAT
1 TTTAT-AATT
*
33059667 TTTACAATT
1 TTTATAATT
**
33059676 TTTATTTTCT
1 TTTATAAT-T
*
33059686 TTTATGATT
1 TTTATAATT
33059695 TTTATAATTT
1 TTTATAA-TT
*
33059705 TTTCTAATT
1 TTTATAATT
*
33059714 TTTAATAA-A
1 TTT-ATAATT
**
33059723 AAT-TAATT
1 TTTATAATT
33059731 TTTATTAATT
1 TTTA-TAATT
*
33059741 TTTATTAAAAT
1 TTTA-T-AATT
* *
33059752 TTAATATTT
1 TTTATAATT
*
33059761 TTTATAACT
1 TTTATAATT
33059770 TTTAT
1 TTTAT
33059775 TGATTTTTTA
Statistics
Matches: 107, Mismatches: 31, Indels: 21
0.67 0.19 0.13
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 36 0.34
10 60 0.56
11 7 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:33059707 original size:19 final size:19
Alignment explanation
Indices: 33059617--33059717 Score: 71
Period size: 19 Copynumber: 5.2 Consensus size: 19
33059607 TTTCTTAGAC
33059617 TTTATAAATTTTTT-TATATT
1 TTTAT-AATTTTTTATA-ATT
* * *
33059637 TTTGTATTTTTTTATTGATT
1 TTTATAATTTTTTA-TAATT
** *
33059657 TTTATAAAATTTTACAATT
1 TTTATAATTTTTTATAATT
* *
33059676 TTTAT-TTTCTTTTATGATT
1 TTTATAATT-TTTTATAATT
*
33059695 TTTATAATTTTTTCTAATT
1 TTTATAATTTTTTATAATT
33059714 TTTA
1 TTTA
33059718 ATAAAAATTA
Statistics
Matches: 60, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
19 40 0.67
20 19 0.32
21 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATAATTTTTTATAATT
Found at i:33059714 original size:38 final size:40
Alignment explanation
Indices: 33059617--33059717 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 40
33059607 TTTCTTAGAC
*
33059617 TTTATAAATTTTTT-TATATTTTTGTATTTTTTTATTGATT
1 TTTATAAATTTTTTCTA-ATTTTTATATTTTTTTATTGATT
* *
33059657 TTTATAAAATTTTAC-AATTTTTAT-TTTCTTTTA-TGATT
1 TTTATAAATTTTTTCTAATTTTTATATTT-TTTTATTGATT
33059695 TTTAT-AATTTTTTCTAATTTTTA
1 TTTATAAATTTTTTCTAATTTTTA
33059718 ATAAAAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
37 7 0.13
38 21 0.40
39 12 0.23
40 13 0.25
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (40 bp):
TTTATAAATTTTTTCTAATTTTTATATTTTTTTATTGATT
Found at i:33059729 original size:27 final size:26
Alignment explanation
Indices: 33059699--33059764 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 26
33059689 ATGATTTTTA
33059699 TAATTTTTTCTAATTTTTAATAAAAAT
1 TAATTTTTT-TAATTTTTAATAAAAAT
* *
33059726 TAATTTTTATTAATTTTTATTAAAATT
1 TAATTTTT-TTAATTTTTAATAAAAAT
33059753 TAATATTTTTTA
1 TAAT-TTTTTTA
33059765 TAACTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
TAATTTTTTTAATTTTTAATAAAAAT
Found at i:33059737 original size:10 final size:10
Alignment explanation
Indices: 33059645--33059782 Score: 60
Period size: 10 Copynumber: 14.5 Consensus size: 10
33059635 TTTTTGTATT
*
33059645 TTTTTATTGA
1 TTTTTATTAA
*
33059655 TTTTTATAAA
1 TTTTTATTAA
* *
33059665 ATTTTA-CAA
1 TTTTTATTAA
*
33059674 TTTTTATT-T
1 TTTTTATTAA
*
33059683 TCTTTTA-TGA
1 T-TTTTATTAA
33059693 TTTTTA-TAA
1 TTTTTATTAA
33059702 TTTTT-TCTAA
1 TTTTTAT-TAA
*
33059712 TTTTTAATAA
1 TTTTTATTAA
**
33059722 ---AAATTAA
1 TTTTTATTAA
33059729 TTTTTATTAA
1 TTTTTATTAA
33059739 TTTTTATTAA
1 TTTTTATTAA
** * *
33059749 AATTTAATAT
1 TTTTTATTAA
33059759 TTTTTA-TAA
1 TTTTTATTAA
* *
33059768 CTTTTATTGA
1 TTTTTATTAA
33059778 TTTTT
1 TTTTT
33059783 TACTTTTTTA
Statistics
Matches: 93, Mismatches: 25, Indels: 20
0.67 0.18 0.14
Matches are distributed among these distances:
7 4 0.04
9 28 0.30
10 61 0.66
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:33059772 original size:84 final size:84
Alignment explanation
Indices: 33059645--33059800 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 84
33059635 TTTTTGTATT
* * ** *
33059645 TTTTTATTGATTTTTATAAAATTTTACAATTTTTATTTTCTTTTA-TGATTTTTATAATTTTTTC
1 TTTTTATTAATTTTTATAAAATTTAACAATTTTTATTAACTTTTATTGATTTTT-TAATTTTTTA
33059709 TAATTTTTAATAAAAATTAA
65 TAATTTTTAATAAAAATTAA
* * *
33059729 TTTTTATTAATTTTTATTAAAATTTAATATTTTTTA-TAACTTTTATTGATTTTTTACTTTTTTA
1 TTTTTATTAATTTTTA-TAAAATTTAACAATTTTTATTAACTTTTATTGATTTTTTAATTTTTTA
*
33059793 TCATTTTT
65 TAATTTTT
33059801 TTCATGTATC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
84 37 0.61
85 24 0.39
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (84 bp):
TTTTTATTAATTTTTATAAAATTTAACAATTTTTATTAACTTTTATTGATTTTTTAATTTTTTAT
AATTTTTAATAAAAATTAA
Found at i:33066355 original size:21 final size:22
Alignment explanation
Indices: 33066329--33066375 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
33066319 CTCTGCTCAA
*
33066329 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
33066350 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
33066372 ACTC
1 ACTC
33066376 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:33069535 original size:22 final size:22
Alignment explanation
Indices: 33069510--33069561 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
33069500 GGTTCATAGT
* * *
33069510 GGTCAGTTGCTCTGGTTAGTAG
1 GGTCAGCTACTCTGGTTAGCAG
*
33069532 GGTCGGCTACTCTGGTTAGCAG
1 GGTCAGCTACTCTGGTTAGCAG
*
33069554 AGTCAGCT
1 GGTCAGCT
33069562 GCATTAGTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.35, T:0.31
Consensus pattern (22 bp):
GGTCAGCTACTCTGGTTAGCAG
Found at i:33071394 original size:13 final size:14
Alignment explanation
Indices: 33071375--33071412 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
33071365 CAATGGCATA
33071375 GAAATAATATAAAC
1 GAAATAATATAAAC
33071389 -AAATAA-ATAAAC
1 GAAATAATATAAAC
33071401 GAAATGAATATA
1 GAAAT-AATATA
33071413 CATAAGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:33071511 original size:28 final size:28
Alignment explanation
Indices: 33071465--33071526 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
33071455 AACGAGCAAG
** *
33071465 ATAAAAAAATTAATGAAAACATA-AAAAA
1 ATAAAAAAA-TAAACAAAAAATATAAAAA
*
33071493 ATAAAAAAATAAACAAAAAATATAAAGA
1 ATAAAAAAATAAACAAAAAATATAAAAA
33071521 ATAAAA
1 ATAAAA
33071527 GGTACATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (28 bp):
ATAAAAAAATAAACAAAAAATATAAAAA
Found at i:33071523 original size:20 final size:19
Alignment explanation
Indices: 33071488--33071525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
33071478 TGAAAACATA
33071488 AAAAAATAAAAAAATAAAC
1 AAAAAATAAAAAAATAAAC
*
33071507 AAAAAATATAAAGAATAAA
1 AAAAAATA-AAAAAATAAA
33071526 AGGTACATGA
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:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAAATAAAAAAATAAAC
Found at i:33071653 original size:2 final size:2
Alignment explanation
Indices: 33071646--33071674 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33071636 GAGTATAGAA
33071646 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
33071675 AATTATAAAA
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:33071997 original size:18 final size:18
Alignment explanation
Indices: 33071934--33072000 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
33071924 AAATAATAAC
* *
33071934 TACATTATATTCAAAAATA
1 TACA-TATATACATAAATA
33071953 TACGTATATATACATGGAAATA
1 TAC--ATATATACAT--AAATA
33071975 -A-ATATATACATAAATA
1 TACATATATACATAAATA
33071991 TACATATATA
1 TACATATATA
33072001 TATATATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 7 0.17
21 2 0.05
22 5 0.12
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (18 bp):
TACATATATACATAAATA
Found at i:33072007 original size:10 final size:10
Alignment explanation
Indices: 33071950--33072008 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
33071940 ATATTCAAAA
*
33071950 ATATACGTAT
1 ATATACATAT
**
33071960 ATATACATGG
1 ATATACATAT
*
33071970 AAATA-A-AT
1 ATATACATAT
*
33071978 ATATACATAA
1 ATATACATAT
33071988 ATATACATAT
1 ATATACATAT
*
33071998 ATATATATAT
1 ATATACATAT
33072008 A
1 A
33072009 AAGAAAAAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 31 0.84
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.36
Consensus pattern (10 bp):
ATATACATAT
Found at i:33073713 original size:43 final size:44
Alignment explanation
Indices: 33073666--33073889 Score: 213
Period size: 43 Copynumber: 5.2 Consensus size: 44
33073656 CCTTGATCTG
33073666 CTCCAC-ACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
* * * * ** * * * *
33073709 CTCCACTGCTGCTCAGGGAGACAAG-GCTAGGGA-CTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
33073752 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
* * * * *** * * * *
33073796 CTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
33073839 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
*
33073883 CTTCACT
1 CTCCACT
33073890 GTTGCTCAAG
Statistics
Matches: 133, Mismatches: 43, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
43 70 0.53
44 63 0.47
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
Found at i:33073763 original size:87 final size:86
Alignment explanation
Indices: 33073660--33073927 Score: 448
Period size: 87 Copynumber: 3.1 Consensus size: 86
33073650 TACCATCCTT
33073660 GATCTGCTCCAC-ACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
*
33073724 GGGAGACAAGGCTAGGGACTTC
66 GGGAGACAAGGCT-GGGTCTTC
33073746 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
33073811 GGGAGACAAGGCTGGGGTCTTC
66 GGGAGACAAGGCT-GGGTCTTC
* *
33073833 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTTCACTGTTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
* * *
33073898 AGGAGATAATGCTGGTGTCTTC
66 GGGAGACAAGGCTGG-GTCTTC
33073920 GATCTGCT
1 GATCTGCT
33073928 TCGCTGTTGG
Statistics
Matches: 173, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
86 14 0.08
87 159 0.92
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (86 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA
GGGAGACAAGGCTGGGTCTTC
Found at i:33073808 original size:44 final size:44
Alignment explanation
Indices: 33073673--33073906 Score: 213
Period size: 44 Copynumber: 5.4 Consensus size: 44
33073663 CTGCTCCACA
*
33073673 CTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
1 CTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
* * ** * * * * *
33073717 CTGCTCAGGGAGACAAG-GCTAGGGA-CTTCGATCTGCTCCACTA
1 CTGCTCAGGGAGATAAGATCT-GTAATTTTCAACCTACTCCACTG
*
33073760 CTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
1 CTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
* * *** * * * * *
33073804 CTGCTCAGGGAGACAAG-GCTGGGGTCTTCGATCTGCTCCACTA
1 CTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
* *
33073847 CTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTTCACTG
1 CTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
* *
33073891 TTGCTCAAGGAGATAA
1 CTGCTCAGGGAGATAA
33073907 TGCTGGTGTC
Statistics
Matches: 140, Mismatches: 46, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
43 64 0.46
44 76 0.54
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (44 bp):
CTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTG
Found at i:33074000 original size:88 final size:88
Alignment explanation
Indices: 33073908--33074405 Score: 771
Period size: 88 Copynumber: 5.7 Consensus size: 88
33073898 AGGAGATAAT
* *
33073908 GCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAAATCTGCTATTTTTAACCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
* *
33073973 CTGCTGCAACCCAGGGAGGTAAG
66 CCGCTGCAACCCAGGGAGGCAAG
* *
33073996 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGATGGCAAGATCTGTTATTTTTAACCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
33074061 CCGCTGCAACCCAGGGAGGCAAG
66 CCGCTGCAACCCAGGGAGGCAAG
* * * *
33074084 GCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGTTGTTTTTAACCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
* * * *
33074149 TCACTTCAACTCAGGGAGGCAAG
66 CCGCTGCAACCCAGGGAGGCAAG
* * *
33074172 GTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCACGAAGGCAAGATCTGCTATTTTTAACCTACT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
* * *
33074237 CCGCTGTATCCCAAGGAGGCAAG
66 CCGCTGCAACCCAGGGAGGCAAG
*
33074260 GCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
*
33074325 CCGCTGCAACCCAGAGAGGCAAG
66 CCGCTGCAACCCAGGGAGGCAAG
* * *
33074348 GCTGGTGTCTTCGATCTGATTCGCTGTCGGTGCAAGAAGGCAAGATCTGTTATTTTTA
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
33074406 CTGATCCACT
Statistics
Matches: 370, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 370 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (88 bp):
GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
CCGCTGCAACCCAGGGAGGCAAG
Found at i:33074125 original size:44 final size:43
Alignment explanation
Indices: 33073984--33074391 Score: 148
Period size: 44 Copynumber: 9.3 Consensus size: 43
33073974 TGCTGCAACC
* *
33073984 CAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * * ****
33074028 CAGGATGGCAAGATCTGTTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTG-TGTCTTCGATCTGCTTCGCTGTCGGTG
*
33074072 CAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * ** * * **
33074116 TAGGAAGGCAAGATCTGTTGTTTTTAACCTGCTTCACT-TCAACT-
1 CAGGAAGGCAAG-GCTG-TGTCTTCGATCTGCTTCGCTGTC-GGTG
* *
33074160 CAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * * * * *
33074204 CACGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGT--ATCC
1 CAGGAAGGCAAG-GCTG-TGTCTTCGATCTGCTTCGCTGTCGGT-G
*
33074248 CAAGG-AGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTG
1 C-AGGAAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * ** * * ****
33074292 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTG-TGTCTTCGATCTGCTTCGCTGTCGGTG
*
33074336 CA-GAGAGGCAAGGCTGGTGTCTTCGATCTGATTCGCTGTCGGTG
1 CAGGA-AGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTG
*
33074380 CAAGAAGGCAAG
1 CAGGAAGGCAAG
33074392 ATCTGTTATT
Statistics
Matches: 247, Mismatches: 93, Indels: 48
0.64 0.24 0.12
Matches are distributed among these distances:
43 74 0.30
44 99 0.40
45 74 0.30
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (43 bp):
CAGGAAGGCAAGGCTGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:33080351 original size:13 final size:14
Alignment explanation
Indices: 33080332--33080369 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
33080322 CAATGGCATA
33080332 GAAATAATATAAAC
1 GAAATAATATAAAC
33080346 -AAATAA-ATAAAC
1 GAAATAATATAAAC
33080358 GAAATGAATATA
1 GAAAT-AATATA
33080370 CATAAGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:33080956 original size:18 final size:18
Alignment explanation
Indices: 33080893--33080959 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
33080883 AAATAATAAC
* *
33080893 TACATTATATTCAAAAATA
1 TACA-TATATACATAAATA
33080912 TACGTATATATACATGGAAATA
1 TAC--ATATATACAT--AAATA
33080934 -A-ATATATACATAAATA
1 TACATATATACATAAATA
33080950 TACATATATA
1 TACATATATA
33080960 TAAAAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 7 0.17
21 2 0.05
22 5 0.12
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (18 bp):
TACATATATACATAAATA
Found at i:33081015 original size:22 final size:19
Alignment explanation
Indices: 33080969--33081008 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33080959 ATAAAAAAAG
*
33080969 AAATAATAATTACATATGA
1 AAATAATAATTACATATCA
33080988 AAATAATAATTACATTATCA
1 AAATAATAATTACA-TATCA
33081008 A
1 A
33081009 TTAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATAATAATTACATATCA
Found at i:33081198 original size:11 final size:11
Alignment explanation
Indices: 33081182--33081224 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
33081172 GACCAAATTG
33081182 AAATTAAAAAT
1 AAATTAAAAAT
*
33081193 AAATTAAAGAT
1 AAATTAAAAAT
33081204 GAAATTTAAAAAT
1 -AAA-TTAAAAAT
*
33081217 AAAATAAA
1 AAATTAAA
33081225 CTTAATTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (11 bp):
AAATTAAAAAT
Found at i:33081217 original size:24 final size:23
Alignment explanation
Indices: 33081180--33081224 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
33081170 GAGACCAAAT
*
33081180 TGAAATTAAAAATAAATTAAAGA
1 TGAAATTAAAAATAAAATAAAGA
33081203 TGAAATTTAAAAATAAAATAAA
1 TGAAA-TTAAAAATAAAATAAA
33081225 CTTAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
TGAAATTAAAAATAAAATAAAGA
Found at i:33085578 original size:58 final size:59
Alignment explanation
Indices: 33085516--33085631 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 59
33085506 ATCACTTTAG
* * *
33085516 TATTAAATTAATATAATACTTATC-AATATAAATATTACATTAAATTTAATATTAAATC
1 TATTAAATTAATAAAATACTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATC
*
33085574 TATTAAATTAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAAAATACTTATC--TAAGATAAATATTAAATTAAATTTAATATTAA
33085632 GATAATCACG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
61 29 0.57
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATAAAATACTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:33086873 original size:16 final size:16
Alignment explanation
Indices: 33086854--33086887 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33086844 ATATATTAAA
*
33086854 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
33086870 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
33086886 TA
1 TA
33086888 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:33091880 original size:39 final size:41
Alignment explanation
Indices: 33091824--33091929 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 41
33091814 TTTCCTTATG
* *
33091824 CTATTACAACATC-ATTCCATTCAACCAAACACAA-GAATA-
1 CTATTAC-ACCTCTATTCCATTCAACCAAACAAAAGGAATAC
*
33091863 CTATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGGATTAC
1 CTATTACACCTC---T--ATTCCATTCAACCAAACAAAAGGAATAC
*
33091909 CTATTACCCCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
33091930 ACGCATCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
38 4 0.07
39 7 0.13
41 8 0.15
43 1 0.02
44 20 0.36
45 4 0.07
46 11 0.20
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGGAATAC
Found at i:33091928 original size:46 final size:44
Alignment explanation
Indices: 33091836--33091929 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
33091826 ATTACAACAT
*
33091836 CATTCCATTCAACCAAACACAAGAATACTATTACACCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACACCTCTATTC
* *
33091880 CATTCCATTCAACCAAACAAAAGGATTACCTATTACCCCTCTATTC
1 CATTCCATTCAACCAAACAAAA-GAATA-CTATTACACCTCTATTC
33091926 CATT
1 CATT
33091930 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 21 0.47
45 4 0.09
46 20 0.44
ACGTcount: A:0.36, C:0.32, G:0.03, T:0.29
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACACCTCTATTC
Found at i:33092600 original size:42 final size:42
Alignment explanation
Indices: 33092551--33092722 Score: 222
Period size: 42 Copynumber: 4.1 Consensus size: 42
33092541 TTACAAACAA
*
33092551 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTTCTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTCTAC
* *
33092592 AAAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGCATATTC-AC
1 AAA-CGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTTTCTAC
* * *
33092635 AAACGCCACTAAAGAACATGTCCTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTTTCTAC
* * *
33092678 AAACGCCGCTAAAGAACATATTCTTTAGCGGCGTTTTTGTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTCTAC
33092720 AAA
1 AAA
33092723 AACGCCACTA
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
41 3 0.03
42 69 0.61
43 37 0.33
44 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTCTAC
Found at i:33093120 original size:21 final size:21
Alignment explanation
Indices: 33093096--33093146 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33093086 TTCTTTTGAA
*
33093096 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCCCTCACTGCAG
* * *
33093117 CCTCCGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCACTGCAG
33093138 CCTCTGCTT
1 CCTCTGCTT
33093147 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.49, G:0.16, T:0.31
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCAG
Found at i:33098633 original size:9 final size:9
Alignment explanation
Indices: 33098619--33099397 Score: 479
Period size: 9 Copynumber: 84.4 Consensus size: 9
33098609 ATAAATAATG
33098619 AGTTATGTA
1 AGTTATGTA
33098628 AGTTATGTACTA
1 AGTTATG---TA
33098640 AGTTATGT-
1 AGTTATGTA
33098648 A-TTATGTA
1 AGTTATGTA
* *
33098656 AATAATGTA
1 AGTTATGTA
33098665 AGTTATGTA
1 AGTTATGTA
*
33098674 AGTTATTTA
1 AGTTATGTA
33098683 AGTTATGTA
1 AGTTATGTA
33098692 AGTTATGTA
1 AGTTATGTA
*
33098701 AGTTATTTA
1 AGTTATGTA
*
33098710 ATTTATGTA
1 AGTTATGTA
*
33098719 AGTTATTTAGAAAA
1 AGTTA--T-G--TA
*
33098733 AATTATGTA
1 AGTTATGTA
33098742 AGTTATGTACTA
1 AGTTATG---TA
33098754 AGTTATGT-
1 AGTTATGTA
33098762 A-TTATGTA
1 AGTTATGTA
* *
33098770 AATAATGTA
1 AGTTATGTA
*
33098779 AGTTA-GGA
1 AGTTATGTA
33098787 AGGTTATGT-
1 A-GTTATGTA
*
33098796 A-TTATATA
1 AGTTATGTA
*
33098804 AGTTATTTA
1 AGTTATGTA
33098813 AGTTATGTA
1 AGTTATGTA
*
33098822 AGCTATGTA
1 AGTTATGTA
*
33098831 AGTTATTTA
1 AGTTATGTA
*
33098840 ATTTATGTA
1 AGTTATGTA
*
33098849 AGTTACGTA
1 AGTTATGTA
*
33098858 AGTTATTTA
1 AGTTATGTA
*
33098867 ATTTATGTA
1 AGTTATGTA
* *
33098876 AGCTATTTAGAAAA
1 AG-T-TAT-G--TA
* *
33098890 AATTATGTC
1 AGTTATGTA
33098899 AGTTATGTACTA
1 AGTTATG---TA
33098911 AGTTATGT-
1 AGTTATGTA
33098919 A-TTATGTA
1 AGTTATGTA
* *
33098927 AATAATGTA
1 AGTTATGTA
* *
33098936 TGTATTATTTA
1 AG--TTATGTA
*
33098947 AGTTATTTA
1 AGTTATGTA
33098956 AGTTATGTA
1 AGTTATGTA
33098965 AGTTATGTA
1 AGTTATGTA
*
33098974 AGTTATTTA
1 AGTTATGTA
*
33098983 ATTTATGTA
1 AGTTATGTA
33098992 AGTTATGTA
1 AGTTATGTA
33099001 AGTTATGTA
1 AGTTATGTA
*
33099010 AGTTATTTA
1 AGTTATGTA
*
33099019 ATTTATGTA
1 AGTTATGTA
* *
33099028 AGCTATTTAGAAAA
1 AG-T-TAT-G--TA
**
33099042 AAATATGTA
1 AGTTATGTA
33099051 AGTTATGTACTA
1 AGTTATG---TA
33099063 AGTTATGT-
1 AGTTATGTA
33099071 A-TTATGTA
1 AGTTATGTA
* *
33099079 AATAATGTA
1 AGTTATGTA
* *
33099088 AGTGA-GGA
1 AGTTATGTA
33099096 AGGTTATGT-
1 A-GTTATGTA
*
33099105 A-TTATATA
1 AGTTATGTA
*
33099113 AGTTATTTA
1 AGTTATGTA
33099122 AGTTATGTA
1 AGTTATGTA
33099131 AGTTATGTA
1 AGTTATGTA
*
33099140 AGTTATTTA
1 AGTTATGTA
*
33099149 ATTTATGTA
1 AGTTATGTA
33099158 AGTTATGTA
1 AGTTATGTA
33099167 AGTTAT-TAA
1 AGTTATGT-A
*
33099176 ATTTATGTA
1 AGTTATGTA
33099185 AGTTATGTA
1 AGTTATGTA
*
33099194 AGTTA-GGA
1 AGTTATGTA
33099202 AGGTTATGT-
1 A-GTTATGTA
33099211 A-TTATGTA
1 AGTTATGTA
*
33099219 AGTTATTTA
1 AGTTATGTA
33099228 AGTTATGTA
1 AGTTATGTA
*
33099237 AGTTATTTA
1 AGTTATGTA
*
33099246 ATTTATGTA
1 AGTTATGTA
33099255 AGTTATGTA
1 AGTTATGTA
*
33099264 AGTTATTTA
1 AGTTATGTA
*
33099273 ATTTATGTA
1 AGTTATGTA
* *
33099282 AGCTATTTAGAAAA
1 AG-T-TAT-G--TA
*
33099296 AATTATGTA
1 AGTTATGTA
33099305 AGTTATGTACTA
1 AGTTATG---TA
33099317 AGTTATGTA
1 AGTTATGTA
*
33099326 A--AATGTA
1 AGTTATGTA
* *
33099333 AATAATGTA
1 AGTTATGTA
*
33099342 AGTTA-GGA
1 AGTTATGTA
33099350 AGGTTATGT-
1 A-GTTATGTA
33099359 A-TTATGTA
1 AGTTATGTA
33099367 AGTTATGTA
1 AGTTATGTA
* *
33099376 ATTTATATA
1 AGTTATGTA
*
33099385 AGTTATGCA
1 AGTTATGTA
33099394 AGTT
1 AGTT
33099398 TATATATAAG
Statistics
Matches: 598, Mismatches: 107, Indels: 130
0.72 0.13 0.16
Matches are distributed among these distances:
7 52 0.09
8 25 0.04
9 428 0.72
10 8 0.01
11 17 0.03
12 55 0.09
13 2 0.00
14 11 0.02
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:33099373 original size:16 final size:18
Alignment explanation
Indices: 33099352--33099403 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
33099342 AGTTAGGAAG
*
33099352 GTTATGT-A-TTATGTAA
1 GTTATGTAATTTATATAA
33099368 GTTATGTAATTTATATAA
1 GTTATGTAATTTATATAA
*
33099386 GTTATGCAAGTTTATATA
1 GTTATGTAA-TTTATATA
33099404 TAAGTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 15 0.48
19 8 0.26
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
GTTATGTAATTTATATAA
Found at i:33099438 original size:254 final size:250
Alignment explanation
Indices: 33098958--33099449 Score: 729
Period size: 254 Copynumber: 1.9 Consensus size: 250
33098948 GTTATTTAAG
* *
33098958 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTT
**
33099023 ATGTAAGCTATTTAGAAAAAAATATGTAAGTTATGTACTAAGTTATGTATTATGTAAATAATGTA
66 ATGTAAGCTATTTAGAAAAAAATATGTAAGTTATGTACTAAGTTATGTAAAATGTAAATAATGTA
* * *
33099088 AGTGAGGAAGGTTATGTATTATATAAGTTATTTAAGTTATGTAAGTTATGTAAGTTATTTAATTT
131 AGTGAGGAAGGTTATGTATTATATAAGTTATGTAAGTTATATAAGTTATGCAAGTTATTTAATTT
*
33099153 ATGTAAGTTATGTAAGTTATTAAATTTATGTAAGTTATGTAAGTTAGGAAGGTTATGTA
196 A-GTAAG-TATGTAAGTTATTAAAGTTATGT-A-TTATGTAAGTTAGGAAGGTTATGTA
* * *
33099212 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTT
*
33099277 ATGTAAGCTATTTAGAAAAAATTATGTAAGTTATGTACTAAGTTATGTAAAATGTAAATAATGTA
66 ATGTAAGCTATTTAGAAAAAAATATGTAAGTTATGTACTAAGTTATGTAAAATGTAAATAATGTA
* * *
33099342 AGTTAGGAAGGTTATGTATTATGTAAGTTATGTAATTTATATAAGTTATGCAAGTTTATATATAA
131 AGTGAGGAAGGTTATGTATTATATAAGTTATGTAAGTTATATAAGTTATGCAAG-TTAT-T-TAA
* *
33099407 GTTTA-T-A-TACTGTATGTTATTTAAGTTATGTATTATGTAAGTT
193 -TTTAGTAAGTA-TGTAAGTTATTAAAGTTATGTATTATGTAAGTT
33099450 TATATATAAG
Statistics
Matches: 216, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
252 11 0.05
253 3 0.01
254 188 0.87
255 5 0.02
256 2 0.01
257 3 0.01
258 4 0.02
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (250 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTT
ATGTAAGCTATTTAGAAAAAAATATGTAAGTTATGTACTAAGTTATGTAAAATGTAAATAATGTA
AGTGAGGAAGGTTATGTATTATATAAGTTATGTAAGTTATATAAGTTATGCAAGTTATTTAATTT
AGTAAGTATGTAAGTTATTAAAGTTATGTATTATGTAAGTTAGGAAGGTTATGTA
Found at i:33099561 original size:19 final size:19
Alignment explanation
Indices: 33099539--33099580 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33099529 GATTTTAAAA
33099539 ATAAATA-TTAAAAATGTAT
1 ATAAATATTTAAAAAT-TAT
*
33099558 ATAAATATTTATAAATTAT
1 ATAAATATTTAAAAATTAT
33099577 ATAA
1 ATAA
33099581 TTTATGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAAATATTTAAAAATTAT
Found at i:33101863 original size:127 final size:125
Alignment explanation
Indices: 33101474--33101883 Score: 339
Period size: 127 Copynumber: 3.3 Consensus size: 125
33101464 AGTTTGCGGT
* * * * *
33101474 GTTTTAAATAAACACGCCACAAAAGAGTTCAAATCATTTAAGAAAACGACGCCGTTTTCATACAC
1 GTTTTACATAAAAACGCCACTAAA-A-TTCAAATCATTTAAGAAAACGACGACGTTTTCGTACAC
** * * *
33101539 ACAAGCATTTATGGATTTGCGGTGTTTCTATAAAAAATGCCACGATTGCATACCTTCTGTGGC
64 ACAAATATTTATGGATTTGCGGCGTTTCTAT-AAAAATGCCACTATTGCATACCTTTTGTGGC
* * * * * *
33101602 GTTTTCCA-AAAAATGCCACTAAAATTCAAATTCCTGTAACG-AAACGGCGACGTTCT-G-A-AC
1 GTTTTACATAAAAACGCCACTAAAATTCAAA-TCATTTAA-GAAAACGACGACGTTTTCGTACAC
*** * * *** * * * * ** * ** *
33101662 A-TTTTGTAATACACATTTGTGGCGTTT-TCATACTAAACGCCGCTAAAGCTTACAGTTTATGGC
64 ACAAATAT-TTATGGATTTGCGGCGTTTCT-ATA-AAAATGCCACTATTGCATACCTTTTGTGGC
* * *
33101725 GTTTGAAATAAAAACGCCACTAAAGAGTTCAAATCATTTAAGAAAACGACGTCGTTTTCGTACAC
1 GTTTTACATAAAAACGCCACTAAA-A-TTCAAATCATTTAAGAAAACGACGACGTTTTCGTACAC
33101790 ACAAATATTTATGGATTTGCGGCGTTTCTATAAAAATGCCACTATTGCATACCTTTTGTGGC
64 ACAAATATTTATGGATTTGCGGCGTTTCTATAAAAATGCCACTATTGCATACCTTTTGTGGC
*
33101852 GTTTTTCATAAAAACGCCACTAAAATTCAAAT
1 GTTTTACATAAAAACGCCACTAAAATTCAAAT
33101884 TCCTGTGGCC
Statistics
Matches: 205, Mismatches: 63, Indels: 31
0.69 0.21 0.10
Matches are distributed among these distances:
122 3 0.01
123 42 0.20
124 16 0.08
125 32 0.16
126 27 0.13
127 56 0.27
128 26 0.13
129 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (125 bp):
GTTTTACATAAAAACGCCACTAAAATTCAAATCATTTAAGAAAACGACGACGTTTTCGTACACAC
AAATATTTATGGATTTGCGGCGTTTCTATAAAAATGCCACTATTGCATACCTTTTGTGGC
Found at i:33101873 original size:251 final size:251
Alignment explanation
Indices: 33101388--33101889 Score: 826
Period size: 251 Copynumber: 2.0 Consensus size: 251
33101378 CTGTTCCTCA
* *
33101388 AACGAAACGCCGACGTTCTGAACATTTTGTAATATACATTTGTGGTGTTTTCATACTAAACGCCG
1 AACGAAACGCCGACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTTCATACTAAACGCCG
* * * *
33101453 CTAAAGCTTACAGTTTGCGGTGTTTTAAATAAACACGCCACAAAAGAGTTCAAATCATTTAAGAA
66 CTAAAGCTTACAGTTTACGGCGTTTGAAATAAAAACGCCACAAAAGAGTTCAAATCATTTAAGAA
* *
33101518 AACGACGCCGTTTTCATACACACAAGCATTTATGGATTTGCGGTGTTTCTATAAAAAATGCCACG
131 AACGACGCCGTTTTCATACACACAAACATTTATGGATTTGCGGCGTTTCTATAAAAAATGCCACG
*
33101583 ATTGCATACCTTCTGTGGCGTTTTCCAAAAAATGCCACTAAAATTCAAATTCCTGT
196 ATTGCATACCTTCTGTGGCGTTTTCCAAAAAACGCCACTAAAATTCAAATTCCTGT
*
33101639 AACGAAACGGCGACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTTCATACTAAACGCCG
1 AACGAAACGCCGACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTTCATACTAAACGCCG
* *
33101704 CTAAAGCTTACAGTTTATGGCGTTTGAAATAAAAACGCCACTAAAGAGTTCAAATCATTTAAGAA
66 CTAAAGCTTACAGTTTACGGCGTTTGAAATAAAAACGCCACAAAAGAGTTCAAATCATTTAAGAA
* * * *
33101769 AACGACGTCGTTTTCGTACACACAAATATTTATGGATTTGCGGCGTTTCTAT-AAAAATGCCACT
131 AACGACGCCGTTTTCATACACACAAACATTTATGGATTTGCGGCGTTTCTATAAAAAATGCCACG
* *
33101833 ATTGCATACCTTTTGTGGCGTTTTTCATAAAAACGCCACTAAAATTCAAATTCCTGT
196 ATTGCATACCTTCTGTGGCGTTTTCCA-AAAAACGCCACTAAAATTCAAATTCCTGT
33101890 GGCCAAACGG
Statistics
Matches: 232, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
250 36 0.16
251 196 0.84
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (251 bp):
AACGAAACGCCGACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTTCATACTAAACGCCG
CTAAAGCTTACAGTTTACGGCGTTTGAAATAAAAACGCCACAAAAGAGTTCAAATCATTTAAGAA
AACGACGCCGTTTTCATACACACAAACATTTATGGATTTGCGGCGTTTCTATAAAAAATGCCACG
ATTGCATACCTTCTGTGGCGTTTTCCAAAAAACGCCACTAAAATTCAAATTCCTGT
Found at i:33102268 original size:7 final size:7
Alignment explanation
Indices: 33102258--33102310 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
33102248 CCTTAAACAT
33102258 TAAACCC
1 TAAACCC
33102265 TAAACCC
1 TAAACCC
33102272 TAAACCC
1 TAAACCC
*
33102279 TTAACCC
1 TAAACCC
* *
33102286 TTAACAC
1 TAAACCC
33102293 TAAACCC
1 TAAACCC
* *
33102300 TTAACCA
1 TAAACCC
33102307 TAAA
1 TAAA
33102311 TTGACCTAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:33102284 original size:21 final size:21
Alignment explanation
Indices: 33102260--33102310 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
33102250 TTAAACATTA
*
33102260 AACCCTAAACCCTAAACCCTT
1 AACCCTAAACACTAAACCCTT
*
33102281 AACCCTTAACACTAAACCCTT
1 AACCCTAAACACTAAACCCTT
*
33102302 AACCATAAA
1 AACCCTAAA
33102311 TTGACCTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAAACACTAAACCCTT
Found at i:33102531 original size:21 final size:21
Alignment explanation
Indices: 33102492--33102563 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
33102482 AACTATAAAC
* * *
33102492 CCCTAAACCCCTAACCCTTAA
1 CCCTAAACACTTAAACCTTAA
33102513 CCCTAAACACTTAAACCTTAGA
1 CCCTAAACACTTAAACCTTA-A
* * * *
33102535 CCCCAACCA-TTACACCATAA
1 CCCTAAACACTTAAACCTTAA
33102555 TCCCTAAAC
1 -CCCTAAAC
33102564 CCCTAACTCA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.77
22 8 0.20
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.19
Consensus pattern (21 bp):
CCCTAAACACTTAAACCTTAA
Found at i:33102622 original size:25 final size:25
Alignment explanation
Indices: 33102585--33102632 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33102575 CCGTATTCCT
* *
33102585 TAAACCTTGAATCATAAAACATATA
1 TAAACCCTAAATCATAAAACATATA
* *
33102610 TAAACCCTAAATCCTAAACCATA
1 TAAACCCTAAATCATAAAACATA
33102633 AATCATAAAA
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:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAACCCTAAATCATAAAACATATA
Found at i:33102667 original size:39 final size:40
Alignment explanation
Indices: 33102581--33102673 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
33102571 TCAACCGTAT
* * *
33102581 TCCTTAAACCTTGAATCATAAAACATATATAAACCCTAAA
1 TCCTTAAACCTTAAATCATAAAACATATATAAAACATAAA
* *
33102621 TCC-TAAACCATAAATCATAAAACATATATAAAATATAAA
1 TCCTTAAACCTTAAATCATAAAACATATATAAAACATAAA
33102660 -CCTTAAACCTTAAA
1 TCCTTAAACCTTAAA
33102674 CCTCAACCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.04
39 41 0.89
40 3 0.07
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (40 bp):
TCCTTAAACCTTAAATCATAAAACATATATAAAACATAAA
Found at i:33105843 original size:7 final size:7
Alignment explanation
Indices: 33105831--33105963 Score: 72
Period size: 7 Copynumber: 18.7 Consensus size: 7
33105821 ACTAGTTAAT
33105831 CTAAACC
1 CTAAACC
33105838 CTAAACC
1 CTAAACC
*
33105845 ATAAA-C
1 CTAAACC
33105851 CTAAACC
1 CTAAACC
33105858 CTAAAACC
1 CT-AAACC
33105866 CTAAACC
1 CTAAACC
* *
33105873 CTTAACA
1 CTAAACC
33105880 C-ATAACC
1 CTA-AACC
33105887 TCTAAACC
1 -CTAAACC
*
33105895 TTAAACC
1 CTAAACC
* ** *
33105902 CCAGTCT
1 CTAAACC
*
33105909 TTAAACC
1 CTAAACC
*
33105916 ATAAACC
1 CTAAACC
*
33105923 ATAAACC
1 CTAAACC
* *
33105930 ATAATCC
1 CTAAACC
33105937 CTAAACC
1 CTAAACC
*
33105944 CATAATCC
1 C-TAAACC
*
33105952 ATAAACC
1 CTAAACC
*
33105959 TTAAA
1 CTAAA
33105964 ATAGTAACTC
Statistics
Matches: 95, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
6 5 0.05
7 72 0.76
8 17 0.18
9 1 0.01
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:33105851 original size:14 final size:14
Alignment explanation
Indices: 33105831--33106021 Score: 93
Period size: 14 Copynumber: 13.4 Consensus size: 14
33105821 ACTAGTTAAT
*
33105831 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
33105845 ATAAACC-TAAACC
1 CTAAACCATAAACC
*
33105858 CTAAAACCCTAAACC
1 CT-AAACCATAAACC
*
33105873 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
33105887 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* ** **
33105902 CCAGTCTTTAAACC
1 CTAAACCATAAACC
*
33105916 ATAAACCATAAACC
1 CTAAACCATAAACC
* * *
33105930 ATAATCCCTAAACC
1 CTAAACCATAAACC
*
33105944 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
33105959 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
* *
33105974 CTAAACCTTAAACT
1 CTAAACCATAAACC
* *
33105988 CTAGACCATATACC
1 CTAAACCATAAACC
*
33106002 CTAAACCAAAAACC
1 CTAAACCATAAACC
*
33106016 TTAAAC
1 CTAAAC
33106022 TATAGTGATA
Statistics
Matches: 133, Mismatches: 33, Indels: 22
0.71 0.18 0.12
Matches are distributed among these distances:
12 3 0.02
13 7 0.05
14 82 0.62
15 39 0.29
17 2 0.02
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:33106416 original size:41 final size:41
Alignment explanation
Indices: 33106326--33106563 Score: 255
Period size: 41 Copynumber: 5.9 Consensus size: 41
33106316 AAATTTTTTT
* * ***
33106326 GCGGCACTTTTTTAAAAACGCCGCTAAAG-ATTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
33106366 GCGGCGCTTTTTCAAAAATGCCGTTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
33106407 GTGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * * *
33106448 GTGGCAC-TTTTCAAAAATGTCACTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
33106488 GCAGCGCTTTTTCAAAACCGCTGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
33106529 GCGACGCTTTTTGAAAAACACTGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
33106564 AAGCTCGAAA
Statistics
Matches: 165, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
40 58 0.35
41 107 0.65
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:33106475 original size:81 final size:82
Alignment explanation
Indices: 33106332--33106546 Score: 245
Period size: 81 Copynumber: 2.6 Consensus size: 82
33106322 TTTTGCGGCA
* *** * **
33106332 CTTTTTTAAAAACGCCGCTAAAG-ATTGAGCATTAGCGGCGCTTTTTCAAAAATGCCGTTAAAGC
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTTTTTCAAAAATGCCACTAAAGC
* ** *
33106396 CCCGAGCATTAGTGGTG
66 CCCAAGCATTAGCAGCG
* *
33106413 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCAC-TTTTCAAAAATGTCACTAAAGC
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTTTTTCAAAAATGCCACTAAAGC
33106477 CCCAAGCATTAGCAGCG
66 CCCAAGCATTAGCAGCG
* * * * * *
33106494 CTTTTTCAAAACCGCTGCTAAAGCCCCAAGCATTAGCGACGCTTTTTGAAAAA
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTTTTTCAAAAA
33106547 CACTGCTAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
81 90 0.80
82 22 0.20
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (82 bp):
CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTTTTTCAAAAATGCCACTAAAGC
CCCAAGCATTAGCAGCG
Found at i:33116380 original size:6 final size:6
Alignment explanation
Indices: 33116369--33116411 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
33116359 AAATCGAAAA
33116369 TCCACC TCCACC TCCACC TCCACC GATCCACC ATTCCACC TCC
1 TCCACC TCCACC TCCACC TCCACC --TCCACC --TCCACC TCC
33116412 GGTCCACCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 21 0.64
8 12 0.36
ACGTcount: A:0.19, C:0.60, G:0.02, T:0.19
Consensus pattern (6 bp):
TCCACC
Found at i:33124832 original size:18 final size:18
Alignment explanation
Indices: 33124809--33124848 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33124799 ACTAGTATAG
33124809 TATTCTTTGCAACATCTT
1 TATTCTTTGCAACATCTT
* *
33124827 TATTCTTTGTAACATTTT
1 TATTCTTTGCAACATCTT
33124845 TATT
1 TATT
33124849 TACTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTCTTTGCAACATCTT
Found at i:33131292 original size:19 final size:18
Alignment explanation
Indices: 33131236--33131293 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
33131226 GTAAAAATAT
33131236 AAAAAGAAAA-ACAAAGGAA
1 AAAAAGAAAAGA-AAA-GAA
* *
33131255 ATAAAGAACAAGGAAAGAA
1 AAAAAGAA-AAGAAAAGAA
33131274 CAAAAAGAAAAGAAAAGAA
1 -AAAAAGAAAAGAAAAGAA
33131293 A
1 A
33131294 TGATAGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.03
19 19 0.59
20 12 0.38
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAGAA
Found at i:33136510 original size:14 final size:14
Alignment explanation
Indices: 33136485--33136517 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
33136475 AACATTATGC
33136485 AAAAAATTAAA-TA
1 AAAAAATTAAATTA
33136498 AAAAAATTAAAATTA
1 AAAAAATT-AAATTA
33136513 AAAAA
1 AAAAA
33136518 CAAGTAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 3 0.17
15 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTAAATTA
Found at i:33160461 original size:29 final size:29
Alignment explanation
Indices: 33160427--33160482 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
33160417 AGATCTGATT
33160427 GCTCGACTAACATAATATCAATGATGTTA
1 GCTCGACTAACATAATATCAATGATGTTA
*
33160456 GCTCGACTAACATAATATCTATGATGT
1 GCTCGACTAACATAATATCAATGATGT
33160483 CAACTCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (29 bp):
GCTCGACTAACATAATATCAATGATGTTA
Found at i:33170601 original size:25 final size:26
Alignment explanation
Indices: 33170560--33170610 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
33170550 ATTTTTCTCC
* *
33170560 TAAAATTTCAATTTTATTTAATTATT
1 TAAAATTTCAATATTATTGAATTATT
33170586 TAAAATTTCAA-ATTATTGAATTATT
1 TAAAATTTCAATATTATTGAATTATT
33170611 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (26 bp):
TAAAATTTCAATATTATTGAATTATT
Found at i:33173371 original size:3 final size:3
Alignment explanation
Indices: 33173363--33173401 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
33173353 ATTAATCTTG
33173363 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33173402 AATATTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33179366 original size:88 final size:88
Alignment explanation
Indices: 33178847--33179323 Score: 810
Period size: 88 Copynumber: 5.4 Consensus size: 88
33178837 GTGAAGATAA
* * * * *
33178847 CAGATCTTGCCTTCCTACACTGACAGCAAAGCAGATTGAAGACACCAGCCTTGTCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
33178912 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
33178935 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
33179000 GCAGCGAAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
33179023 CAGATCTTGCCTTCCTGCACGGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
33179088 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * *
33179111 CAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTCCCCGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
33179176 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
33179199 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
33179264 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
33179287 TAAATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
33179324 AATAACCCCA
Statistics
Matches: 364, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 364 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:33179385 original size:44 final size:44
Alignment explanation
Indices: 33179336--33179457 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
33179326 TAACCCCAGC
33179336 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAA-T
** *
33179380 CCTATCTCCCTGGTTAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
33179424 CCTATCTCCCT-GAGCAACAGTGGAGTAGGATGAA
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
33179458 AATAGCAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:33179890 original size:44 final size:44
Alignment explanation
Indices: 33179820--33179985 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 44
33179810 GAAGATGGCG
* *
33179820 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* ** * *
33179863 TAATCCTATCTCCCTGAAGTCACAGTGGAGCGGATTAAAATCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* ** *
33179908 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAA--AGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCA-CA
*
33179953 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
33179986 CTCAAGAAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
44 64 0.63
45 35 0.35
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:33180032 original size:45 final size:46
Alignment explanation
Indices: 33179822--33180032 Score: 181
Period size: 45 Copynumber: 4.7 Consensus size: 46
33179812 AGATGGCGAA
* * * * *
33179822 TCTTATCTCC-CTGAAGTTGTAGTGGAGCAGATTAAAGCCAA-TAA-
1 TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAG
* ** * * *
33179866 TCCTATCTCC-CTGAAGTCACAGTGGAGCGGA-TTAA-AATCA-CAAA
1 TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACTCAAGAA--AGCAAG
* *
33179910 TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAG
1 TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
*
33179955 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAG
1 TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
* *
33180000 TCTTATC-CCTCTGAAATTGCAGTGGGGCAGACT
1 TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACT
33180033 AAATAAACAA
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
43 6 0.04
44 55 0.40
45 73 0.53
46 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
TCTTATCTCCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
Found at i:33180606 original size:19 final size:19
Alignment explanation
Indices: 33180582--33180675 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
33180572 ATAATCTTCA
*
33180582 ATGATATGCAATCTTCGAT
1 ATGATATGCAATCTTAGAT
*
33180601 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33180620 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
33180639 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33180658 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
33180676 AGATATGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 70 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33180626 original size:38 final size:38
Alignment explanation
Indices: 33180582--33180698 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
33180572 ATAATCTTCA
*
33180582 ATGATATGCAATCTTCGATATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
33180620 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
*
33180658 ATGATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATGATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
33180699 GATTTAATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 52 0.71
41 8 0.11
42 13 0.18
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
Found at i:33180926 original size:23 final size:23
Alignment explanation
Indices: 33180882--33180926 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
33180872 TCTTATTTTG
* *
33180882 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
33180905 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
33180927 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:33181162 original size:3 final size:3
Alignment explanation
Indices: 33181154--33181184 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33181144 ATCTTGTATC
33181154 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
33181185 ATTCATGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:33184054 original size:24 final size:23
Alignment explanation
Indices: 33184018--33184068 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
33184008 GTGGATTAAG
33184018 TTAATAAAATGTAATTAAACTAA
1 TTAATAAAATGTAATTAAACTAA
*
33184041 TTAATTAAAGTGTAATTAAACTAA
1 TTAA-TAAAATGTAATTAAACTAA
33184065 TTAA
1 TTAA
33184069 ACATCCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (23 bp):
TTAATAAAATGTAATTAAACTAA
Found at i:33187706 original size:21 final size:22
Alignment explanation
Indices: 33187662--33187708 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
33187652 AAATTTAGTA
*
33187662 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
33187684 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
33187705 TATT
1 TATT
33187709 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:33196376 original size:2 final size:2
Alignment explanation
Indices: 33196369--33196403 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33196359 ATTTGGTTGA
33196369 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
33196404 AGGCATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33205655 original size:14 final size:14
Alignment explanation
Indices: 33205636--33205662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33205626 TGTTTCATGC
33205636 ATATGATATGAATA
1 ATATGATATGAATA
33205650 ATATGATATGAAT
1 ATATGATATGAAT
33205663 TGATCTATTT
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
ATATGATATGAATA
Found at i:33206435 original size:50 final size:50
Alignment explanation
Indices: 33206381--33206519 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
33206371 TAATAAAGTC
* *
33206381 ATGCATTATGTAACTTTCATGTTAGTTACG-TATGCATCATAAATAATGAA
1 ATGCATTATGTAACTCTCATGTTAGTTAAGAT-TGCATCATAAATAATGAA
* * **
33206431 ATGCATTATGTAACTCTCATGTTAGTGAAGATTGCATCATAAATTATGTC
1 ATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATGAA
* *
33206481 ATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATC
1 ATGCATTATGTAACTCTCATGTTAGTT-AAGATTGCATC
33206520 TTTAAATGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 67 0.86
51 11 0.14
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (50 bp):
ATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATGAA
Found at i:33209545 original size:100 final size:100
Alignment explanation
Indices: 33209433--33209637 Score: 313
Period size: 100 Copynumber: 2.0 Consensus size: 100
33209423 TGTTAAGAAG
* *
33209433 TTGAATTGAGTGCGTAAATTTGATTGGTATGGTTTAATGCATGA-TTTGAATCAGATGAGTTTGA
1 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCAT-ATTTTGAATCAGATGAGTTTGA
* * *
33209497 CATTAGGTGACTATGTTACAATTTGGTTTGGAAACA
65 CATTAGGTGAATATGTTACAAGTTGGTTCGGAAACA
* * *
33209533 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCATATTTTGGATTAGATGTGTTTGAC
1 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCATATTTTGAATCAGATGAGTTTGAC
*
33209598 ATTAGGTGAATATGTTACAAGTTGGTTCGGAAGCA
66 ATTAGGTGAATATGTTACAAGTTGGTTCGGAAACA
33209633 TTGAA
1 TTGAA
33209638 ATAGGTACCA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 94 0.99
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (100 bp):
TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCATATTTTGAATCAGATGAGTTTGAC
ATTAGGTGAATATGTTACAAGTTGGTTCGGAAACA
Found at i:33210658 original size:43 final size:44
Alignment explanation
Indices: 33210592--33210678 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 44
33210582 TTATCCTAGA
* *
33210592 AAAAAAGAATTTTAAAAAAAGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTTGTTG
*
33210636 AAAAAAGAA-TTTAAAAAGAGGAGAAGATAAACATGGGTTGTTG
1 AAAAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTTGTTG
33210679 GATTTACCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 31 0.77
44 9 0.22
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (44 bp):
AAAAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTTGTTG
Found at i:33211889 original size:19 final size:19
Alignment explanation
Indices: 33211867--33211904 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33211857 TTTCATTTAA
33211867 CTTAATTATATTTAATTTC
1 CTTAATTATATTTAATTTC
33211886 CTTAATTATATTTAATTTC
1 CTTAATTATATTTAATTTC
33211905 TACAGGTTTG
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:0.11, G:0.00, T:0.58
Consensus pattern (19 bp):
CTTAATTATATTTAATTTC
Found at i:33223755 original size:47 final size:47
Alignment explanation
Indices: 33223693--33223789 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
33223683 ATATCCATTA
*
33223693 TTCTTTGTCGTTGTATCTATATCATATCATTCTTAGTTATTTATTTG
1 TTCTTTGTCGTTGTATCTATATCATATCATTCTTAGTTATGTATTTG
33223740 TTCTTTGTCGTTGTATCTATATCATATCATTCTTAGTTATGTATTTG
1 TTCTTTGTCGTTGTATCTATATCATATCATTCTTAGTTATGTATTTG
33223787 TTC
1 TTC
33223790 ATTTACATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (47 bp):
TTCTTTGTCGTTGTATCTATATCATATCATTCTTAGTTATGTATTTG
Found at i:33225505 original size:22 final size:22
Alignment explanation
Indices: 33225480--33225529 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
33225470 AAATGTAGAG
33225480 AGTAAAATTCACAAAGGAAAGA
1 AGTAAAATTCACAAAGGAAAGA
33225502 AGTAAAATTCACAAAGGAAAGA
1 AGTAAAATTCACAAAGGAAAGA
33225524 AGTAAA
1 AGTAAA
33225530 GGAAAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.60, C:0.08, G:0.18, T:0.14
Consensus pattern (22 bp):
AGTAAAATTCACAAAGGAAAGA
Found at i:33226506 original size:6 final size:6
Alignment explanation
Indices: 33226488--33226525 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
33226478 CGCATTCTCC
*
33226488 TCCCCT CTCCCCT TCCCCT TCCCCT TCCCCT TTCCCT T
1 TCCCCT -TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
33226526 TCCTTTTCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCCT
Found at i:33226526 original size:6 final size:6
Alignment explanation
Indices: 33226497--33226545 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
33226487 CTCCCCTCTC
* * * *
33226497 CCCTTC CCCTTC CCCTTC CCCTTT CCCTTT CCTTTT CCCTTT CCCTTT
1 CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT
33226545 C
1 C
33226546 TCTTGGGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (6 bp):
CCCTTT
Found at i:33229545 original size:32 final size:33
Alignment explanation
Indices: 33229509--33229594 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
33229499 ACAATTTTTC
33229509 CAGAAAATATTTTCAGGAAATTT-A-CCAAACAA
1 CAGAAAATATTTTCA-GAAATTTCATCCAAACAA
* * *
33229541 CAGAAAATATTTTACA-CAGTTTCATCCAAACAC
1 CAGAAAATATTTT-CAGAAATTTCATCCAAACAA
33229574 CAGAAAATATTTTCAGTAAAT
1 CAGAAAATATTTTCAG-AAAT
33229595 CATTTTCTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 4 0.09
32 16 0.36
33 22 0.50
34 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (33 bp):
CAGAAAATATTTTCAGAAATTTCATCCAAACAA
Found at i:33229627 original size:20 final size:20
Alignment explanation
Indices: 33229588--33229628 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33229578 AAATATTTTC
*
33229588 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
*
33229608 AGTAAATCATTTTCCGGAAA
1 AGTAAATCATTTTCCAGAAA
33229628 A
1 A
33229629 TCATTTTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:33229649 original size:14 final size:15
Alignment explanation
Indices: 33229611--33229649 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
33229601 CTAGAAAAGT
33229611 AAATCATTTTCCGGA
1 AAATCATTTTCCGGA
*
33229626 AAATCATTTTCTGGA
1 AAATCATTTTCCGGA
33229641 AAA-CATTTT
1 AAATCATTTT
33229650 ACTGACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (15 bp):
AAATCATTTTCCGGA
Found at i:33232936 original size:16 final size:17
Alignment explanation
Indices: 33232912--33232944 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33232902 GGATCATAGA
*
33232912 GTTATTTGCA-TGTTTT
1 GTTACTTGCATTGTTTT
33232928 GTTACTTGCATTGTTTT
1 GTTACTTGCATTGTTTT
33232945 TAAAAGTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (17 bp):
GTTACTTGCATTGTTTT
Found at i:33242688 original size:16 final size:16
Alignment explanation
Indices: 33242641--33242688 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33242631 TCTTAAGTGG
*
33242641 TACTTATTCTTGAATGA
1 TACTTATT-TTGAATAA
* * *
33242658 TATTTTTTTTAAATAA
1 TACTTATTTTGAATAA
33242674 TACTTATTTTGAATA
1 TACTTATTTTGAATA
33242689 GAAATTGTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (16 bp):
TACTTATTTTGAATAA
Found at i:33251308 original size:172 final size:170
Alignment explanation
Indices: 33251088--33251490 Score: 430
Period size: 172 Copynumber: 2.3 Consensus size: 170
33251078 AGGTCATGGT
* * * * ** * *
33251088 CTTTAGCGGCGCTTGTACCATAAACGCCGCTCAAGGTCATGGTCTTTAGCGGCGTTTTTACTAGA
1 CTTTAGCGGCGCTTCT-CCAAAAATGCCGCTAAAGACCATGATCTTTAGCGGCGTTTTTACCAGA
** * * *
33251153 AACACCGCTAAAGGTCATGGTCTTTAGCGGCGCCTTTGAGACAAACACCGCTAAAGACCATGACC
65 AACACCGCTAAAGACCATGATCTTTAGCGGCG-CTTTGACACAAACACCGCGAAAGACCATGACC
*
33251218 TTTAGCGGCGC-TTACCCAAAAAACGCTGCTAAAGACAATGAC
129 GTTAGCGGCGCTTTACCC-AAAAACGCTGCTAAAGACAATGAC
* * *
33251260 CTTTAGCGGCGCTTCTCCAAAAAATGCCGCTAAAGACCATGATCTTTAGCGACGATTTTTCCCAT
1 CTTTAGCGGCGCTTCTCC-AAAAATGCCGCTAAAGACCATGATCTTTAGCGGCG-TTTTTACCAG
** * * ** * *
33251325 AAATGCCGCTAAATACCATGATCTTTAGCGGCGTTTTTCCACAAACTCCGCGAAAGACCATGATC
64 AAACACCGCTAAAGACCATGATCTTTAGCGGCGCTTTGACACAAACACCGCGAAAGACCATGACC
** * * * *
33251390 GTTAGCGGCGCTTTTTCCACAAATGCTGCTAAAGACCATGAT
129 GTTAGCGGCGCTTTACCCAAAAACGCTGCTAAAGACAATGAC
* * * *
33251432 ATTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGACCATGAACTTTAGCGGCGTTTTT
1 CTTTAGCGGCGC-TTCTCCAAAAATGCCGCTAAAGACCATGATCTTTAGCGGCGTTTTT
33251491 TTTTAAAACG
Statistics
Matches: 191, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
171 7 0.04
172 141 0.74
173 43 0.23
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (170 bp):
CTTTAGCGGCGCTTCTCCAAAAATGCCGCTAAAGACCATGATCTTTAGCGGCGTTTTTACCAGAA
ACACCGCTAAAGACCATGATCTTTAGCGGCGCTTTGACACAAACACCGCGAAAGACCATGACCGT
TAGCGGCGCTTTACCCAAAAACGCTGCTAAAGACAATGAC
Found at i:33251343 original size:44 final size:43
Alignment explanation
Indices: 33251070--33251491 Score: 368
Period size: 43 Copynumber: 9.8 Consensus size: 43
33251060 AGAAATAAAC
** * * * * *
33251070 GCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTGTACCATAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAAT
* ** * * * *
33251113 GCCGCTCAAGGTCATGGTCTTTAGCGGCG-TTTTTACTAGAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTT-CCACAAAT
* ** * * *** *
33251156 ACCGCTAAAGGTCATGGTCTTTAGCGGCGCCTTTGAGACAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAAT
* * ** * *
33251199 ACCGCTAAAGACCATGACCTTTAGCGGCGC-TTACCCAAAAAAC
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCC-ACAAAT
* * * * *
33251242 GCTGCTAAAGACAATGACCTTTAGCGGCGC-TTCTCCAAAAAAT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCC-ACAAAT
* * *
33251285 GCCGCTAAAGACCATGATCTTTAGCGACGATTTTTCCCATAAAT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTT-CCACAAAT
*
33251329 GCCGCTAAATACCATGATCTTTAGCGGCG-TTTTTCCACAAACT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAA-T
* *
33251372 -CCGCGAAAGACCATGATCGTTAGCGGCGCTTTTTCCACAAAT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAAT
* *
33251414 GCTGCTAAAGACCATGATATTTAGCGGCGCTTTTTCCACAAAT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAAT
* *
33251457 GCCGCTAAAGACCATGAACTTTAGCGGCGTTTTTT
1 GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTT
33251492 TTTAAAACGC
Statistics
Matches: 323, Mismatches: 48, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
42 37 0.11
43 246 0.76
44 38 0.12
45 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAAT
Found at i:33251857 original size:21 final size:21
Alignment explanation
Indices: 33251828--33251887 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
33251818 TTTTACGCTG
*
33251828 CTCTGCTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
33251849 CTCTACTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
33251870 CTCTGCTTCTCTCACTGC
1 CTCTGCTTCCCTCGCTGC
33251888 CGCATCTACT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.07, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:33251980 original size:66 final size:67
Alignment explanation
Indices: 33251869--33251994 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 67
33251859 CTTGCTGCAG
*
33251869 CCTCTGCTTCTCTCACTGCCGCATCTACTTTAAGCTACTGCTGGAGTTCTTCATA-CTTTCGATG
1 CCTCAGCTTCTCTCACTGCCGCATCTACTTTAAGCTACTGCTGGAGTTCTTCATATCTTTCGATG
33251933 AA
66 AA
* * * **
33251935 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG-TTGTAGCTGGAGTTCTTCATATCTTT
1 CCTCAGCTTCTCTCACTGCCGCATCTACTTTAAGCTACT-GCTGGAGTTCTTCATATCTTT
33251995 TTTGAACCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.04
66 46 0.88
67 4 0.08
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.39
Consensus pattern (67 bp):
CCTCAGCTTCTCTCACTGCCGCATCTACTTTAAGCTACTGCTGGAGTTCTTCATATCTTTCGATG
AA
Found at i:33252115 original size:18 final size:17
Alignment explanation
Indices: 33252094--33252137 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
33252084 ACCCCAGCCA
33252094 AACCCCTAAAACCTCTCT
1 AACCCCTAAAACCTC-CT
*
33252112 AACCCCTAAATCCTCCT
1 AACCCCTAAAACCTCCT
*
33252129 AAACCCTAA
1 AACCCCTAA
33252138 TTAACCCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.20
Consensus pattern (17 bp):
AACCCCTAAAACCTCCT
Found at i:33253058 original size:28 final size:28
Alignment explanation
Indices: 33253007--33253061 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
33252997 TATCTTACAT
*
33253007 TTAAATAATTAATGACCTATTTATTTAC
1 TTAAATAATTAATGACCTAATTATTTAC
*
33253035 TTAAATAATTAATTG-CGTAATTATTTA
1 TTAAATAATTAA-TGACCTAATTATTTA
33253062 TTTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (28 bp):
TTAAATAATTAATGACCTAATTATTTAC
Found at i:33253446 original size:15 final size:16
Alignment explanation
Indices: 33253426--33253463 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
33253416 ACCGTTGAAA
33253426 CCCTAAATCC-CAAAC
1 CCCTAAATCCTCAAAC
*
33253441 CCCTAAA-CCTCTAAC
1 CCCTAAATCCTCAAAC
33253456 CCCTAAAT
1 CCCTAAAT
33253464 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (16 bp):
CCCTAAATCCTCAAAC
Found at i:33254060 original size:41 final size:41
Alignment explanation
Indices: 33254014--33254354 Score: 287
Period size: 41 Copynumber: 8.3 Consensus size: 41
33254004 TTTGGTTACT
*
33254014 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTAAGAGC
1 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
** * * *
33254055 ATTAGCGGCGCTTACCCAAAAGCGCCTCTAAAGG-CTAGAGT
1 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTC-AGAGC
** * * * * *
33254096 ATTAGCGGCGCTTAACCAAAAACGTCACTAAATGCCCGAGC
1 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
* *
33254137 ATTAGCGGCGCTTAAAT-AAAAACGCCGCTAAAGTTCCA-AGC
1 ATTAGCGGCGCTT-AGTCAAAAACGCCGCTAAAGGT-CAGAGC
* * * *
33254178 TTTAGCGACGCTTAGTAAAAAACGCCGCTAAAGGTCCGAGC
1 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
* * * *
33254219 TTTAGCGGCGCTTAGTAAAAAACCGCCGCTAAAGGTCCGAAC
1 ATTAGCGGCGCTTAGTCAAAAA-CGCCGCTAAAGGTCAGAGC
* * ** * *
33254261 ACTAGCGGCACTTAACCAAAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
* * * * * *
33254302 ATTAGCGGCGTTTTGGT--AAAGCGCCGCGAAAGATCCGAGC
1 ATTAGCGGCG-CTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
33254342 ATTAGCGGCGCTT
1 ATTAGCGGCGCTT
33254355 TTACAAAAAT
Statistics
Matches: 242, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.01
40 30 0.12
41 170 0.70
42 40 0.17
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGTCAAAAACGCCGCTAAAGGTCAGAGC
Found at i:33254533 original size:40 final size:38
Alignment explanation
Indices: 33254427--33254542 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 38
33254417 GCGCTTTATA
*
33254427 AAAAACGCCGCTAATTACT-ATTTTTAGCTGCGCTTTTGG
1 AAAAACGCCGCTAATT-CTCATTTTTAGCGGCGC-TTTGG
* * * * *
33254466 AAATACGCCGCTGATGCTCGATCTTTAGCGGTGCTTTGG
1 AAAAACGCCGCTAATTCTC-ATTTTTAGCGGCGCTTTGG
* *
33254505 CAAAAACGCCACTAATTCTCAATTTTTAGTGGCGCTTT
1 -AAAAACGCCGCTAATTCTC-ATTTTTAGCGGCGCTTT
33254543 TGTTCCAAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 18 0.30
40 40 0.67
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (38 bp):
AAAAACGCCGCTAATTCTCATTTTTAGCGGCGCTTTGG
Found at i:33258088 original size:51 final size:51
Alignment explanation
Indices: 33257976--33258078 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
33257966 CTAAATTATA
* *
33257976 AAGTACGATTTTAAAAATTACAAATATTTCAAGTCCTTGTCTTCTTCCTAT
1 AAGTACAATTTTAAAAATTACAAATATTTCAAGTCCTTGTATTCTTCCTAT
33258027 AAGTACAATTTTAAAAATTACAAATATTTCAAGTCCTTGTATTCTTCCTAT
1 AAGTACAATTTTAAAAATTACAAATATTTCAAGTCCTTGTATTCTTCCTAT
33258078 A
1 A
33258079 TTTGGAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (51 bp):
AAGTACAATTTTAAAAATTACAAATATTTCAAGTCCTTGTATTCTTCCTAT
Found at i:33261918 original size:66 final size:66
Alignment explanation
Indices: 33261866--33262022 Score: 228
Period size: 66 Copynumber: 2.4 Consensus size: 66
33261856 ACACATGCAT
* *
33261866 TGCCATGGCCCTA-CCATGGTCTTACATTTGTAGTGCCGTAAACCAGTTATGGTCTTATCATCAG
1 TGCCATGGCCC-AGCCATGATCTTACATTTGTAGTGCCATAAACCAGTTATGGTCTTATCATCAG
33261930 AA
65 AA
* *
33261932 TGTCATGGCCCAGCCATGATCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATC-GA
1 TGCCATGGCCCAGCCATGATCTTACATTTGTAGTGCCATAAACCAGTTATGGTCTTATCATCAGA
33261996 A
66 A
* * *
33261997 TGCCATAGCCCAGCTATGGTCTTACA
1 TGCCATGGCCCAGCCATGATCTTACA
33262023 CATGTATCTA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 26 0.32
66 56 0.68
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (66 bp):
TGCCATGGCCCAGCCATGATCTTACATTTGTAGTGCCATAAACCAGTTATGGTCTTATCATCAGA
A
Found at i:33261988 original size:33 final size:32
Alignment explanation
Indices: 33261881--33262022 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 32
33261871 TGGCCCTACC
* * * *
33261881 ATGGTCTTACATTTGTAGTGCCGTAAACCAGTT
1 ATGGTCTTACATTTG-AATGCCATAACCCAGCT
** * ** *
33261914 ATGGTCTTATCATCAGAATGTCATGGCCCAGCC
1 ATGGTCTTA-CATTTGAATGCCATAACCCAGCT
* * *
33261947 ATGATCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTG-AATGCCATAACCCAGCT
* *
33261980 ATGGTCTTATCA-TCGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTTGAATGCCATAACCCAGCT
33262012 ATGGTCTTACA
1 ATGGTCTTACA
33262023 CATGTATCTA
Statistics
Matches: 82, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
31 2 0.02
32 27 0.33
33 47 0.57
34 6 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTTGAATGCCATAACCCAGCT
Found at i:33262009 original size:32 final size:32
Alignment explanation
Indices: 33261908--33262020 Score: 111
Period size: 33 Copynumber: 3.5 Consensus size: 32
33261898 GTGCCGTAAA
* * *
33261908 CCAGTTATGGTCTTATCATCAGAATGTCATGGC
1 CCAGCTATGGTCTTATCATC-GAATGCCATAGC
* * * * *
33261941 CCAGCCATGATCTTA-CATTTGTAGTGCCATAAC
1 CCAGCTATGGTCTTATCA-TCG-AATGCCATAGC
*
33261974 CCAGTTATGGTCTTATCATCGAATGCCATAGC
1 CCAGCTATGGTCTTATCATCGAATGCCATAGC
33262006 CCAGCTATGGTCTTA
1 CCAGCTATGGTCTTA
33262021 CACATGTATC
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
32 26 0.42
33 34 0.55
34 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (32 bp):
CCAGCTATGGTCTTATCATCGAATGCCATAGC
Found at i:33262133 original size:33 final size:33
Alignment explanation
Indices: 33261881--33262134 Score: 84
Period size: 33 Copynumber: 7.5 Consensus size: 33
33261871 TGGCCCTACC
** * * ** *
33261881 ATGGTCTTACATTTGTAGTGCCGTAAACCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
* * * * *
33261914 ATGGTCTTATCA-TCAGAATGTCATGGCCCAGCC
1 ATGGTCTTA-CATTTAAAATGCCATAGCCCAGCT
* ** * * *
33261947 ATGATCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
**
33261980 ATGGTCTTATCA--TCGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTTAAAATGCCATAGCCCAGCT
* * * * * *
33262012 ATGGTCTTACACATGTATCTATACTGCCATGGTCCAACC
1 ATGGTCTT--ACA--T-T-TAAAATGCCATAGCCCAGCT
** * ** ** *
33262051 ATGGTCTTATGTTCAATGTGCCATAATCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
*
33262084 ATGGTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAGCCCAGCT
33262117 ATGGTCTTACATTTAAAA
1 ATGGTCTTACATTTAAAA
33262135 ATTGTCATGG
Statistics
Matches: 153, Mismatches: 55, Indels: 26
0.65 0.24 0.11
Matches are distributed among these distances:
32 29 0.19
33 93 0.61
34 8 0.05
35 1 0.01
37 1 0.01
39 21 0.14
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
Found at i:33265070 original size:35 final size:33
Alignment explanation
Indices: 33265002--33265070 Score: 77
Period size: 33 Copynumber: 2.0 Consensus size: 33
33264992 CAACTTTAAT
* *
33265002 ATCATTTTCATATACCAAAACTTATACTACCAA
1 ATCATTTTCAAATACCAAAACTTATAATACCAA
*
33265035 ATCATTTTCAAAT-CCAAACAATCTTATAATTCCAA
1 ATCATTTTCAAATACC-AA-AA-CTTATAATACCAA
33265070 A
1 A
33265071 CCAATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 2 0.07
33 14 0.47
34 2 0.07
35 12 0.40
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (33 bp):
ATCATTTTCAAATACCAAAACTTATAATACCAA
Found at i:33266453 original size:25 final size:25
Alignment explanation
Indices: 33266425--33266476 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
33266415 CAAACATAAT
33266425 AATAGAATATAGTAAGTTTCATATG
1 AATAGAATATAGTAAGTTTCATATG
33266450 AATAGAATATAGTAAGTTTCATATG
1 AATAGAATATAGTAAGTTTCATATG
33266475 AA
1 AA
33266477 CTTACTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (25 bp):
AATAGAATATAGTAAGTTTCATATG
Found at i:33267304 original size:20 final size:20
Alignment explanation
Indices: 33267270--33267324 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
33267260 ACATTATGTG
33267270 AAAAAATTAAA-TAAAACAA
1 AAAAAATTAAACTAAAACAA
**
33267289 AAAAAATTAAACTAAATTAA
1 AAAAAATTAAACTAAAACAA
33267309 AAATAAATT-AACTAAA
1 AAA-AAATTAAACTAAA
33267325 TATATTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 11 0.34
20 16 0.50
21 5 0.16
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAAATTAAACTAAAACAA
Found at i:33268174 original size:29 final size:31
Alignment explanation
Indices: 33268141--33268209 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 31
33268131 ATCGATAGTT
*
33268141 CAAGTACCACATTGAACA-TTT-TAAAAGTA
1 CAAGTACCACATTGAACATTTTATAAAAATA
*
33268170 CAAGTACCACATTGGACATTTTATAAAAATA
1 CAAGTACCACATTGAACATTTTATAAAAATA
33268201 CAAGTACCA
1 CAAGTACCA
33268210 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 17 0.47
30 3 0.08
31 16 0.44
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (31 bp):
CAAGTACCACATTGAACATTTTATAAAAATA
Found at i:33268649 original size:17 final size:16
Alignment explanation
Indices: 33268610--33268654 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
33268600 AAAACTCTTT
33268610 AAATTTTAAAAATAAA
1 AAATTTTAAAAATAAA
*
33268626 ATGATTTTAAAAATATAA
1 A-AATTTTAAAAATA-AA
*
33268644 AAATTTCAAAA
1 AAATTTTAAAA
33268655 TTCAATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.83
18 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATTTTAAAAATAAA
Done.