Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 107 of 362
Found at i:34976079 original size:15 final size:15
Alignment explanation
Indices: 34976059--34976110 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
34976049 CTTGGGTTTT
34976059 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
* *
34976074 TTTATTTTGGGTTTC
1 TTTATTCTGGATTTC
* *
34976089 -TCAATCTTGGATTTC
1 TTTATTC-TGGATTTC
34976104 TTTATTC
1 TTTATTC
34976111 GATTTTCTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
14 3 0.11
15 20 0.74
16 4 0.15
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:34978449 original size:46 final size:46
Alignment explanation
Indices: 34978384--34978608 Score: 131
Period size: 47 Copynumber: 4.8 Consensus size: 46
34978374 GATATTTGGG
* * *
34978384 CATCCTAACTCATTAAGTTGAGTCTGAGTTCACTTATGGATGCGA-A
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTC-CTTATGGATGCGACA
* * * * * *
34978430 CGTCCAAACTCGTTGAGTTGAGTCTAAGTTCGTGA--GATGTGACTA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCCTTATGGATGCGAC-A
* * * * **
34978475 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--AATGTAACTA
1 --CATCCGAACTCGTTGAGTTGAGTCTGAGTTCCTTATGGATGCGAC-A
*
34978522 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-A
1 --CATCCGAACTCGTTGAGTTGAGTCTGAGTTC-CTTATGGATGCGACA
* * * *
34978570 C-GCTTGAGCTCGTTGAGTTGAGTTTGAGTTCCCTTATGG
1 CATC-CGAACTCGTTGAGTTGAGTCTGAGTT-CCTTATGG
34978609 GCGAGGTACA
Statistics
Matches: 146, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
43 6 0.04
45 4 0.03
46 56 0.38
47 73 0.50
48 3 0.02
50 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCTGAGTTCCTTATGGATGCGACA
Found at i:34978497 original size:47 final size:47
Alignment explanation
Indices: 34978436--34978554 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
34978426 CGAACGTCCA
* * *
34978436 AACTCGTTGAGTTGAGTCTAAGTTCGTGAGATGTGACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCAAGTTCGTGAAATGTAACTAGGCATCCG
*
34978483 AACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCAAGTTCGTGAAATGTAACTAGGCATCCG
*
34978530 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCAAGTTC
34978555 ACTTATGGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCAAGTTCGTGAAATGTAACTAGGCATCCG
Found at i:34984566 original size:14 final size:14
Alignment explanation
Indices: 34984540--34984577 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
34984530 ATTTTCTGTG
34984540 TTTATTATGTGTGAA
1 TTTATT-TGTGTGAA
34984555 TTTATTTGTGTGAA
1 TTTATTTGTGTGAA
*
34984569 ATT-TTTGTG
1 TTTATTTGTG
34984578 CTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTATTTGTGTGAA
Found at i:34990920 original size:26 final size:27
Alignment explanation
Indices: 34990891--34990950 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
34990881 AGCTGCTAAT
*
34990891 AACAGT-AAATGTGGCAAAGCCACTAG
1 AACAGTAAAACGTGGCAAAGCCACTAG
*
34990917 AACAGTAAAAACGTGGTAAAGCCACTAG
1 AACAGT-AAAACGTGGCAAAGCCACTAG
*
34990945 TACAGT
1 AACAGT
34990951 TCTTCCTCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
28 23 0.79
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (27 bp):
AACAGTAAAACGTGGCAAAGCCACTAG
Found at i:34991175 original size:27 final size:27
Alignment explanation
Indices: 34991126--34991177 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34991116 TCATTTCGCT
*
34991126 CTATAGGGGTATTTCAGTAATTTTACA
1 CTATAAGGGTATTTCAGTAATTTTACA
* *
34991153 CTATAAGGGTATTTCGGTCATTTTA
1 CTATAAGGGTATTTCAGTAATTTTA
34991178 TCCTACAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (27 bp):
CTATAAGGGTATTTCAGTAATTTTACA
Found at i:34996400 original size:23 final size:23
Alignment explanation
Indices: 34996370--34996414 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34996360 TTTCTTAACA
*
34996370 AAATTTTCACACAATCATTTTAG
1 AAATTTTCACACAATAATTTTAG
34996393 AAATTTTCACACAATAATTTTA
1 AAATTTTCACACAATAATTTTA
34996415 TCTTGTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATTTTCACACAATAATTTTAG
Found at i:35007478 original size:40 final size:40
Alignment explanation
Indices: 35007423--35007545 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
35007413 TATTCGGATG
* *
35007423 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
*
35007463 ATATCGGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
* * * *
35007503 ATAACCGGG-TTAAG-TCCCGAAGGCATTCGTGCAAGTTATT
1 AT-ATCGGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTATT
35007543 ATA
1 ATA
35007546 ACCGGGTTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 66 0.90
41 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
Found at i:35007546 original size:40 final size:40
Alignment explanation
Indices: 35007439--35007653 Score: 265
Period size: 40 Copynumber: 5.4 Consensus size: 40
35007429 GGACTAAGAT
* * * * *
35007439 CCGAAGGCATTTGTGCTAGTTACTAT-ATCGGGACTAAGAT-
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGG-TTAAG-TC
*
35007479 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
35007519 CCGAAGGCATTCGTGCAAGTTATTATAACCGGGTTAAATC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* * *
35007559 CCGAAGGTATTCGTACGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
35007599 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
35007639 CCGAAGGCATTCGTG
1 CCGAAGGCATTCGTG
35007654 TTGGTTGTTA
Statistics
Matches: 159, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 147 0.92
41 8 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
Found at i:35015690 original size:39 final size:39
Alignment explanation
Indices: 35015635--35015744 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
35015625 TATTCTGATG
35015635 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATAT-CGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
35015675 ATATCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
35015714 ATAACCGGGTTAAG-TCCGAAGGCATTCGTGC
1 AT-ATCGGACTAAGATCCGAAGGCATTTGTGC
35015745 GTTATTATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 50 0.81
40 12 0.19
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
ATATCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:35015787 original size:75 final size:79
Alignment explanation
Indices: 35015690--35015865 Score: 254
Period size: 75 Copynumber: 2.3 Consensus size: 79
35015680 GGACTAAGAT
**
35015690 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGT-CCGAAGGCATTCGTGC-GTTATTA
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGTTATTA
35015752 TAACCGGGTTAA-T-
65 TAACCGGGTTAAGTC
* *
35015765 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGTATTCGTGCGGGTTATTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGC-GGTTATTA
35015830 TAACCGGGTTAAGTC
65 TAACCGGGTTAAGTC
*
35015845 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
35015866 GTTACATCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
74 3 0.03
75 32 0.36
76 15 0.17
78 19 0.21
79 1 0.01
80 19 0.21
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGTTATTAT
AACCGGGTTAAGTC
Found at i:35015820 original size:40 final size:39
Alignment explanation
Indices: 35015684--35015865 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 39
35015674 TATATCGGAC
**
35015684 TAAGATCCGAAGGCAATT-GTGCTAGTTATTATAACCGGGT
1 TAAG-TCCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGT
35015724 TAAGTCCGAAGGCATTCGTGC--GTTATTATAACCGGGT
1 TAAGTCCGAAGGCATTCGTGCGGGTTATTATAACCGGGT
*
35015761 TAA-TCCGAAGGTATTCGTGCGGGTTATTATAACCGGGT
1 TAAGTCCGAAGGCATTCGTGCGGGTTATTATAACCGGGT
*
35015799 TAAGTCCCGAAGGTATTCGTGCGGGTTATTATAACCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGGGTTATTATAACCGGGT
*
35015839 TAAGTCCCGAAGGCATTCGTGCTGGTT
1 TAAGT-CCGAAGGCATTCGTGCGGGTT
35015866 GTTACATCCG
Statistics
Matches: 134, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
36 16 0.12
37 19 0.14
38 22 0.16
39 14 0.10
40 63 0.47
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGGGTTATTATAACCGGGT
Found at i:35023886 original size:40 final size:40
Alignment explanation
Indices: 35023831--35023953 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
35023821 TATTCGGATG
* *
35023831 ATATCTGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
*
35023871 ATATCGGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
* * * *
35023911 ATAACCGGG-TTAAG-TCCCGAAGGCATTCGTGCAAGTTATT
1 AT-ATCGGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTATT
35023951 ATA
1 ATA
35023954 ACCGGGTTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 66 0.90
41 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
ATATCGGGACTAAGATCCGAAGGCATTTGTGCTAGTTATT
Found at i:35023954 original size:40 final size:40
Alignment explanation
Indices: 35023847--35024061 Score: 265
Period size: 40 Copynumber: 5.4 Consensus size: 40
35023837 GGACTAAGAT
* * * * *
35023847 CCGAAGGCATTTGTGCTAGTTACTAT-ATCGGGACTAAGAT-
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGG-TTAAG-TC
*
35023887 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
35023927 CCGAAGGCATTCGTGCAAGTTATTATAACCGGGTTAAATC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* * *
35023967 CCGAAGGTATTCGTGCGGGTTATTATAATCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
35024007 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
35024047 CCGAAGGCATTCGTG
1 CCGAAGGCATTCGTG
35024062 TTGGTTGTTA
Statistics
Matches: 159, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 147 0.92
41 8 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
Found at i:35028223 original size:27 final size:27
Alignment explanation
Indices: 35028193--35028506 Score: 364
Period size: 27 Copynumber: 11.7 Consensus size: 27
35028183 TTAGTTTACC
35028193 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35028220 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
35028247 AAATTACCAAAATA-CCCTGGATTTGTA
1 AAATTACCAAAATACCCCTGG-TTTGTA
35028274 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35028301 AAATTACCAAACTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35028328 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
35028355 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
35028382 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * **
35028409 AAATTATCGAAATA-CCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
35028435 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35028462 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
35028489 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
35028507 CGATTTACAG
Statistics
Matches: 247, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 26 0.11
27 212 0.86
28 9 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:35028521 original size:54 final size:54
Alignment explanation
Indices: 35028187--35028562 Score: 344
Period size: 54 Copynumber: 7.0 Consensus size: 54
35028177 AATACTTTAG
* * *
35028187 TTTACCAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTTGA
* * *
35028241 TTTACAAAATTACCAAAATACCCTGGATTTGTAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
** * * *
35028295 TTTGTAAAATTACCAAACTACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTTGA
* * *
35028349 TTTACAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
*** * * * * ** *
35028403 TTTGTGAAATTATCGAAATACCTTAG-TTTACAAAATTACTAAAATACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
** * * * **
35028456 TTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
* * **** ** * *
35028510 TTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTATCGAAATACCCTTG
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
35028563 TAAGGTAGAA
Statistics
Matches: 262, Mismatches: 56, Indels: 8
0.80 0.17 0.02
Matches are distributed among these distances:
53 44 0.17
54 218 0.83
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGA
Found at i:35028574 original size:27 final size:27
Alignment explanation
Indices: 35028551--35028846 Score: 358
Period size: 27 Copynumber: 11.0 Consensus size: 27
35028541 CAAAATTATC
*
35028551 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * * *
35028578 AAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
35028605 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
35028632 GAAACACCCCTATAAGGTACAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
35028659 AAAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
35028686 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
35028713 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
35028740 GAAATACTCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
35028767 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* * * * *
35028794 AAAATGCCCTTGTATGGTAGAAATACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
35028821 AAAATACCCCTGTAGGGTAGAATTAC
1 GAAATACCCCTGTAAGGTAGAATTAC
35028847 CAAGATACCC
Statistics
Matches: 232, Mismatches: 37, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 232 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATTACT
Found at i:35029254 original size:22 final size:22
Alignment explanation
Indices: 35029222--35029280 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
35029212 CCCATTATCG
*
35029222 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
35029244 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
35029266 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
35029281 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:35029468 original size:27 final size:26
Alignment explanation
Indices: 35029438--35029519 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
35029428 ATTCTATTAA
*
35029438 GTGGCTTTGCCACAGTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
35029465 GTGG-TTATGCCACAAATATCTGTATCTG
1 GTGGCTT-TGCCAC-AATATCTGT-TCTG
* *
35029493 GTGACTTTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
35029519 G
1 G
35029520 CAGTAATGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 7 0.15
27 20 0.42
28 19 0.40
29 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:35029493 original size:28 final size:27
Alignment explanation
Indices: 35029442--35029519 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
35029432 TATTAAGTGG
*
35029442 CTTTGCCACAGTATCTG-ATTCTGGTG-
1 CTTTGCCACAATATCTGTA-TCTGGTGA
*
35029468 GTTATGCCACAAATATCTGTATCTGGTGA
1 CTT-TGCCAC-AATATCTGTATCTGGTGA
*
35029497 CTTTGTCACAATATCTGT-TCTGG
1 CTTTGCCACAATATCTGTATCTGG
35029520 CAGTAATGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 7 0.16
27 15 0.34
28 19 0.43
29 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
CTTTGCCACAATATCTGTATCTGGTGA
Found at i:35029665 original size:6 final size:6
Alignment explanation
Indices: 35029634--35029724 Score: 96
Period size: 6 Copynumber: 14.8 Consensus size: 6
35029624 TTGCATTCAC
* *
35029634 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
35029683 -TCACCTG ATTCTG ATTTTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
35029725 AGTTCTCATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.04
6 60 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35029669 original size:31 final size:31
Alignment explanation
Indices: 35029634--35029713 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
35029624 TTGCATTCAC
* *
35029634 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
35029665 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
35029696 ATTTTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
35029714 ATTCTGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:35031795 original size:26 final size:26
Alignment explanation
Indices: 35031759--35031809 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
35031749 GACAAGAATG
*
35031759 AGCCTGCTGGTTCACTAGTTAAGCAA
1 AGCCTACTGGTTCACTAGTTAAGCAA
*
35031785 AGCCTACTGGTTCACTGGTTAAGCA
1 AGCCTACTGGTTCACTAGTTAAGCA
35031810 TCTGTCTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AGCCTACTGGTTCACTAGTTAAGCAA
Found at i:35032699 original size:57 final size:57
Alignment explanation
Indices: 35032638--35032745 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
35032628 CAAGGACATA
35032638 GGCGTGTGCCCAGGCCATATAACTCACTGTTCATAATATAAAA-CCACATAGGACACG
1 GGCGTGTGCCCAGGCCATATAACTCACTGTTCATAAT-TAAAATCCACATAGGACACG
* * * * * *
35032695 GGCGTGTGCCCAGGTCGTGTGACTCACTGTTGATACTTAAAATCCACATAG
1 GGCGTGTGCCCAGGCCATATAACTCACTGTTCATAATTAAAATCCACATAG
35032746 CCAAGGCACA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
56 5 0.11
57 39 0.89
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (57 bp):
GGCGTGTGCCCAGGCCATATAACTCACTGTTCATAATTAAAATCCACATAGGACACG
Found at i:35033261 original size:12 final size:12
Alignment explanation
Indices: 35033246--35033275 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35033236 GGATTTGGTT
35033246 GAGTGATCTTAG
1 GAGTGATCTTAG
*
35033258 GAGTGATTTTAG
1 GAGTGATCTTAG
35033270 GAGTGA
1 GAGTGA
35033276 CTTTGGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.37, T:0.33
Consensus pattern (12 bp):
GAGTGATCTTAG
Found at i:35038593 original size:13 final size:13
Alignment explanation
Indices: 35038575--35038600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35038565 ATAGTGCATC
35038575 AAATGTAGCTACA
1 AAATGTAGCTACA
35038588 AAATGTAGCTACA
1 AAATGTAGCTACA
35038601 TGCTACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AAATGTAGCTACA
Found at i:35045135 original size:20 final size:20
Alignment explanation
Indices: 35045107--35045156 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
35045097 GTGTGGCTAC
* *
35045107 ACACACCCGTATGGCTTGGG
1 ACACGCCCGTATGACTTGGG
**
35045127 ACACGCCCGCGTGACTTGGG
1 ACACGCCCGTATGACTTGGG
35045147 ACACGCCCGT
1 ACACGCCCGT
35045157 GTCCTCAGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (20 bp):
ACACGCCCGTATGACTTGGG
Found at i:35056459 original size:17 final size:17
Alignment explanation
Indices: 35056437--35056494 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
35056427 AATCTACTAT
35056437 AATTTTTACAATTTATA
1 AATTTTTACAATTTATA
* *
35056454 AATTTTTATAATTTTTTA
1 AATTTTTACAA-TTTATA
* *
35056472 ATTTTTTACAAATTTAAA
1 AATTTTTAC-AATTTATA
35056490 AATTT
1 AATTT
35056495 CAAACATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 10 0.31
18 20 0.62
19 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTTACAATTTATA
Found at i:35056466 original size:9 final size:9
Alignment explanation
Indices: 35056434--35056477 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
35056424 TATAATCTAC
35056434 TATAATTTT
1 TATAATTTT
* *
35056443 TACAATTTA
1 TATAATTTT
35056452 TA-AATTTT
1 TATAATTTT
35056460 TATAATTTT
1 TATAATTTT
35056469 T-TAATTTT
1 TATAATTTT
35056477 T
1 T
35056478 TACAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 15 0.48
9 16 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:35056985 original size:19 final size:19
Alignment explanation
Indices: 35056936--35056989 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
35056926 TTTCTAACCA
35056936 ATACCAAAATTTCTAATGTG
1 ATACC-AAATTTCTAATGTG
**
35056956 ATATTAAATTTCTAATG-G
1 ATACCAAATTTCTAATGTG
35056974 ATACCAATATTTCTAA
1 ATACCAA-ATTTCTAA
35056990 CACGATACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.21
19 20 0.69
20 3 0.10
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (19 bp):
ATACCAAATTTCTAATGTG
Found at i:35056998 original size:20 final size:20
Alignment explanation
Indices: 35056924--35057010 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 20
35056914 CAAAATTTCT
*
35056924 AATTTCTAAC-CAATACCAA
1 AATTTCTAACACGATACCAA
*** **
35056943 AATTTCTAATGTGATA-TTA
1 AATTTCTAACACGATACCAA
**
35056962 AATTTCTAA-TGGATACCAA
1 AATTTCTAACACGATACCAA
*
35056981 TATTTCTAACACGATACCAA
1 AATTTCTAACACGATACCAA
*
35057001 AATTTTTAAC
1 AATTTCTAAC
35057011 TCATACAAGA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
18 4 0.08
19 28 0.55
20 19 0.37
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (20 bp):
AATTTCTAACACGATACCAA
Found at i:35057124 original size:20 final size:18
Alignment explanation
Indices: 35057073--35057142 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 18
35057063 AATTAGTTAT
*
35057073 AAATTTTTATATACGTTAG
1 AAATTTTAATATACGTT-G
35057092 AAA-TTTAAGTATCACGTTG
1 AAATTTTAA-TAT-ACGTTG
*
35057111 TAAATTTTAATAT-CGTAG
1 -AAATTTTAATATACGTTG
35057129 AAATTTTAATATAC
1 AAATTTTAATATAC
35057143 TCGAATATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.27
18 9 0.20
19 7 0.16
20 11 0.25
21 5 0.11
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (18 bp):
AAATTTTAATATACGTTG
Found at i:35057193 original size:20 final size:21
Alignment explanation
Indices: 35057163--35057201 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35057153 AACAATATCG
35057163 ATTAGCAATTTTGGTACAACC
1 ATTAGCAATTTTGGTACAACC
*
35057184 ATTA-CAATTTTTGTACAA
1 ATTAGCAATTTTGGTACAA
35057202 GCTAATGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTAGCAATTTTGGTACAACC
Found at i:35066797 original size:47 final size:47
Alignment explanation
Indices: 35066743--35066936 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
35066733 TTAGGATTTT
** * *
35066743 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35066790 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
35066837 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
35066884 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35066931 ATGTGA
1 ATGTGA
35066937 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:35067251 original size:37 final size:37
Alignment explanation
Indices: 35067143--35067251 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
35067133 GGAAATATAT
*
35067143 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
35067180 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
35067217 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
35067252 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:35083241 original size:12 final size:12
Alignment explanation
Indices: 35083224--35083248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35083214 TCCCTGAAAC
35083224 TAGACTCATATA
1 TAGACTCATATA
35083236 TAGACTCATATA
1 TAGACTCATATA
35083248 T
1 T
35083249 GCATCTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAGACTCATATA
Found at i:35084478 original size:40 final size:40
Alignment explanation
Indices: 35084433--35084624 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
35084423 ATAACCACAA
* * *
35084433 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
35084473 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
35084513 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
35084553 GCATAAATGCATTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
35084593 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
35084625 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:35084517 original size:80 final size:80
Alignment explanation
Indices: 35084413--35084623 Score: 239
Period size: 80 Copynumber: 2.6 Consensus size: 80
35084403 TCTTCGGAAT
* * * * * * * *
35084413 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGC-ACTAGCA
* *
35084476 CAAATGCCTTCGGGTC
65 CAAATGCATTCGGGAC
* * *
35084492 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCA
*
35084556 TAAATGCATTCGGGAC
65 CAAATGCATTCGGGAC
* *
35084572 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
35084624 TCATTCAAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
79 6 0.05
80 97 0.88
81 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCAC
AAATGCATTCGGGAC
Found at i:35092343 original size:39 final size:40
Alignment explanation
Indices: 35092196--35092404 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
35092186 TCTTCGGAAT
* * * *
35092196 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
35092235 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
35092275 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
35092315 TTAG-CCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
35092354 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
35092393 TTAGCCCGGATA
1 TTAGCCCGGATA
35092405 TCATTCAAAT
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 51 0.34
40 100 0.66
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:35094875 original size:56 final size:56
Alignment explanation
Indices: 35094815--35094974 Score: 232
Period size: 56 Copynumber: 2.9 Consensus size: 56
35094805 CCCTAGACAG
* * * *
35094815 GGTCTTACTCGTACACATATATCGGAGTCATATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
*
35094871 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
* * * *
35094927 GGACTTACTTGCACATATATATCAGAGTCACATATCGATGCC-ACATAT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATAT
35094975 ACTTCCAGGT
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
55 6 0.06
56 88 0.94
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
Found at i:35112639 original size:27 final size:26
Alignment explanation
Indices: 35112601--35112677 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
35112591 TGTGAAGAGT
35112601 CACCAGATACAGATATTTGTGGCAGTTGC
1 CACCAGA-ACAGATATTTGTGGCAG--GC
** *
35112630 CA-CAGAACAGATATACGTGGCAGGG
1 CACCAGAACAGATATTTGTGGCAGGC
35112655 CACCA-AACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
35112678 TACACCAGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
25 10 0.24
26 10 0.24
27 15 0.37
28 4 0.10
29 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCAGGC
Found at i:35122257 original size:27 final size:28
Alignment explanation
Indices: 35122173--35122270 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
35122163 CATGAGATTG
* * * *
35122173 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35122202 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35122230 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35122257 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35122271 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35122281 original size:27 final size:27
Alignment explanation
Indices: 35122201--35122283 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
35122191 TAAATTGTAC
* *
35122201 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
35122229 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
35122256 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
35122283 A
1 A
35122284 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:35122284 original size:29 final size:27
Alignment explanation
Indices: 35122173--35122284 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
35122163 CATGAGATTG
** * *
35122173 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
35122202 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
35122230 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
35122257 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
35122285 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:35126664 original size:28 final size:29
Alignment explanation
Indices: 35126551--35126665 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
35126541 GTGAGCATGA
*
35126551 ATATGAATGTG-GTTGGGCCTAACGGGCC
1 ATATGAATGTGAGTTGGGCCTAATGGGCC
* *
35126579 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGAGTTGGGCCTAATGGGCC
* * * *
35126608 ATAT-ACAGGTGATTTAGGCTTAATGGGCC
1 ATATGA-ATGTGAGTTGGGCCTAATGGGCC
* *
35126637 ATATGAATATG-GTTGGGCTTAATGGGCC
1 ATATGAATGTGAGTTGGGCCTAATGGGCC
35126665 A
1 A
35126666 GATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGAGTTGGGCCTAATGGGCC
Found at i:35130439 original size:130 final size:132
Alignment explanation
Indices: 35130173--35130454 Score: 309
Period size: 130 Copynumber: 2.2 Consensus size: 132
35130163 AGAGCATTAG
* * * * *
35130173 CTTCGTTTTAAAGGATTTTTAGAAGACCTGAGCGAAATTTTGAATGGATATTTGATTATTTTAAA
1 CTTCGTTTTAAAGGATTTTTAAAAGACATGAGCAAAATTTTGAATGGAGATTCGATTATTTTAAA
* * * * * * * **
35130238 CAAATGGGAAATTGCAACCCAACACGTTAGGGCACCATTCTACGAATTGCCAAATATCGCATATC
66 CAAACGGAAAATTGCAACCCAACACGTTAGGACACCATTCCACAAATCGCCAAACATCAAATATC
35130303 GC
131 GC
* * *
35130305 CTTCGTTTT-AGGGA-TTTTAAAAGACATGAGTAAAATTTTGAA-GTGAGATTCGATTATTTTGA
1 CTTCGTTTTAAAGGATTTTTAAAAGACATGAGCAAAATTTTGAATG-GAGATTCGATTATTTTAA
* * * * *
35130367 GCAAACGTAAAATTGCAACCCAACACGTTAGGACACGATTCCGCAAATCGCCAAACATCAAATCT
65 ACAAACGGAAAATTGCAACCCAACACGTTAGGACACCATTCCACAAATCGCCAAACATCAAATAT
*
35130432 CGT
130 CGC
* *
35130435 CTTCGTTTTGAAGAATTTTT
1 CTTCGTTTTAAAGGATTTTT
35130455 GAATGAATAC
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
129 1 0.01
130 101 0.83
131 7 0.06
132 13 0.11
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (132 bp):
CTTCGTTTTAAAGGATTTTTAAAAGACATGAGCAAAATTTTGAATGGAGATTCGATTATTTTAAA
CAAACGGAAAATTGCAACCCAACACGTTAGGACACCATTCCACAAATCGCCAAACATCAAATATC
GC
Found at i:35132937 original size:19 final size:19
Alignment explanation
Indices: 35132886--35132929 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
35132876 AGATTTTCAA
* *
35132886 ATTGGATCTAGGTTTAGTT
1 ATTGGGTCTAGGTTTAGCT
35132905 ATTGGGTCTAGGTTTAGCT
1 ATTGGGTCTAGGTTTAGCT
35132924 ATTGGG
1 ATTGGG
35132930 CTCGGGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.07, G:0.32, T:0.43
Consensus pattern (19 bp):
ATTGGGTCTAGGTTTAGCT
Found at i:35133321 original size:44 final size:44
Alignment explanation
Indices: 35133271--35133703 Score: 515
Period size: 44 Copynumber: 9.8 Consensus size: 44
35133261 GTTATTTTTT
* * *
35133271 ATCTGCTCTCTGCCAATACAGAGATGCCAAGTCTGTTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * *
35133315 ATCTGCTATCCGCCAATACAGAGGCGCCAAATCTACTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * * *
35133359 ATCTGCTCTCTGTCAACATAGAGATGCCAAATCTGCTACCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
35133403 ATCTGCTCTCCGCCAATACAGAGACGCCAAATTTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * * *
35133447 ATCTTCCCTCTGACAATACAGAGACGCCAAATTTGTTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * **
35133491 ATTTGCTCTCCGTCAACACAGAGGTGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * **
35133535 ATCTACCCTCTGACAATACAGATACGCCAAATCTATTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
35133579 ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
35133623 ATCTGCTCTCTACCAATAGAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
*
35133667 ATCTGCTCTCTGCCAATACAGAGACGCCAAATTTGCT
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
35133704 GGATTCGCCA
Statistics
Matches: 322, Mismatches: 67, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 322 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:35137270 original size:10 final size:10
Alignment explanation
Indices: 35137255--35137287 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
35137245 ATGGATTGGT
35137255 TGACACTACA
1 TGACACTACA
35137265 TGACACTACA
1 TGACACTACA
35137275 TGACACTACA
1 TGACACTACA
35137285 TGA
1 TGA
35137288 TGCAGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (10 bp):
TGACACTACA
Found at i:35165517 original size:23 final size:23
Alignment explanation
Indices: 35165489--35165532 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35165479 CATGCTAATA
35165489 ATAAATGCATTC-ATCATGCATTC
1 ATAAAT-CATTCAATCATGCATTC
*
35165512 ATAAATCATTCAATTATGCAT
1 ATAAATCATTCAATCATGCAT
35165533 ATTAGGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAAATCATTCAATCATGCATTC
Found at i:35171647 original size:27 final size:27
Alignment explanation
Indices: 35171617--35171792 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
35171607 ATATTAAGTC
* * * *
35171617 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
35171644 CGCACACTTAGTGC-ACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
35171670 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
35171697 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35171724 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35171751 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35171778 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35171793 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.19
27 104 0.81
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35171781 original size:81 final size:80
Alignment explanation
Indices: 35171638--35171791 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 80
35171628 TGCTATATAA
* *
35171638 TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCACA
1 TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
35171703 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * **
35171718 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
35171783 ACTTAGTGC
65 ACTTAGTGC
35171792 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 20 0.30
81 47 0.70
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:35178531 original size:11 final size:10
Alignment explanation
Indices: 35178503--35178536 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35178493 AGCCTGTAAG
35178503 TATTCTGAAT
1 TATTCTGAAT
*
35178513 TTTTCTGAAT
1 TATTCTGAAT
35178523 ATATTCTGAAT
1 -TATTCTGAAT
35178534 TAT
1 TAT
35178537 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:35185004 original size:28 final size:28
Alignment explanation
Indices: 35184972--35185036 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
35184962 ATTTACTAGA
*
35184972 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
* * *
35185000 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
35185028 ATACCCCTA
1 ATACCCCTA
35185037 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:35185183 original size:28 final size:27
Alignment explanation
Indices: 35185142--35185231 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
35185132 AGGAAGCGTC
35185142 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCAC-AATTATCTGTT
* * *
35185170 TTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAT-TATCTGTT
35185197 CTGGTGGCACTGCCACAATATATCTGTAT
1 CTGGTGGCACTGCCACAAT-TATCTGT-T
35185226 CTGGTG
1 CTGGTG
35185232 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 22 0.42
29 7 0.13
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAATTATCTGTT
Found at i:35185201 original size:27 final size:28
Alignment explanation
Indices: 35185142--35185231 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
35185132 AGGAAGCGTC
35185142 CTGGTGGCTA-TGCCACAA-ATTATCTGTT
1 CTGGTGGC-ACTGCCACAATA-TATCTGTT
* * *
35185170 TTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAATATATCTGTT
35185197 CTGGTGGCACTGCCACAATATATCTGTAT
1 CTGGTGGCACTGCCACAATATATCTGT-T
35185226 CTGGTG
1 CTGGTG
35185232 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAATATATCTGTT
Found at i:35185242 original size:29 final size:28
Alignment explanation
Indices: 35185182--35185256 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
35185172 GGTGGCCCTG
* * *
35185182 CCACGTATATCTGT-TCTGGTGGCACTG
1 CCACATATATCTGTATCTGGTGACACTA
*
35185209 CCACAATATATCTGTATCTGGTGACTCTA
1 CCAC-ATATATCTGTATCTGGTGACACTA
* *
35185238 TCACAT-TTTCTGTATCTGG
1 CCACATATATCTGTATCTGG
35185257 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 16 0.40
28 11 0.28
29 13 0.32
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (28 bp):
CCACATATATCTGTATCTGGTGACACTA
Found at i:35196387 original size:30 final size:30
Alignment explanation
Indices: 35196351--35196410 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
35196341 TTCCCGAGCC
*
35196351 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
35196381 TAGGGGCAAAAATTTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
35196411 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:35210439 original size:40 final size:40
Alignment explanation
Indices: 35210345--35210489 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
35210335 TACTCGAATG
*
35210345 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
35210386 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
35210426 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
35210466 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
35210490 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:35217001 original size:46 final size:46
Alignment explanation
Indices: 35216951--35217123 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
35216941 TTGAGCATCC
35216951 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
35216997 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
35217044 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
35217090 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35217124 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:35217104 original size:93 final size:93
Alignment explanation
Indices: 35216945--35217116 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35216935 GGATGATTGA
* *
35216945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
35217010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35217038 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
35217103 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35217117 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35230499 original size:46 final size:46
Alignment explanation
Indices: 35230449--35230621 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
35230439 TGGTTGAGCA
*
35230449 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
35230495 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
35230542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
35230588 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35230622 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35230605 original size:93 final size:93
Alignment explanation
Indices: 35230446--35230616 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35230436 GGATGGTTGA
* *
35230446 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35230511 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
35230539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35230604 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35230617 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35230881 original size:19 final size:20
Alignment explanation
Indices: 35230846--35230883 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35230836 ATAAGGTGGT
35230846 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
35230866 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
35230884 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:35238335 original size:19 final size:20
Alignment explanation
Indices: 35238300--35238337 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35238290 ATAAGGTGGT
35238300 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
35238320 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
35238338 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:35248242 original size:29 final size:27
Alignment explanation
Indices: 35248208--35248266 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
35248198 ATTTTATTAC
*
35248208 AAATTTCAT-TTTTTCACATTTTAGTCCCT
1 AAATTT-ATATTTTT-ACAATTTAG-CCCT
35248237 AAATTTATAATTTTTACAATTTAGCCCT
1 AAATTTAT-ATTTTTACAATTTAGCCCT
35248265 AA
1 AA
35248267 TTACTCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.32, C:0.17, G:0.03, T:0.47
Consensus pattern (27 bp):
AAATTTATATTTTTACAATTTAGCCCT
Found at i:35250584 original size:20 final size:20
Alignment explanation
Indices: 35250559--35250596 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
35250549 CATACTTGAG
35250559 CATAATTCATATGAATTTAA
1 CATAATTCATATGAATTTAA
35250579 CATAATTCATATGAATTT
1 CATAATTCATATGAATTT
35250597 TGCTTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (20 bp):
CATAATTCATATGAATTTAA
Found at i:35251561 original size:37 final size:37
Alignment explanation
Indices: 35251498--35251606 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
35251488 AGCTCAGACG
* * *
35251498 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35251535 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
35251572 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35251607 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:35251877 original size:48 final size:49
Alignment explanation
Indices: 35251753--35251889 Score: 215
Period size: 50 Copynumber: 2.8 Consensus size: 49
35251743 GCACATCGCC
*
35251753 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT-ACA
* *
35251803 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCT-CA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTACA
35251851 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
35251890 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 37 0.46
49 2 0.03
50 41 0.51
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTACA
Found at i:35251892 original size:50 final size:50
Alignment explanation
Indices: 35251753--35251988 Score: 210
Period size: 47 Copynumber: 4.9 Consensus size: 50
35251743 GCACATCGCC
*
35251753 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCT--CA
*
35251803 TATATATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
35251851 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * * * *
35251900 T--AT-TCATCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * * *
35251946 -ACGT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
35251989 GTTCACATTC
Statistics
Matches: 164, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
46 1 0.01
47 75 0.46
48 36 0.22
49 6 0.04
50 46 0.28
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:35251931 original size:22 final size:22
Alignment explanation
Indices: 35251905--35252023 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
35251895 GTTCATATTC
35251905 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
35251927 ATCACACATAT-G-CATGCTC-ACGTT
1 AT--CACAT-TGGCCAT--TCGGCCTT
35251951 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
35251974 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
35251998 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
35252021 ATC
1 ATC
35252024 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:35251938 original size:47 final size:47
Alignment explanation
Indices: 35251859--35252052 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
35251849 CATACATATT
* * * *
35251859 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
35251906 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35251953 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
35252000 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35252047 TCACAT
1 TCACAT
35252053 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:35265660 original size:45 final size:45
Alignment explanation
Indices: 35265589--35265716 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
35265579 TGTACAGTAC
* *
35265589 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCTTAGTAGGCTATAATGCCGGTGAGATAT
* *
35265634 TATTCGGGCCTTTGAGCTTAGTAGGCTATACTGCTGGTGAGATAT
1 TATTCGGGCCTTTGAGCTTAGTAGGCTATAATGCCGGTGAGATAT
* * *
35265679 TATTCAGG-CTTCGAG-TCTAGTAGGC-AAAATGCCGGTGA
1 TATTCGGGCCTTTGAGCT-TAGTAGGCTATAATGCCGGTGA
35265717 ATGAATTCGG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 11 0.15
44 14 0.19
45 48 0.66
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCTTAGTAGGCTATAATGCCGGTGAGATAT
Found at i:35285672 original size:43 final size:43
Alignment explanation
Indices: 35285611--35285695 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
35285601 TGAGTTATGT
* *
35285611 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATAGATGCG
1 AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATAGATGCG
* * * * *
35285654 AGCATCTGAGCTTATTGAGTGGTCTGAGTTCATGATGGATGC
1 AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATAGATGC
35285696 AATTCAAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATAGATGCG
Found at i:35287196 original size:20 final size:20
Alignment explanation
Indices: 35287168--35287219 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
35287158 CAGGTAAGGG
35287168 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
35287188 ACTCGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
35287208 ACACGGGCGTGT
1 ACACGGGCGTGT
35287220 GCATTGCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:35288045 original size:21 final size:24
Alignment explanation
Indices: 35288026--35288075 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
35288016 AGTGCTTGAA
*
35288026 ATGTGTCATATCA-TAGTTGAGAG
1 ATGTGGCATATCACTAGTTGAGAG
*
35288049 ATGTGGCATATCACTAGTGGAG-G
1 ATGTGGCATATCACTAGTTGAGAG
35288072 ATGT
1 ATGT
35288076 TGATATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.32
Consensus pattern (24 bp):
ATGTGGCATATCACTAGTTGAGAG
Found at i:35290561 original size:47 final size:47
Alignment explanation
Indices: 35290491--35290931 Score: 675
Period size: 47 Copynumber: 9.4 Consensus size: 47
35290481 CCCTTCGGGA
* * *
35290491 CTTATCACATTTATACGCTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
35290538 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
35290585 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35290632 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
35290679 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
35290726 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35290773 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
35290820 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
35290867 CTTATCACATATATAAACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
35290914 CTTATCACATATACACAC
1 CTTATCACATATATACAC
35290932 CTTGTACATC
Statistics
Matches: 357, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 357 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:35290663 original size:25 final size:25
Alignment explanation
Indices: 35290635--35290713 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35290625 ACTCGGCCTT
35290635 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35290660 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35290682 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35290707 ATCACAT
1 ATCACAT
35290714 CAGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:35297984 original size:43 final size:45
Alignment explanation
Indices: 35297934--35298070 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 45
35297924 CGTGAGGTAT
*
35297934 GTAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGC-
1 GTAGCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCA
* * * *
35297978 G-AGCATCTGAGCTCATTGAGTGGTCCAAGTTCATGATGTATGTGATTCA
1 GTAGCATCTGAGCTCGTTGAGAGGTCCGAGTTC---AT-TATG-GATGCA
* *
35298027 TGTAACATCTGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 -GTAGCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
35298071 TGTTACATGT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
43 27 0.36
44 1 0.01
46 5 0.07
47 8 0.11
48 6 0.08
50 1 0.01
51 26 0.35
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (45 bp):
GTAGCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCA
Found at i:35298060 original size:51 final size:51
Alignment explanation
Indices: 35297981--35298080 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
35297971 TGGATGCGAG
* *
35297981 CATCTGAGCTCATTGAGTGGTCCAAGTTCATGATGTATGTGATT-CATGTAA
1 CATCTGAGCTCATTGAGAGGTCCAAGTTCATGATGGATGTG-TTACATGTAA
* ** *
35298032 CATCTGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGTGTTACATGT
1 CATCTGAGCTCATTGAGAGGTCCAAGTTCATGATGGATGTGTTACATGT
35298081 TATGTGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (51 bp):
CATCTGAGCTCATTGAGAGGTCCAAGTTCATGATGGATGTGTTACATGTAA
Found at i:35300759 original size:40 final size:40
Alignment explanation
Indices: 35300714--35300905 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
35300704 ATAACCACAA
* * *
35300714 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
35300754 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
35300794 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
35300834 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
35300874 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
35300906 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:35300798 original size:80 final size:80
Alignment explanation
Indices: 35300685--35300904 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
35300675 ACCCAAGTTT
* * * * * * * * *
35300685 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
35300748 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
35300764 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
35300828 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
35300844 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
35300905 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:35308591 original size:46 final size:48
Alignment explanation
Indices: 35308516--35308629 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
35308506 ACAGGACAAA
* *
35308516 AATGATCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGAGACAGG
1 AATGATCCATGTAAGTCCATATTACAGATATATGCCATTGGAGACAGG
* * *
35308562 AATGATCCATGTAAG-CCTATATTATATATATATGCCATTGGAGATAGG
1 AATGATCCATGTAAGTCC-ATATTACAGATATATGCCATTGGAGACAGG
* *
35308610 AATAATTCATGTAAGTCCAT
1 AATGATCCATGTAAGTCCAT
35308630 GTCGAAGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.04
46 18 0.32
47 1 0.02
48 34 0.60
49 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (48 bp):
AATGATCCATGTAAGTCCATATTACAGATATATGCCATTGGAGACAGG
Found at i:35312212 original size:28 final size:28
Alignment explanation
Indices: 35312175--35312281 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
35312165 GCAATCAAAT
*
35312175 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
35312203 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
35312231 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
35312259 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
35312282 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:35323366 original size:17 final size:17
Alignment explanation
Indices: 35323344--35323385 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
35323334 ATTGGGCCGA
35323344 GTGGGCCCCA-CGGTCAT
1 GTGGGCCCCATCGGT-AT
* *
35323361 GTGGGCTCCATGGGTAT
1 GTGGGCCCCATCGGTAT
35323378 GTGGGCCC
1 GTGGGCCC
35323386 TACTTGGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.10, C:0.29, G:0.40, T:0.21
Consensus pattern (17 bp):
GTGGGCCCCATCGGTAT
Found at i:35323636 original size:27 final size:26
Alignment explanation
Indices: 35323606--35323665 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 26
35323596 TGTACCTGTA
35323606 CCCCTAATCGATAAAATGACTGTTATG
1 CCCCTAAT-GATAAAATGACTGTTATG
*
35323633 CCCCTGTATGATAAAATGACTGTTATG
1 CCCCT-AATGATAAAATGACTGTTATG
35323660 CCCCTA
1 CCCCTA
35323666 TGAGACATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (26 bp):
CCCCTAATGATAAAATGACTGTTATG
Found at i:35361274 original size:55 final size:55
Alignment explanation
Indices: 35361157--35361274 Score: 175
Period size: 55 Copynumber: 2.1 Consensus size: 55
35361147 GTGCCCTTAG
* *
35361157 CCCGTGTGCAACTCTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTG
1 CCCGTGTACAACTCTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
* * *
35361212 CCTGTGTACAA-TGCTGACTTTAAAACACGGCCATGACACATGCCTGTGTGGTCTA
1 CCCGTGTACAACT-CTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
35361267 CCCGTGTA
1 CCCGTGTA
35361275 TTAAACTGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 1 0.02
55 55 0.98
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (55 bp):
CCCGTGTACAACTCTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
Found at i:35361284 original size:55 final size:55
Alignment explanation
Indices: 35361157--35361290 Score: 166
Period size: 55 Copynumber: 2.5 Consensus size: 55
35361147 GTGCCCTTAG
* *
35361157 CCCGTGTGCAACT-CTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTG
1 CCCGTGTACAA-TACTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
* * * *
35361212 CCTGTGTACAATGCTGACTTTAAAACACGGCCATGACACATGCCTGTGTGGTCTA
1 CCCGTGTACAATACTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
*
35361267 CCCGTGTATTAA-ACTGAC-TTAAAA
1 CCCGTGTA-CAATACTGACTTTAAAA
35361291 TTTTAAGTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 7 0.10
55 60 0.87
56 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCCGTGTACAATACTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTA
Found at i:35362214 original size:47 final size:45
Alignment explanation
Indices: 35362100--35362316 Score: 199
Period size: 47 Copynumber: 4.7 Consensus size: 45
35362090 TATATATGCT
* * * *
35362100 GATGCATGTCCGAGACATGTCTTACACTAGTA-CGA-C-TCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATC-ATCATC-AAGCC
**
35362144 GATGCATGTCCCAGACACATCTTACACTGGCTATCATCATCAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATCAAGCC
* * *
35362190 TGGTGCATGTCCCAAACATGTCTTACACTGGCACTCATC-TCTACGCC
1 -GATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATC-AAGCC
* * ***
35362237 AATGCCATGTCCCAGACATGGTCTTACACTGGCATCCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCAT-CATCATCAAGCC
35362285 GATGCATGTCCCAGACATGTCTTACACTGGCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCA
35362317 CACAAGAAAT
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 26 0.18
45 2 0.01
46 25 0.17
47 66 0.46
48 23 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCAAGCC
Found at i:35362292 original size:94 final size:91
Alignment explanation
Indices: 35362051--35362317 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 91
35362041 TAAGTTGCCG
* * * *
35362051 ATGCCATGTCCCAGACATGGTCTTATACTAGC-TCTCGTATATATATGCTGATGCATGTCCGAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCATC-C--ATA-ATATGCCGATGCATGTCCCAGA
* * * *
35362115 CATGTCTTACACTAGTACGACTCTTAGCCG
62 CATGTCTTACACTGGCACCACTCTTAGCCA
** * * * *
35362145 ATG-CATGTCCCAGACA-CATCTTACACTGGCTAT-CATCATCAAGCCTGGTGCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-ATCCATAAT-ATGCC-GATGCATGTCCCAGAC
35362207 ATGTCTTACACTGGCACTCA-TCTCTACGCCA
63 ATGTCTTACACTGGCAC-CACTCT-TA-GCCA
*
35362238 ATGCCATGTCCCAGACATGGTCTTACACTGGCATCCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCATCCATAATAT-GCCGATGCATGTCCCAGACAT
35362303 GTCTTACACTGGCAC
65 GTCTTACACTGGCAC
35362318 ACAAGAAATC
Statistics
Matches: 141, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
90 5 0.04
91 31 0.22
92 14 0.10
93 19 0.13
94 50 0.35
95 20 0.14
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCATCCATAATATGCCGATGCATGTCCCAGACATG
TCTTACACTGGCACCACTCTTAGCCA
Found at i:35364435 original size:55 final size:55
Alignment explanation
Indices: 35364376--35364494 Score: 123
Period size: 55 Copynumber: 2.2 Consensus size: 55
35364366 CCGTGTGGTC
* * *
35364376 ACACACGCCTAT-GCCCTTAGCCCGTGTGCAACACTGACTTCAAAAAAAGACCATT
1 ACACACGCCTATGGCACTT-GCCCGTGTACAACACTGACTTCAAAAAAAGACCATG
* * * * * * * *
35364431 ACACATGTCTGTGGGACTTGCCCGTGTACAACACTGACTTTAAAACACGGCCATG
1 ACACACGCCTATGGCACTTGCCCGTGTACAACACTGACTTCAAAAAAAGACCATG
35364486 ACACACGCC
1 ACACACGCC
35364495 CGTGTGGCCT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
55 46 0.92
56 4 0.08
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (55 bp):
ACACACGCCTATGGCACTTGCCCGTGTACAACACTGACTTCAAAAAAAGACCATG
Found at i:35365490 original size:47 final size:47
Alignment explanation
Indices: 35365297--35365608 Score: 199
Period size: 47 Copynumber: 6.6 Consensus size: 47
35365287 TTACCAATGC
* * * * *
35365297 CATGTCCCAGGCATGGTCTCACACAAGCTA-TCATCATCGAGGCCGAGG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATTATCGAGGCCGATG
** * * * * *
35365345 CCACATCCTAGACATGGTCTTATACTAGCTCTCATATATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-TAT-CGAGGCCGATG
* ** * * * *
35365395 CATGTCCCGGACATGTCTTTTACTAGCAC-GACTCT-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATTATCGAGGCCGATG
* * * *
35365439 CATGTCCCAGGCACGTCTTACACTGGCTA-TCATTATCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-ACTCATTATCGAGGCCGATG
* * *
35365486 CATGTCCCAGACATGTCTTACACTAGCACTCATT-TCTATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATTATCGAGGCCGATG
* * * * *
35365532 CCATGTCCCAGGCATGGTCTTACACTAACACTCGTAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATTATCGAGGCCGATG
*
35365580 CATGTCCCAGACATGTCTTACACTGGCAC
1 CATGTCCCAGACATGTCTTACACTAGCAC
35365609 ACAAGAAATC
Statistics
Matches: 199, Mismatches: 52, Indels: 27
0.72 0.19 0.10
Matches are distributed among these distances:
44 27 0.14
45 4 0.02
46 25 0.13
47 62 0.31
48 36 0.18
49 36 0.18
50 7 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATTATCGAGGCCGATG
Found at i:35375022 original size:42 final size:43
Alignment explanation
Indices: 35374914--35375031 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
35374904 CGTACCAATG
* **
35374914 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGAC
1 CATATCCCAGATATGGTCTTACACGTAATCTCACATCGATGAC
* * * * *
35374957 AATAGCCCAGCTACGGTTTTACACG-AAGTCTCACATCGATG-C
1 CATATCCCAGATATGGTCTTACACGTAA-TCTCACATCGATGAC
35374999 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
35375032 ATAACCCTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCACATCGATGAC
Found at i:35380245 original size:68 final size:68
Alignment explanation
Indices: 35380118--35380276 Score: 191
Period size: 68 Copynumber: 2.3 Consensus size: 68
35380108 ATGGAGACAG
* *
35380118 TACAAGATGTAAGACCATAGCTCGACTATAGAGACCAATAGAGTCTACCAGGATATTAAACATGG
1 TACAAGGTGTAAGACAATAGCTCGACTATAGAGACCAATAGAGTCTACCAGGATATTAAACATGG
35380183 GGC
66 GGC
* * **
35380186 TACAAGGTGTAAGACTATAGCTCGATTATAGCA-ACCAATA-ATGTCTGTC-GTGACT-TTAAAC
1 TACAAGGTGTAAGACAATAGCTCGACTATAG-AGACCAATAGA-GTCTACCAG-GA-TATTAAAC
*
35380247 ATGGTGC
62 ATGGGGC
35380254 TACAAGGTGTAAGACAATAGCTC
1 TACAAGGTGTAAGACAATAGCTC
35380277 AGCTACGGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
67 2 0.03
68 76 0.95
69 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (68 bp):
TACAAGGTGTAAGACAATAGCTCGACTATAGAGACCAATAGAGTCTACCAGGATATTAAACATGG
GGC
Found at i:35380615 original size:49 final size:47
Alignment explanation
Indices: 35380513--35380611 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 47
35380503 AAGAAGTGTA
*
35380513 AGAAATAATAGAGAATTCCTTAAACAAACTGGCATAAGTGGTAACCACT
1 AGAAAGAATAGAGAATTCCTTAAACAAACTGGCATAAGTGG--ACCACT
* *
35380562 AGAAAGAATAGAGAATTTTCTTAAACAAACTGGCATAAGTGG-CCATT
1 AGAAAGAATAGAGAA-TTCCTTAAACAAACTGGCATAAGTGGACCACT
35380609 AGA
1 AGA
35380612 GAAATTGTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
47 7 0.15
49 14 0.30
50 25 0.54
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.23
Consensus pattern (47 bp):
AGAAAGAATAGAGAATTCCTTAAACAAACTGGCATAAGTGGACCACT
Found at i:35388589 original size:42 final size:43
Alignment explanation
Indices: 35388499--35388593 Score: 115
Period size: 42 Copynumber: 2.2 Consensus size: 43
35388489 GTCCTAGATG
*
35388499 TGGTCTTACATATAATCAAACATCAATGCCACTGTCCCAGACA
1 TGGTCTTACATATAATCAAACATCAATGCCACTGTCCCAAACA
* * *
35388542 GGGTCTTACATGA-AATCAAATAT-GATGCCGA-TGTCCCAAACA
1 TGGTCTTACAT-ATAATCAAACATCAATGCC-ACTGTCCCAAACA
35388584 TGGTCTTACA
1 TGGTCTTACA
35388594 CGTAAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 24 0.53
43 20 0.44
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
TGGTCTTACATATAATCAAACATCAATGCCACTGTCCCAAACA
Found at i:35391506 original size:26 final size:22
Alignment explanation
Indices: 35391439--35391497 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 22
35391429 AATTCTAACC
35391439 ATCTTCTCT-ATCATAGATTTAG
1 ATCTT-TCTAATCATAGATTTAG
35391461 ATCTTTCTAATCATAGATTTAG
1 ATCTTTCTAATCATAGATTTAG
35391483 ATCTTTCTAAGTCAT
1 ATCTTTCTAA-TCAT
35391498 CAAATATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.80
23 4 0.11
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (22 bp):
ATCTTTCTAATCATAGATTTAG
Found at i:35396381 original size:40 final size:40
Alignment explanation
Indices: 35396286--35396543 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
35396276 TGGATGATAA
* **
35396286 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
35396327 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
35396367 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
35396407 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
35396447 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
35396487 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
35396526 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35396544 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 140 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:35401278 original size:23 final size:22
Alignment explanation
Indices: 35401248--35401291 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
35401238 TCTCAATTCA
*
35401248 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
35401270 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
35401292 GTATGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:35409935 original size:18 final size:18
Alignment explanation
Indices: 35409882--35409987 Score: 86
Period size: 18 Copynumber: 5.9 Consensus size: 18
35409872 TATTCAGTCA
* * *
35409882 TCAGTAATAATCAGTTAT
1 TCAGTAACAGTCAATTAT
* * **
35409900 TCAATAACGGTCGTTTAT
1 TCAGTAACAGTCAATTAT
* *
35409918 TCAATATCAGTCAATTAT
1 TCAGTAACAGTCAATTAT
* *
35409936 TCAGTAGCAGTCAGTTAT
1 TCAGTAACAGTCAATTAT
*
35409954 TCAGTAACAGTCAACTAT
1 TCAGTAACAGTCAATTAT
* *
35409972 TCAGTAGCGGTCAATT
1 TCAGTAACAGTCAATT
35409988 TTTAGTACCT
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (18 bp):
TCAGTAACAGTCAATTAT
Found at i:35409937 original size:36 final size:36
Alignment explanation
Indices: 35409896--35409984 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
35409886 TAATAATCAG
* * *
35409896 TTATTCAATAACGGTC-GTTTATTCAATATCAGTCAA
1 TTATTCAGTAGCGGTCAG-TTATTCAATAACAGTCAA
* *
35409932 TTATTCAGTAGCAGTCAGTTATTCAGTAACAGTCAA
1 TTATTCAGTAGCGGTCAGTTATTCAATAACAGTCAA
*
35409968 CTATTCAGTAGCGGTCA
1 TTATTCAGTAGCGGTCA
35409985 ATTTTTAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAGCGGTCAGTTATTCAATAACAGTCAA
Found at i:35415155 original size:54 final size:53
Alignment explanation
Indices: 35415087--35415199 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
35415077 TAGTTAGTCA
* * * *
35415087 TCAGTAATAATCAGTTATTCAATAACGGTCGTTTATTCAATATCAGTCAATTAT
1 TCAGTAATAATCAGTTATTCAATAACAGTCGATAATTCAATAGCAGTCAATT-T
* * * * *
35415141 TCAGTAGTAGTCAGTTATTCAGTAACAGTCGATAATTCAGTAGCGGTCAATTT
1 TCAGTAATAATCAGTTATTCAATAACAGTCGATAATTCAATAGCAGTCAATTT
35415194 TCAGTA
1 TCAGTA
35415200 CCTTTATTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 7 0.14
54 43 0.86
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (53 bp):
TCAGTAATAATCAGTTATTCAATAACAGTCGATAATTCAATAGCAGTCAATTT
Found at i:35415170 original size:18 final size:18
Alignment explanation
Indices: 35415087--35415170 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 18
35415077 TAGTTAGTCA
* *
35415087 TCAGTAATAATCAGTTAT
1 TCAGTAACAGTCAGTTAT
* *
35415105 TCAATAACGGTC-GTTTAT
1 TCAGTAACAGTCAG-TTAT
* * *
35415123 TCAATATCAGTCAATTAT
1 TCAGTAACAGTCAGTTAT
**
35415141 TCAGTAGTAGTCAGTTAT
1 TCAGTAACAGTCAGTTAT
35415159 TCAGTAACAGTC
1 TCAGTAACAGTC
35415171 GATAATTCAG
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
17 1 0.02
18 50 0.98
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (18 bp):
TCAGTAACAGTCAGTTAT
Found at i:35416105 original size:15 final size:16
Alignment explanation
Indices: 35416087--35416116 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35416077 TCGTTTGCTA
35416087 TTTTGTTT-CTTTCTC
1 TTTTGTTTCCTTTCTC
35416102 TTTTGTTTCCTTTCT
1 TTTTGTTTCCTTTCT
35416117 TTCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTGTTTCCTTTCTC
Found at i:35416173 original size:13 final size:12
Alignment explanation
Indices: 35416141--35416174 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
35416131 TTACTATATA
35416141 TATATAATAACT
1 TATATAATAACT
35416153 TA-ATAATATACT
1 TATATAATA-ACT
35416165 TATATAATAA
1 TATATAATAA
35416175 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:35417055 original size:20 final size:20
Alignment explanation
Indices: 35417030--35417076 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
35417020 GAGACAAAAC
35417030 ACACGCCCTTGTGCTTAGGG
1 ACACGCCCTTGTGCTTAGGG
35417050 ACACGCCCTTGTGCTTAGGG
1 ACACGCCCTTGTGCTTAGGG
35417070 ACACGCC
1 ACACGCC
35417077 TGTGTCCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.21
Consensus pattern (20 bp):
ACACGCCCTTGTGCTTAGGG
Found at i:35438441 original size:17 final size:18
Alignment explanation
Indices: 35438414--35438448 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35438404 TGGTTTGCTT
35438414 GTGTCGGCCCACACACCC
1 GTGTCGGCCCACACACCC
*
35438432 GTGT-GGCCCATACACCC
1 GTGTCGGCCCACACACCC
35438449 ATATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
GTGTCGGCCCACACACCC
Found at i:35446215 original size:6 final size:6
Alignment explanation
Indices: 35446204--35446233 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
35446194 TTATTATTAA
35446204 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
35446234 GCTTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:35448831 original size:60 final size:60
Alignment explanation
Indices: 35448703--35448832 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 60
35448693 AACTGTGTTA
* * *
35448703 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCTAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* * * *
35448763 ATAAGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGGCCCAGATTAATACTG
*
35448823 GTATGGGCTA
1 ATATGGGCTA
35448833 AGGCTCAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
59 4 0.07
60 49 0.84
61 5 0.09
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:35452486 original size:20 final size:19
Alignment explanation
Indices: 35452461--35452502 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
35452451 CTTTTCTATC
35452461 CTTCTCTCATCTCTTCCCCT
1 CTTCTCTCATCT-TTCCCCT
* *
35452481 CTTCTCTCTTCTTTCTCCT
1 CTTCTCTCATCTTTCCCCT
35452500 CTT
1 CTT
35452503 GCCGATTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (19 bp):
CTTCTCTCATCTTTCCCCT
Found at i:35453855 original size:60 final size:58
Alignment explanation
Indices: 35453779--35453970 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 58
35453769 AACTGTGTTA
* * *
35453779 ATATGGGC-AAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAA-GCCCAATATACTCT-GA-TATGTAA-GGGGCTATGGCCCA-ATTAATACTG
35453839 ATATGGGCTAAGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCTAATTAATACTG
1 ATATGGGCTAAGCCCAATATACTCTGATA-TGTAAGGGGCTATGGCCC-AATTAATACTG
* *
35453899 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAAATTAATATTG
1 ATATGGGCTAAGCCCAATATACTCTGATA-TGTAAGGGGCTATGGCCC-AATTAATACTG
35453959 ATATGGGCTAAG
1 ATATGGGCTAAG
35453971 GCTCAACTAA
Statistics
Matches: 120, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
59 1 0.01
60 108 0.90
61 11 0.09
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (58 bp):
ATATGGGCTAAGCCCAATATACTCTGATATGTAAGGGGCTATGGCCCAATTAATACTG
Found at i:35453867 original size:26 final size:26
Alignment explanation
Indices: 35453836--35453927 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
35453826 CAGATTGATA
*
35453836 CTGATATGGGCTAAGCCCAATATACT
1 CTGATATGGGCTAGGCCCAATATACT
*
35453862 CTGATACTGTAAGGGGCTATGGCCCTAAT-TAAT
1 CTGATA---T---GGGCTA-GGCCC-AATATACT
35453895 ACTGATATGGGCTAGGCCCAATATACT
1 -CTGATATGGGCTAGGCCCAATATACT
35453922 CTGATA
1 CTGATA
35453928 CTGTAAGGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
26 15 0.28
27 8 0.15
28 6 0.11
29 1 0.02
31 1 0.02
32 6 0.11
33 7 0.13
34 9 0.17
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
CTGATATGGGCTAGGCCCAATATACT
Found at i:35453868 original size:32 final size:32
Alignment explanation
Indices: 35453831--35453948 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
35453821 CGGCCCAGAT
*
35453831 TGATACTGATATGGGCTAAGCCCAATATACTC
1 TGATACTGATATGGGCTAGGCCCAATATACTC
*
35453863 TGATACTG-TAAGGGGCTATGGCCC--TA-A-T-
1 TGATACTGAT-ATGGGCTA-GGCCCAATATACTC
*
35453891 TAATACTGATATGGGCTAGGCCCAATATACTC
1 TGATACTGATATGGGCTAGGCCCAATATACTC
*
35453923 TGATACTG-TAAGGGGCTATGGCCCAA
1 TGATACTGAT-ATGGGCTA-GGCCCAA
35453949 ATTAATATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
27 5 0.07
28 14 0.20
29 4 0.06
30 2 0.03
31 5 0.07
32 29 0.41
33 11 0.16
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (32 bp):
TGATACTGATATGGGCTAGGCCCAATATACTC
Found at i:35453906 original size:28 final size:28
Alignment explanation
Indices: 35453875--35453968 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
35453865 ATACTGTAAG
35453875 GGGCTATGGCCCTAATTAATACTGATAT
1 GGGCTATGGCCCTAATTAATACTGATAT
* *
35453903 GGGCTA-GGCCCAATATACTCTGATACTG-TAAG
1 GGGCTATGGCCC--TA-A-T-TAATACTGAT-AT
* *
35453935 GGGCTATGGCCCAAATTAATATTGATAT
1 GGGCTATGGCCCTAATTAATACTGATAT
35453963 GGGCTA
1 GGGCTA
35453969 AGGCTCAACT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
27 5 0.10
28 19 0.37
29 4 0.08
30 2 0.04
31 3 0.06
32 14 0.27
33 5 0.10
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (28 bp):
GGGCTATGGCCCTAATTAATACTGATAT
Found at i:35457562 original size:27 final size:27
Alignment explanation
Indices: 35457532--35457709 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35457522 ATATTGAGTC
* * * *
35457532 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35457559 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35457586 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35457614 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35457641 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35457668 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35457695 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35457710 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35457671 original size:82 final size:81
Alignment explanation
Indices: 35457553--35457708 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35457543 TGCTATATAA
* *
35457553 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35457618 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35457635 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35457699 CACTTAGTGC
65 CACTTAGTGC
35457709 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35464049 original size:40 final size:40
Alignment explanation
Indices: 35463994--35464199 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
35463984 GGACTAAGAT
* *
35463994 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * * *
35464034 CCGAAGGTATTTGTGCTAGTGACTATATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
35464074 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
35464114 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
35464154 CCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
35464193 CCGAAGG
1 CCGAAGG
35464200 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:35470145 original size:20 final size:17
Alignment explanation
Indices: 35470121--35470158 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35470111 ACATTTCTTT
* *
35470121 AATAATTATCTTAATAA
1 AATAATAATATTAATAA
35470138 AATAATAATATTAATAA
1 AATAATAATATTAATAA
35470155 AATA
1 AATA
35470159 TCCCAACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAATAATATTAATAA
Found at i:35473845 original size:22 final size:22
Alignment explanation
Indices: 35473817--35473861 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
35473807 TGTTCCCCAG
35473817 TAAGTAAGAAACTGCATATTAT
1 TAAGTAAGAAACTGCATATTAT
35473839 TAAGTAAGAAACTGCATATTAT
1 TAAGTAAGAAACTGCATATTAT
35473861 T
1 T
35473862 TCCTCTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (22 bp):
TAAGTAAGAAACTGCATATTAT
Found at i:35478168 original size:23 final size:23
Alignment explanation
Indices: 35478140--35478184 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
35478130 TAAAACTATT
* *
35478140 AAATAGGCTATTTGTATAAAATC
1 AAATAGACTATTTGTACAAAATC
*
35478163 AAATAGATTATTTGTACAAAAT
1 AAATAGACTATTTGTACAAAAT
35478185 ACATAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (23 bp):
AAATAGACTATTTGTACAAAATC
Done.