Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 110 of 290
Found at i:37499241 original size:54 final size:53
Alignment explanation
Indices: 37499154--37499291 Score: 143
Period size: 54 Copynumber: 2.6 Consensus size: 53
37499144 TAGAAAGTCA
* * * * * **
37499154 AGGGTATTTCTATAATTTTG-TAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAA-TTTGACAAACCAGGGGTATTTCGGTAATTTGACAAA-CC
*
37499208 AGGGTATTTCGATAATTTGACAAACCAGTGGTATTTCGGTAATTTGACAAACC
1 AGGGTATTTCGATAATTTGACAAACCAGGGGTATTTCGGTAATTTGACAAACC
* * *
37499261 AGTGGTATTTCGGTAATTTTACAAACTAGGG
1 AG-GGTATTTCGATAATTTGACAAACCAGGG
37499292 TAATTTTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 6 0.09
54 64 0.91
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTGACAAACCAGGGGTATTTCGGTAATTTGACAAACC
Found at i:37499297 original size:27 final size:26
Alignment explanation
Indices: 37499182--37499293 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
37499172 TGTAAATCAG
* * **
37499182 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTGACAAA-CCA
*
37499209 GGGTATTTCGATAATTTGACAAACCA
1 GGGTATTTCGGTAATTTGACAAACCA
37499235 GTGGTATTTCGGTAATTTGACAAACCA
1 G-GGTATTTCGGTAATTTGACAAACCA
* *
37499262 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTCGGTAATTTGACAAACCA
37499289 GGGTA
1 GGGTA
37499294 ATTTTACAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
26 6 0.08
27 70 0.92
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTGACAAACCA
Found at i:37499316 original size:18 final size:18
Alignment explanation
Indices: 37499272--37499309 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37499262 GTGGTATTTC
37499272 GGTAATTTTACAAACTAG
1 GGTAATTTTACAAACTAG
37499290 GGTAATTTTACAAACTAG
1 GGTAATTTTACAAACTAG
37499308 GG
1 GG
37499310 GTATTTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (18 bp):
GGTAATTTTACAAACTAG
Found at i:37499392 original size:27 final size:27
Alignment explanation
Indices: 37499355--37499552 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
37499345 GTAATTTCAC
* *
37499355 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
37499382 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
37499409 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
37499436 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
37499463 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
37499490 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
37499517 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
37499544 AATCGAGGG
1 AATCGAGGG
37499553 CATTTCAATA
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:37501041 original size:15 final size:16
Alignment explanation
Indices: 37501023--37501052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37501013 TAAAAATCAA
37501023 ATAAAA-TTACATTAT
1 ATAAAATTTACATTAT
37501038 ATAAAATTTACATTA
1 ATAAAATTTACATTA
37501053 AAAATCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATTTACATTAT
Found at i:37501158 original size:100 final size:102
Alignment explanation
Indices: 37501052--37501323 Score: 428
Period size: 100 Copynumber: 2.7 Consensus size: 102
37501042 AATTTACATT
37501052 AAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAA
1 AAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAA
37501117 AATAACTATAATTTTTTT-AAAAAAA-TACATTACTA
66 AATAACTATAATTTTTTTAAAAAAAATTACATTACTA
* *
37501152 AAAAATCACAAAACAC-ATAACTAAACACTAACAATTTATACAACCTAATCATAAATTACAAACA
1 AAAAATCACAAAACACTA-AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
37501216 AAATAACTATAATTTTTTTAAAAAAAATTACATTACTA
65 AAATAACTATAATTTTTTTAAAAAAAATTACATTACTA
* * * *
37501254 AAAAATCACAAAACCCTATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTATTAAC
1 AAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACTAAC
37501317 AAAATAA
64 AAAATAA
37501324 ATAACTATAA
Statistics
Matches: 158, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 88 0.56
101 9 0.06
102 59 0.37
103 1 0.01
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (102 bp):
AAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAA
AATAACTATAATTTTTTTAAAAAAAATTACATTACTA
Found at i:37501222 original size:50 final size:50
Alignment explanation
Indices: 37501070--37501224 Score: 117
Period size: 50 Copynumber: 3.1 Consensus size: 50
37501060 CAAAACACTA
* *
37501070 AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAAT
1 AACTAAACACTAACAATTTATACAACCTAATCATAAATTACAAACAAAAT
*** ** * *
37501120 AACTATAATTTTTTTAA-AA-AAATACATTA-CTAA--A-AAATCACAAA-ACACAT
1 AACTA-AA---CACTAACAATTTATACA--ACCTAATCATAAATTACAAACA-AAAT
37501170 AACTAAACACTAACAATTTATACAACCTAATCATAAATTACAAACAAAAT
1 AACTAAACACTAACAATTTATACAACCTAATCATAAATTACAAACAAAAT
37501220 AACTA
1 AACTA
37501225 TAATTTTTTT
Statistics
Matches: 75, Mismatches: 16, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
46 4 0.05
47 6 0.08
48 5 0.07
49 4 0.05
50 38 0.51
51 4 0.05
52 4 0.05
53 6 0.08
54 4 0.05
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.27
Consensus pattern (50 bp):
AACTAAACACTAACAATTTATACAACCTAATCATAAATTACAAACAAAAT
Found at i:37501589 original size:60 final size:60
Alignment explanation
Indices: 37501519--37501637 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
37501509 ATACTAAACT
* *
37501519 AAACATAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
37501579 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
37501638 TTAAAAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:37503539 original size:13 final size:13
Alignment explanation
Indices: 37503521--37503555 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
37503511 CCTGGTAATC
37503521 GTTTCGGTTCTGT
1 GTTTCGGTTCTGT
37503534 GTTTCGGTTCTGT
1 GTTTCGGTTCTGT
*
37503547 GTTTTGGTT
1 GTTTCGGTT
37503556 ATTCTGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.11, G:0.31, T:0.57
Consensus pattern (13 bp):
GTTTCGGTTCTGT
Found at i:37504605 original size:23 final size:23
Alignment explanation
Indices: 37504579--37504626 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
37504569 CACGAAAGTC
*
37504579 TTACTAGAAAACAGATTCGGATA
1 TTACCAGAAAACAGATTCGGATA
37504602 TTACCAGAAAACAGATTCGGATA
1 TTACCAGAAAACAGATTCGGATA
37504625 TT
1 TT
37504627 GCCTTCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (23 bp):
TTACCAGAAAACAGATTCGGATA
Found at i:37509932 original size:11 final size:10
Alignment explanation
Indices: 37509891--37509933 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
37509881 TAATACATTA
37509891 TCTTTTTT-T
1 TCTTTTTTCT
*
37509900 TCTTTTTTTT
1 TCTTTTTTCT
*
37509910 TCTTTCTTCT
1 TCTTTTTTCT
37509920 TCATTTTTTCT
1 TC-TTTTTTCT
37509931 TCT
1 TCT
37509934 CCTTTTTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:37509940 original size:14 final size:14
Alignment explanation
Indices: 37509894--37509940 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
37509884 TACATTATCT
*
37509894 TTTTTTTCTT-TTT
1 TTTTTTTCTTCTTC
37509907 TTTTCTTTCTTCTTC
1 TTTT-TTTCTTCTTC
* *
37509922 ATTTTTTCTTCTCC
1 TTTTTTTCTTCTTC
37509936 TTTTT
1 TTTTT
37509941 CTCATCTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 4 0.14
14 19 0.68
15 5 0.18
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTTCTTC
Found at i:37510341 original size:24 final size:28
Alignment explanation
Indices: 37510295--37510351 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 28
37510285 TATTTCTAAT
*
37510295 AAAAATAAAATAATAATATTTT-ATTTA
1 AAAAATAAAATAATAATATTTTAATATA
37510322 AAAAAT-AAA-AA-AATATTTTAATATA
1 AAAAATAAAATAATAATATTTTAATATA
37510347 AAAAA
1 AAAAA
37510352 AGGTGTTGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.29
25 11 0.39
26 3 0.11
27 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATAAAATAATAATATTTTAATATA
Found at i:37510350 original size:26 final size:25
Alignment explanation
Indices: 37510282--37510352 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
37510272 ATATATATTT
*
37510282 AAATATTTCTAATA-AAAATAAAATAA
1 AAATATTT-TAATATAAAA-AAAAAAA
* * *
37510308 TAATATTTT-ATTTAAAAAATAAAA
1 AAATATTTTAATATAAAAAAAAAAA
37510332 AAATATTTTAATATAAAAAAA
1 AAATATTTTAATATAAAAAAA
37510353 GGTGTTGCGC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 15 0.42
25 14 0.39
26 7 0.19
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATATTTTAATATAAAAAAAAAAA
Found at i:37510351 original size:27 final size:25
Alignment explanation
Indices: 37510282--37510352 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
37510272 ATATATATTT
37510282 AAATATTTCTAATA-AAAATAAAATAA
1 AAATATTT-TAATATAAAA-AAAATAA
* *
37510308 TAATATTTT-ATTTAAAAAATAA-AA
1 AAATATTTTAATATAAAAAA-AATAA
37510332 AAATATTTTAATATAAAAAAA
1 AAATATTTTAATATAAAAAAA
37510353 GGTGTTGCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 15 0.39
25 16 0.42
26 7 0.18
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATATTTTAATATAAAAAAAATAA
Found at i:37512120 original size:476 final size:475
Alignment explanation
Indices: 37511229--37512179 Score: 1699
Period size: 476 Copynumber: 2.0 Consensus size: 475
37511219 TAGTAGGATA
37511229 GGATTTGTTTGTTTTGTTTTGTTTTTTTGATAAAATAAATAAGTTTTAATTAAATTAAAATTTTT
1 GGATTTGTTTGTTTTGTTTTGTTTTTTTGATAAAATAAATAAGTTTTAATTAAATTAAAATTTTT
*
37511294 ATCTTCTTTTTCTCCTGAAATTCTGCAATAATTTCACGTTTATTTTTCATAGAACTCTCTATTTA
66 ATCTTCTTTTTCTCCTGAAATTCTCCAATAATTTCACGTTTATTTTTCATAGAACTCTCTATTTA
*
37511359 CGCTATCAGCTTCTTTCCATGATCTAGTATTTTGTTTCCTAGTTTCTTTTTCATTTTCTTTCTGT
131 CGATATCAGCTTCTTTCCATGATCTAGTATTTTGTTTCCTAGTTTCTTTTTCATTTTCTTTCTGT
*
37511424 CATAATTTTTGCCTATACTTTGTTTCTTGATTAAATTGCTTGGATTAATTTGCCATTACTTGCAT
196 CATAATTTTTGCCTATACTATGTTTCTTGATTAAATTGCTTGGATTAATTTGCCATTACTTGCAT
* *
37511489 CTTTTATCTTCCATCTACGTTTTTGGGTGGTGGTTGTTGCAATTGAACCGTTTGGTAAGTTGTGA
261 CTTTTATCTTCCATCTACGTTTTTGGGTGGTGGTTGTTGCAATTGAACAGTATGGTAAGTTGTGA
*
37511554 ATTTTTTGAAAGGTTGGGAACTTTCGAGTGTGTTAAGATCTTTGTTGTAGAATTGGGGTTTTAGT
326 ATTTTTTGAAAGGTTGGGAACTTTCGAGTGCGTTAAGATCTTTGTTGTAGAATTGGGGTTTTAGT
*
37511619 TTGTTTAATCTTTTTGTTGCGTGCTATCAGGTGAAGATCGAGAGATGTTGGGTGTTCCTCCAACA
391 TTGTTTAATCTTTTTGTTGCGTGCTATCAGGTGAAGATCGAGAGATGTTGGGTGTTCATCCAACA
37511684 TCATAGGTTTCATGTAGTGC
456 TCATAGGTTTCATGTAGTGC
*
37511704 GGATTTGTTTGTTTTGTTTTG-TTTTTTGATAAAATAATTAAGTTTTAATTAAATTAAAATTTTT
1 GGATTTGTTTGTTTTGTTTTGTTTTTTTGATAAAATAAATAAGTTTTAATTAAATTAAAATTTTT
* * *
37511768 ATTTTCTTTTTCTCTTGAAATTTCTCCAATAATTTCACGTTTATTTTTCTTAGAACTCTCTATTT
66 ATCTTCTTTTTCTCCTGAAA-TTCTCCAATAATTTCACGTTTATTTTTCATAGAACTCTCTATTT
* *
37511833 ACGATGTCAGCTTCTTTCCATGATCTAGTATTTTGTTTCTTAGTTTCTTTTTCATTTTCTTT-TA
130 ACGATATCAGCTTCTTTCCATGATCTAGTATTTTGTTTCCTAGTTTCTTTTTCATTTTCTTTCT-
*
37511897 TTCCATAATTTTTGCCTATACTATGTTTCTTGATTAAATTGCTTGGATTAATTTGCCATTACTTG
194 GT-CATAATTTTTGCCTATACTATGTTTCTTGATTAAATTGCTTGGATTAATTTGCCATTACTTG
** * *
37511962 TGTTTTTTATCTTTCATCTACGTTTTTGGGTGGTGGTTGTTGCAATTGAACAGTATGGTAAGTTG
258 CATCTTTTATCTTCCATCTACGTTTTTGGGTGGTGGTTGTTGCAATTGAACAGTATGGTAAGTTG
37512027 TGAATTTTTTGAAAGGTTGGGAACTTTCGAGTGCGTTAAGATCTTTGTTGTAGAATTGGGGTTTT
323 TGAATTTTTTGAAAGGTTGGGAACTTTCGAGTGCGTTAAGATCTTTGTTGTAGAATTGGGGTTTT
37512092 AGTTTGTTTAATCTTTTTGTTGCGTGCTATCAGGTGAAGATCGAGAGATGTTGGGTGTTCATCCA
388 AGTTTGTTTAATCTTTTTGTTGCGTGCTATCAGGTGAAGATCGAGAGATGTTGGGTGTTCATCCA
37512157 ACATCATAGGTTTCATGTAGTGC
453 ACATCATAGGTTTCATGTAGTGC
37512180 TGTTCGTTTA
Statistics
Matches: 455, Mismatches: 18, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
474 61 0.13
475 123 0.27
476 271 0.60
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (475 bp):
GGATTTGTTTGTTTTGTTTTGTTTTTTTGATAAAATAAATAAGTTTTAATTAAATTAAAATTTTT
ATCTTCTTTTTCTCCTGAAATTCTCCAATAATTTCACGTTTATTTTTCATAGAACTCTCTATTTA
CGATATCAGCTTCTTTCCATGATCTAGTATTTTGTTTCCTAGTTTCTTTTTCATTTTCTTTCTGT
CATAATTTTTGCCTATACTATGTTTCTTGATTAAATTGCTTGGATTAATTTGCCATTACTTGCAT
CTTTTATCTTCCATCTACGTTTTTGGGTGGTGGTTGTTGCAATTGAACAGTATGGTAAGTTGTGA
ATTTTTTGAAAGGTTGGGAACTTTCGAGTGCGTTAAGATCTTTGTTGTAGAATTGGGGTTTTAGT
TTGTTTAATCTTTTTGTTGCGTGCTATCAGGTGAAGATCGAGAGATGTTGGGTGTTCATCCAACA
TCATAGGTTTCATGTAGTGC
Found at i:37517247 original size:25 final size:25
Alignment explanation
Indices: 37517202--37517268 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
37517192 GGAGGAAGTG
* *
37517202 CAAAAGGGC-TATGCCCTAG-TTAC
1 CAAAAGGGCTTTTGCCCAAGTTTAC
*
37517225 CGAAAAGGGCTTTTGCCCAAGTTTAT
1 C-AAAAGGGCTTTTGCCCAAGTTTAC
37517251 CAAAGAGGGCTTTTGCCC
1 CAAA-AGGGCTTTTGCCC
37517269 CAATTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 8 0.22
25 11 0.30
26 17 0.46
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCAAGTTTAC
Found at i:37517281 original size:26 final size:26
Alignment explanation
Indices: 37517230--37517284 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
37517220 GTTACCGAAA
*
37517230 AGGGCTTTTGCCCAAGTTTATCAAAG
1 AGGGCTTTTGCCCAAGTTTATAAAAG
37517256 AGGGCTTTTGCCCCAA--TTATTAAAAG
1 AGGGCTTTTG-CCCAAGTTTA-TAAAAG
37517282 AGG
1 AGG
37517285 CTAGGCCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 18 0.69
27 5 0.19
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (26 bp):
AGGGCTTTTGCCCAAGTTTATAAAAG
Found at i:37517529 original size:31 final size:31
Alignment explanation
Indices: 37517493--37517607 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
37517483 TTGTTACAGT
*
37517493 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37517524 AAAGGCTTCGACCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37517555 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
37517586 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
37517608 CTAAGATTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:37523006 original size:13 final size:13
Alignment explanation
Indices: 37522988--37523034 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
37522978 CCGTGCCTGT
37522988 CACACGGCTGAGA
1 CACACGGCTGAGA
* * *
37523001 CACACGGCCGTGT
1 CACACGGCTGAGA
*
37523014 CTCACGGCTGAGA
1 CACACGGCTGAGA
37523027 CACACGGC
1 CACACGGC
37523035 CGTGTCTCTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.36, G:0.30, T:0.11
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:37523021 original size:26 final size:26
Alignment explanation
Indices: 37522985--37523042 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
37522975 AGGCCGTGCC
*
37522985 TGTCACACGGCTGAGACACACGGCCG
1 TGTCTCACGGCTGAGACACACGGCCG
37523011 TGTCTCACGGCTGAGACACACGGCCG
1 TGTCTCACGGCTGAGACACACGGCCG
37523037 TGTCTC
1 TGTCTC
37523043 TGCCCATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.19, C:0.34, G:0.29, T:0.17
Consensus pattern (26 bp):
TGTCTCACGGCTGAGACACACGGCCG
Found at i:37536914 original size:17 final size:16
Alignment explanation
Indices: 37536885--37536916 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37536875 AGAATTTTCA
37536885 GAGAAAAAAGAGAGAG
1 GAGAAAAAAGAGAGAG
37536901 GAGAAAACAAGAGAGA
1 GAGAAAA-AAGAGAGA
37536917 AAGAGAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.03, G:0.34, T:0.00
Consensus pattern (16 bp):
GAGAAAAAAGAGAGAG
Found at i:37539353 original size:24 final size:24
Alignment explanation
Indices: 37539320--37539393 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
37539310 AAGTCTGTCT
*
37539320 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
37539344 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
37539368 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
37539392 GG
1 GG
37539394 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:37540864 original size:27 final size:26
Alignment explanation
Indices: 37540823--37540934 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
37540813 AAGGAAGCGT
*
37540823 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
*
37540850 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
* *
37540877 TCTGGTGGTTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCAC-ATTATCT-GA
* * *
37540905 TCTGGTGACT-TGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
37540930 TCTGG
1 TCTGG
37540935 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.07
26 9 0.12
27 48 0.67
28 10 0.14
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:37540922 original size:54 final size:53
Alignment explanation
Indices: 37540821--37540934 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
37540811 TGAAGGAAGC
*
37540821 GTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCT
* * * * *
37540875 GTTCTGGTGGTTCTGCCACGATTATCTATATCTGGTGACT-TGTCACATTATCT
1 GTTCTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATTATCT
37540928 GTTCTGG
1 GTTCTGG
37540935 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 12 0.23
54 31 0.58
55 10 0.19
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (53 bp):
GTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCT
Found at i:37543838 original size:3 final size:3
Alignment explanation
Indices: 37543790--37543820 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
37543780 TATACTAAAC
*
37543790 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37543821 TAATAGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37544103 original size:40 final size:40
Alignment explanation
Indices: 37544052--37544131 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
37544042 TGATTGGATA
*
37544052 CAAGTGTATTAATGAAAATACATAAAATTGTAATACATGT
1 CAAGTGCATTAATGAAAATACATAAAATTGTAATACATGT
*
37544092 CAAGTGCATTAATGAAAATACATACAATTGTAATACATGT
1 CAAGTGCATTAATGAAAATACATAAAATTGTAATACATGT
37544132 GTTTAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (40 bp):
CAAGTGCATTAATGAAAATACATAAAATTGTAATACATGT
Found at i:37544300 original size:11 final size:12
Alignment explanation
Indices: 37544270--37544303 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37544260 GTATGTTTAC
37544270 TTATTATATAAG
1 TTATTATATAAG
37544282 TATATTAT-TAAG
1 T-TATTATATAAG
37544294 TTATTATATA
1 TTATTATATA
37544304 TATATATAAA
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:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:37544379 original size:18 final size:18
Alignment explanation
Indices: 37544356--37544391 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37544346 GCACAAGTGG
37544356 TAAATAAATATTTATTAT
1 TAAATAAATATTTATTAT
* *
37544374 TAAATAGATTTTTATTAT
1 TAAATAAATATTTATTAT
37544392 AGTTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATAAATATTTATTAT
Found at i:37545185 original size:24 final size:24
Alignment explanation
Indices: 37545173--37545220 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
37545163 TTTGATATAT
37545173 AATGAATTTATTGAATTTATATTG
1 AATGAATTTATTGAATTTATATTG
*
37545197 ATTGAATTTATATTGAATTTATAT
1 AATGAA-TT-TATTGAATTTATAT
37545221 GATATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (24 bp):
AATGAATTTATTGAATTTATATTG
Found at i:37545202 original size:15 final size:15
Alignment explanation
Indices: 37545182--37545212 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37545172 TAATGAATTT
37545182 ATTGAATTTATATTG
1 ATTGAATTTATATTG
37545197 ATTGAATTTATATTG
1 ATTGAATTTATATTG
37545212 A
1 A
37545213 ATTTATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:37545767 original size:12 final size:13
Alignment explanation
Indices: 37545752--37545802 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
37545742 TTGAGCTATT
37545752 GAAATGAAA-TGA
1 GAAATGAAATTGA
*
37545764 GAAATTAAATTGA
1 GAAATGAAATTGA
*
37545777 GAATTGAAATTGA
1 GAAATGAAATTGA
* *
37545790 GATATGAGATTGA
1 GAAATGAAATTGA
37545803 AACATGAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.25
13 24 0.75
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (13 bp):
GAAATGAAATTGA
Found at i:37555125 original size:46 final size:45
Alignment explanation
Indices: 37555075--37555250 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
37555065 TGGTTGAGCA
*
37555075 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
37555121 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
37555166 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
37555214 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37555251 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:37555231 original size:93 final size:93
Alignment explanation
Indices: 37555072--37555242 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
37555062 GGATGGTTGA
* *
37555072 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37555137 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
37555165 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37555230 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37555243 ACTTATGGGC
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:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:37556683 original size:11 final size:12
Alignment explanation
Indices: 37556653--37556686 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37556643 GTATGTTTAT
37556653 TTATTATATAAG
1 TTATTATATAAG
37556665 TATATTAT-TAAG
1 T-TATTATATAAG
37556677 TTATTATATA
1 TTATTATATA
37556687 TATATAAAAG
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:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:37556741 original size:18 final size:18
Alignment explanation
Indices: 37556718--37556754 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37556708 GGTACAATTG
37556718 TTAAATAAATATTTATTA
1 TTAAATAAATATTTATTA
* *
37556736 TTAAATAGATTTTTATTA
1 TTAAATAAATATTTATTA
37556754 T
1 T
37556755 AGTTATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATAAATATTTATTA
Found at i:37556762 original size:9 final size:9
Alignment explanation
Indices: 37556748--37556773 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
37556738 AAATAGATTT
37556748 TTATTATAG
1 TTATTATAG
37556757 TTATTATAG
1 TTATTATAG
37556766 TTATTATA
1 TTATTATA
37556774 TATATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
TTATTATAG
Found at i:37557978 original size:39 final size:38
Alignment explanation
Indices: 37557927--37558002 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
37557917 TATTGGGTAC
*
37557927 CAACTTTACTTCG-GCTAGGCCGATGAGACACTGGGTGT
1 CAACTTTACTTCGAACTA-GCCGATGAGACACTGGGTGT
* * *
37557965 CAACTATTGCTTCGAACTATCCGATGAGGCACTGGGTG
1 CAACT-TTACTTCGAACTAGCCGATGAGACACTGGGTG
37558003 CCAATCTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.16
39 24 0.75
40 3 0.09
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (38 bp):
CAACTTTACTTCGAACTAGCCGATGAGACACTGGGTGT
Found at i:37562196 original size:17 final size:17
Alignment explanation
Indices: 37562174--37562212 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37562164 AATACAAGTA
37562174 GTCACACAACCACCCAT
1 GTCACACAACCACCCAT
*
37562191 GTCACACCACCACCCAT
1 GTCACACAACCACCCAT
37562208 GTCAC
1 GTCAC
37562213 TCCTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.49, G:0.08, T:0.13
Consensus pattern (17 bp):
GTCACACAACCACCCAT
Found at i:37573075 original size:13 final size:13
Alignment explanation
Indices: 37573057--37573082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37573047 TGTCACATGA
37573057 ATTAAATTTAATT
1 ATTAAATTTAATT
37573070 ATTAAATTTAATT
1 ATTAAATTTAATT
37573083 TAATTTGATA
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:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAAATTTAATT
Found at i:37574030 original size:20 final size:20
Alignment explanation
Indices: 37573992--37574039 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
37573982 TAAATTCTAA
* **
37573992 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
37574012 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
37574032 AAA-ATAAA
1 AAAGATAAA
37574040 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:37574050 original size:19 final size:18
Alignment explanation
Indices: 37574026--37574069 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
37574016 ATAAATAAAG
37574026 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
37574046 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
37574063 ATAATTA
1 ATAATTA
37574070 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:37574065 original size:28 final size:27
Alignment explanation
Indices: 37574034--37574098 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
37574024 AGATAATTAA
37574034 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
37574062 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
37574090 AATATAAAT
1 AATA-AAAT
37574099 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:37574085 original size:16 final size:16
Alignment explanation
Indices: 37574064--37574094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37574054 ATAATCCTAA
*
37574064 TAATTATCTTAATATT
1 TAATTATCCTAATATT
37574080 TAATTATCCTAATAT
1 TAATTATCCTAATAT
37574095 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:37576211 original size:20 final size:19
Alignment explanation
Indices: 37576188--37576260 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
37576178 ATATAATAAA
37576188 ATAATTAAAAATAAAAAATT
1 ATAA-TAAAAATAAAAAATT
*
37576208 ATAAT-AAAATAAGAAA-T
1 ATAATAAAAATAAAAAATT
* * *
37576225 AAAATAATAAAATAAATAATA
1 ATAAT-A-AAAATAAAAAATT
*
37576246 ATAATAATAATAAAA
1 ATAATAAAAATAAAA
37576261 TTAGAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
17 5 0.12
18 10 0.24
19 8 0.20
20 14 0.34
21 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (19 bp):
ATAATAAAAATAAAAAATT
Found at i:37576225 original size:12 final size:11
Alignment explanation
Indices: 37576210--37576273 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
37576200 AAAAAATTAT
37576210 AATAAAATAAGA
1 AATAAAATAA-A
37576222 AATAAAAT---
1 AATAAAATAAA
37576230 AATAAAATAAA
1 AATAAAATAAA
*
37576241 TAATAATAATAAT
1 -AATAA-AATAAA
*
37576254 AATAAAATTAGA
1 AATAAAA-TAAA
37576266 AATAAAAT
1 AATAAAAT
37576274 TTAAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 8 0.19
11 3 0.07
12 27 0.63
13 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:37576233 original size:3 final size:3
Alignment explanation
Indices: 37576176--37576258 Score: 63
Period size: 3 Copynumber: 29.0 Consensus size: 3
37576166 AGAATTTTAT
* *
37576176 TAA T-A TAA TAA -AA TAA TTAA AAA TAA -AA -AA TTA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
37576217 TAA GAAA TAA -AA TAA TAA -AA TAAA TAA TAA TAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
37576259 AATTAGAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 14 0.22
3 43 0.66
4 8 0.12
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:37576261 original size:20 final size:20
Alignment explanation
Indices: 37576176--37576261 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 20
37576166 AGAATTTTAT
37576176 TAAT-ATAATAAAATAAT--
1 TAATAATAATAAAATAATAA
* *
37576193 TAAAAATAA-AAAATTATAA
1 TAATAATAATAAAATAATAA
*
37576212 TAA-AATAA-GAAATAA-AA
1 TAATAATAATAAAATAATAA
37576229 TAATAA-AAT-AAATAATAA
1 TAATAATAATAAAATAATAA
37576247 TAATAATAATAAAAT
1 TAATAATAATAAAAT
37576262 TAGAAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 23 0.40
18 24 0.42
19 6 0.11
20 4 0.07
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (20 bp):
TAATAATAATAAAATAATAA
Found at i:37576269 original size:44 final size:40
Alignment explanation
Indices: 37576182--37576273 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 40
37576172 TTATTAATAT
* *
37576182 AATAAAATAATTAAAAATAAAAAATTATAATAAAATAAGA
1 AATAAAATAATAAAAAATAAAAAATAATAATAAAATAAGA
*
37576222 AATAAAATAATAAAATAAATAATAATAATAATAATAAAATTAGA
1 AATAAAATAAT-AAA-AAATAA-AA-AATAATAATAAAATAAGA
37576266 AATAAAAT
1 AATAAAAT
37576274 TTAAAATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
40 11 0.24
41 2 0.04
42 6 0.13
43 2 0.04
44 24 0.53
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (40 bp):
AATAAAATAATAAAAAATAAAAAATAATAATAAAATAAGA
Found at i:37580348 original size:13 final size:13
Alignment explanation
Indices: 37580330--37580355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37580320 TGTCACATGA
37580330 ATTAAATTTAATT
1 ATTAAATTTAATT
37580343 ATTAAATTTAATT
1 ATTAAATTTAATT
37580356 TAATTTGATA
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:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAAATTTAATT
Found at i:37580756 original size:17 final size:19
Alignment explanation
Indices: 37580736--37580773 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
37580726 AAGTGAATTG
37580736 AAATTGC-GAAATT-AAAT
1 AAATTGCAGAAATTGAAAT
37580753 AAATTGCAGAAATTGAAAT
1 AAATTGCAGAAATTGAAAT
37580772 AA
1 AA
37580774 GGAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTGCAGAAATTGAAAT
Found at i:37581500 original size:10 final size:10
Alignment explanation
Indices: 37581485--37581516 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
37581475 TAAATACATT
37581485 TAATTAAAGA
1 TAATTAAAGA
37581495 TAATTAAAGA
1 TAATTAAAGA
37581505 TAATTAAA-A
1 TAATTAAAGA
37581514 TAA
1 TAA
37581517 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:37581528 original size:19 final size:18
Alignment explanation
Indices: 37581504--37581547 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
37581494 ATAATTAAAG
37581504 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
37581524 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
37581541 ATAATTA
1 ATAATTA
37581548 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:37581543 original size:28 final size:27
Alignment explanation
Indices: 37581512--37581576 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
37581502 AGATAATTAA
37581512 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
37581540 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
37581568 AATATAAAT
1 AATA-AAAT
37581577 AAAAAAGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:37581563 original size:16 final size:16
Alignment explanation
Indices: 37581542--37581572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37581532 ATAATCCTAA
*
37581542 TAATTATCTTAATATT
1 TAATTATCCTAATATT
37581558 TAATTATCCTAATAT
1 TAATTATCCTAATAT
37581573 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:37586261 original size:18 final size:19
Alignment explanation
Indices: 37586238--37586282 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
37586228 AAAAAATAAA
37586238 TTCATTTTTTAAT-TCATT
1 TTCATTTTTTAATCTCATT
* *
37586256 TTCATTTCTTATTCTCATT
1 TTCATTTTTTAATCTCATT
37586275 TTCATTTT
1 TTCATTTT
37586283 AGAGAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCATTTTTTAATCTCATT
Found at i:37590997 original size:24 final size:22
Alignment explanation
Indices: 37590956--37590999 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
37590946 AATTAATCAA
*
37590956 ATTTCATATACATGTATCATCC
1 ATTTCATATACATATATCATCC
37590978 ATTTCATATATCTATATATCAT
1 ATTTCATATA-C-ATATATCAT
37591000 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATACATATATCATCC
Found at i:37600195 original size:12 final size:12
Alignment explanation
Indices: 37600178--37600204 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37600168 CCTCACATGC
37600178 CCATGTGCTAGG
1 CCATGTGCTAGG
37600190 CCATGTGCTAGG
1 CCATGTGCTAGG
37600202 CCA
1 CCA
37600205 AATAACAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.22
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:37614146 original size:25 final size:24
Alignment explanation
Indices: 37614118--37614166 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
37614108 GTACTGTCTC
*
37614118 GGCATTTTGAAAATGGGTTTCTGA
1 GGCATTCTGAAAATGGGTTTCTGA
37614142 NGGCATTCTGAAAATGGGTTTCTGA
1 -GGCATTCTGAAAATGGGTTTCTGA
37614167 CACCGAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.35
Consensus pattern (24 bp):
GGCATTCTGAAAATGGGTTTCTGA
Found at i:37615450 original size:22 final size:22
Alignment explanation
Indices: 37615419--37615460 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37615409 ACCTGCCAAG
*
37615419 AAAAAGAAAAAGTAGATTAATA
1 AAAAAGAAAAAGTAAATTAATA
* *
37615441 AAAAATAAAAATTAAATTAA
1 AAAAAGAAAAAGTAAATTAA
37615461 ATTGCAAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAAAGAAAAAGTAAATTAATA
Found at i:37617053 original size:49 final size:49
Alignment explanation
Indices: 37616988--37617111 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
37616978 TGCCGAGGTG
* * * * * *
37616988 ATGTCCCAGACAGGTCTTACATTGACTTTCATATATCAAGGTTGATGCT
1 ATGTCCCAAATAGGTCTTACACTGACTCTCATATATCAAGGTGGATGCC
* * * *
37617037 GTGTCCCAAATAGGTCTTACACT-AGCTCTCATCTATCGATGTGGATGCC
1 ATGTCCCAAATAGGTCTTACACTGA-CTCTCATATATCAAGGTGGATGCC
37617086 ATGTCCCAAATAGGTCTTACACTGAC
1 ATGTCCCAAATAGGTCTTACACTGAC
37617112 ACACAACAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 60 0.97
50 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (49 bp):
ATGTCCCAAATAGGTCTTACACTGACTCTCATATATCAAGGTGGATGCC
Found at i:37617329 original size:92 final size:93
Alignment explanation
Indices: 37617129--37617340 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 93
37617119 AAGCAGACGC
* * * *
37617129 CATGTCCCAGACAGGTCTTACACTAGCTTGTATGTCTCGAGGCTGATGCACGTCCCAGACATATC
1 CATGTCCCAGACATGTCTTACACT-GGTTGTATATCTCGAGGCTGATGCACGTCCCAAACATATC
*
37617194 TTACACTAGCTCTCATATAAAAGTCGATG
65 TTACACTAGCTCTCATATAAAAGCCGATG
* * * **
37617223 CATGTGCCAGACATGTCTTACTCTGGTTGGTATATCTCGA-GATCGATGCATTTCCCAAACATAT
1 CATGTCCCAGACATGTCTTACACTGGTT-GTATATCTCGAGGCT-GATGCACGTCCCAAACATAT
***
37617287 C-T-CACTAGCTCTCATA-ATGTGGCCGATG
64 CTTACACTAGCTCTCATATA-AAAGCCGATG
37617315 CATGTCCCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
37617341 CACACGTATC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
91 1 0.01
92 44 0.44
93 6 0.06
94 49 0.49
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGTTGTATATCTCGAGGCTGATGCACGTCCCAAACATATCT
TACACTAGCTCTCATATAAAAGCCGATG
Found at i:37618545 original size:27 final size:27
Alignment explanation
Indices: 37618512--37618692 Score: 211
Period size: 27 Copynumber: 6.7 Consensus size: 27
37618502 TGGATAAGTT
*
37618512 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
37618539 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*** *
37618566 GTAGAATTATTAAAATACCCCTGTAAC
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
37618593 GTAAAATTACTGAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
37618619 GATAAAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* *
37618647 GTAGAAATACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
37618674 GTAGAATTACCGAGATACC
1 GTAGAATTACCGAAATACC
37618693 TTTGTGGGGT
Statistics
Matches: 128, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 124 0.97
28 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:37618706 original size:81 final size:81
Alignment explanation
Indices: 37618516--37618711 Score: 257
Period size: 81 Copynumber: 2.4 Consensus size: 81
37618506 TAAGTTGTAG
* * * **
37618516 AATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTAAAA
1 AATTACCGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
37618581 TACCCCTGTAACGTAA
66 TACCCCTGTAACGTAA
* * *
37618597 AATTACTGAAATACCCCTATAGGATAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
1 AATTACCGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
* *
37618662 TACCCCTGTAAGGTAG
66 TACCCCTGTAACGTAA
* ** * *
37618678 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTATAGGGTAAAATTACC
37618712 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (81 bp):
AATTACCGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
TACCCCTGTAACGTAA
Found at i:37619474 original size:67 final size:67
Alignment explanation
Indices: 37619343--37619477 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
37619333 GAGGAAGTGT
* * * *
37619343 TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCATATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
37619408 TA
66 TA
* * *
37619410 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGGCCTAGCCACAA
1 TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
37619475 TA
66 TA
37619477 T
1 T
37619478 TTGTATCCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:37619489 original size:27 final size:27
Alignment explanation
Indices: 37619432--37619489 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
37619422 GCTGCAATCT
* * *
37619432 GGTGGCTTCGCCACATATATCTGTTCT
1 GGTGGCCTAGCCACATATATCTGTTCC
*
37619459 GGTGGCCTAGCCACA-ATATTTGTATCC
1 GGTGGCCTAGCCACATATATCTGT-TCC
37619486 GGTG
1 GGTG
37619490 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (27 bp):
GGTGGCCTAGCCACATATATCTGTTCC
Found at i:37627991 original size:15 final size:15
Alignment explanation
Indices: 37627973--37628006 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
37627963 ACGGGCGTGT
37627973 CCCACGGTCATGTGC
1 CCCACGGTCATGTGC
*
37627988 CCCACGGTCGTGTGC
1 CCCACGGTCATGTGC
37628003 CCCA
1 CCCA
37628007 AAATCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.44, G:0.26, T:0.18
Consensus pattern (15 bp):
CCCACGGTCATGTGC
Found at i:37630589 original size:35 final size:35
Alignment explanation
Indices: 37630543--37630754 Score: 415
Period size: 35 Copynumber: 6.0 Consensus size: 35
37630533 TTGACTATTC
37630543 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
37630578 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
37630613 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
37630648 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
37630683 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCAATCA
37630718 TATCTAAGATTGTATCATATCTAAGATTGCATATCA
1 TATCTAAGATTGTATCATATCTAAGATTGCA-ATCA
37630754 T
1 T
37630755 TGAAGATTAT
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
35 171 0.97
36 5 0.03
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TATCTAAGATTGTATCATATCTAAGATTGCAATCA
Found at i:37631294 original size:84 final size:84
Alignment explanation
Indices: 37631140--37632080 Score: 1674
Period size: 84 Copynumber: 11.2 Consensus size: 84
37631130 TTCGATTTGT
* * * * * *
37631140 AAGGATGTC-AAATCATCTTCAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
*
37631204 ACTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
* * *
37631223 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631288 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
* * * *
37631307 AAGGATGCC-AACCCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631371 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
* * *
37631390 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631455 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
* * *
37631474 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631539 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631558 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631623 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631642 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631707 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631726 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631791 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631810 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631875 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631894 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37631959 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37631978 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
37632043 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
37632062 AAGGATGCC--AACCATCTTG
1 AAGGATGCCTAAACCATCTTG
37632081 GATCTACTTC
Statistics
Matches: 845, Mismatches: 11, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
82 10 0.01
83 90 0.11
84 745 0.88
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (84 bp):
AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
ATTTGTTCCTTGTAAGCAC
Found at i:37632403 original size:119 final size:119
Alignment explanation
Indices: 37632005--37632715 Score: 1174
Period size: 119 Copynumber: 6.0 Consensus size: 119
37631995 CTTGAGTCTG
* * * * * * * *
37632005 TTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
37632070 C-AACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
37632123 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
37632188 C-AACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
37632241 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACAGAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
37632306 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTAAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
37632360 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
37632425 CAAATCATCTTGGATCTGCTTCTGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
37632479 TTTGAGAACGTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
37632544 CAAATCATCTTGGATCTGCTTCTGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
37632598 TTTGAGAACGTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
37632663 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
37632716 CTTCGATCTG
Statistics
Matches: 567, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
118 174 0.31
119 393 0.69
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:37632758 original size:44 final size:44
Alignment explanation
Indices: 37632710--37632886 Score: 189
Period size: 44 Copynumber: 4.0 Consensus size: 44
37632700 AGGTTAGATT
37632710 TGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC
1 TGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC
*
37632754 TGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--ATGC
1 TGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-C
** * * * * * * * *
37632797 TGAAATCTTCAATCTACTTCGCTGTAAGCACAGGAATGTCAGATC
1 TGCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAAATC
* *
37632842 TACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAAATC
1 TGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC
37632886 T
1 T
37632887 TGTTTCTTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 77 0.73
45 12 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
TGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC
Found at i:37633781 original size:21 final size:22
Alignment explanation
Indices: 37633757--37633801 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
37633747 TCACCTTGGC
37633757 CTCTCCATTTTTTTCT-TTTTT
1 CTCTCCATTTTTTTCTCTTTTT
**
37633778 CTCTTTATTTTTTTCTCTTTTT
1 CTCTCCATTTTTTTCTCTTTTT
37633800 CT
1 CT
37633802 TTTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
CTCTCCATTTTTTTCTCTTTTT
Found at i:37633789 original size:22 final size:21
Alignment explanation
Indices: 37633762--37633822 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
37633752 TTGGCCTCTC
37633762 CATTTTTTTCTTTTTTCTCTTT
1 CATTTTTTTCTTTTTTCT-TTT
37633784 -ATTTTTTTCTCTTTTTCTTTT
1 CATTTTTTTCT-TTTTTCTTTT
*
37633805 CTTTTTCTTTTCTTTTTT
1 C-ATTT-TTTTCTTTTTT
37633823 TTTGAAATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 13 0.38
22 7 0.21
23 8 0.24
24 6 0.18
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.80
Consensus pattern (21 bp):
CATTTTTTTCTTTTTTCTTTT
Found at i:37633791 original size:14 final size:13
Alignment explanation
Indices: 37633767--37633825 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 13
37633757 CTCTCCATTT
37633767 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
37633781 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
37633795 -TTTTTCTTT-TC
1 TTTTTTTTTTCTC
*
37633806 TTTTTCTTTTCT-
1 TTTTTTTTTTCTC
37633818 TTTTTTTT
1 TTTTTTTT
37633826 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.05
12 20 0.53
13 3 0.08
14 12 0.32
15 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:37633799 original size:11 final size:10
Alignment explanation
Indices: 37633764--37633825 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 10
37633754 GGCCTCTCCA
37633764 TTTTTTTCTT
1 TTTTTTTCTT
37633774 TTTTCTCTT-TAT
1 TTTT-T-TTCT-T
37633786 TTTTTTCTCTT
1 TTTTTT-TCTT
37633797 TTTCTTTTCTT
1 TTT-TTTTCTT
37633808 TTTCTTTTCTT
1 TTT-TTTTCTT
37633819 TTTTTTT
1 TTTTTTT
37633826 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.20
11 26 0.57
12 11 0.24
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:37633804 original size:16 final size:15
Alignment explanation
Indices: 37633767--37633823 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
37633757 CTCTCCATTT
37633767 TTTTC-TTTTTTCTC
1 TTTTCTTTTTTTCTC
*
37633781 -TTTATTTTTTTCTC
1 TTTTCTTTTTTTCTC
*
37633795 TTTTTCTTTTCTTTTTC
1 -TTTTCTTTT-TTTCTC
37633812 TTTTCTTTTTTT
1 TTTTCTTTTTTT
37633824 TTGAAATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.08
14 9 0.25
15 3 0.08
16 16 0.44
17 5 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTCTC
Found at i:37636824 original size:42 final size:42
Alignment explanation
Indices: 37636760--37636839 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
37636750 AAGCGGGCAC
37636760 TCCTACTTAACATGCTACCTTAAAATGATAACCAACACATTT
1 TCCTACTTAACATGCTACCTTAAAATGATAACCAACACATTT
* *
37636802 TCCTGCTTAACATGCTACCTTAAAATGATATCCAACAC
1 TCCTACTTAACATGCTACCTTAAAATGATAACCAACAC
37636840 CTTTAGGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (42 bp):
TCCTACTTAACATGCTACCTTAAAATGATAACCAACACATTT
Found at i:37639747 original size:7 final size:7
Alignment explanation
Indices: 37639731--37639837 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
37639721 AATAAATGAA
*
37639731 ATAATTT
1 ATAATAT
37639738 ATAATAT
1 ATAATAT
37639745 ATAATAT
1 ATAATAT
*
37639752 A-AAAAT
1 ATAATAT
* *
37639758 GTAAGTTT
1 ATAA-TAT
*
37639766 TTAA-A-
1 ATAATAT
*
37639771 ATAATGT
1 ATAATAT
37639778 ATAATAT
1 ATAATAT
*
37639785 A-AATAA
1 ATAATAT
37639791 ATAAATAT
1 AT-AATAT
37639799 ATAAGATAT
1 AT-A-ATAT
37639808 ATAAGT-T
1 ATAA-TAT
37639815 A-AA-AT
1 ATAATAT
37639820 ATAATAT
1 ATAATAT
37639827 ATAATA-
1 ATAATAT
37639833 ATAAT
1 ATAAT
37639838 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:37639801 original size:21 final size:21
Alignment explanation
Indices: 37639769--37639833 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
37639759 TAAGTTTTTA
*
37639769 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
37639789 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
37639810 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
37639832 AA
1 AA
37639834 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:37639802 original size:28 final size:29
Alignment explanation
Indices: 37639771--37639831 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
37639761 AGTTTTTAAA
37639771 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
37639799 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
37639827 ATAAT
1 ATAAT
37639832 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:37639872 original size:12 final size:13
Alignment explanation
Indices: 37639853--37639883 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
37639843 AATTTTGAAA
37639853 ATATAAATAATAT
1 ATATAAATAATAT
37639866 A-ATAAATAATAT
1 ATATAAATAATAT
37639878 ATATAA
1 ATATAA
37639884 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:37639881 original size:16 final size:15
Alignment explanation
Indices: 37639858--37639888 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
37639848 TGAAAATATA
37639858 AATAATATAATAAAT
1 AATAATATAATAAAT
37639873 AATATATATAATAAAT
1 AATA-ATATAATAAAT
37639889 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:37640208 original size:17 final size:17
Alignment explanation
Indices: 37640186--37640244 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
37640176 ATTACAAAAT
37640186 TATATCTTCTAAGATTG
1 TATATCTTCTAAGATTG
37640203 TATATCATATCTAAGATTG
1 TATATC-T-TCTAAGATTG
*
37640222 TATCAT-ATCTAAGATTG
1 TAT-ATCTTCTAAGATTG
*
37640239 CATATC
1 TATATC
37640245 ATTGAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 2 0.06
17 18 0.50
18 1 0.03
19 13 0.36
20 2 0.06
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
TATATCTTCTAAGATTG
Found at i:37640217 original size:19 final size:18
Alignment explanation
Indices: 37640193--37640246 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 18
37640183 AATTATATCT
37640193 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
37640212 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
37640229 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
37640247 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:37641498 original size:26 final size:26
Alignment explanation
Indices: 37641468--37641523 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
37641458 TGAAATTCCC
37641468 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37641494 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37641520 ATCA
1 ATCA
37641524 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37644331 original size:10 final size:9
Alignment explanation
Indices: 37644305--37644330 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
37644295 ACTTGTTCTT
37644305 AAAAAAAAG
1 AAAAAAAAG
37644314 AAAAAAAAG
1 AAAAAAAAG
37644323 AAAAAAAA
1 AAAAAAAA
37644331 AACAATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:37653432 original size:46 final size:46
Alignment explanation
Indices: 37653369--37653496 Score: 148
Period size: 48 Copynumber: 2.7 Consensus size: 46
37653359 CTTGAGGCTA
*
37653369 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGTAG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCAG
* * ** * * * * *
37653415 ATGCATATCTCAGACATGTCTTACTTTGGCTGGTATATCTCAAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCT-CT-CATCTCAAAGCAG
37653463 ATGCATGTCCCAGACATGTCTTACACTAGCTCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTC
37653497 GTAATGTGGC
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
46 26 0.41
47 2 0.03
48 35 0.56
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCAG
Found at i:37655142 original size:51 final size:54
Alignment explanation
Indices: 37655010--37655167 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 54
37655000 TGAAAATGGT
* * *
37655010 GAAATGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATAAAAATAGAAATGAA
1 GAAATAGGAATCATTTGGAAATGATTATGGTTTTCTCTAAAATAAAAATAG--A-G-A
* *
37655068 GAAATAGGAAAT-ATTTAGAAATGATTATGGTTTTCTCTAAAATGAAAATAG-G-
1 GAAATAGG-AATCATTTGGAAATGATTATGGTTTTCTCTAAAATAAAAATAGAGA
* *
37655120 GAAGT-GGAATCATTTGGAAATGAATATGGTTTTCTCCT-AAATAAAAAT
1 GAAATAGGAATCATTTGGAAATGATTATGGTTTTCT-CTAAAATAAAAAT
37655168 GACTTGGAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
50 3 0.03
51 33 0.38
52 6 0.07
54 1 0.01
58 43 0.49
59 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (54 bp):
GAAATAGGAATCATTTGGAAATGATTATGGTTTTCTCTAAAATAAAAATAGAGA
Found at i:37656513 original size:14 final size:14
Alignment explanation
Indices: 37656494--37656522 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37656484 TCGATAACAT
37656494 ATAAAAATTTTAGA
1 ATAAAAATTTTAGA
37656508 ATAAAAATTTTAGA
1 ATAAAAATTTTAGA
37656522 A
1 A
37656523 ACTTAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
ATAAAAATTTTAGA
Found at i:37657561 original size:26 final size:26
Alignment explanation
Indices: 37657531--37657581 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37657521 ACATAAAGTA
*
37657531 AAGCTTCATAGCTTAGTAATTTTGTT
1 AAGCTTCATAGCTTAGTAAGTTTGTT
37657557 AAGCTTCATAGCTTAGTAAGTTTGT
1 AAGCTTCATAGCTTAGTAAGTTTGT
37657582 AAGTGAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (26 bp):
AAGCTTCATAGCTTAGTAAGTTTGTT
Found at i:37662818 original size:42 final size:42
Alignment explanation
Indices: 37662753--37662842 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 42
37662743 TTACATAGGT
*
37662753 GTGTGAGGTTATTTTAAAGGGTACATGGCCTGGCACACGATGC
1 GTGTGGGGTTATTTTAAAGGGTACATGGCCTGGCACACGA-GC
*
37662796 GTGTGGGGTTATTTTGAA-GGTACATGGCCTGGCACACGAGC
1 GTGTGGGGTTATTTTAAAGGGTACATGGCCTGGCACACGAGC
*
37662837 GGGTGG
1 GTGTGG
37662843 CTTGGTCGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 7 0.16
42 21 0.48
43 16 0.36
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.27
Consensus pattern (42 bp):
GTGTGGGGTTATTTTAAAGGGTACATGGCCTGGCACACGAGC
Found at i:37664653 original size:25 final size:25
Alignment explanation
Indices: 37664625--37664682 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
37664615 TATCCTAACA
* *
37664625 AAAATTTGACAATTTTACCCCTAGT
1 AAAATTTAACAATTTTAACCCTAGT
*
37664650 AAAATTTTAACGATTTTAACCCTAGT
1 AAAA-TTTAACAATTTTAACCCTAGT
37664676 AAAATTT
1 AAAATTT
37664683 CAAGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (25 bp):
AAAATTTAACAATTTTAACCCTAGT
Found at i:37664841 original size:6 final size:6
Alignment explanation
Indices: 37664826--37664888 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
37664816 AGATTGCAAG
* * * **
37664826 TTTCCA TTTTCA TTTTCA TTTTCA TTTTTA TTTCCA TTTCCA TTTCCA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
37664874 TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTT
37664889 TTAGAAACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTCCA
Found at i:37664853 original size:18 final size:18
Alignment explanation
Indices: 37664826--37664889 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
37664816 AGATTGCAAG
*
37664826 TTTCCATTTTCATTTTCA
1 TTTCCATTTTCATTTCCA
* *
37664844 TTTTCATTTTTATTTCCA
1 TTTCCATTTTCATTTCCA
*
37664862 TTTCCATTTCCATTTCCA
1 TTTCCATTTTCATTTCCA
37664880 TTTCCATTTT
1 TTTCCATTTT
37664890 TAGAAACCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCCATTTTCATTTCCA
Found at i:37671962 original size:17 final size:17
Alignment explanation
Indices: 37671917--37671964 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
37671907 GCTTAATAGA
37671917 AGAGTCTGCCAAATCTC
1 AGAGTCTGCCAAATCTC
* *
37671934 AGAGTTTACCAAATC-C
1 AGAGTCTGCCAAATCTC
*
37671950 TGGAGTCTGCCAAAT
1 -AGAGTCTGCCAAAT
37671965 GACGAACCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (17 bp):
AGAGTCTGCCAAATCTC
Found at i:37676606 original size:45 final size:45
Alignment explanation
Indices: 37676542--37676628 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
37676532 CCAAAACATG
*
37676542 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAAACCACAACCCAATGAGTTCGGA
* * *
37676587 TGTCAGATATATCATGAACTCAGACCACAACCCAATGAGTTC
1 TGTCACATATATCACGAACTCAAACCACAACCCAATGAGTTC
37676629 AGATTACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACCCAATGAGTTCGGA
Found at i:37677952 original size:45 final size:44
Alignment explanation
Indices: 37677867--37677952 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
37677857 TATGTAATCT
* *
37677867 GAACTTATTGAGTTGTGTCTAAATTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTCTAAATTCATGATATATATGACATCC
* ** *
37677911 GAACTCATTGAGTTGTGGTCTAAGTTTGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTAAATTCATGATATATATGACA
37677953 CATGTTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 15 0.43
45 20 0.57
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTAAATTCATGATATATATGACATCC
Found at i:37688795 original size:42 final size:42
Alignment explanation
Indices: 37688704--37688858 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
37688694 CAACGCCAAC
* * * * **
37688704 GTCCTAGACGTGGT-TTACATGTAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGTCAAA
*
37688746 GTCCCAGACAAGGTCTTACACGAAATCAAATACGATGTCAAA
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAA
* * * * *
37688788 GTACCAGACATGGTCTTACATGTAATTTCAAAT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AA-ATCAAATACGATGTCAAA
*
37688831 GTCCCAAACATGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
37688859 CATATCAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.03
42 40 0.43
43 44 0.47
44 6 0.06
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAA
Found at i:37688842 original size:43 final size:41
Alignment explanation
Indices: 37688698--37688850 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 41
37688688 TTAGTACAAC
* *
37688698 GCCAACGTCCTAGACGTGGT-TTACATGTAATCAAATATCGAT
1 GCCAACGTCCCAGACATGGTCTTACATGTAATC-AA-ATCGAT
* * * *
37688740 GTC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATACGAT
1 GCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAAT-CGAT
* * *
37688782 GTCAAAGTACCAGACATGGTCTTACATGTAATTTCAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACATGTAA--TCAAATCGAT
*
37688825 GCCAACGTCCCAAACATGGTCTTACA
1 GCCAACGTCCCAGACATGGTCTTACA
37688851 CGAAATCACA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 4 0.04
42 43 0.48
43 37 0.41
44 6 0.07
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
GCCAACGTCCCAGACATGGTCTTACATGTAATCAAATCGAT
Found at i:37700997 original size:16 final size:16
Alignment explanation
Indices: 37700976--37701013 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37700966 CAACTTATAA
*
37700976 GCGAAAATGATGTGTC
1 GCGAAAATAATGTGTC
37700992 GCGAAAATAATGTGTC
1 GCGAAAATAATGTGTC
*
37701008 ACGAAA
1 GCGAAA
37701014 CTAACTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (16 bp):
GCGAAAATAATGTGTC
Found at i:37706854 original size:3 final size:3
Alignment explanation
Indices: 37706846--37706874 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37706836 TTCATCCATT
37706846 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
37706875 TTTTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:37708735 original size:26 final size:25
Alignment explanation
Indices: 37708696--37708779 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 25
37708686 TGATACAAAT
*
37708696 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
37708722 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTTCA
*
37708748 TGGTAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
37708774 TGATAA
1 TGATAA
37708780 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 2 0.04
26 49 0.92
27 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:37710435 original size:27 final size:27
Alignment explanation
Indices: 37710397--37710592 Score: 259
Period size: 27 Copynumber: 7.3 Consensus size: 27
37710387 GAGGAAGCGT
*
37710397 TCTGGTGGCTCTGCTACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
37710424 TCTGGTGGCTCTGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
37710451 TCTGGTGGCTCTGCCACATATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * **
37710478 TCTGGTGGCTCTACCACATATATCTCT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
37710505 TCTAGTGGCTCTGCCACGATTATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
37710532 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
37710559 TCTGGTGGCTCTGCCAC-AATATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
37710586 TCTGGTG
1 TCTGGTG
37710593 ACTTCGTCAC
Statistics
Matches: 146, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 6 0.04
27 140 0.96
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:37710479 original size:54 final size:54
Alignment explanation
Indices: 37710395--37710592 Score: 285
Period size: 54 Copynumber: 3.7 Consensus size: 54
37710385 TGGAGGAAGC
* *
37710395 GTTCTGGTGGCTCTGCTACAAATATCTGATCTGGTGGCTCTGCCACA-ATTATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGATCTGGTGGCTCTGCCACATA-TATCT
* *
37710449 GATCTGGTGGCTCTGCCACATATATCTGATCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGATCTGGTGGCTCTGCCACATATATCT
* *
37710503 CTTCTAGTGGCTCTGCCACGAT-TATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCTGATCTGGTGGCTCTGCCACATATATCT
*
37710557 GTTCTGGTGGCTCTGCCACA-ATATTTGTATCTGGTG
1 GTTCTGGTGGCTCTGCCACATATATCTG-ATCTGGTG
37710593 ACTTCGTCAC
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
53 6 0.05
54 120 0.93
55 3 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACATATATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:37710532 original size:81 final size:80
Alignment explanation
Indices: 37710397--37710580 Score: 287
Period size: 81 Copynumber: 2.3 Consensus size: 80
37710387 GAGGAAGCGT
* * *
37710397 TCTGGTGGCTCTGCTACAAATATCTGATCTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTC
1 TCTGGTGGCTCTGCCAC-AATATCTCATCTAGTGGCTCTGCCACAATTATCTGATCTGGTGGCTC
37710462 TGCCACATATATCTGA
65 TGCCACATATATCTGA
* * *
37710478 TCTGGTGGCTCTACCACATATATCTCTTCTAGTGGCTCTGCCACGATTATCTGATCTGGTGGCTC
1 TCTGGTGGCTCTGCCACA-ATATCTCATCTAGTGGCTCTGCCACAATTATCTGATCTGGTGGCTC
*
37710543 TGCCACATATATCTGT
65 TGCCACATATATCTGA
37710559 TCTGGTGGCTCTGCCACAATAT
1 TCTGGTGGCTCTGCCACAATAT
37710581 TTGTATCTGG
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
80 5 0.05
81 89 0.95
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (80 bp):
TCTGGTGGCTCTGCCACAATATCTCATCTAGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCT
GCCACATATATCTGA
Found at i:37725126 original size:47 final size:47
Alignment explanation
Indices: 37725063--37725157 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
37725053 ATATGGTGAA
37725063 TGGATAACGATTAAGCATGCATTTAGGAAGTCTAGCTACCTAATGGC
1 TGGATAACGATTAAGCATGCATTTAGGAAGTCTAGCTACCTAATGGC
37725110 TGGATAACGATTAAGCATGCATTTAGGAAGTCTAGCTACCTAATGGC
1 TGGATAACGATTAAGCATGCATTTAGGAAGTCTAGCTACCTAATGGC
37725157 T
1 T
37725158 AAGTAGTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (47 bp):
TGGATAACGATTAAGCATGCATTTAGGAAGTCTAGCTACCTAATGGC
Found at i:37741196 original size:40 final size:40
Alignment explanation
Indices: 37741126--37741223 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
37741116 AAACCAAGTA
* * * *
37741126 CCTTCAGGATTTAG-CCGGATTTAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
37741165 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
37741205 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37741224 TTATCATCCG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.25
40 40 0.75
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:37750829 original size:32 final size:32
Alignment explanation
Indices: 37750788--37750853 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
37750778 TAAACGCATA
37750788 GATTGGCATTAAGATGATAATGATTGAACATG
1 GATTGGCATTAAGATGATAATGATTGAACATG
*
37750820 GATTGGCATTAAGATGATAATTATTGAACATG
1 GATTGGCATTAAGATGATAATGATTGAACATG
37750852 GA
1 GA
37750854 CATTTGTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (32 bp):
GATTGGCATTAAGATGATAATGATTGAACATG
Found at i:37754921 original size:26 final size:26
Alignment explanation
Indices: 37754888--37754959 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
37754878 TTATCCCAAA
*
37754888 TTTACCCTAG-TAAATTTTTTGACAAT
1 TTTACCCTAGATAAAATTTTTG-CAAT
* *
37754914 TTTACCCTCGATAAAATTTTTGCGAT
1 TTTACCCTAGATAAAATTTTTGCAAT
37754940 TTTACCCTTA-ATAAAATTTT
1 TTTACCC-TAGATAAAATTTT
37754960 GAGAAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 29 0.73
27 11 0.28
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (26 bp):
TTTACCCTAGATAAAATTTTTGCAAT
Found at i:37756495 original size:12 final size:12
Alignment explanation
Indices: 37756478--37756503 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37756468 AAAATAGGGC
37756478 TTTAGCGGCGTT
1 TTTAGCGGCGTT
37756490 TTTAGCGGCGTT
1 TTTAGCGGCGTT
37756502 TT
1 TT
37756504 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:37756623 original size:41 final size:41
Alignment explanation
Indices: 37756558--37756694 Score: 249
Period size: 41 Copynumber: 3.4 Consensus size: 41
37756548 CGTTTTACAA
37756558 AAAACGCCGCT-AAAACCAGGGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
*
37756598 AAAACGCCACTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
*
37756639 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
37756680 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
37756695 GTCATATAAC
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 10 0.11
41 83 0.89
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
Found at i:37756924 original size:49 final size:46
Alignment explanation
Indices: 37756866--37756962 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 46
37756856 GTTTAAGGTT
* *
37756866 TATGGTTTAAGATATATGATTTAGGGTTTAAGCATGTTTATGAGTTAAC
1 TATGGTTTAAGATATACGATTTAGGGTTTAAG---GTTTAGGAGTTAAC
* *
37756915 TATGGTTTAAGATGTACGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATACGATTTAGGGTTTAAGGTTTAGGAGTTAAC
37756961 TA
1 TA
37756963 GTATTTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 15 0.34
49 29 0.66
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (46 bp):
TATGGTTTAAGATATACGATTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:37764241 original size:23 final size:25
Alignment explanation
Indices: 37764215--37764265 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
37764205 CTAATAGTTA
37764215 TTAGAA-T-TAGATATCTACTTCTT
1 TTAGAATTATAGATATCTACTTCTT
*
37764238 TTAGAATTATATATATCTACTTCTT
1 TTAGAATTATAGATATCTACTTCTT
37764263 TTA
1 TTA
37764266 TACTTCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.24
24 1 0.04
25 18 0.72
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (25 bp):
TTAGAATTATAGATATCTACTTCTT
Found at i:37764932 original size:16 final size:15
Alignment explanation
Indices: 37764906--37764940 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
37764896 TGATGTGAAT
37764906 AATATAAAATATTAA
1 AATATAAAATATTAA
*
37764921 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
37764937 AATA
1 AATA
37764941 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:37765111 original size:20 final size:20
Alignment explanation
Indices: 37765054--37765113 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
37765044 AATACTACAT
37765054 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
37765073 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
37765096 AAATATGTACATAATATA
1 AAATATGTACATAATATA
37765114 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:37765174 original size:26 final size:24
Alignment explanation
Indices: 37765139--37765207 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
37765129 AGATAATATA
37765139 ATTAAAATATATACATAAGATAAC
1 ATTAAAATATATACATAAGATAAC
* * **
37765163 ATGTAAATATATATAAATAATATAGT
1 AT-TAAA-ATATATACATAAGATAAC
37765189 ATTAAAGATATATACATAA
1 ATTAAA-ATATATACATAA
37765208 AATAGTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
26 16 0.43
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
ATTAAAATATATACATAAGATAAC
Found at i:37765200 original size:25 final size:25
Alignment explanation
Indices: 37765090--37765300 Score: 122
Period size: 23 Copynumber: 8.9 Consensus size: 25
37765080 TACGTGATAA
* *
37765090 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * ** *
37765115 TGTAAAAAATGCATAGATAATATA-
1 TATTAAAGATATATACATAATATAG
* *
37765139 -ATTAAA-ATATATACATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
37765162 CATGTAAATATATATAAATAATATAG
1 TAT-TAAAGATATATACATAATATAG
*
37765188 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
37765213 TA-T-AATATATATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
37765236 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
37765258 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
37765281 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
37765301 ACAAAAAAAG
Statistics
Matches: 145, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.01
22 27 0.19
23 46 0.32
24 12 0.08
25 43 0.30
26 16 0.11
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:37765220 original size:48 final size:48
Alignment explanation
Indices: 37765090--37765298 Score: 121
Period size: 48 Copynumber: 4.4 Consensus size: 48
37765080 TACGTGATAA
* * * * * * *
37765090 TATTAAAAATATGTACATAATATAGTGTAAAAAATGCATAGATAATATA-
1 TATTAAAGATATATACATAAAATAGTATAATATAT--ATAAATAATATAG
*
37765139 -ATTAAA-ATATATACATAAGATAACATGTA-AATATATATAAATAATATAG
1 TATTAAAGATATATACAT-A-A-AATA-GTATAATATATATAAATAATATAG
**
37765188 TATTAAAGATATATACATAAAATAGTATAATATATATACGTAATATAG
1 TATTAAAGATATATACATAAAATAGTATAATATATATAAATAATATAG
* * * * * * * * *
37765236 AATT-TAGA-ATATACCTAATATATTAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAAAATAGTATAATATATATAAATAATATAG
*
37765281 TATT-AAGAAATATA-ATAA
1 TATTAAAGATATATACATAA
37765299 TAACAAAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
45 21 0.16
46 22 0.17
47 15 0.12
48 42 0.33
49 2 0.02
50 14 0.11
51 12 0.09
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (48 bp):
TATTAAAGATATATACATAAAATAGTATAATATATATAAATAATATAG
Found at i:37765298 original size:23 final size:25
Alignment explanation
Indices: 37765255--37765300 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37765245 TATACCTAAT
37765255 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
37765280 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
37765301 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:37766575 original size:87 final size:87
Alignment explanation
Indices: 37766484--37766644 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
37766474 AAACAGACAT
* * * * * * *
37766484 TAAAATAGAAATTGAACATAGCTCGGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 TAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAG
37766549 TTAATTTTTAAAACAAAATTTG
66 TTAATTTTTAAAACAAAATTTG
** * * *
37766571 TAAAACAGATTTTGAAAATACCTCAGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAG
1 TAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAG
*
37766636 TTGATTTTT
66 TTAATTTTT
37766645 GCAAAGCATA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
TAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAG
TTAATTTTTAAAACAAAATTTG
Done.