Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 52 of 214
Found at i:14377791 original size:2 final size:2
Alignment explanation
Indices: 14377784--14377821 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14377774 TTTCATCACT
*
14377784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14377822 AGAAGGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14379266 original size:7 final size:7
Alignment explanation
Indices: 14379254--14379299 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
14379244 GTAAGTATAT
14379254 CCCTAAC
1 CCCTAAC
14379261 CCCTAAC
1 CCCTAAC
*
14379268 CCCTAAT
1 CCCTAAC
**
14379275 CTTTAAC
1 CCCTAAC
*
14379282 CTCTAAC
1 CCCTAAC
14379289 CCCTAAC
1 CCCTAAC
14379296 CCCT
1 CCCT
14379300 CTTTTGCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCTAAC
Found at i:14379422 original size:7 final size:7
Alignment explanation
Indices: 14379412--14379456 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
14379402 CACTAACTCT
*
14379412 TAACCTC
1 TAACCCC
14379419 TAACCCC
1 TAACCCC
*
14379426 TAACCTC
1 TAACCCC
14379433 TAACCCC
1 TAACCCC
**
14379440 TAACTGC
1 TAACCCC
14379447 TAACCCC
1 TAACCCC
14379454 TAA
1 TAA
14379457 ACCTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.31, C:0.44, G:0.02, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:14379428 original size:21 final size:21
Alignment explanation
Indices: 14379404--14379443 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14379394 CCTTAAATCA
*
14379404 CTAA-CTCTTAACCTCTAACCC
1 CTAACCTC-TAACCCCTAACCC
14379425 CTAACCTCTAACCCCTAAC
1 CTAACCTCTAACCCCTAAC
14379444 TGCTAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAACCTCTAACCCCTAACCC
Found at i:14379429 original size:14 final size:14
Alignment explanation
Indices: 14379412--14379456 Score: 74
Period size: 14 Copynumber: 3.2 Consensus size: 14
14379402 CACTAACTCT
14379412 TAACCTCTAACCCC
1 TAACCTCTAACCCC
14379426 TAACCTCTAACCCC
1 TAACCTCTAACCCC
14379440 TAA-CTGCTAACCCC
1 TAACCT-CTAACCCC
14379454 TAA
1 TAA
14379457 ACCTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 2 0.07
14 28 0.93
ACGTcount: A:0.31, C:0.44, G:0.02, T:0.22
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:14379533 original size:83 final size:80
Alignment explanation
Indices: 14379437--14379587 Score: 214
Period size: 81 Copynumber: 1.8 Consensus size: 80
14379427 AACCTCTAAC
**
14379437 CCCTAACTGCTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCA-CTAATTAATCTAAAC
1 CCCTAACCCCTAACCCCTAAACCTTATTT-A-ATATAAA-TTAAAA-CAGCTAATTAATCTAAAC
14379501 CCTAAACCATAACCTAAAT
62 CCTAAACCATAACCTAAAT
* *
14379520 CCCTAACCCCTAACCCCTAAATCTTATTTAATATAAATTAAAACATGCTAATTAATCTAATCCCT
1 CCCTAACCCCTAACCCCTAAACCTTATTTAATATAAATTAAAACA-GCTAATTAATCTAAACCCT
14379585 AAA
65 AAA
14379588 GCCTAACTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 6 0.10
81 27 0.44
82 1 0.02
83 26 0.42
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.30
Consensus pattern (80 bp):
CCCTAACCCCTAACCCCTAAACCTTATTTAATATAAATTAAAACAGCTAATTAATCTAAACCCTA
AACCATAACCTAAAT
Found at i:14379694 original size:14 final size:15
Alignment explanation
Indices: 14379675--14379707 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14379665 CTTAAACCAG
14379675 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14379689 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14379704 AATC
1 AATC
14379708 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:14380240 original size:41 final size:41
Alignment explanation
Indices: 14380195--14380273 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
14380185 GCTCTTAGCA
* *
14380195 TTAGCAGCGCTTTGTCAAAAACGTCGCTAAAAGCCCGATCT
1 TTAGCAGCGCTTTGTCAAAAACGCCGCTAAAACCCCGATCT
* * *
14380236 TTAGCGGCGCTTTTTCACAAACGCCGCTAAAACCCCGA
1 TTAGCAGCGCTTTGTCAAAAACGCCGCTAAAACCCCGA
14380274 AAGGTCAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (41 bp):
TTAGCAGCGCTTTGTCAAAAACGCCGCTAAAACCCCGATCT
Found at i:14382338 original size:16 final size:16
Alignment explanation
Indices: 14382317--14382348 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14382307 GAAATTAAAG
*
14382317 AAAAATATTATAGAAT
1 AAAAATATTAAAGAAT
14382333 AAAAATATTAAAGAAT
1 AAAAATATTAAAGAAT
14382349 GTATATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATATTAAAGAAT
Found at i:14382495 original size:13 final size:13
Alignment explanation
Indices: 14382477--14382505 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14382467 ATGTATGATA
14382477 AATTAAAAATAAT
1 AATTAAAAATAAT
14382490 AATTAAAAATAAT
1 AATTAAAAATAAT
14382503 AAT
1 AAT
14382506 ATATCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:14382657 original size:3 final size:3
Alignment explanation
Indices: 14382649--14382680 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14382639 TTTAAAGTAC
14382649 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14382681 AAGGTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14384423 original size:100 final size:100
Alignment explanation
Indices: 14384285--14384747 Score: 479
Period size: 100 Copynumber: 4.7 Consensus size: 100
14384275 GATTCATCAT
* * ** * * * *
14384285 TGTGACTTTAATCCTTTTAACTATAATGTCAGGAAAGCAAGATTCACCGTTGTGGTTTTAGTCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
** * *
14384350 CTTCACTGTGTTGCCAGGAAAGTAACACTT-GCCGC
66 CTTCACTGCATCGCCAGGAAAGTAAGA-TTCGCCGC
* *
14384385 TGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
* * * * * * *
14384450 -TTCCGCTGCATCTCCTGGGAAGCAAGATTCGCTGT
66 CTT-CACTGCATCGCCAGGAAAGTAAGATTCGCCGC
* * * *
14384485 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACATGATTCACTGTTGTGGCTTTAATCT-
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
* * * * * ** *
14384549 ATTCTGCTGCATCGCC-TGAGAGTAAAATTCGATGT
66 CTTC-ACTGCATCGCCAGGAAAGTAAGATTCGCCGC
*
14384584 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
* * * *
14384649 CTCCACTGCATCACCA-GAGAAGTAAGATTCACC-T
66 CTTCACTGCATCGCCAGGA-AAGTAAGATTCGCCGC
* * *
14384683 TGTGGCTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
14384748 TTCCACTAAA
Statistics
Matches: 306, Mismatches: 50, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
99 152 0.50
100 154 0.50
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (100 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
CTTCACTGCATCGCCAGGAAAGTAAGATTCGCCGC
Found at i:14384443 original size:50 final size:50
Alignment explanation
Indices: 14384385--14384746 Score: 315
Period size: 50 Copynumber: 7.3 Consensus size: 50
14384375 CACTTGCCGC
*
14384385 TGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
* * *** * * * *
14384435 TATGGCTTTAATCTGTTCCGCTGC-ATCTCCTGGGAAGCAAGATTCGCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGT-CGGGGAAGCAAGATTCACCGT
* * * *
14384485 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACATGATTCACTGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
* * * * * * * *
14384535 TGTGGCTTTAATCTATTCT-GCTGC-ATCGCCTGAG-AGTAAAATTCGA-TGT
1 TGTGGCTTTAATCT-TTTTAACTGCAAT-GTCGGGGAAGCAAGATTC-ACCGT
*
14384584 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
** ** ** * * *
14384634 TGTGGCTTTAATCTGCTCCACTGC-ATCACCAGAGAAGTAAGATTCACC-T
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGT
* * *
14384683 TGTGGCTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
14384733 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
14384747 GTTCCACTAA
Statistics
Matches: 238, Mismatches: 62, Indels: 24
0.73 0.19 0.07
Matches are distributed among these distances:
48 3 0.01
49 73 0.31
50 156 0.66
51 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
Found at i:14384608 original size:49 final size:48
Alignment explanation
Indices: 14384474--14384608 Score: 116
Period size: 49 Copynumber: 2.8 Consensus size: 48
14384464 CTGGGAAGCA
* * *
14384474 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAAC
1 AGATTCGATGTTGTAGCTTTAATCTTTTTAACTGC-ATGCCGGAGAAAC
* * * *
14384523 ATGATTC-ACTGTTGTGGCTTTAATCTATTCT-GCTGCATCGCCTGAGAGTAA-
1 A-GATTCGA-TGTTGTAGCTTTAATCT-TTTTAACTGCAT-GCC-G-GAGAAAC
14384574 A-ATTCGATGTTGTAGCTTTAATCTTTTTAACTGCA
1 AGATTCGATGTTGTAGCTTTAATCTTTTTAACTGCA
14384609 ATGTCGGGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
48 3 0.04
49 28 0.41
50 28 0.41
51 5 0.07
52 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (48 bp):
AGATTCGATGTTGTAGCTTTAATCTTTTTAACTGCATGCCGGAGAAAC
Found at i:14384624 original size:199 final size:198
Alignment explanation
Indices: 14384389--14384746 Score: 554
Period size: 199 Copynumber: 1.8 Consensus size: 198
14384379 TGCCGCTGTG
* *
14384389 GCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGCTCC
* * * * * * * *
14384454 GCTGCATCTCCTGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
66 ACTGCATCACCAGAGAAGCAAGATTCAC-CTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGG
* * *
14384519 AAACATGATTCACTGTTGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATTCGATGT
130 AAACAAGATTCACCGATGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATTCGATGT
14384584 TGTA
195 TGTA
*
14384588 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGCTCC
* *
14384653 ACTGCATCACCAGAGAAGTAAGATTCACCTTGTGGCTTTAATCTTTTTAACTACAATGTCGAGGA
66 ACTGCATCACCAGAGAAGCAAGATTCACCTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGGA
*
14384718 AGCAAGATTCACCGATGTGGCTTTAATCT
131 AACAAGATTCACCGATGTGGCTTTAATCT
14384747 GTTCCACTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
198 58 0.41
199 84 0.59
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (198 bp):
GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGCTCC
ACTGCATCACCAGAGAAGCAAGATTCACCTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGGA
AACAAGATTCACCGATGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATTCGATGTT
GTA
Found at i:14384775 original size:99 final size:99
Alignment explanation
Indices: 14384189--14384754 Score: 525
Period size: 99 Copynumber: 5.7 Consensus size: 99
14384179 TAACTCGTAA
* ** * * * * * *
14384189 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCTA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * * * *
14384254 CTTCA-CTGGCTGAGAGTGTGAGATTCATCATTGT-G
66 CTGCATC-GCCTG-GAGAGTAAGATTCA-CGTTGTAG
* ** * * * *
14384289 ACTTTAATCCTTTTAACTATAATGTCAGGAAAGCAAGATTCACCGTTGTGGTTTTAGTCTGCTT-
1 -CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTC
** * * * * * *
14384353 CACTGTGTTGCCAGGAAAGTAACACTTGC-CGCTGTGG
64 CACTGCATCGCCTGGAGAGTAAGA-TT-CACGTTGTAG
* * *
14384390 CTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGTTCCG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * *
14384455 CTGCATCTCCTGG-GAAGCAAGATTCGCTGTTGTAG
66 CTGCATCGCCTGGAG-AGTAAGATTCAC-GTTGTAG
* * * * **
14384490 CTTTAATCTTTTTAACTGCAATGTCGGGGAAACATGATTCACTGTTGTGGCTTTAATCTATTCTG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* *
14384555 CTGCATCGCCT-GAGAGTAAAATTCGATGTTGTAG
66 CTGCATCGCCTGGAGAGTAAGATTC-ACGTTGTAG
*
14384589 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * * *
14384654 CTGCATCACC-AGAGAAGTAAGATTCACCTTGTGG
66 CTGCATCGCCTGGAG-AGTAAGATTCACGTTGTAG
* * *
14384688 CTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
14384753 CT
66 CT
14384755 AAATCGCTTG
Statistics
Matches: 378, Mismatches: 74, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
98 1 0.00
99 160 0.42
100 158 0.42
101 57 0.15
102 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (99 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
CTGCATCGCCTGGAGAGTAAGATTCACGTTGTAG
Found at i:14384889 original size:44 final size:44
Alignment explanation
Indices: 14384839--14385000 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 44
14384829 GATCTACTCT
14384839 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * * * *
14384883 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGAGAGATAAGA-T-C---CTTTATTTTAATCCG--CT-C-C
14384936 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
*
14384981 ACTGTAATCTCAGGGAGATA
1 ACTGTAATCTCAGAGAGATA
14385001 GGATTACTAG
Statistics
Matches: 88, Mismatches: 17, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
44 35 0.40
45 4 0.05
46 2 0.02
47 2 0.02
49 20 0.23
51 2 0.02
52 2 0.02
53 3 0.03
54 18 0.20
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
ACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
Found at i:14384991 original size:98 final size:98
Alignment explanation
Indices: 14384822--14385020 Score: 362
Period size: 98 Copynumber: 2.0 Consensus size: 98
14384812 GAGATAAAAC
*
14384822 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
14384887 TAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
14384920 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
14384985 TAATCTCAGGGAGATAGGATTACTAGCTTCCAT
66 TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
14385018 CTG
1 CTG
14385021 CTCCGTTGTA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
Found at i:14387475 original size:20 final size:19
Alignment explanation
Indices: 14387447--14387496 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
14387437 TGACATTGAT
* *
14387447 TTTGATTTTGATTTTTCTTC
1 TTTGTTTTTGATTTTT-TTA
14387467 TTTGTTTTTTGATTTTTTTA
1 TTTG-TTTTTGATTTTTTTA
14387487 TTT-TTTTTGA
1 TTTGTTTTTGA
14387497 GCTCATAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (19 bp):
TTTGTTTTTGATTTTTTTA
Found at i:14392368 original size:16 final size:16
Alignment explanation
Indices: 14392347--14392378 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14392337 GAAATTAAAG
*
14392347 AAAAATATTATAGAAT
1 AAAAATATTAAAGAAT
14392363 AAAAATATTAAAGAAT
1 AAAAATATTAAAGAAT
14392379 GTATATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATATTAAAGAAT
Found at i:14392528 original size:13 final size:13
Alignment explanation
Indices: 14392510--14392538 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14392500 ATGTATGATA
14392510 AATTAAAAATAAT
1 AATTAAAAATAAT
14392523 AATTAAAAATAAT
1 AATTAAAAATAAT
14392536 AAT
1 AAT
14392539 ATATCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:14392688 original size:3 final size:3
Alignment explanation
Indices: 14392680--14392738 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
14392670 AATTTAAAGT
14392680 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
14392726 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
14392739 AAGGTTTAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14395258 original size:13 final size:15
Alignment explanation
Indices: 14395240--14395272 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14395230 GATTAAAAGC
14395240 TAATTA-GTTTTA-T
1 TAATTAGGTTTTAGT
14395253 TAATTAGGTTTTAGT
1 TAATTAGGTTTTAGT
14395268 TAATT
1 TAATT
14395273 TAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TAATTAGGTTTTAGT
Found at i:14399194 original size:50 final size:50
Alignment explanation
Indices: 14399079--14399321 Score: 274
Period size: 50 Copynumber: 4.8 Consensus size: 50
14399069 GATAATAACA
* * ** *
14399079 TGCCAA-AGCCATATCCCAGACATGGTCTTATATGGGATGTTCTCATATCGG
1 TGCCAACA-CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
** * ** *
14399130 TGCTC-ATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTTGG
1 TGC-CAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
14399180 TGCCAACACTATGTCCTAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14399230 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCACTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
14399280 CGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
14399322 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 131 0.81
51 28 0.17
52 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14401306 original size:31 final size:31
Alignment explanation
Indices: 14401219--14401292 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
14401209 CAAAAAAAAG
*
14401219 TTTAAACTC-TAATAT-GAAAATAATTACCT-AA
1 TTTAAAC-CATAATATAAAAAATAATT--CTAAA
14401250 TTTAAACCATAATATAAAAAATAATTCTAAA
1 TTTAAACCATAATATAAAAAATAATTCTAAA
*
14401281 TTTAAAGCATAA
1 TTTAAACCATAA
14401293 ATCAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 3 0.08
31 26 0.68
32 9 0.24
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (31 bp):
TTTAAACCATAATATAAAAAATAATTCTAAA
Found at i:14402039 original size:16 final size:16
Alignment explanation
Indices: 14402017--14402053 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14402007 TTTCAATTTT
14402017 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
14402034 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
14402049 TAATA
1 TAATA
14402054 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:14402138 original size:15 final size:16
Alignment explanation
Indices: 14402093--14402140 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
14402083 TATTAGTATT
14402093 TTAATAATAAATATTAA
1 TTAATAATAAATA-TAA
*
14402110 TTACAATTATAAATAT-A
1 TT--AATAATAAATATAA
14402127 TTAATAATAAATAT
1 TTAATAATAAATAT
14402141 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 5 0.19
18 1 0.04
19 10 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATAAATATAA
Found at i:14402258 original size:30 final size:29
Alignment explanation
Indices: 14402198--14402259 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
14402188 CAAATTTTTG
* *
14402198 AATTTAGTCCCTATACTTTTATTTTCAAA
1 AATTTAGTCCATATACTTTTAATTTCAAA
*
14402227 AATTTAGTCCATCTACTTTTTAGATTT-AAA
1 AATTTAGTCCATATAC-TTTTA-ATTTCAAA
14402257 AAT
1 AAT
14402260 AAAGTCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.50
30 11 0.39
31 3 0.11
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.47
Consensus pattern (29 bp):
AATTTAGTCCATATACTTTTAATTTCAAA
Found at i:14408203 original size:42 final size:42
Alignment explanation
Indices: 14408119--14408213 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
14408109 ATATCCTCAC
* *
14408119 CCGTGTAACTCTTTGAGTAAGGTCACACGCCCGTGTACCAGG
1 CCGTGTAACTCTTTGAGTAAGCTCACACGCCCATGTACCAGG
* * * **
14408161 CTGTGTAACTCTTTGAGTTATCTCACACGCCCATGTGTCAGG
1 CCGTGTAACTCTTTGAGTAAGCTCACACGCCCATGTACCAGG
*
14408203 CCATGTAACTC
1 CCGTGTAACTC
14408214 ACTGACTTGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (42 bp):
CCGTGTAACTCTTTGAGTAAGCTCACACGCCCATGTACCAGG
Found at i:14410450 original size:3 final size:3
Alignment explanation
Indices: 14410442--14410493 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14410432 ACAATTAAGC
14410442 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
14410490 TCT T
1 TCT T
14410494 GCAGTCAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14410697 original size:9 final size:9
Alignment explanation
Indices: 14410669--14410758 Score: 60
Period size: 10 Copynumber: 9.7 Consensus size: 9
14410659 CTACTCTTAT
14410669 TAAAAATTA
1 TAAAAATTA
*
14410678 GAAAAATATTA
1 -TAAAA-ATTA
14410689 TAAAAATTA
1 TAAAAATTA
* *
14410698 -ATAAATTT
1 TAAAAATTA
14410706 TAGAAAATTAA
1 TA-AAAATT-A
*
14410717 TAAATATTAA
1 TAAAAATT-A
14410727 TAAAAA-TA
1 TAAAAATTA
*
14410735 TAAAAAAT-
1 TAAAAATTA
14410743 TAAAAATTA
1 TAAAAATTA
14410752 TTAAAAA
1 -TAAAAA
14410759 AGGAATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
8 20 0.31
9 7 0.11
10 31 0.48
11 6 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14410703 original size:28 final size:27
Alignment explanation
Indices: 14410667--14410730 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
14410657 CCCTACTCTT
*
14410667 ATTAA-AAA-TTAGAAAAATATTATAAAA
1 ATTAATAAATTTAG-AAAAT-TAATAAAA
*
14410694 ATTAATAAATTTTAGAAAATTAATAAAT
1 ATTAATAAA-TTTAGAAAATTAATAAAA
14410722 ATTAATAAA
1 ATTAATAAA
14410731 AATATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 18 0.56
29 5 0.16
30 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
ATTAATAAATTTAGAAAATTAATAAAA
Found at i:14410737 original size:18 final size:18
Alignment explanation
Indices: 14410681--14410738 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
14410671 AAAATTAGAA
14410681 AAATATTATAAAAATTAAT
1 AAATATTATAAAAA-TAAT
* * *
14410700 AAATTTTAGAAAATTAAT
1 AAATATTATAAAAATAAT
14410718 AAATATTAATAAAAAT-AT
1 AAATATT-ATAAAAATAAT
14410736 AAA
1 AAA
14410739 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATATTATAAAAATAAT
Found at i:14410756 original size:18 final size:18
Alignment explanation
Indices: 14410665--14410759 Score: 66
Period size: 18 Copynumber: 5.6 Consensus size: 18
14410655 ATCCCTACTC
14410665 TTATT-AAAAATTAGAAAA
1 TTATTAAAAAATTA-AAAA
*
14410683 ATATTATAAAAATTAATAAA
1 TTATTA-AAAAATTAA-AAA
*
14410703 TT-TTAGAAAATTAATAAA
1 TTATTAAAAAATTAA-AAA
14410721 -TATT----AA-TAAAAA
1 TTATTAAAAAATTAAAAA
14410733 -TA-TAAAAAATTAAAAA
1 TTATTAAAAAATTAAAAA
14410749 TTATTAAAAAA
1 TTATTAAAAAA
14410760 GGAATTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
11 1 0.02
12 5 0.08
13 3 0.05
14 2 0.03
15 2 0.03
16 6 0.10
17 3 0.05
18 25 0.40
19 4 0.06
20 12 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TTATTAAAAAATTAAAAA
Found at i:14410804 original size:9 final size:9
Alignment explanation
Indices: 14410770--14410823 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
14410760 GGAATTTTTT
14410770 TTATAAAAA
1 TTATAAAAA
**
14410779 TCGTAAAAA
1 TTATAAAAA
* *
14410788 ATAAAAAAA
1 TTATAAAAA
*
14410797 TTATAAAATT
1 TTATAAAA-A
14410807 TTATAAAAA
1 TTATAAAAA
14410816 TTATAAAA
1 TTATAAAA
14410824 TAAATTAAGG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14411087 original size:18 final size:19
Alignment explanation
Indices: 14411066--14411125 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
14411056 TTTCTATATA
14411066 TTTTATAATTTTTTAC-AT
1 TTTTATAATTTTTTACAAT
**
14411084 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACAAT
14411103 TTTT-TATATTTTTTACAAT
1 TTTTATA-ATTTTTTACAAT
14411122 TTTT
1 TTTT
14411126 TTCTAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 16 0.44
19 20 0.56
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:14411114 original size:28 final size:28
Alignment explanation
Indices: 14411028--14411124 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
14411018 TTCTTACGAC
*
14411028 TTTATAAAAATTTATATATTTTTTTATATT
1 TTTAT-AAAATTT-TATAATTTTTTATATT
* * *
14411058 TCTAT-ATATTTTATAATTTTTTACATT
1 TTTATAAAATTTTATAATTTTTTATATT
*
14411085 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
*
14411113 TTT-TACAATTTT
1 TTTATAAAATTTT
14411125 TTTCTAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 26 0.46
28 27 0.47
30 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:14411116 original size:10 final size:10
Alignment explanation
Indices: 14411038--14411115 Score: 67
Period size: 9 Copynumber: 8.3 Consensus size: 10
14411028 TTTATAAAAA
14411038 TTTATATATT
1 TTTATATATT
*
14411048 TTTTTATATT
1 TTTATATATT
*
14411058 TCTATATA-T
1 TTTATATATT
14411067 TTTATA-ATT
1 TTTATATATT
*
14411076 TTT-TACATT
1 TTTATATATT
* *
14411085 TTTATAAAAT
1 TTTATATATT
*
14411095 TTTACA-ATT
1 TTTATATATT
14411104 TTT-TATATT
1 TTTATATATT
14411113 TTT
1 TTT
14411116 TACAATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
8 4 0.07
9 27 0.49
10 24 0.44
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATATATT
Found at i:14411123 original size:10 final size:10
Alignment explanation
Indices: 14411066--14411136 Score: 60
Period size: 10 Copynumber: 7.3 Consensus size: 10
14411056 TTTCTATATA
*
14411066 TTTTATAATT
1 TTTTACAATT
14411076 TTTTAC-ATT
1 TTTTACAATT
*
14411085 TTTATA-AA-A
1 TTT-TACAATT
14411094 TTTTACAATT
1 TTTTACAATT
*
14411104 TTTTA-TATT
1 TTTTACAATT
14411113 TTTTACAATT
1 TTTTACAATT
*
14411123 TTTTTCTAATT
1 TTTTAC-AATT
14411134 TTT
1 TTT
14411137 AATATTTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.04
9 19 0.39
10 21 0.43
11 7 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTACAATT
Found at i:14411126 original size:19 final size:20
Alignment explanation
Indices: 14411066--14411136 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 20
14411056 TTTCTATATA
14411066 TTTTATAATTTTTTAC-A-T
1 TTTTATAATTTTTTACAATT
**
14411084 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTACAATT
14411104 TTTTAT-ATTTTTTACAATTT
1 TTTTATAATTTTTTACAA-TT
*
14411124 TTTTCTAATTTTT
1 TTTTATAATTTTT
14411137 AATATTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 14 0.32
19 10 0.23
20 14 0.32
21 6 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTTACAATT
Found at i:14411143 original size:20 final size:20
Alignment explanation
Indices: 14411066--14411137 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
14411056 TTTCTATATA
14411066 TTTTATAATTTTTTAC-ATTT
1 TTTTATAA-TTTTTACAATTT
* *
14411086 TTATA-AAATTTTACAA-TT
1 TTTTATAATTTTTACAATTT
*
14411104 TTTTATATTTTTTACAATTT
1 TTTTATAATTTTTACAATTT
*
14411124 TTTTCTAATTTTTA
1 TTTTATAATTTTTA
14411138 ATATTTGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.29
19 12 0.29
20 18 0.43
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTTACAATTT
Found at i:14411625 original size:21 final size:22
Alignment explanation
Indices: 14411584--14411631 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14411574 TTTTATCTAG
*
14411584 TAAATAATTTAAATGGATTATA-
1 TAAATAATTAAAAT-GATTATAC
14411606 TAAATAATTAAAAT-ATTTATAC
1 TAAATAATTAAAATGA-TTATAC
14411628 TAAA
1 TAAA
14411632 ATACGGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 5 0.22
22 17 0.74
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TAAATAATTAAAATGATTATAC
Found at i:14412671 original size:22 final size:23
Alignment explanation
Indices: 14412646--14412697 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 23
14412636 AATAACATTC
14412646 TTAAT-ATAATTATTA-ATAATAT
1 TTAATAATAATT-TTAGATAATAT
14412668 TTAATAATAATTTTAGTATAATAT
1 TTAATAATAATTTTAG-ATAATAT
14412692 TATAAT
1 T-TAAT
14412698 TAAGAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 8 0.31
25 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATAATAATTTTAGATAATAT
Found at i:14416216 original size:33 final size:33
Alignment explanation
Indices: 14416179--14416243 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
14416169 TAACTTCTTG
*
14416179 ATATCCTTCCATGAAACTCTTAAGAGCATCTCT
1 ATATCATTCCATGAAACTCTTAAGAGCATCTCT
*
14416212 ATATCATTCTATGAAACTCTTAAGAGCATCTC
1 ATATCATTCCATGAAACTCTTAAGAGCATCTC
14416244 CATGATCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (33 bp):
ATATCATTCCATGAAACTCTTAAGAGCATCTCT
Found at i:14419319 original size:21 final size:21
Alignment explanation
Indices: 14419295--14419346 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
14419285 GACTCAATGT
* *
14419295 TTATTTATTATATTAATTTGA
1 TTATTTATTATAATAATTTAA
14419316 TTA-TTATTTATAATAATTTAA
1 TTATTTA-TTATAATAATTTAA
14419337 TT-TTTATTAT
1 TTATTTATTAT
14419347 TTACGCACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTATTATAATAATTTAA
Found at i:14419324 original size:24 final size:24
Alignment explanation
Indices: 14419295--14419349 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14419285 GACTCAATGT
*
14419295 TTATTTATTAT-A-TTAATTTGATTA
1 TTATTTATAATAATTTAATTT--TTA
14419319 TTATTTATAATAATTTAATTTTTA
1 TTATTTATAATAATTTAATTTTTA
14419343 TTATTTA
1 TTATTTA
14419350 CGCACTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 20 0.71
25 1 0.04
26 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTATAATAATTTAATTTTTA
Found at i:14423098 original size:336 final size:336
Alignment explanation
Indices: 14422485--14423158 Score: 1348
Period size: 336 Copynumber: 2.0 Consensus size: 336
14422475 CATACAATGT
14422485 TCTAATAGCCGAACCTGTAGTTGAATTAGTCTGACCGTTGGTTCTCGATCCAACCAGTTTGATCG
1 TCTAATAGCCGAACCTGTAGTTGAATTAGTCTGACCGTTGGTTCTCGATCCAACCAGTTTGATCG
14422550 GTTCAACTACTAGACTAAAAATACTTAAATAAATAATTAAAAATTCATAATTTTTTTTAAAAAAA
66 GTTCAACTACTAGACTAAAAATACTTAAATAAATAATTAAAAATTCATAATTTTTTTTAAAAAAA
14422615 TTATTAAACTGGTTCAACCTGTTCAACTACTAGTTTTCGTCCTAATTTTCAATTTTACCAGTTCT
131 TTATTAAACTGGTTCAACCTGTTCAACTACTAGTTTTCGTCCTAATTTTCAATTTTACCAGTTCT
14422680 GAGCAATTTCTGATTCAATCAATTCAACCTATTTGTTTGGACCAATATAGGGATCGGTTCTCGGT
196 GAGCAATTTCTGATTCAATCAATTCAACCTATTTGTTTGGACCAATATAGGGATCGGTTCTCGGT
14422745 TTAATCGATCCGACCGATCAATCCAGTCATGTTCCAAGAACACTAGTCACATCATCAAATCTTGA
261 TTAATCGATCCGACCGATCAATCCAGTCATGTTCCAAGAACACTAGTCACATCATCAAATCTTGA
14422810 TGGAATCCAAG
326 TGGAATCCAAG
14422821 TCTAATAGCCGAACCTGTAGTTGAATTAGTCTGACCGTTGGTTCTCGATCCAACCAGTTTGATCG
1 TCTAATAGCCGAACCTGTAGTTGAATTAGTCTGACCGTTGGTTCTCGATCCAACCAGTTTGATCG
14422886 GTTCAACTACTAGACTAAAAATACTTAAATAAATAATTAAAAATTCATAATTTTTTTTAAAAAAA
66 GTTCAACTACTAGACTAAAAATACTTAAATAAATAATTAAAAATTCATAATTTTTTTTAAAAAAA
14422951 TTATTAAACTGGTTCAACCTGTTCAACTACTAGTTTTCGTCCTAATTTTCAATTTTACCAGTTCT
131 TTATTAAACTGGTTCAACCTGTTCAACTACTAGTTTTCGTCCTAATTTTCAATTTTACCAGTTCT
14423016 GAGCAATTTCTGATTCAATCAATTCAACCTATTTGTTTGGACCAATATAGGGATCGGTTCTCGGT
196 GAGCAATTTCTGATTCAATCAATTCAACCTATTTGTTTGGACCAATATAGGGATCGGTTCTCGGT
14423081 TTAATCGATCCGACCGATCAATCCAGTCATGTTCCAAGAACACTAGTCACATCATCAAATCTTGA
261 TTAATCGATCCGACCGATCAATCCAGTCATGTTCCAAGAACACTAGTCACATCATCAAATCTTGA
14423146 TGGAATCCAAG
326 TGGAATCCAAG
14423157 TC
1 TC
14423159 CATTTAACAT
Statistics
Matches: 338, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
336 338 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (336 bp):
TCTAATAGCCGAACCTGTAGTTGAATTAGTCTGACCGTTGGTTCTCGATCCAACCAGTTTGATCG
GTTCAACTACTAGACTAAAAATACTTAAATAAATAATTAAAAATTCATAATTTTTTTTAAAAAAA
TTATTAAACTGGTTCAACCTGTTCAACTACTAGTTTTCGTCCTAATTTTCAATTTTACCAGTTCT
GAGCAATTTCTGATTCAATCAATTCAACCTATTTGTTTGGACCAATATAGGGATCGGTTCTCGGT
TTAATCGATCCGACCGATCAATCCAGTCATGTTCCAAGAACACTAGTCACATCATCAAATCTTGA
TGGAATCCAAG
Found at i:14441311 original size:25 final size:25
Alignment explanation
Indices: 14441283--14441431 Score: 101
Period size: 25 Copynumber: 6.0 Consensus size: 25
14441273 CTGTTATTTA
*
14441283 GCTCTTATGAGCATCCCGTTATATG
1 GCTCTTATGAGCTTCCCGTTATATG
* *
14441308 GCTCTCACGAGCTT--C-TTAATAACTG
1 GCTCTTATGAGCTTCCCGTT-AT-A-TG
*
14441333 GCTCTTATGAGCTTCCCGATAT-TG
1 GCTCTTATGAGCTTCCCGTTATATG
** * * *
14441357 GCTCGCATGAGCTTCTCGAT-TACG
1 GCTCTTATGAGCTTCCCGTTATATG
* *
14441381 ACTCTTATGAGCTTCCCTTTATATG
1 GCTCTTATGAGCTTCCCGTTATATG
** *
14441406 GCTCGAAAGAGCTTCCCGTTTATATG
1 GCTCTTATGAGCTTCCCG-TTATATG
14441432 TTTGTATAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
22 2 0.02
23 4 0.04
24 35 0.38
25 41 0.44
26 7 0.08
27 3 0.03
28 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGTTATATG
Found at i:14441408 original size:49 final size:50
Alignment explanation
Indices: 14441284--14441420 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 50
14441274 TGTTATTTAG
* * * * *
14441284 CTCTTATGAGCATCCCGTTATATGGCTCTCACGAGCTTCTTAATAACTGG
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
* * * *
14441334 CTCTTATGAGCTTCCCGATAT-TGGCTCGCATGAGCTTCTCGATTAC-GA
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
* *
14441382 CTCTTATGAGCTTCCCTTTATATGGCTCGAAAGAGCTTC
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTC
14441421 CCGTTTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
48 20 0.27
49 35 0.47
50 19 0.26
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.34
Consensus pattern (50 bp):
CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
Found at i:14442299 original size:71 final size:73
Alignment explanation
Indices: 14442224--14442380 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 73
14442214 TATATGATGA
*
14442224 TATGTTA-TGCATA-AAA-CTCAATTTTTGCTTGAATTGAATGTATTGTTGTGACTTGTGAATGT
1 TATGTTAGTG-ATACAAATCTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGT
14442286 GCAAATTGT
65 GCAAATTGT
*
14442295 TATGTTTAGGTTGATACCAAATTTGGTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGT
1 TATG-TTA-G-TGATA-CAAA--T-CTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGT
14442360 GAATGTGCAAATTGT
59 GAATGTGCAAATTGT
14442375 TATGTT
1 TATGTT
14442381 TAGGTTGATA
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
71 4 0.05
72 3 0.04
74 3 0.04
75 2 0.03
76 3 0.04
79 2 0.03
80 57 0.77
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (73 bp):
TATGTTAGTGATACAAATCTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTG
CAAATTGT
Found at i:14442328 original size:80 final size:80
Alignment explanation
Indices: 14442241--14442400 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
14442231 TGCATAAAAC
*
14442241 TCAATTTTTGCTTGAATTGAATGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
1 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
14442306 TGATACCAAATTTGG
66 TGATACCAAATTTGG
14442321 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
1 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
14442386 TGATACCAAATTTGG
66 TGATACCAAATTTGG
14442401 GTGAGAAATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.44
Consensus pattern (80 bp):
TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
TGATACCAAATTTGG
Found at i:14443903 original size:27 final size:27
Alignment explanation
Indices: 14443873--14443933 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
14443863 TTTAGAAAAC
* *
14443873 GGGCCGGGCCTCGGGTACCACTTTTTT
1 GGGCCGAGCCTCGGGCACCACTTTTTT
14443900 GGGCCGAGCCTCGGGCACCACTTTTTT
1 GGGCCGAGCCTCGGGCACCACTTTTTT
*
14443927 GGCCCGA
1 GGGCCGA
14443934 TCCCTGCCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.25
Consensus pattern (27 bp):
GGGCCGAGCCTCGGGCACCACTTTTTT
Found at i:14444017 original size:30 final size:31
Alignment explanation
Indices: 14443960--14444018 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14443950 ATAAAAATAT
**
14443960 ATTTTTTTAATTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATACAATTTTTAAA
*
14443991 ATTTTTTTATTTTTAAAATA-AATTTTTA
1 ATTTTTTTAATTTTAAAATACAATTTTTA
14444019 GTGTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTTAATTTTAAAATACAATTTTTAAA
Found at i:14446572 original size:19 final size:20
Alignment explanation
Indices: 14446538--14446587 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14446528 TTTCACATCT
*
14446538 CATTTCATCATTTCATA-TCA
1 CATTTC-TCATCTCATATTCA
14446558 CATTTCTCATCTCATATTCA
1 CATTTCTCATCTCATATTCA
14446578 C--TTCTCATCT
1 CATTTCTCATCT
14446588 TTGCCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (20 bp):
CATTTCTCATCTCATATTCA
Found at i:14446611 original size:42 final size:42
Alignment explanation
Indices: 14446559--14446644 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
14446549 TTCATATCAC
* * *
14446559 ATTTCTCATCTCATATTCACTTCTCATCTTTGCCAATTCAAT
1 ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
* *
14446601 ATTTCTCATCTAATATGCATTTCTCATCTTGGCCATTTCAAT
1 ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
14446643 AT
1 AT
14446645 CAATCACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (42 bp):
ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
Found at i:14449250 original size:9 final size:9
Alignment explanation
Indices: 14449236--14449271 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
14449226 ACTCTTCTTC
14449236 TTTTCTTTT
1 TTTTCTTTT
14449245 TTTTCTTTT
1 TTTTCTTTT
*
14449254 CTTTCTTTT
1 TTTTCTTTT
14449263 TTTTCTTTT
1 TTTTCTTTT
14449272 CTAATTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:14449260 original size:18 final size:18
Alignment explanation
Indices: 14449237--14449273 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14449227 CTCTTCTTCT
14449237 TTTCTTTTTTTTCTTTTC
1 TTTCTTTTTTTTCTTTTC
14449255 TTTCTTTTTTTTCTTTTC
1 TTTCTTTTTTTTCTTTTC
14449273 T
1 T
14449274 AATTTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTCTTTTTTTTCTTTTC
Found at i:14454621 original size:27 final size:27
Alignment explanation
Indices: 14454587--14454664 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
14454577 AAACCCCAAA
*
14454587 ATAGGGTAAAAGGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* **
14454614 ATTGGGTAAAATGATTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
14454641 ATAGAGTAGAATGACCGAAATACC
1 ATAGGGTAAAATGACCGAAATACC
14454665 TGTTGGAACG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:14456210 original size:27 final size:27
Alignment explanation
Indices: 14456170--14456338 Score: 191
Period size: 27 Copynumber: 6.3 Consensus size: 27
14456160 ATACTCTAAC
* *
14456170 AATACCCCCCATAGGATAAAATGATTGA
1 AATA-CCCCCATAGGGTAAAATGACTGA
**
14456198 AATACCCCCATAGGGTAAAATGACCAA
1 AATACCCCCATAGGGTAAAATGACTGA
* * *
14456225 AATACCCTCATAAGGTAAAATAACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
* *
14456252 ATTA-CCCCATAGGGTAGAATGACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
14456278 AAT-CCCCCATAGGGTAAAATGA-TCGA
1 AATACCCCCATAGGGTAAAATGACT-GA
* *
14456304 AATACCCCCATAGGGTAAAATAACTGT
1 AATACCCCCATAGGGTAAAATGACTGA
*
14456331 TATACCCC
1 AATACCCC
14456339 TAGGAGATGA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 42 0.36
27 70 0.59
28 5 0.04
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (27 bp):
AATACCCCCATAGGGTAAAATGACTGA
Found at i:14456267 original size:53 final size:53
Alignment explanation
Indices: 14456175--14456324 Score: 171
Period size: 53 Copynumber: 2.8 Consensus size: 53
14456165 CTAACAATAC
* *
14456175 CCCCCAT-AGGATAAAATGATTGAAATACCCCCATAGGGTAAAATGACCAAAAT
1 CCCCCATAAGG-TAAAATAATCGAAATACCCCCATAGGGTAAAATGACCAAAAT
* * * **
14456228 ACCCTCATAAGGTAAAATAA-CTGAATTA-CCCCATAGGGTAGAATGACTGAAAT
1 -CCCCCATAAGGTAAAATAATC-GAAATACCCCCATAGGGTAAAATGACCAAAAT
* *
14456281 CCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAAT
1 CCCCCATAAGGTAAAATAATCGAAATACCCCCATAGGGTAAAAT
14456325 AACTGTTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
52 21 0.26
53 38 0.47
54 18 0.22
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (53 bp):
CCCCCATAAGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGACCAAAAT
Found at i:14456754 original size:29 final size:31
Alignment explanation
Indices: 14456728--14456786 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
14456718 ATCTGCATTG
*
14456728 ATTAATGATATT-GTACTGTT-ACTGCATCA
1 ATTAATGATATTAATACTGTTCACTGCATCA
14456757 ATTAATGATATTACATACTGTTCACTGCAT
1 ATTAATGATATTA-ATACTGTTCACTGCAT
14456787 AACTGGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.46
31 7 0.27
32 7 0.27
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
ATTAATGATATTAATACTGTTCACTGCATCA
Found at i:14469533 original size:28 final size:28
Alignment explanation
Indices: 14469468--14469534 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
14469458 TTTATCTAAT
14469468 ATTTTTATAAATTTTAATAATATTTTACA
1 ATTTTTA-AAATTTTAATAATATTTTACA
*
14469497 ATTTATAAAATTTATAAT-ATATATTTA-A
1 ATTTTTAAAATTT-TAATAATAT-TTTACA
*
14469525 GTTTTTAAAA
1 ATTTTTAAAA
14469535 AATTAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
ATTTTTAAAATTTTAATAATATTTTACA
Found at i:14469535 original size:29 final size:29
Alignment explanation
Indices: 14469468--14469535 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
14469458 TTTATCTAAT
*
14469468 ATTTTTATAAATTTTAATAATATTTTACA
1 ATTTTTAAAAATTTTAATAATATTTTACA
*
14469497 ATTTAT-AAAATTTATAAT-ATATATTTA-A
1 ATTTTTAAAAATTT-TAATAATAT-TTTACA
*
14469525 GTTTTTAAAAA
1 ATTTTTAAAAA
14469536 ATTAAACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTTTAAAAATTTTAATAATATTTTACA
Found at i:14470058 original size:101 final size:101
Alignment explanation
Indices: 14469794--14470100 Score: 551
Period size: 103 Copynumber: 3.0 Consensus size: 101
14469784 TTGATTTTTT
* *
14469794 AGAAAAAGTTTGATGGGCTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTCAAAATATG
1 AGAAAAAG-TTGATGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATG
14469859 TTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAAGA
65 TTTTCATTGTAAAAGTTGTACAAGTTTTGGGG-AAAGA
*
14469897 AGAAAAAGTTGATGGGAGTAAAAGTACCATCAAGCCTAATTCCTAGATTCAAACTTTAAAATATG
1 AGAAAAAGTTGATGGG-GTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATG
14469962 TTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
65 TTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
14469999 AGAAAAAGTTGATGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATGT
1 AGAAAAAGTTGATGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATGT
*
14470064 TTTCCTTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
66 TTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
14470100 A
1 A
14470101 AGAAGCTGCA
Statistics
Matches: 198, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
101 84 0.42
102 29 0.15
103 85 0.43
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (101 bp):
AGAAAAAGTTGATGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATGT
TTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
Found at i:14477685 original size:45 final size:45
Alignment explanation
Indices: 14477616--14477713 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
14477606 AGTGAAGCCG
*
14477616 AGAGGTAAGCATGTATTGGCCGATTAGTTAGTTAGTTAGAGGCCA
1 AGAGGTAAGCATGTATTGGCCGATTAGTTAATTAGTTAGAGGCCA
14477661 AGAGGTAAGCATGTATT-GCTCGATTAGTTAATTAGTTAGAGGCCA
1 AGAGGTAAGCATGTATTGGC-CGATTAGTTAATTAGTTAGAGGCCA
14477706 AGAGGTAA
1 AGAGGTAA
14477714 TAATTAGTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (45 bp):
AGAGGTAAGCATGTATTGGCCGATTAGTTAATTAGTTAGAGGCCA
Found at i:14477854 original size:17 final size:16
Alignment explanation
Indices: 14477830--14477864 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14477820 GTTAAATTGG
* *
14477830 TTAATTTTTAGTTTAA
1 TTAAATTTTAGGTTAA
14477846 TTAAATTTTAGGTTAA
1 TTAAATTTTAGGTTAA
14477862 TTA
1 TTA
14477865 GATTAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
TTAAATTTTAGGTTAA
Found at i:14478219 original size:6 final size:6
Alignment explanation
Indices: 14478208--14478237 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14478198 CAAGGCTAAA
*
14478208 AAAAGG AAAAGG AAAAGG AAAGGG AAAAGG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG
14478238 TAGATGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:14478950 original size:29 final size:30
Alignment explanation
Indices: 14478900--14478962 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
14478890 GAAAAGTCAC
*
14478900 TTTTGAAAATGTTTAGCTTTTATTT-AACCA
1 TTTTGAAAATGTTTAGATTTTATTTGAA-CA
14478930 TTTTG-AAATGTTT-GATATTTATTTGAACA
1 TTTTGAAAATGTTTAGAT-TTTATTTGAACA
14478959 TTTT
1 TTTT
14478963 TCTAAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.07
29 21 0.70
30 7 0.23
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (30 bp):
TTTTGAAAATGTTTAGATTTTATTTGAACA
Found at i:14490497 original size:75 final size:75
Alignment explanation
Indices: 14490374--14490577 Score: 219
Period size: 75 Copynumber: 2.7 Consensus size: 75
14490364 ATATTCGAGT
* * * * ** ** *
14490374 CTCATACACACTTATATAAAAGTCATACCTAAATTTAACGCAAGAACATATTTAAATATATTTAT
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
**
14490439 ATTTCTGAAC
66 ATTTCCAAAC
* * *
14490449 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAATAACATATACAATTATATTTGC
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
*
14490514 ATTTCCAAAT
66 ATTTCCAAAC
* * * * * *
14490524 TTCATATAAGCTTACATAAAAATCATACCCAAACTCAATACAAGAACATATACA
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACA
14490578 TGTAAATATA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 107 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (75 bp):
CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
ATTTCCAAAC
Found at i:14497000 original size:50 final size:50
Alignment explanation
Indices: 14496895--14497006 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
14496885 GAAACCAAAC
* * * *
14496895 AAGCCTTTGTGGTTAGTTATCCAAAAATCCTATGTGACATATTATCTGGG
1 AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
* ** * *
14496945 TAGCCTTTGTGGGTAATTATCTGAAAATACTATGTGGCATATTATTTCGG
1 AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
*
14496995 AAGCCTTAGTGG
1 AAGCCTTTGTGG
14497007 CAAAGTTATC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (50 bp):
AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
Found at i:14501604 original size:43 final size:43
Alignment explanation
Indices: 14501543--14501680 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 43
14501533 TCTGATTTCA
* *
14501543 TGTAAGACCATGTATGGGAAATTGGAATCGATATGAGATTACG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
* *
14501586 TGTAAGACCATGTCTGGGATATTGGCACCG-TAT-ATGATT-CG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGA-GATTACG
* * * ** * * *
14501627 TGTAAGACCCTATCTGGGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
14501670 TGTAAGACCAT
1 TGTAAGACCAT
14501681 ATATGGGATA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
41 27 0.35
42 13 0.17
43 37 0.48
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
Found at i:14506981 original size:23 final size:23
Alignment explanation
Indices: 14506946--14506990 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14506936 TGGAGTATAA
* *
14506946 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
14506969 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
14506991 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:14507039 original size:2 final size:2
Alignment explanation
Indices: 14507034--14507058 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14507024 TATATATATA
14507034 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
14507059 ACTTAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14507749 original size:83 final size:83
Alignment explanation
Indices: 14507578--14507760 Score: 253
Period size: 83 Copynumber: 2.2 Consensus size: 83
14507568 CAGTGCCTAT
* * * * *
14507578 CAGGTTTATTGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATACCGGTGAAATAAT
1 CAGGCTTAATGCCGGTGAAACATATCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAATAAT
*
14507643 TTCAGACTTTACGTCTAG
66 TTCAGACTATACGTCTAG
* *
14507661 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCGGTGAAA-CA
1 CAGGCTTAATGCCGGTGAAAC-ATATCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAATAA
*
14507725 TTTCAGACTATATGTCTAG
65 TTTCAGACTATACGTCTAG
14507744 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
14507761 TACTAAATCA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 3 0.03
83 49 0.55
84 37 0.42
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (83 bp):
CAGGCTTAATGCCGGTGAAACATATCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAATAAT
TTCAGACTATACGTCTAG
Found at i:14507757 original size:41 final size:41
Alignment explanation
Indices: 14507578--14507760 Score: 251
Period size: 42 Copynumber: 4.4 Consensus size: 41
14507568 CAGTGCCTAT
* * *
14507578 CAGGTTTATTGCCAGTGAAACATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
* *
14507619 CAGGCTTAATACCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAA-CATTTCAGACTTTACGTCTAG
* *
14507661 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
1 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTTTACGTCTAG
* *
14507703 CAGGCTTAATGCCGGTGAAACATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
14507744 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
14507761 TACTAAATCA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.02
41 45 0.36
42 78 0.62
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (41 bp):
CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
Found at i:14514536 original size:12 final size:12
Alignment explanation
Indices: 14514519--14514547 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14514509 ATGTAAAAGC
14514519 CATTTCATAACT
1 CATTTCATAACT
14514531 CATTTCATAACT
1 CATTTCATAACT
14514543 CATTT
1 CATTT
14514548 ATTTTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (12 bp):
CATTTCATAACT
Found at i:14514951 original size:67 final size:69
Alignment explanation
Indices: 14514823--14514964 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 69
14514813 TACAAGCTTT
* * * *
14514823 ATTCGATGCTGCTCACTCAAGCTGTCGAGAATCTACAACATATGTTGGATCTCTGTAATCAATAA
1 ATTCCATGCTGCTCACTCAAGCTATCGAGAA--TACAACATATGTTGGATCTCAGCAATCAATAA
*
14514888 GGAATA
64 AGAATA
* * *
14514894 ATTCCATGTTGCTCACTCAAGCTATCGA-AA-ACAATATATGTTGGATCTCAGCCATCAATAAAG
1 ATTCCATGCTGCTCACTCAAGCTATCGAGAATACAACATATGTTGGATCTCAGCAATCAATAAAG
14514957 AATA
66 AATA
14514961 ATTC
1 ATTC
14514965 ATATTCAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 36 0.57
70 2 0.03
71 25 0.40
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (69 bp):
ATTCCATGCTGCTCACTCAAGCTATCGAGAATACAACATATGTTGGATCTCAGCAATCAATAAAG
AATA
Found at i:14517649 original size:11 final size:11
Alignment explanation
Indices: 14517606--14517667 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
14517596 TTTGAACCAT
*
14517606 TACCAATT-CG
1 TACCAATTCCA
*
14517616 TACCAAATACCA
1 TACC-AATTCCA
*
14517628 -ACC-ATTTCA
1 TACCAATTCCA
14517637 TACCAATTCCA
1 TACCAATTCCA
*
14517648 TACC-ATTTCA
1 TACCAATTCCA
14517658 TACCAATTCC
1 TACCAATTCC
14517668 CAAATACCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
9 4 0.10
10 16 0.40
11 19 0.47
12 1 0.03
ACGTcount: A:0.35, C:0.34, G:0.02, T:0.29
Consensus pattern (11 bp):
TACCAATTCCA
Found at i:14517652 original size:21 final size:21
Alignment explanation
Indices: 14517606--14517667 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
14517596 TTTGAACCAT
* * *
14517606 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
14517628 -ACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
14517648 TACCATTTCATACCAATTCC
1 TACCATTTCATACCAATTCC
14517668 CAAATACCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.35, C:0.34, G:0.02, T:0.29
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:14517659 original size:10 final size:10
Alignment explanation
Indices: 14517628--14517662 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
14517618 CCAAATACCA
14517628 ACCATTTCAT
1 ACCATTTCAT
*
14517638 ACCAATTCCAT
1 ACC-ATTTCAT
14517649 ACCATTTCAT
1 ACCATTTCAT
14517659 ACCA
1 ACCA
14517663 ATTCCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (10 bp):
ACCATTTCAT
Found at i:14525341 original size:4 final size:4
Alignment explanation
Indices: 14525332--14525358 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14525322 TACGTTAGGG
14525332 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
14525359 TACATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:14529751 original size:17 final size:18
Alignment explanation
Indices: 14529729--14529762 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14529719 CAAGTGCGAT
14529729 AAACGCAA-TGCGACCGA
1 AAACGCAACTGCGACCGA
14529746 AAACGCAACTGCGACCG
1 AAACGCAACTGCGACCG
14529763 CAATTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.32, G:0.24, T:0.06
Consensus pattern (18 bp):
AAACGCAACTGCGACCGA
Found at i:14537131 original size:8 final size:8
Alignment explanation
Indices: 14537118--14537177 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
14537108 CTAATAAATA
14537118 TTATAATT
1 TTATAATT
**
14537126 TTATAAAA
1 TTATAATT
*
14537134 ATA-AATT
1 TTATAATT
*
14537141 ATTATTATTT
1 -TTA-TAATT
14537151 TTTATAATT
1 TT-ATAATT
14537160 TTATAATT
1 TTATAATT
14537168 TTATAATT
1 TTATAATT
14537176 TT
1 TT
14537178 TTAGGTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
7 2 0.05
8 26 0.65
9 8 0.20
10 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATAATT
Found at i:14589375 original size:15 final size:18
Alignment explanation
Indices: 14589339--14589372 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14589329 TTCAGAAAAT
14589339 TAAATAAATATAATTGTG
1 TAAATAAATATAATTGTG
14589357 TAAATAAATAT-ATTGT
1 TAAATAAATATAATTGT
14589373 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TAAATAAATATAATTGTG
Found at i:14593037 original size:32 final size:34
Alignment explanation
Indices: 14593001--14593101 Score: 88
Period size: 34 Copynumber: 3.0 Consensus size: 34
14592991 TCAATCACTT
*
14593001 AAAAAATTAAGAAAT-TGA-AAAA-ATATTTAAAA
1 AAAAAATTAA-AAATAAGATAAAATATATTTAAAA
* *
14593033 AAAAAGTTAAAAGTAAGATAAAATATATTTAAAA
1 AAAAAATTAAAAATAAGATAAAATATATTTAAAA
*
14593067 ACAAAAAAT-AAAAT-A-ATCAAAATATAATTTAAAA
1 A-AAAAATTAAAAATAAGAT-AAAATAT-ATTTAAAA
14593101 A
1 A
14593102 TATTTTTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
31 3 0.05
32 13 0.23
33 12 0.21
34 24 0.42
35 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (34 bp):
AAAAAATTAAAAATAAGATAAAATATATTTAAAA
Found at i:14593066 original size:34 final size:33
Alignment explanation
Indices: 14593018--14593101 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
14593008 TAAGAAATTG
* **
14593018 AAAAAATATTTAAAAA-AAAAGTTAAAAGTAAGAT-
1 AAAATATATTTAAAAACAAAAAATAAAA-T-A-ATC
14593052 AAAATATATTTAAAAACAAAAAATAAAATAATC
1 AAAATATATTTAAAAACAAAAAATAAAATAATC
14593085 AAAATATAATTTAAAAA
1 AAAATAT-ATTTAAAAA
14593102 TATTTTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.05
33 8 0.18
34 25 0.57
35 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (33 bp):
AAAATATATTTAAAAACAAAAAATAAAATAATC
Found at i:14593662 original size:19 final size:20
Alignment explanation
Indices: 14593633--14593673 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
14593623 ATCTTTAAAA
14593633 AACTCAATTTTTTCAATT-TT
1 AACTCAA-TTTTTCAATTCTT
14593653 AACT-AATTTTTCAATTCTT
1 AACTCAATTTTTCAATTCTT
14593672 AA
1 AA
14593674 TTTCTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.50
19 6 0.30
20 4 0.20
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
AACTCAATTTTTCAATTCTT
Found at i:14597670 original size:15 final size:16
Alignment explanation
Indices: 14597640--14597670 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14597630 GAATAAATCC
14597640 AAATTTATACCAAAAT
1 AAATTTATACCAAAAT
14597656 AAATTTATA-CAAAAT
1 AAATTTATACCAAAAT
14597671 TATATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTATACCAAAAT
Found at i:14602026 original size:25 final size:25
Alignment explanation
Indices: 14601998--14602069 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
14601988 TCTTGTACAT
* *
14601998 GTATGATCACACGATCTGTGAATTG
1 GTATGCTCACACGATCTGTGAATTA
*
14602023 GTATGCTCACACGAGT-TGTAAATTA
1 GTATGCTCACACGA-TCTGTGAATTA
*
14602048 GTATGCTCACACGAGCTGTGAA
1 GTATGCTCACACGATCTGTGAA
14602070 AATGGACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGATCTGTGAATTA
Found at i:14609736 original size:154 final size:154
Alignment explanation
Indices: 14609452--14609737 Score: 401
Period size: 154 Copynumber: 1.9 Consensus size: 154
14609442 GGAGGAATTT
* * * * *
14609452 TTAATGAACATAACATACGAAGATGCGTATGAACTGATAGAAAACATGGCAATGAATTCCTGCCA
1 TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * * *
14609517 GTAGCCAATTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTGTCCAGGAGGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
14609582 ATCGACGGAGCCGAATGATGAGCA
131 ATCGACGGAGCCGAATGATGAGCA
* ** * *
14609606 TTAATGAATAGAACATGTGAAGATGAGTATGAACTGATAAAAAACATGGCGATAAATTTCTACCA
1 TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * ** *
14609671 ATGGCCGACTAAATTCTATACATATGGCCAAAAACTATCTACGGTAAAAATTATCCAGGAAGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
14609736 AT
131 AT
14609738 AGATACGAAC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
154 113 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (154 bp):
TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
ATCGACGGAGCCGAATGATGAGCA
Found at i:14637877 original size:28 final size:27
Alignment explanation
Indices: 14637813--14637964 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
14637803 TTATTAAGTC
* *
14637813 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
14637840 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
14637868 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
14637895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
14637923 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
14637950 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14637965 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14637897 original size:55 final size:55
Alignment explanation
Indices: 14637813--14637989 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
14637803 TTATTAAGTC
* * *
14637813 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
14637868 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
14637923 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
14637979 CGCACACTTAG
1 CGCACACTTAG
14637990 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:14647588 original size:10 final size:11
Alignment explanation
Indices: 14647573--14647599 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14647563 TATCTTATGC
14647573 TTTTTTTATTT
1 TTTTTTTATTT
14647584 TTTTTTTATTT
1 TTTTTTTATTT
14647595 TTTTT
1 TTTTT
14647600 CTAAAGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:14650728 original size:29 final size:29
Alignment explanation
Indices: 14650695--14650753 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
14650685 TATACCAAAG
14650695 TATGATAAATGCTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
*
14650724 TATGATAAATGTTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
14650753 T
1 T
14650754 GTCCTTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
TATGATAAATGCTTTGCATGTCTTCTATA
Found at i:14654333 original size:5 final size:5
Alignment explanation
Indices: 14654323--14654354 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
14654313 TAATTCCTAC
14654323 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
14654355 AAACACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:14669908 original size:2 final size:2
Alignment explanation
Indices: 14669901--14669967 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
14669891 GTCGATATGT
14669901 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14669943 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14669968 TCTTTTTTGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14673730 original size:61 final size:60
Alignment explanation
Indices: 14673605--14673728 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 60
14673595 TTTTTTTAAA
* * * *
14673605 TTTTTAGAGTTAGGACTAAATTGACAGATTTTATAAATATTGAGGGCAAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACA-ATTTTATAAACATTGAGGGCAAAATTTATTGAAT
* * *
14673666 TTTTTAGAATTAGAACTAAAATGAC-ATTTTGTAAACATTGAGGGCTAAATTTGTT-AAT
1 TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTTATTGAAT
14673724 TTTTT
1 TTTTT
14673729 TTATATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
58 8 0.14
59 26 0.46
61 22 0.39
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (60 bp):
TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTTATTGAAT
Found at i:14674081 original size:36 final size:36
Alignment explanation
Indices: 14674034--14674111 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
14674024 ATATATAAAG
14674034 ACTAATTTACCTTTTTTTTTATTAGAGAAACCGAAA
1 ACTAATTTACCTTTTTTTTTATTAGAGAAACCGAAA
14674070 ACTAATTTACCTTTTTTTTTATTAGAGAAACCGAAA
1 ACTAATTTACCTTTTTTTTTATTAGAGAAACCGAAA
*
14674106 AGTAAT
1 ACTAAT
14674112 CCACTCCTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (36 bp):
ACTAATTTACCTTTTTTTTTATTAGAGAAACCGAAA
Found at i:14679278 original size:28 final size:27
Alignment explanation
Indices: 14679246--14679302 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
14679236 AATATTTTTA
14679246 TTTTTTATTTTAAATTATTTTTAAAATAC
1 TTTTTTATTTT--ATTATTTTTAAAATAC
*
14679275 TTTTTTTATTTTTTTATTTTTAAAATAC
1 -TTTTTTATTTTATTATTTTTAAAATAC
14679303 ATTTCCGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 15 0.58
30 11 0.42
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTTATTTTATTATTTTTAAAATAC
Found at i:14680512 original size:18 final size:17
Alignment explanation
Indices: 14680479--14680517 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14680469 TTTTATAAAT
14680479 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14680497 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14680514 TGTG
1 TGTG
14680518 GAAGGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14680778 original size:23 final size:23
Alignment explanation
Indices: 14680743--14680818 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
14680733 AGTATTATTG
* *
14680743 ATCAATGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
14680766 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14680789 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14680812 ATCAGTG
1 ATCAGTG
14680819 TGACACCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14682808 original size:17 final size:17
Alignment explanation
Indices: 14682786--14682821 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14682776 AAATCTCAGA
*
14682786 TTTTGATACTCATATCT
1 TTTTGATACCCATATCT
14682803 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
14682820 TT
1 TT
14682822 CACTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:14703136 original size:50 final size:50
Alignment explanation
Indices: 14703069--14703246 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 50
14703059 GAGGTTTTAT
* * * ** *
14703069 GTAAGACTATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * *
14703119 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * * * *
14703169 GTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCCCAC
* * *
14703218 GCAAGACCATGTCTCGGACATGGCTTTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
14703247 AATGTTATTA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 34 0.32
50 69 0.64
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
Found at i:14710694 original size:50 final size:50
Alignment explanation
Indices: 14710590--14710828 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
14710580 TAAAGAGATC
* *
14710590 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTT
* *
14710646 CCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG-T
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
* * ** *
14710695 CTC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 C-CAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
* * * * * * * * ** *
14710746 CCATGTAAGACCATATTTGGGATATGACATTGGTA--GTACAGGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTT
*
14710795 CCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGC
14710829 TTGTTATTAT
Statistics
Matches: 150, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 73 0.49
51 2 0.01
53 3 0.02
55 1 0.01
56 32 0.21
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
Found at i:14739851 original size:23 final size:21
Alignment explanation
Indices: 14739810--14739883 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 21
14739800 GTGATCTTCA
*
14739810 ATGATATGTAATCCT--AGAT
1 ATGATATGTAATCTTAGAGAT
14739829 ATGATATGTAATCTTTAGAAGAT
1 ATGATATGTAATC-TTAG-AGAT
* *
14739852 ACGATTCTGTAATCTTAGAGAT
1 ATGA-TATGTAATCTTAGAGAT
* *
14739874 TTGATTTGTA
1 ATGATATGTA
14739884 GATAGCTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 13 0.30
20 1 0.02
21 5 0.11
22 6 0.14
23 11 0.25
24 8 0.18
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (21 bp):
ATGATATGTAATCTTAGAGAT
Found at i:14739879 original size:22 final size:23
Alignment explanation
Indices: 14739825--14739883 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
14739815 ATGTAATCCT
* *
14739825 AGATATGATATGTAATCTTTAGA
1 AGATACGATTTGTAATCTTTAGA
14739848 AGATACGATTCTGTAATC-TTAG-
1 AGATACGATT-TGTAATCTTTAGA
**
14739870 AGATTTGATTTGTA
1 AGATACGATTTGTA
14739884 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 12 0.39
24 7 0.23
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (23 bp):
AGATACGATTTGTAATCTTTAGA
Found at i:14740821 original size:322 final size:322
Alignment explanation
Indices: 14740236--14740875 Score: 1271
Period size: 322 Copynumber: 2.0 Consensus size: 322
14740226 ACACTAGGGG
14740236 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
1 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
14740301 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
66 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
14740366 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
131 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
14740431 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
196 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
14740496 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
261 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
14740558 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
1 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
14740623 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
66 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
14740688 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
131 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
*
14740753 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGTCCCCAAATTTATGTGAAATA
196 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
14740818 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTT
261 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTT
14740876 TGTAGATTTC
Statistics
Matches: 317, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 317 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (322 bp):
TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
Found at i:14743189 original size:66 final size:66
Alignment explanation
Indices: 14743119--14743313 Score: 250
Period size: 66 Copynumber: 2.9 Consensus size: 66
14743109 TTACAACATA
14743119 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGGTTCGA-ATGTAATAACAA
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATA-GGTTCGACATGTAATAACAA
14743183 TT
65 TT
* * ** * *
14743185 TAGGGTTCACATATCTTACATATGGAGTTCGCATGCAATAGATAGGTTTTACATGTAATAATAGT
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
14743250 T
66 T
* * *
14743251 TAGGGTCTCACAAACCTAACATATGGGGTTCGCATGTAATAATGTATAGGTTC-ACATGTAATA
1 TAGGGT-TCACATATCTAACATATGGGGTTCGCATGCAAT-A-G-ATAGGTTCGACATGTAATA
14743314 CTCTAGAGGT
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
65 5 0.04
66 60 0.54
67 28 0.25
68 1 0.01
69 11 0.10
70 7 0.06
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (66 bp):
TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
T
Found at i:14743323 original size:22 final size:22
Alignment explanation
Indices: 14743277--14743334 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
14743267 TAACATATGG
* *
14743277 GGTTCGCATGTAATAATGTATA
1 GGTTCGCATGTAATAATCTAGA
* *
14743299 GGTTCACATGTAATACTCTAGA
1 GGTTCGCATGTAATAATCTAGA
*
14743321 GGTTTGCATGTAAT
1 GGTTCGCATGTAAT
14743335 TATAGTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (22 bp):
GGTTCGCATGTAATAATCTAGA
Found at i:14747841 original size:18 final size:18
Alignment explanation
Indices: 14747778--14747841 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
14747768 GTTTGGCTAT
*
14747778 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
* * *
14747796 TTTAATTTGGTT-TAGTTAT
1 TTTAATTT-ATTCCA-TTAG
*
14747815 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
14747833 TTTAATTTA
1 TTTAATTTA
14747842 ACTTAGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 21 0.62
19 13 0.38
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTAATTTATTCCATTAG
Found at i:14747848 original size:37 final size:37
Alignment explanation
Indices: 14747775--14747849 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
14747765 AATGTTTGGC
***
14747775 TATTTTACTTTATTCCATTAGTTTAATTTGGTTTAGT
1 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
14747812 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
1 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
14747849 T
1 T
14747850 TAATTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.59
Consensus pattern (37 bp):
TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
Found at i:14747849 original size:15 final size:15
Alignment explanation
Indices: 14747829--14747857 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14747819 CTTTATTCCA
14747829 TTAGTTTAATTTAAC
1 TTAGTTTAATTTAAC
14747844 TTAGTTTAATTTAA
1 TTAGTTTAATTTAA
14747858 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAGTTTAATTTAAC
Found at i:14753642 original size:17 final size:17
Alignment explanation
Indices: 14753620--14753665 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 17
14753610 CACTGGCTGC
14753620 CACATGGCCGTGTGCCA
1 CACATGGCCGTGTGCCA
*
14753637 CACATGGCC---T-CCT
1 CACATGGCCGTGTGCCA
14753650 CACATGGCCGTGTGCC
1 CACATGGCCGTGTGCC
14753666 TTATTGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
16 1 0.04
17 11 0.46
ACGTcount: A:0.15, C:0.39, G:0.26, T:0.20
Consensus pattern (17 bp):
CACATGGCCGTGTGCCA
Found at i:14753912 original size:13 final size:13
Alignment explanation
Indices: 14753890--14753965 Score: 50
Period size: 13 Copynumber: 6.1 Consensus size: 13
14753880 AACCCAACCC
14753890 ATATTAAATATAT
1 ATATTAAATATAT
*
14753903 ATATTTAATATAT
1 ATATTAAATATAT
*
14753916 A-A-AAAATATAT
1 ATATTAAATATAT
* * * *
14753927 AT-TTGATTAAAA
1 ATATTAAATATAT
**
14753939 ATAAAAAATATAT
1 ATATTAAATATAT
*
14753952 ATATTTAATATAT
1 ATATTAAATATAT
14753965 A
1 A
14753966 ATCGGGCCGG
Statistics
Matches: 43, Mismatches: 17, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
11 8 0.19
12 7 0.16
13 28 0.65
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:14753924 original size:22 final size:22
Alignment explanation
Indices: 14753890--14753966 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
14753880 AACCCAACCC
* *
14753890 ATATTAAATATATATATTTAAT
1 ATATAAAAAATATATATTTAAT
*
14753912 ATATAAAAAATATATATTTGATTAA
1 ATATAAAAAATATATATTT-A--AT
*
14753937 AAATAAAAAATATATATATTTAAT
1 ATAT-AAAAA-ATATATATTTAAT
14753961 ATATAA
1 ATATAA
14753967 TCGGGCCGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 17 0.39
23 3 0.07
24 4 0.09
25 4 0.09
26 6 0.14
27 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATAAAAAATATATATTTAAT
Found at i:14756832 original size:23 final size:20
Alignment explanation
Indices: 14756806--14756859 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
14756796 TTCTAAGTCG
14756806 ATATTCAATTCAATTCTACACCT
1 ATATTCAATTCAA-T-TACA-CT
14756829 ATATTCATTATTCAATTACACT
1 ATATTCA--ATTCAATTACACT
14756851 -TATTCAATT
1 ATATTCAATT
14756860 TCCCGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 2 0.07
23 11 0.38
24 1 0.03
25 6 0.21
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTCAATTCAATTACACT
Found at i:14756951 original size:45 final size:45
Alignment explanation
Indices: 14756896--14756987 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
14756886 CAGATACTCG
* *
14756896 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
* * *
14756941 GTGGAATCAGCACATAGCAACCAGCTTACTAATTAATGATGTTCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
14756986 GT
1 GT
14756988 TCACATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:14757051 original size:51 final size:51
Alignment explanation
Indices: 14756991--14757129 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 51
14756981 GTTCAGTTCA
* * *
14756991 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGATACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACG
* * * *
14757042 CGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATACG
*
14757093 TATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCAT
14757130 CACTTTCACT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.95
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACG
Found at i:14759281 original size:26 final size:27
Alignment explanation
Indices: 14759250--14759319 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
14759240 TCTCATCCCC
* *
14759250 ATTTTACCCCTAGTAAAA-TTTTGATA
1 ATTTTACCCCTAGTAAAATTTTTAACA
*
14759276 ATTTTACTCC-AGATAAAATTTTTAACA
1 ATTTTACCCCTAG-TAAAATTTTTAACA
*
14759303 ATTTTAGCCCTAGTAAA
1 ATTTTACCCCTAGTAAA
14759320 TTGTCGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.06
26 14 0.39
27 18 0.50
28 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTTAACA
Found at i:14767629 original size:28 final size:27
Alignment explanation
Indices: 14767588--14767673 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 27
14767578 CAGTAACAAA
*
14767588 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAATGTGGGCCTTAGCCCAAT
*
14767615 ACAGAAACAAGGTGGGCCTTAGCCCAAT
1 ACAG-AACAATGTGGGCCTTAGCCCAAT
* * *
14767643 ATAGGAACAATGTGGGCCTAAGCCCGAT
1 ACA-GAACAATGTGGGCCTTAGCCCAAT
14767671 ACA
1 ACA
14767674 ATATCAGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 4 0.08
28 45 0.90
29 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGAACAATGTGGGCCTTAGCCCAAT
Done.