Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 38 of 335
Found at i:13969114 original size:18 final size:18
Alignment explanation
Indices: 13969093--13969128 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13969083 TATATTATAA
*
13969093 AATATGATTATTAATATT
1 AATATGAATATTAATATT
*
13969111 AATATTAATATTAATATT
1 AATATGAATATTAATATT
13969129 TTAAAAATAT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATGAATATTAATATT
Found at i:13974745 original size:24 final size:22
Alignment explanation
Indices: 13974718--13974783 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
13974708 TGTAATTCTA
13974718 TTAAAAATATAATTTTAAATATTT
1 TTAAAAATATAATTTT-AATA-TT
* *
13974742 TTAAGTAA-CTAATTTTAATATT
1 TTAA-AAATATAATTTTAATATT
* *
13974764 TT-AAAATTTAATTTGAATAT
1 TTAAAAATATAATTTTAATAT
13974784 ATAAATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.06
21 12 0.34
22 4 0.11
23 4 0.11
24 11 0.31
25 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (22 bp):
TTAAAAATATAATTTTAATATT
Found at i:13976420 original size:27 final size:27
Alignment explanation
Indices: 13976345--13976413 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
13976335 TCAAGCCTTT
13976345 CTCAGAGGCGCAAATGAATGTGCCTAC
1 CTCAGAGGCGCAAATGAATGTGCCTAC
13976372 CTCAGAGGCGCAAATGAATGTGCCTAC
1 CTCAGAGGCGCAAATGAATGTGCCTAC
13976399 CTCAGAGGCGCAAAT
1 CTCAGAGGCGCAAAT
13976414 AGTTGTGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (27 bp):
CTCAGAGGCGCAAATGAATGTGCCTAC
Found at i:13979967 original size:33 final size:33
Alignment explanation
Indices: 13979902--13979970 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
13979892 ACTGCGATTA
* * * *
13979902 ATACGGGCCGGGAGGAGTGAAGTACGGTGGTGG
1 ATACGGGCCGGAAGGAGCGAAGCACGGAGGTGG
* *
13979935 ATACGGGCCGGAAGGAGCGGAGCACTGAGGTGG
1 ATACGGGCCGGAAGGAGCGAAGCACGGAGGTGG
13979968 ATA
1 ATA
13979971 TGAGTCAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.48, T:0.13
Consensus pattern (33 bp):
ATACGGGCCGGAAGGAGCGAAGCACGGAGGTGG
Found at i:13982909 original size:46 final size:47
Alignment explanation
Indices: 13982859--13982952 Score: 181
Period size: 46 Copynumber: 2.0 Consensus size: 47
13982849 CCTAAATTAC
13982859 TAACAAATTAATTTTAAAATAATTATAAAAAAC-AAAAAAAATACAT
1 TAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAAATACAT
13982905 TAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAAATACAT
1 TAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAAATACAT
13982952 T
1 T
13982953 CATACAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 33 0.70
47 14 0.30
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (47 bp):
TAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAAATACAT
Found at i:13989202 original size:26 final size:26
Alignment explanation
Indices: 13989130--13989188 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
13989120 TTTTTAACAT
13989130 TATTATTACTATCACTATTATCATGA
1 TATTATTACTATCACTATTATCATGA
13989156 TATTATTACTATCACTATTATCATGA
1 TATTATTACTATCACTATTATCATGA
13989182 TA-TATTA
1 TATTATTA
13989189 GTATACATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (26 bp):
TATTATTACTATCACTATTATCATGA
Found at i:13989338 original size:14 final size:13
Alignment explanation
Indices: 13989319--13989349 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
13989309 GTATTTTCAT
13989319 TATATATATGTATA
1 TATATATATGT-TA
13989333 TATATATATGTTA
1 TATATATATGTTA
13989346 TATA
1 TATA
13989350 GCATTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TATATATATGTTA
Found at i:13996725 original size:16 final size:16
Alignment explanation
Indices: 13996704--13996737 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13996694 CAAATAATTT
*
13996704 AAAAATTATAAAAATA
1 AAAAATAATAAAAATA
*
13996720 AAAAATAATAATAATA
1 AAAAATAATAAAAATA
13996736 AA
1 AA
13996738 TTCAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAATAAAAATA
Found at i:13998724 original size:25 final size:25
Alignment explanation
Indices: 13998680--13998808 Score: 100
Period size: 25 Copynumber: 5.2 Consensus size: 25
13998670 TTCATGTATA
* *
13998680 CTCATACGAGCTGTA-AACGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* *
13998704 CTCCTCCTAGCTGAATAACGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* * *
13998729 CTCATGCGAGCTGAGTAACCGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* * ***
13998754 CTCATGCGAGCT-AAGTATCAATAAG
1 CTCATCCGAGCTGAA-TAACGGGAAG
* * *
13998779 CTCATGCGAGCTAAATATCGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
13998804 CTCAT
1 CTCAT
13998809 GTGAGCTATG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
24 12 0.14
25 71 0.84
26 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (25 bp):
CTCATCCGAGCTGAATAACGGGAAG
Found at i:13998809 original size:25 final size:25
Alignment explanation
Indices: 13998695--13998816 Score: 118
Period size: 25 Copynumber: 4.9 Consensus size: 25
13998685 ACGAGCTGTA
* * * *
13998695 AACGGGAAGCTCCTCCTAGCTGAAT
1 AACGGGAAGCTCATGCGAGCTAAAT
* *
13998720 AACGGGAAGCTCATGCGAGCTGAGT
1 AACGGGAAGCTCATGCGAGCTAAAT
* *
13998745 AACCGGAAGCTCATGCGAGCTAAGT
1 AACGGGAAGCTCATGCGAGCTAAAT
* ***
13998770 ATCAATAAGCTCATGCGAGCTAAAT
1 AACGGGAAGCTCATGCGAGCTAAAT
* *
13998795 ATCGGGAAGCTCATGTGAGCTA
1 AACGGGAAGCTCATGCGAGCTA
13998817 TGGCATGTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGCGAGCTAAAT
Found at i:14000273 original size:47 final size:47
Alignment explanation
Indices: 14000164--14000274 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
14000154 CCGGGATAAG
* *
14000164 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
14000211 CACAAAGTACTTCATCGGAACAAATCCAGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
14000258 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
14000275 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:14001047 original size:4 final size:4
Alignment explanation
Indices: 14001038--14001070 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
14001028 CCCTTTTCTA
14001038 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
14001071 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:14008072 original size:29 final size:30
Alignment explanation
Indices: 14008027--14008083 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
14008017 ACATTCAACT
* *
14008027 TATTTATTTGTATTTAATTGGTTTTTAATA
1 TATTTATTTGTATTTAATTAGTTCTTAATA
14008057 TATTT-TTTG-ATCTTAATTAGTTCTTAA
1 TATTTATTTGTAT-TTAATTAGTTCTTAA
14008084 ATTTGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 17 0.71
30 5 0.21
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (30 bp):
TATTTATTTGTATTTAATTAGTTCTTAATA
Found at i:14009312 original size:21 final size:22
Alignment explanation
Indices: 14009273--14009313 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14009263 TTACTAAATA
14009273 ATTTAAATATATGAAATATGCC
1 ATTTAAATATATGAAATATGCC
*
14009295 ATTTAAGTATAT-AAATATG
1 ATTTAAATATATGAAATATG
14009314 GGAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTTAAATATATGAAATATGCC
Found at i:14013260 original size:15 final size:15
Alignment explanation
Indices: 14013240--14013275 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14013230 TTTTTGGAAT
*
14013240 TATTTTAGATTAAGA
1 TATTTTAAATTAAGA
*
14013255 TATTTTAAATTTAGA
1 TATTTTAAATTAAGA
14013270 TATTTT
1 TATTTT
14013276 GACTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TATTTTAAATTAAGA
Found at i:14027716 original size:2 final size:2
Alignment explanation
Indices: 14027709--14027734 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14027699 AATATCTATC
14027709 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14027735 GACATATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14028753 original size:22 final size:23
Alignment explanation
Indices: 14028713--14028755 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14028703 TTCTAATCTA
14028713 TAATTTTTATTTATGAAAATTAT
1 TAATTTTTATTTATGAAAATTAT
14028736 TAATTTTT-TTTCAT-AAAATT
1 TAATTTTTATTT-ATGAAAATT
14028756 GTGATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATTTTTATTTATGAAAATTAT
Found at i:14033779 original size:2 final size:2
Alignment explanation
Indices: 14033720--14033764 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
14033710 TAACTATCTA
14033720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14033761 -T AT A
1 AT AT A
14033765 AAATCTCCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14036483 original size:52 final size:53
Alignment explanation
Indices: 14036420--14036558 Score: 201
Period size: 52 Copynumber: 2.6 Consensus size: 53
14036410 CACATATCAT
* * *
14036420 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* *
14036473 ACCG-TGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
14036525 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
14036559 GCACACTTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
51 1 0.01
52 45 0.58
53 32 0.41
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:14039005 original size:27 final size:28
Alignment explanation
Indices: 14038969--14039027 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
14038959 AATAGAATTT
14038969 TATATATATTT-AAAATTAATAATATTAA
1 TATATATATTTGAAAA-TAATAATATTAA
* *
14038997 TATAT-TATTTGTAAATATTAATATTAA
1 TATATATATTTGAAAATAATAATATTAA
14039024 TATA
1 TATA
14039028 AAATTGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
TATATATATTTGAAAATAATAATATTAA
Found at i:14039324 original size:20 final size:20
Alignment explanation
Indices: 14039297--14039565 Score: 187
Period size: 20 Copynumber: 13.4 Consensus size: 20
14039287 TTTTTAATGG
*
14039297 TTACCAATAATTCTAAGGAT
1 TTACCAATAATTCTAACGAT
*
14039317 TTATCAATATATT-TAACGAT
1 TTACCAATA-ATTCTAACGAT
* * *
14039337 TTATCAATATTTCTAAGGAT
1 TTACCAATAATTCTAACGAT
* * *
14039357 ATATCAAT-ATATCTAACAAT
1 TTACCAATAAT-TCTAACGAT
* * *
14039377 TTGCAAAAAAATT-TAACGAT
1 TTAC-CAATAATTCTAACGAT
* * *
14039397 TTATCAATAATTTTAACAAT
1 TTACCAATAATTCTAACGAT
14039417 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
* * *
14039437 TGACCAATAATTTTAAAGAT
1 TTACCAATAATTCTAACGAT
14039457 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
*
14039477 TTACCAA-AATTTCTAAAGAT
1 TTACCAATAA-TTCTAACGAT
*
14039497 TTACCAATATATTGT-ACGAT
1 TTACCAATA-ATTCTAACGAT
**
14039517 TTACCAA-AATTTCTAATAAT
1 TTACCAATAA-TTCTAACGAT
* *
14039537 TTATCAA-AATATCTAATGAT
1 TTACCAATAAT-TCTAACGAT
14039557 TTACCAATA
1 TTACCAATA
14039566 TTTATGAGAC
Statistics
Matches: 196, Mismatches: 37, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.01
19 20 0.10
20 157 0.80
21 15 0.08
22 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (20 bp):
TTACCAATAATTCTAACGAT
Found at i:14039558 original size:60 final size:60
Alignment explanation
Indices: 14039308--14039731 Score: 281
Period size: 60 Copynumber: 7.0 Consensus size: 60
14039298 TACCAATAAT
* * * * ** * *
14039308 TCTAAGGATTTATCAATATATTTAACGATTTATCAATATTTCTAAGGATATATCAATATA
1 TCTAACGATTTACCAATATATTTAACGATTTACCAAAATTTCTAATAATTTATCAAAATA
* * * * * * * *
14039368 TCTAACAATTTGCAAAAAAATTTAACGATTTATCAATAATTT-TAACAATTTACCAAAATA
1 TCTAACGATTTACCAATATATTTAACGATTTACCAA-AATTTCTAATAATTTATCAAAATA
* * * ** * *
14039428 TCTAACGATTGACCAATA-ATTTTAAAGATTTACCAAAATATCTAACGATTTACCAAAATT
1 TCTAACGATTTACCAATATA-TTTAACGATTTACCAAAATTTCTAATAATTTATCAAAATA
*
14039488 TCTAAAGATTTACCAATATATTGT-ACGATTTACCAAAATTTCTAATAATTTATCAAAATA
1 TCTAACGATTTACCAATATATT-TAACGATTTACCAAAATTTCTAATAATTTATCAAAATA
* * * * * * *
14039548 TCTAATGATTTACCAATAT-TTATGA-GACTTTATCAAATTTTCT-ATGATTTTATCAATATT
1 TCTAACGATTTACCAATATATT-TAACGA-TTTACCAAAATTTCTAAT-AATTTATCAAAATA
* * * * *
14039608 TCCAA-AATTTCTAACCTTATACTAACTCTTAAC-AATTACCAAAATTTCT-ATGAATTTGTCAA
1 TCTAACGA-TT-T-ACC-AATA-T-A-T-TTAACGATTTACCAAAATTTCTAAT-AATTTATCAA
14039670 AATA
57 AATA
* * * * *
14039674 TCTAATGATTTACCAATATATCTAACAATTTACCAAAATTTCTATTGATTTATCAAAA
1 TCTAACGATTTACCAATATATTTAACGATTTACCAAAATTTCTAATAATTTATCAAAA
14039732 CTTATGAGAT
Statistics
Matches: 286, Mismatches: 57, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
59 17 0.06
60 208 0.73
61 9 0.03
62 4 0.01
63 6 0.02
64 4 0.01
65 1 0.00
66 31 0.11
67 5 0.02
68 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (60 bp):
TCTAACGATTTACCAATATATTTAACGATTTACCAAAATTTCTAATAATTTATCAAAATA
Found at i:14039584 original size:40 final size:40
Alignment explanation
Indices: 14039297--14039568 Score: 218
Period size: 40 Copynumber: 6.8 Consensus size: 40
14039287 TTTTTAATGG
* * *
14039297 TTACCAATAAT-TCTAAGGATTTATCAATATATT-TAACGAT
1 TTACCAA-AATATCTAACGATTTACCAATAT-TTCTAAAGAT
* * * * * * *
14039337 TTATCAATATTTCTAAGGATATATCAATATATCTAACA-AT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAA-AGAT
* * * * *
14039377 TTGCAAAAAAATTTAACGATTTATCAATAATTT-TAACA-AT
1 TTACCAAAATATCTAACGATTTACCAAT-ATTTCTAA-AGAT
*
14039417 TTACCAAAATATCTAACGATTGACCAATAATTT-TAAAGAT
1 TTACCAAAATATCTAACGATTTACCAAT-ATTTCTAAAGAT
*
14039457 TTACCAAAATATCTAACGATTTACCAAAATTTCTAAAGAT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
* * *
14039497 TTACCAATATAT-TGTACGATTTACCAAAATTTCTAATA-AT
1 TTACCAAAATATCT-AACGATTTACCAATATTTCTAA-AGAT
* *
14039537 TTATCAAAATATCTAATGATTTACCAATATTT
1 TTACCAAAATATCTAACGATTTACCAATATTT
14039569 ATGAGACTTT
Statistics
Matches: 193, Mismatches: 30, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
39 9 0.05
40 179 0.93
41 5 0.03
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (40 bp):
TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
Found at i:14039609 original size:20 final size:20
Alignment explanation
Indices: 14039258--14039609 Score: 141
Period size: 20 Copynumber: 17.6 Consensus size: 20
14039248 ATCTTAGTAA
*
14039258 TTATCAAAATTTCT-ATGACT
1 TTATCAATATTTCTAATGA-T
* * *
14039278 TTATCAAAATTTTTAATG-G
1 TTATCAATATTTCTAATGAT
* * *
14039297 TTACCAATAATTCTAAGGAT
1 TTATCAATATTTCTAATGAT
*
14039317 TTATCAATATATT-TAACGAT
1 TTATCAATAT-TTCTAATGAT
*
14039337 TTATCAATATTTCTAAGGAT
1 TTATCAATATTTCTAATGAT
* * **
14039357 ATATCAATATATCTAACAAT
1 TTATCAATATTTCTAATGAT
* * * *
14039377 TTGCA-AAAAAATT-TAACGAT
1 TT--ATCAATATTTCTAATGAT
**
14039397 TTATCAATAATTT-TAACAAT
1 TTATCAAT-ATTTCTAATGAT
* * * *
14039417 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
14039437 TGACCAATAATTT-TAAAGAT
1 TTATCAAT-ATTTCTAATGAT
* * * *
14039457 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
14039477 TTACCAAAATTTCTAAAGAT
1 TTATCAATATTTCTAATGAT
* * *
14039497 TTACCAATATATTGT-ACGAT
1 TTATCAATAT-TTCTAATGAT
* * *
14039517 TTACCAAAATTTCTAATAAT
1 TTATCAATATTTCTAATGAT
* *
14039537 TTATCAAAATATCTAATGAT
1 TTATCAATATTTCTAATGAT
* * *
14039557 TTACCAATATTTATGA-GACT
1 TTATCAATATTTCTAATGA-T
14039577 TTATCAA-ATTTTCT-ATGATT
1 TTATCAATA-TTTCTAATGA-T
14039597 TTATCAATATTTC
1 TTATCAATATTTC
14039610 CAAAATTTCT
Statistics
Matches: 257, Mismatches: 58, Indels: 34
0.74 0.17 0.10
Matches are distributed among these distances:
18 1 0.00
19 30 0.12
20 209 0.81
21 16 0.06
22 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATCAATATTTCTAATGAT
Found at i:14039684 original size:20 final size:20
Alignment explanation
Indices: 14039643--14039731 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
14039633 CTCTTAACAA
*
14039643 TTACCAAAATTTCT-ATGAAT
1 TTACCAAAATATCTAATG-AT
**
14039663 TTGTCAAAATATCTAATGAT
1 TTACCAAAATATCTAATGAT
* **
14039683 TTACCAATATATCTAACAAT
1 TTACCAAAATATCTAATGAT
* *
14039703 TTACCAAAATTTCTATTGAT
1 TTACCAAAATATCTAATGAT
*
14039723 TTATCAAAA
1 TTACCAAAA
14039732 CTTATGAGAT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 51 0.94
21 3 0.06
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (20 bp):
TTACCAAAATATCTAATGAT
Found at i:14039873 original size:40 final size:40
Alignment explanation
Indices: 14039829--14039904 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
14039819 CACTTCACCT
* *
14039829 ATATTTCTAATGATTTACCAAAATTTTTAACATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAACATTTTGTCA
*
14039869 ATATTTCTAATGATTCACCAAAATTTATAAGATTTT
1 ATATTTCTAATGATTCACCAAAATTTATAACATTTT
14039905 ACCGATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAACATTTTGTCA
Found at i:14039913 original size:40 final size:40
Alignment explanation
Indices: 14039829--14039915 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
14039819 CACTTCACCT
* * **
14039829 ATATTTCTAATGATTTACCAAAATTTTTAACATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAACATTTTACCA
* *
14039869 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCG
1 ATATTTCTAATGATTCACCAAAATTTATAACATTTTACCA
14039909 ATATTTC
1 ATATTTC
14039916 CAAAATTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.45
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAACATTTTACCA
Found at i:14040677 original size:11 final size:11
Alignment explanation
Indices: 14040642--14040677 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14040632 TTTATAAGAA
*
14040642 TTTACCAAAAC
1 TTTACCAAAAT
14040653 TTTACCAAATAT
1 TTTACCAAA-AT
14040665 TTTACCAAAAT
1 TTTACCAAAAT
14040676 TT
1 TT
14040678 CAAACCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTACCAAAAT
Found at i:14040837 original size:20 final size:20
Alignment explanation
Indices: 14040812--14040853 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14040802 TTATATGAAC
*
14040812 TTACT-AAAATATCTAACATT
1 TTACTAAAAAGAT-TAACATT
14040832 TTACTAAAAAGATTAACATT
1 TTACTAAAAAGATTAACATT
14040852 TT
1 TT
14040854 GGACTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (20 bp):
TTACTAAAAAGATTAACATT
Found at i:14040963 original size:21 final size:21
Alignment explanation
Indices: 14040937--14040976 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14040927 TTTATATAAA
*
14040937 TTTATCAAAATATCTAACATT
1 TTTATCAAAATATATAACATT
*
14040958 TTTATCAATATATATAACA
1 TTTATCAAAATATATAACA
14040977 ATTTACCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTATCAAAATATATAACATT
Found at i:14048941 original size:8 final size:8
Alignment explanation
Indices: 14048930--14048955 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14048920 TAATTTTTTG
14048930 AATTTTAA
1 AATTTTAA
14048938 AATTTTAA
1 AATTTTAA
14048946 AATTTTAA
1 AATTTTAA
14048954 AA
1 AA
14048956 AATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:14049823 original size:14 final size:15
Alignment explanation
Indices: 14049790--14049825 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14049780 AGTTTTAAAC
14049790 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
14049805 AAAAATGTATATTGT
1 AAAAATGAATATTGT
14049820 AAAAAT
1 AAAAAT
14049826 ATTAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:14050844 original size:39 final size:39
Alignment explanation
Indices: 14050790--14050867 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
14050780 CAAATTAGTA
14050790 AGAATTTTTATGTATCATATTTTATATTCACAAAACATG
1 AGAATTTTTATGTATCATATTTTATATTCACAAAACATG
14050829 AGAATTTTTATGTATCATATTTTATATTCACAAAACATG
1 AGAATTTTTATGTATCATATTTTATATTCACAAAACATG
14050868 TTTTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (39 bp):
AGAATTTTTATGTATCATATTTTATATTCACAAAACATG
Found at i:14053504 original size:4 final size:4
Alignment explanation
Indices: 14053495--14053522 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14053485 TGTCACACAC
14053495 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
14053523 AATATACCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:14064634 original size:18 final size:18
Alignment explanation
Indices: 14064611--14064650 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
14064601 TCATTCTAAA
14064611 CATTATATGAATTGCTCC
1 CATTATATGAATTGCTCC
14064629 CATTATATGAATTGCTCC
1 CATTATATGAATTGCTCC
14064647 CATT
1 CATT
14064651 GTACTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (18 bp):
CATTATATGAATTGCTCC
Found at i:14066351 original size:22 final size:22
Alignment explanation
Indices: 14066323--14066377 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14066313 TCTTTATAGT
**
14066323 TTATAAAATTTTAAATTAATAA
1 TTATAAAATTACAAATTAATAA
* *
14066345 TTATAAAATTACATATTAGTAA
1 TTATAAAATTACAAATTAATAA
14066367 TTATAAAATTA
1 TTATAAAATTA
14066378 TACTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATAAAATTACAAATTAATAA
Found at i:14067574 original size:31 final size:30
Alignment explanation
Indices: 14067528--14067587 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
14067518 ATAATAATTA
* *
14067528 AATTTATACGTGAATTTTGGTTTAATGTAT
1 AATTTATACATGAATTTTGATTTAATGTAT
*
14067558 AATTTGATACATGAATTTTGATTTTATGTA
1 AATTT-ATACATGAATTTTGATTTAATGTA
14067588 ATTATAGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (30 bp):
AATTTATACATGAATTTTGATTTAATGTAT
Found at i:14068121 original size:6 final size:7
Alignment explanation
Indices: 14068105--14068130 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14068095 AAAAAATTTA
14068105 TTTTTCT
1 TTTTTCT
14068112 TTTTTCT
1 TTTTTCT
14068119 TTTTTCT
1 TTTTTCT
14068126 TTTTT
1 TTTTT
14068131 GAATGATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:14068745 original size:2 final size:2
Alignment explanation
Indices: 14068740--14068765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14068730 GCTGATTTTA
14068740 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14068766 TAATAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14068938 original size:2 final size:2
Alignment explanation
Indices: 14068931--14068962 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14068921 ACATTATCTC
14068931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14068963 TTCAGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14070116 original size:27 final size:26
Alignment explanation
Indices: 14070059--14070129 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
14070049 AAATTTTGTA
14070059 TTAT-ATTAATTTA-CATTT-ATTATT
1 TTATAATT-ATTTATCATTTAATTATT
*
14070083 GTA-AATTATTTATCATTTAATTAATT
1 TTATAATTATTTATCATTTAATT-ATT
* *
14070109 TTATAATTATATATCAATTAA
1 TTATAATTATTTATCATTTAA
14070130 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.13
24 10 0.26
25 3 0.08
26 5 0.13
27 15 0.39
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATAATTATTTATCATTTAATTATT
Found at i:14076603 original size:30 final size:30
Alignment explanation
Indices: 14076567--14076629 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
14076557 ACTTAACAAG
14076567 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
14076597 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
14076627 CAA
1 CAA
14076630 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:14079201 original size:62 final size:57
Alignment explanation
Indices: 14079085--14079203 Score: 148
Period size: 62 Copynumber: 2.0 Consensus size: 57
14079075 ATATGTAAAA
* *
14079085 AAATTCATACAAATTTAAAAAAAAAAACTAGAGTACACATAAATTGTATCTAAACTC
1 AAATTCATACAAATTTAAAAAAAAAAACTAAAGTACACATAAATTGTATATAAACTC
* **
14079142 AAATTCATACAAATTTAAAATAAATAAATAAATTAAAGTACACATGGATTGTATATAAACTC
1 AAATTCATACAAATTT--AA-AAA-AAA-AAACTAAAGTACACATAAATTGTATATAAACTC
14079204 TTATTTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 16 0.31
59 2 0.04
60 3 0.06
61 3 0.06
62 28 0.54
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.29
Consensus pattern (57 bp):
AAATTCATACAAATTTAAAAAAAAAAACTAAAGTACACATAAATTGTATATAAACTC
Found at i:14088374 original size:22 final size:24
Alignment explanation
Indices: 14088348--14088392 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
14088338 AATATAAATT
14088348 ATAAC-TTTAAAAAA-ATTAACAA
1 ATAACTTTTAAAAAATATTAACAA
14088370 ATAACTTTTAAAAAATATTAACA
1 ATAACTTTTAAAAAATATTAACA
14088393 TTTTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAACTTTTAAAAAATATTAACAA
Found at i:14096349 original size:29 final size:30
Alignment explanation
Indices: 14096308--14096372 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
14096298 AATATACTTT
* *
14096308 TTTTAATAATTTATATTTATT-TTAAAAAA
1 TTTTAATAATTTAGAATTATTGTTAAAAAA
** * *
14096337 TTTTAATTTTTTAGAATTATTGTTAATAAT
1 TTTTAATAATTTAGAATTATTGTTAAAAAA
14096367 TTTTAA
1 TTTTAA
14096373 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTAATAATTTAGAATTATTGTTAAAAAA
Found at i:14097190 original size:30 final size:29
Alignment explanation
Indices: 14097152--14097213 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
14097142 AATTTATATA
*
14097152 TTTTTAATTTTTAAATAATT-AAATTG-AAT
1 TTTTTAA-TTTTAAA-AATTCAAAATGTAAT
14097181 TTTTATAATTTTAAAAATTCAAAATGTAAT
1 TTTT-TAATTTTAAAAATTCAAAATGTAAT
14097211 TTT
1 TTT
14097214 ATCTGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.14
29 16 0.55
30 9 0.31
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTTTAATTTTAAAAATTCAAAATGTAAT
Found at i:14098316 original size:23 final size:22
Alignment explanation
Indices: 14098272--14098317 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 22
14098262 TATAATATAT
14098272 ATATATATTTTAAAATTTTTAA
1 ATATATATTTTAAAATTTTTAA
14098294 ATAT-TATTTTAAATTATTTTTAA
1 ATATATATTTTAAA--ATTTTTAA
14098317 A
1 A
14098318 ATTTTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATATTTTAAAATTTTTAA
Found at i:14098476 original size:14 final size:15
Alignment explanation
Indices: 14098449--14098481 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14098439 TTAAATTGTT
14098449 TTATAATATTTTAAA
1 TTATAATATTTTAAA
14098464 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
14098478 TTAT
1 TTAT
14098482 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:14098661 original size:31 final size:28
Alignment explanation
Indices: 14098617--14098684 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 28
14098607 TAAAATTCAT
14098617 AATTTAAAATATTATAAAACAAATTAAATA
1 AATTTAAAATATTATAAAACAAA-T-AATA
* *
14098647 ATATTTAAATTATTATAAAACTAATAATA
1 A-ATTTAAAATATTATAAAACAAATAATA
14098676 AATTTAAAA
1 AATTTAAAA
14098685 GTTTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.21
29 5 0.15
30 2 0.06
31 20 0.59
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTTAAAATATTATAAAACAAATAATA
Found at i:14098729 original size:22 final size:23
Alignment explanation
Indices: 14098691--14098746 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
14098681 AAAAGTTTAA
14098691 AATATTT-AAATAGTAAAAAAAT
1 AATATTTAAAATAGTAAAAAAAT
* *
14098713 AATATTTAAAAT-TTAAAAAAGT
1 AATATTTAAAATAGTAAAAAAAT
*
14098735 AAT-TTCAAAATA
1 AATATTTAAAATA
14098747 TATATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 18 0.62
23 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
AATATTTAAAATAGTAAAAAAAT
Found at i:14100311 original size:7 final size:7
Alignment explanation
Indices: 14100299--14100328 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14100289 TTTAATCTTA
14100299 CATTCAC
1 CATTCAC
14100306 CATTCAC
1 CATTCAC
14100313 CATTCAC
1 CATTCAC
14100320 CATTCAC
1 CATTCAC
14100327 CA
1 CA
14100329 ATACCATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (7 bp):
CATTCAC
Found at i:14102850 original size:24 final size:25
Alignment explanation
Indices: 14102814--14102861 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
14102804 TGCCCAGTAC
*
14102814 TATTTTTGGATTTATT-TTTTTTAAA
1 TATTTTTGCATTT-TTATTTTTTAAA
14102839 TATTTTT-CATTTTTATTTTTTAA
1 TATTTTTGCATTTTTATTTTTTAA
14102862 TTTTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
25 7 0.33
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
TATTTTTGCATTTTTATTTTTTAAA
Found at i:14105876 original size:22 final size:21
Alignment explanation
Indices: 14105838--14105878 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14105828 TTTTTTTGCA
* *
14105838 TTTAGGGATAGGGTTTAGGGT
1 TTTAAGGATAGGATTTAGGGT
14105859 TTTAAGGATTAGGATTTAGG
1 TTTAAGGA-TAGGATTTAGG
14105879 ATTTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTTAAGGATAGGATTTAGGGT
Found at i:14105883 original size:21 final size:21
Alignment explanation
Indices: 14105837--14105883 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14105827 ATTTTTTTGC
* *
14105837 ATTTAGGGATAGGGTTTAGGG
1 ATTTAAGGATAGGATTTAGGG
*
14105858 TTTTAAGGATTAGGATTTA-GG
1 ATTTAAGGA-TAGGATTTAGGG
14105879 ATTTA
1 ATTTA
14105884 GGGTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (21 bp):
ATTTAAGGATAGGATTTAGGG
Found at i:14106121 original size:28 final size:28
Alignment explanation
Indices: 14106089--14106156 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
14106079 TGCAGTAGTT
*
14106089 TCTGAAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAAATTAGAGAAAACGTA
* * * *
14106117 TCTGAAAAAATAATTTTGAGAAAATGTT
1 TCTGAAAAAATAAATTAGAGAAAACGTA
*
14106145 TCTGAACAAATA
1 TCTGAAAAAATA
14106157 GTTCAAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (28 bp):
TCTGAAAAAATAAATTAGAGAAAACGTA
Found at i:14106393 original size:126 final size:125
Alignment explanation
Indices: 14106117--14106490 Score: 567
Period size: 126 Copynumber: 3.0 Consensus size: 125
14106107 AGAAGACGTA
* * *
14106117 TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGT-TCAAAAACGTTTTAAGCATGAT
1 TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* *
14106181 GCACTGTCAGCAAAAGTACTGAAAAAAGCTACCAC-TAGGA-CTTTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGT-GGAGCTCTTTTTCTACAGTAGTT
* * ** * *
14106240 TTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATACTTCGACCAGGAT
1 TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
*
14106305 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTT
14106366 TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* *
14106431 GCACTGTCAGCAAAAGTACTGAAAAAA-CTCCCACGTGTACGTTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTT
14106491 CATATTTGGC
Statistics
Matches: 225, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
123 40 0.18
124 52 0.23
125 30 0.13
126 103 0.46
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (125 bp):
TCTGAAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGAGCTCTTTTTCTACAGTAGTT
Found at i:14108511 original size:35 final size:35
Alignment explanation
Indices: 14108462--14108626 Score: 181
Period size: 35 Copynumber: 4.6 Consensus size: 35
14108452 CATGGCAAAG
14108462 TGTG-AATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
14108496 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
14108531 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
14108571 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
14108606 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
14108627 TTCAATGAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
34 5 0.04
35 74 0.66
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:14108568 original size:75 final size:75
Alignment explanation
Indices: 14108462--14108631 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
14108452 CATGGCAAAG
** *
14108462 TGTG-AATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
14108520 CCATACTGAGC
65 CCATACCGAGC
14108531 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
14108596 CATACCGAGT
66 CATACCGAGC
**
14108606 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
14108632 TGAGGAAAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
69 4 0.05
70 13 0.15
73 4 0.05
74 5 0.06
75 61 0.70
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:14121894 original size:35 final size:35
Alignment explanation
Indices: 14121803--14121969 Score: 156
Period size: 35 Copynumber: 4.6 Consensus size: 35
14121793 CATGGAAAAG
* * *
14121803 TGTGAAATTTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
14121838 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
* **
14121873 TGTGAAATGTAAGTATGGTATTATCAAATCCATACTGAAT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGC
** * * *
14121913 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGC
**
14121948 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
14121970 TCAATGAGGA
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.71
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 27 0.24
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:14121921 original size:75 final size:74
Alignment explanation
Indices: 14121825--14121973 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 74
14121815 GTATGGTATC
* ** * * **
14121825 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CCATACTGAGCTGTGAAATGTAAGTAT
1 ATCCATACTGAATTAAGAAATGTAGGTATGGCATT-TCCCATACCGAGCTGAAAAATGTAAGTAT
14121889 GGTATTATCAA
65 GGTATT-TCAA
* *
14121900 ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGTTGAAAAATGTAGGTATG
1 ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGCTGAAAAATGTAAGTATG
14121965 GTATTTCAA
66 GTATTTCAA
14121974 TGAGGAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
74 5 0.08
75 59 0.92
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (74 bp):
ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGCTGAAAAATGTAAGTATG
GTATTTCAA
Found at i:14124878 original size:23 final size:21
Alignment explanation
Indices: 14124783--14124863 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
14124773 CCTGATCAGT
** * *
14124783 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
14124804 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
14124825 ATACTACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
14124846 ATACGACACACGAGGTGC
1 ATACGACACACGAGGTGC
14124864 TTGAAATAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:14125289 original size:15 final size:15
Alignment explanation
Indices: 14125263--14125312 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
14125253 CATATATATT
14125263 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
14125277 ATATAATTTCAATCA
1 ATATAATTTCAATCA
* *
14125292 AAATAATTACAATCA
1 ATATAATTTCAATCA
14125307 ATATAA
1 ATATAA
14125313 ATTTAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 6 0.19
15 26 0.81
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:14126599 original size:5 final size:5
Alignment explanation
Indices: 14126591--14126631 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
14126581 TCTTTAGTTT
14126591 ATATA ATATA ATATA ATATA ATATA ATATA ATAT- ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
14126632 TAAAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:14129332 original size:18 final size:18
Alignment explanation
Indices: 14129292--14129335 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14129282 GGATTGGAAA
* * *
14129292 AAGGAAACATATAAGGGT
1 AAGGATACATAAAAGGGC
*
14129310 TAGGATACATAAAAGGGC
1 AAGGATACATAAAAGGGC
14129328 AAGGATAC
1 AAGGATAC
14129336 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AAGGATACATAAAAGGGC
Found at i:14129423 original size:30 final size:30
Alignment explanation
Indices: 14129389--14129476 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
14129379 GTTGAAGTGT
*
14129389 TGGGCCCGGTGACTGTGTGGGCGCTATTGA
1 TGGGCCCGGTGATTGTGTGGGCGCTATTGA
* * * * * *
14129419 TGGGCCTGGTGATTTTATAGGCACTGTTGA
1 TGGGCCCGGTGATTGTGTGGGCGCTATTGA
* *
14129449 TGGGCCCGATGATTGTGTGGGTGCTATT
1 TGGGCCCGGTGATTGTGTGGGCGCTATT
14129477 TATGAGCTCG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.16, G:0.39, T:0.33
Consensus pattern (30 bp):
TGGGCCCGGTGATTGTGTGGGCGCTATTGA
Found at i:14131986 original size:12 final size:12
Alignment explanation
Indices: 14131969--14131994 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14131959 TATTTGTTTC
14131969 TTGTTTTAATAT
1 TTGTTTTAATAT
14131981 TTGTTTTAATAT
1 TTGTTTTAATAT
14131993 TT
1 TT
14131995 TTAAATGTAT
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:14133170 original size:18 final size:19
Alignment explanation
Indices: 14133144--14133179 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14133134 TTATTTCATT
14133144 TTTGAATTTTACAATTAAC
1 TTTGAATTTTACAATTAAC
*
14133163 TTTG-ATTTTTCAATTAA
1 TTTGAATTTTACAATTAA
14133180 ATTTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTGAATTTTACAATTAAC
Found at i:14133172 original size:19 final size:18
Alignment explanation
Indices: 14133144--14133179 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14133134 TTATTTCATT
14133144 TTTGAATTTTACAATTAAC
1 TTTGAATTTT-CAATTAAC
*
14133163 TTTGATTTTTCAATTAA
1 TTTGAATTTTCAATTAA
14133180 ATTTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTGAATTTTCAATTAAC
Found at i:14134939 original size:22 final size:22
Alignment explanation
Indices: 14134888--14134948 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
14134878 ATTATATTCA
*
14134888 ATAACTTAATTAA-ACTAATTAAT
1 ATAA-TTAATTAATA-TAATTAAC
* *
14134911 ATTATTAATTAATATAATTGAC
1 ATAATTAATTAATATAATTAAC
*
14134933 ATAATTACATTTATAT
1 ATAATTA-ATTAATAT
14134949 TCAATTACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTAATTAATATAATTAAC
Found at i:14148074 original size:13 final size:13
Alignment explanation
Indices: 14148056--14148082 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14148046 ATTTTAATTC
14148056 TATTGTTAAAATA
1 TATTGTTAAAATA
14148069 TATTGTTAAAATA
1 TATTGTTAAAATA
14148082 T
1 T
14148083 GTATTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTGTTAAAATA
Found at i:14153284 original size:4 final size:4
Alignment explanation
Indices: 14153275--14153303 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14153265 AGCAAACGTG
14153275 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
14153304 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:14154129 original size:47 final size:47
Alignment explanation
Indices: 14154065--14154175 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14154055 GACATTGAGT
*
14154065 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
14154112 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
14154159 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
14154176 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:14161366 original size:47 final size:47
Alignment explanation
Indices: 14161302--14161412 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14161292 GACATTGAGT
*
14161302 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
14161349 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
14161396 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
14161413 CTTATCCCGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:14163455 original size:18 final size:18
Alignment explanation
Indices: 14163428--14163480 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
14163418 GATAAATCCT
*
14163428 AATCAAGGATTTACTCCC
1 AATCAGGGATTTACTCCC
14163446 AATCAGGGATTTACTCCC
1 AATCAGGGATTTACTCCC
14163464 AATCAGGGATTTACTCC
1 AATCAGGGATTTACTCC
14163481 TGTATTAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (18 bp):
AATCAGGGATTTACTCCC
Found at i:14172873 original size:18 final size:18
Alignment explanation
Indices: 14172777--14172869 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
14172767 CCCAACTACT
*
14172777 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
14172795 GTATACGTGAATAATACC
1 GTATACGTGAATAGTACC
* * *
14172813 ATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
14172831 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
14172849 GTAAACGTGAATAGTACC
1 GTATACGTGAATAGTACC
14172867 GTA
1 GTA
14172870 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:14185050 original size:29 final size:28
Alignment explanation
Indices: 14185016--14185080 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 28
14185006 TTATTTATAT
14185016 AAATAAAAAATTATTAATTAAAAAATAAA
1 AAATAAAAAATTATTAATT-AAAAATAAA
* *
14185045 AAATAATATATTTATTAATTAAAAATAAA
1 AAATAA-AAAATTATTAATTAAAAATAAA
14185074 AAATAAA
1 AAATAAA
14185081 TCAACATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 21 0.64
30 11 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAATAAAAAATTATTAATTAAAAATAAA
Found at i:14186793 original size:41 final size:44
Alignment explanation
Indices: 14186747--14186835 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
14186737 TAATATAAAA
*
14186747 TTTAAA-TTTAT-TATTATATTTT-TCAAGAAT-ATTTATGTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTT-TGTATT
* *
14186788 TTTAAATTTTATATATTATTTTTTGTCAACAATCATTTTTTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
14186832 TTTA
1 TTTA
14186836 TATATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 6 0.15
42 5 0.12
43 10 0.24
44 16 0.39
45 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (44 bp):
TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
Found at i:14186851 original size:22 final size:21
Alignment explanation
Indices: 14186826--14186888 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
14186816 ACAATCATTT
14186826 TTTATTTTTATATATTTTTAAA
1 TTTATTTTTATAT-TTTTTAAA
*
14186848 TTTATTATTATATTTTTTGAAA
1 TTTATTTTTATATTTTTT-AAA
*
14186870 ---ATATTTATATTTTTTAAA
1 TTTATTTTTATATTTTTTAAA
14186888 T
1 T
14186889 ATTTCTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.08
19 13 0.36
21 5 0.14
22 15 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATATTTTTTAAA
Found at i:14186877 original size:19 final size:17
Alignment explanation
Indices: 14186832--14186892 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 17
14186822 ATTTTTTATT
14186832 TTTATATATTTTTAAATTTA
1 TTTATAT-TTTTTAAA--TA
14186852 TTATTATATTTTTTGAAAATA
1 -T-TTATATTTTTT--AAATA
14186873 TTTATATTTTTTAAATA
1 TTTATATTTTTTAAATA
14186890 TTT
1 TTT
14186893 CTTTGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.22
19 11 0.30
20 1 0.03
21 8 0.22
22 6 0.16
23 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTTAAATA
Found at i:14192042 original size:66 final size:64
Alignment explanation
Indices: 14191929--14192051 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 64
14191919 AATTATTTTA
* * *
14191929 TTTTATTTTCCAATATGGCAATACCTTAACATTGTTTTGTTGTCACAACTTAATACTATCATTG
1 TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
* * * *
14191993 TTTTATTTTTCTCAATATGTCAGTACTTTAACATTGCTTTATTGGCACAACTTGATACT
1 TTTTA-TTTTC-CAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACT
14192052 CTCTAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 5 0.10
65 5 0.10
66 40 0.80
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (64 bp):
TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
Found at i:14194644 original size:20 final size:20
Alignment explanation
Indices: 14194621--14194672 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14194611 CGGACAAGGG
*
14194621 ACACGGGCGTGTCCCAAGTC
1 ACACAGGCGTGTCCCAAGTC
14194641 ACACAGGCGTGTCCCAAGTC
1 ACACAGGCGTGTCCCAAGTC
*
14194661 ACATAGGCGTGT
1 ACACAGGCGTGT
14194673 GGAATCCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAAGTC
Found at i:14204521 original size:35 final size:35
Alignment explanation
Indices: 14204454--14204621 Score: 176
Period size: 35 Copynumber: 4.6 Consensus size: 35
14204444 TCCTCATTGA
*** *
14204454 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
14204490 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
14204530 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
14204565 AATACCATACCTACATTTCACAACTCAATATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
14204600 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
14204622 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
35 73 0.62
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:14204580 original size:75 final size:73
Alignment explanation
Indices: 14204449--14204621 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 73
14204439 GGTTTTCCTC
*** * * **
14204449 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
*
14204514 TCAGTATGG
65 TCAATATGG
*
14204523 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
14204587 ACTCAATATGG
63 ACTCAATATGG
14204598 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
14204622 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 45 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAATATGG
Found at i:14206348 original size:107 final size:108
Alignment explanation
Indices: 14206226--14206438 Score: 385
Period size: 107 Copynumber: 2.0 Consensus size: 108
14206216 AAACAAAAAA
14206226 TTAGTTTAACAAAACAATGATATGTTAAGTT-AGAATAAGTTTTAAATAATAAAATTTCAAACAA
1 TTAGTTTAACAAAACAATGATATGTTAAGTTGA-AATAAGTTTTAAATAATAAAATTTCAAACAA
*
14206290 AATTGTATTAAATTTTTTGTTAATTACTCT-ATAAAATTTTTAC
65 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTAC
*
14206333 TTAGTTTAACAAAACAATGATATGTTAAGTTGAAATAAGTTTTAAATAATAAAATTTCTAACAAA
1 TTAGTTTAACAAAACAATGATATGTTAAGTTGAAATAAGTTTTAAATAATAAAATTTCAAACAAA
14206398 ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
66 ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
14206439 GACGTGTTTT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
107 90 0.88
108 12 0.12
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (108 bp):
TTAGTTTAACAAAACAATGATATGTTAAGTTGAAATAAGTTTTAAATAATAAAATTTCAAACAAA
ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTAC
Found at i:14211242 original size:23 final size:24
Alignment explanation
Indices: 14211189--14211242 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
14211179 AAACGTCTTC
14211189 TAAACT-TCTAATCACTTTACTAG
1 TAAACTATCTAATCACTTTACTAG
* * * *
14211212 TAATCTATCTAATTA-TTTATTAT
1 TAAACTATCTAATCACTTTACTAG
14211235 TAAACTAT
1 TAAACTAT
14211243 TTGTAGAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAACTATCTAATCACTTTACTAG
Found at i:14212377 original size:4 final size:4
Alignment explanation
Indices: 14212368--14212393 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14212358 AAATTAATGC
14212368 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
14212394 TAATTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:14212947 original size:16 final size:17
Alignment explanation
Indices: 14212916--14212948 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14212906 TTCATAAGTA
14212916 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
14212933 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
14212949 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:14213171 original size:46 final size:46
Alignment explanation
Indices: 14213101--14213366 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
14213091 TTTGACATGA
* * * * *
14213101 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
14213147 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14213193 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14213239 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14213285 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14213323 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14213367 AGAGCACACT
Statistics
Matches: 197, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.77
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14213331 original size:38 final size:38
Alignment explanation
Indices: 14213280--14213355 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
14213270 CATTTCATAT
14213280 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
14213318 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
14213356 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:14215506 original size:11 final size:11
Alignment explanation
Indices: 14215490--14215537 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
14215480 CTTTATATAC
14215490 TAATAAAATAA
1 TAATAAAATAA
*
14215501 TAATAAAATATCT
1 TAATAAAATA--A
* *
14215514 TATTAAAATAT
1 TAATAAAATAA
14215525 TAATAAAATAA
1 TAATAAAATAA
14215536 TA
1 TA
14215538 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:14216857 original size:2 final size:2
Alignment explanation
Indices: 14216852--14216881 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14216842 ACACACACAC
14216852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14216882 CGTGCTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14217150 original size:39 final size:39
Alignment explanation
Indices: 14217092--14217194 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 39
14217082 TTTAACCCGA
*
14217092 ATATTTTTCCAGCACATAGCCTGCGGACCTCAAGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
* * * * *
14217131 ATATATTTCTAGCATATAGCCTGTGGATCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
14217170 ATATTTTTCCAGCATATAGCCTGCG
1 ATATTTTTCCAGCATATAGCCTGCG
14217195 TGTAACACCC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (39 bp):
ATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
Found at i:14218651 original size:35 final size:35
Alignment explanation
Indices: 14218624--14218789 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
14218614 CATGGCAAAG
*
14218624 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
14218659 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
14218694 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
14218734 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
14218769 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
14218790 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:14218743 original size:75 final size:75
Alignment explanation
Indices: 14218624--14218794 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
14218614 CATGGCAAAG
** *
14218624 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
14218683 CCATACTGAGC
65 CCATACCGAGC
14218694 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
14218759 CATACCGAGT
66 CATACCGAGC
**
14218769 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
14218795 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:14226141 original size:35 final size:35
Alignment explanation
Indices: 14226114--14226279 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
14226104 CATGGCAAAG
*
14226114 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
14226149 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
14226184 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
14226224 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
14226259 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
14226280 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:14226233 original size:75 final size:75
Alignment explanation
Indices: 14226114--14226284 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
14226104 CATGGCAAAG
** *
14226114 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
14226173 CCATACTGAGC
65 CCATACCGAGC
14226184 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
14226249 CATACCGAGT
66 CATACCGAGC
**
14226259 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
14226285 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:14228030 original size:46 final size:46
Alignment explanation
Indices: 14227970--14228243 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
14227960 TTTGACATGA
* * * * * *
14227970 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
14228016 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14228062 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14228108 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14228154 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14228200 TGCCAGGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14228244 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14233300 original size:46 final size:46
Alignment explanation
Indices: 14233240--14233557 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
14233230 TTTGACATGA
* * * * * *
14233240 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
14233286 TGCCATGGTATCTTTCAACCATGGTATTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14233332 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14233378 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14233424 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14233470 TGCCA-GGTATCTTTCAACCAT-GTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14233514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14233558 AGAGCACACT
Statistics
Matches: 253, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
44 27 0.11
45 36 0.14
46 190 0.75
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14233588 original size:90 final size:88
Alignment explanation
Indices: 14233317--14233557 Score: 367
Period size: 90 Copynumber: 2.7 Consensus size: 88
14233307 TGGTATTGTT
* *
14233317 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
1 CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
**
14233382 ATGGTATCTTTCAACCATGGTCTTACA
66 A--G-ATCTTTCAACC-TCATCTTACA
14233409 CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
1 CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
*
14233474 AGGTATCTTTCAACCAT-GTCTTACA
66 A-G-ATCTTTCAACC-TCATCTTACA
14233499 CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14233558 AGAGCACACT
Statistics
Matches: 147, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
90 67 0.46
91 16 0.11
92 64 0.44
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (88 bp):
CATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
AGATCTTTCAACCTCATCTTACA
Found at i:14235734 original size:11 final size:11
Alignment explanation
Indices: 14235686--14235733 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
14235676 TATACTAAAT
14235686 AAATAATAATA
1 AAATAATAATA
*
14235697 TAATAATAATA
1 AAATAATAATA
* *
14235708 AAAT-CTCATA
1 AAATAATAATA
*
14235718 AAATATTAATA
1 AAATAATAATA
14235729 AAATA
1 AAATA
14235734 TATTTATCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATAATAATA
Found at i:14243737 original size:2 final size:2
Alignment explanation
Indices: 14243730--14243766 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14243720 CGAATTCATT
14243730 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
14243767 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14244035 original size:39 final size:39
Alignment explanation
Indices: 14243992--14244122 Score: 190
Period size: 39 Copynumber: 3.3 Consensus size: 39
14243982 GGTTTTTAAC
** *
14243992 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
14244031 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
14244070 CCGGATATTTTTCCAGCATATAGCCTGCGGACTTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
14244109 CCGGATATATTTTC
1 CCGGATAT-TTTTC
14244123 AATCGCATAC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 76 0.94
40 5 0.06
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:14261255 original size:11 final size:12
Alignment explanation
Indices: 14261223--14261256 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
14261213 TAAATATACA
14261223 TTTAATATATAT
1 TTTAATATATAT
14261235 TTTAATATATAT
1 TTTAATATATAT
14261247 TTTAA-ATATA
1 TTTAATATATA
14261257 ATATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAATATATAT
Found at i:14261265 original size:27 final size:25
Alignment explanation
Indices: 14261226--14261279 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
14261216 ATATACATTT
*
14261226 AATATATATTTTA-ATATATATTTTA
1 AATATATATTTTATA-AAATATTTTA
14261251 AATATAATATATTTATAAAATATTTTA
1 AATAT-ATAT-TTTATAAAATATTTTA
14261278 AA
1 AA
14261280 GAAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 4 0.16
27 15 0.60
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AATATATATTTTATAAAATATTTTA
Found at i:14272226 original size:53 final size:53
Alignment explanation
Indices: 14272154--14272295 Score: 205
Period size: 53 Copynumber: 2.7 Consensus size: 53
14272144 TTTACATATC
* *
14272154 ATACCGAAGCCATATCCCAGGC-ATGGTCTTATACGGAATCACATTATCACATT
1 ATACCGATGCCATAACCCA-GCTATGGTCTTATACGGAATCACATTATCACATT
* *
14272207 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATT
1 ATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTATCACATT
** *
14272260 GCACCGATGCCATAACCCAGCTATGGTCTTAAACGG
1 ATACCGATGCCATAACCCAGCTATGGTCTTATACGG
14272296 GCGCACTTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 2 0.02
53 79 0.98
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (53 bp):
ATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTATCACATT
Found at i:14276824 original size:51 final size:51
Alignment explanation
Indices: 14276748--14276866 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
14276738 AACTAAGTTA
* * *
14276748 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAATAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* * *
14276799 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
*
14276850 TCCGGATGAAGTATGAA
1 TCCGGATGAAATATGAA
14276867 TTAAGTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:14282878 original size:46 final size:45
Alignment explanation
Indices: 14282827--14282993 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 45
14282817 GACGAGGGCT
14282827 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
14282873 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCC
* * * * * *
14282919 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCC
* *
14282963 AGTGTAAGACATGTATGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
14282994 ACGGTTACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 32 0.30
46 70 0.66
47 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:14282923 original size:92 final size:90
Alignment explanation
Indices: 14282776--14282987 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 90
14282766 AGATTTGTGT
* * * *
14282776 GCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
14282841 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * * *
14282870 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
14282935 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
14282960 GCTAGTGTAAGACATGTATGGGACATGC
1 GCCAGTGTAAGACATGTATGGGACATGC
14282988 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 27 0.26
92 49 0.48
93 14 0.14
94 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:14283028 original size:46 final size:43
Alignment explanation
Indices: 14282827--14283030 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 43
14282817 GACGAGGGCT
* * * *
14282827 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GTG-C
* * *
14282873 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-G-C
* * *
14282919 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
*
14282962 TAGTGTAAGACATGTATGGGACATGCGTCAGC-ACGGTTACATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG-C
*
14283009 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
14283031 CGGCATCGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.23
45 3 0.02
46 96 0.71
47 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
Found at i:14288610 original size:132 final size:132
Alignment explanation
Indices: 14288344--14288744 Score: 434
Period size: 132 Copynumber: 3.0 Consensus size: 132
14288334 ATTATTCGTT
* * *
14288344 TAAAAATTTCTTTAAAACGAAGGCGA-GATTTGATATTTGACAATTCGCGGAATCGTGCCCTAAC
1 TAAAAA-TCCTTTAAAACGAAGGCGATG-TTCGATATTTGACAATTCGCGGAATCGTGCCCTATC
* * * * * *
14288408 GTGCTGGGTTGCAATATCTC-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTCCATTTATG
64 GTGCTGGGTTGCAATATCTCGA-TTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATG
*
14288472 TCTTC
128 TTTTC
* *
14288477 TAAAAATCCTTTAAAACGAGGGCGATGTTCGATATTTGACAATTCGCGGAATCATGCCCTATCGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
* * * *
14288542 GCTGGGTTGCAATTTCTCGATTGTTTAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTTT
66 GCTGGGTTGCAATATCTCGATTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTTT
14288607 TC
131 TC
* * ** * * * * *
14288609 TAAAAA-CTCTTCAAAACAAAGGTAATATTCGATGTTTGGCCATTCGGGGAATCGTGCCCTATCG
1 TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCG
* * * * * *
14288673 TGCTGGGTTGCGATCTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT-T
65 TGCTGGGTTGCAATATCTC-GATTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGT
14288736 CTTTC
129 -TTTC
14288741 TAAA
1 TAAA
14288745 TTCTAAAATA
Statistics
Matches: 227, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
131 3 0.01
132 216 0.95
133 8 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
GCTGGGTTGCAATATCTCGATTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTTT
TC
Found at i:14290927 original size:47 final size:47
Alignment explanation
Indices: 14290863--14290973 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14290853 GACATTGAGT
*
14290863 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
14290910 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
14290957 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
14290974 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:14304297 original size:22 final size:22
Alignment explanation
Indices: 14304261--14304314 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
14304251 AAAAATTTTA
14304261 TAAAATTAATTTTTAAAAA-TCAT
1 TAAAATT-ATTTTTAAAAAGT-AT
14304284 TAAAATTATTTTTAAAAAGTAT
1 TAAAATTATTTTTAAAAAGTAT
*
14304306 AAAAATTAT
1 TAAAATTAT
14304315 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTATTTTTAAAAAGTAT
Found at i:14310903 original size:18 final size:17
Alignment explanation
Indices: 14310882--14310920 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
14310872 TAAATAATTT
14310882 AAAATTCATAAAATTATAA
1 AAAATT-ATAAAATT-TAA
14310901 AAAATTATAAAATTTAA
1 AAAATTATAAAATTTAA
14310918 AAA
1 AAA
14310921 TAAAAATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTATAAAATTTAA
Found at i:14312168 original size:2 final size:2
Alignment explanation
Indices: 14312156--14312185 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14312146 ATAAAAGTGT
14312156 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14312186 TTATCTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14314321 original size:27 final size:27
Alignment explanation
Indices: 14314273--14314431 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
14314263 GCGAGGCTGC
* *
14314273 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
14314300 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
14314326 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
14314353 CAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
14314380 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
14314407 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
14314432 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:14314366 original size:54 final size:54
Alignment explanation
Indices: 14314291--14314431 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
14314281 GTGACGAAGT
*
14314291 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
14314345 CACCAGATCAGATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
14314399 CACCAGATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
14314432 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:14316067 original size:26 final size:26
Alignment explanation
Indices: 14316033--14316140 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
14316023 TGAAATGCCC
* *
14316033 ATCACGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14316059 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14316085 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14316111 ATCATGGAATATCTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14316137 ATCA
1 ATCA
14316141 ATCTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14317829 original size:75 final size:75
Alignment explanation
Indices: 14317710--14317881 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
14317700 CATGGCAAAG
** *
14317710 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
14317769 CCATACTGAGC
65 CCATACCGAGC
14317780 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
14317845 CATACCGAGT
66 CATACCGAGC
***
14317855 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
14317882 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:14317848 original size:35 final size:35
Alignment explanation
Indices: 14317713--14317879 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
14317703 GGCAAAGTGT
* **
14317713 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
14317748 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
14317783 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
14317823 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
14317859 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
14317880 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:14317871 original size:36 final size:35
Alignment explanation
Indices: 14317809--14317879 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
14317799 ATTATCAAAT
* *
14317809 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
14317844 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
14317880 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Done.