Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 33 of 97
Found at i:13842458 original size:2 final size:2
Alignment explanation
Indices: 13842451--13842484 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13842441 GGCAAAGGAC
13842451 AT 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 AT
13842485 GGAGGGCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13842534 original size:2 final size:2
Alignment explanation
Indices: 13842527--13842560 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13842517 ATTNAGAGGA
13842527 AT 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 AT
13842561 TGAGGGCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13842535 original size:76 final size:76
Alignment explanation
Indices: 13842446--13842595 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
13842436 TGGCCGGCAA
13842446 AGGACATATATATATATATATATATATATATATATATATGGAGGGCCATATGACCATAACATCAC
1 AGGACATATATATATATATATATATATATATATATATATGGAGGGCCATATGACCATAACATCAC
13842511 CCAAACATTNAG
66 CCAAACATT-AG
*
13842523 AGGA-ATATATATATATATATATATATATATATATATATTGAGGGCCATATGACCATAACATCAC
1 AGGACATATATATATATATATATATATATATATATATATGGAGGGCCATATGACCATAACATCAC
13842587 CCAAACATT
66 CCAAACATT
13842596 CTTATTCTTA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 68 0.94
77 4 0.06
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (76 bp):
AGGACATATATATATATATATATATATATATATATATATGGAGGGCCATATGACCATAACATCAC
CCAAACATTAG
Found at i:13846688 original size:16 final size:16
Alignment explanation
Indices: 13846663--13846694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13846653 CCACCCTTCT
*
13846663 TTGGCGATAATTGCAA
1 TTGGCAATAATTGCAA
13846679 TTGGCAATAATTGCAA
1 TTGGCAATAATTGCAA
13846695 CTAGCAATCG
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:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (16 bp):
TTGGCAATAATTGCAA
Found at i:13846701 original size:16 final size:16
Alignment explanation
Indices: 13846669--13846702 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13846659 TTCTTTGGCG
* *
13846669 ATAATTGCAATTGGCA
1 ATAATTGCAACTAGCA
13846685 ATAATTGCAACTAGCA
1 ATAATTGCAACTAGCA
13846701 AT
1 AT
13846703 CGAATCATAT
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:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (16 bp):
ATAATTGCAACTAGCA
Found at i:13850839 original size:42 final size:42
Alignment explanation
Indices: 13850760--13850839 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
13850750 TCTTACATTC
* *
13850760 TTCTCTTATACTTGTTCATGTATACCTTTTTCCTTTAAGTTG
1 TTCTCGTATACTTGTTCATGTATACCATTTTCCTTTAAGTTG
*
13850802 TTCTCGTATAGCTT-TTCATGTATA-GATTTTCCATTTAA
1 TTCTCGTATA-CTTGTTCATGTATACCATTTTCC-TTTAA
13850840 TTTTTAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 6 0.18
42 24 0.73
43 3 0.09
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (42 bp):
TTCTCGTATACTTGTTCATGTATACCATTTTCCTTTAAGTTG
Found at i:13851770 original size:102 final size:102
Alignment explanation
Indices: 13851532--13851776 Score: 237
Period size: 102 Copynumber: 2.4 Consensus size: 102
13851522 CATATTCAAT
* * * *
13851532 TGCTAGCTTTATCACTTATATTTTGGTTATAATTATATTATACTATTCGTCACAAGTTGTATCGC
1 TGCTAGCTTTATCACTCATAATTTGGATATAATGATATTATACTATTCGTCACAAGTTGTATCGC
* *
13851597 TCATTATTTGACCATAGTTCATCACTCTTACTTCAGC
66 TCATTATTTGACCATAATTCATCACTCATACTTCAGC
* * ** * * * * *
13851634 TGCAAGCTTTACCGTTCAT-ATTTTGACTACAATGATATTTTTCTA-TCAGTTACAAGCTT-TAT
1 TGCTAGCTTTATCACTCATAATTTGGA-TATAATGATATTATACTATTC-GTCACAAG-TTGTAT
* * * *
13851696 TGCTCATTCTTTGACCATAATTTATCATTCATA-TTCCAGC
63 CGCTCATTATTTGACCATAATTCATCACTCATACTT-CAGC
* *
13851736 TTCTAGCTTTATCACTCATAATTTGGATATAATGATGTTAT
1 TGCTAGCTTTATCACTCATAATTTGGATATAATGATATTAT
13851777 GTTACTAGCC
Statistics
Matches: 110, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
101 8 0.07
102 94 0.85
103 8 0.07
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.44
Consensus pattern (102 bp):
TGCTAGCTTTATCACTCATAATTTGGATATAATGATATTATACTATTCGTCACAAGTTGTATCGC
TCATTATTTGACCATAATTCATCACTCATACTTCAGC
Found at i:13856232 original size:14 final size:14
Alignment explanation
Indices: 13856213--13856245 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13856203 GTTTGCTTGT
*
13856213 CTTTTGCACTTTTA
1 CTTTTGCAATTTTA
13856227 CTTTTGCAATTTTA
1 CTTTTGCAATTTTA
13856241 CTTTT
1 CTTTT
13856246 AACTACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (14 bp):
CTTTTGCAATTTTA
Found at i:13861159 original size:14 final size:14
Alignment explanation
Indices: 13861092--13861165 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
13861082 ACGTGAAAAG
*
13861092 GTATAAGAGAAAAA
1 GTATAAGAGAACAA
*
13861106 GCTATACA-TGAACAA
1 G-TATA-AGAGAACAA
* *
13861121 GTACAAGAGAAGAA
1 GTATAAGAGAACAA
*
13861135 GCTATACGAGAACAA
1 G-TATAAGAGAACAA
*
13861150 GTATATGAGAACAA
1 GTATAAGAGAACAA
13861164 GT
1 GT
13861166 TAATAGGGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
13 1 0.02
14 24 0.51
15 21 0.45
16 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.22, T:0.16
Consensus pattern (14 bp):
GTATAAGAGAACAA
Found at i:13861159 original size:29 final size:29
Alignment explanation
Indices: 13861092--13861160 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
13861082 ACGTGAAAAG
13861092 GTATAAGAGAAAAAGCTATACATGAACAA
1 GTATAAGAGAAAAAGCTATACATGAACAA
* *
13861121 GTACAAGAGAAGAAGCTATACGA-GAACAA
1 GTATAAGAGAAAAAGCTATAC-ATGAACAA
*
13861150 GTATATGAGAA
1 GTATAAGAGAA
13861161 CAAGTTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 34 0.97
30 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.16
Consensus pattern (29 bp):
GTATAAGAGAAAAAGCTATACATGAACAA
Found at i:13862955 original size:35 final size:35
Alignment explanation
Indices: 13862912--13862985 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
13862902 GAGTTCTTTT
13862912 TTTTAAAGCTCGTGGTAAACGCCGCGAACTATTTC
1 TTTTAAAGCTCGTGGTAAACGCCGCGAACTATTTC
* * * *
13862947 TTTTAAAGCTCGTGGTAAATGTCGCGAGCTATTTT
1 TTTTAAAGCTCGTGGTAAACGCCGCGAACTATTTC
13862982 TTTT
1 TTTT
13862986 GGAACTCGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (35 bp):
TTTTAAAGCTCGTGGTAAACGCCGCGAACTATTTC
Found at i:13862999 original size:35 final size:34
Alignment explanation
Indices: 13862920--13863030 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 34
13862910 TTTTTTAAAG
* * * *
13862920 CTCGTGGTAAACGCCGCGAACTATTTCTTTT-AAA
1 CTCGTGGTAAATG-CGCGAGCTATTTTTTTTGGAA
13862954 GCTCGTGGTAAATGTCGCGAGCTATTTTTTTTGGAA
1 -CTCGTGGTAAATG-CGCGAGCTATTTTTTTTGGAA
* * * *
13862990 CTCGCGGTAAATGCTACAAGCTA-TTTTTTTGGAG
1 CTCGTGGTAAATGC-GCGAGCTATTTTTTTTGGAA
13863024 CTCGTGG
1 CTCGTGG
13863031 CATATATGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
34 17 0.27
35 45 0.70
36 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (34 bp):
CTCGTGGTAAATGCGCGAGCTATTTTTTTTGGAA
Found at i:13865587 original size:18 final size:18
Alignment explanation
Indices: 13865535--13865587 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
13865525 CCAGATTATT
*
13865535 CAATA-TGAGGCTATTCT
1 CAATACTGAGGCTATTCC
* * *
13865552 TAATACTGAGGTTGTTCC
1 CAATACTGAGGCTATTCC
*
13865570 CAATGCTGAGGCTATTCC
1 CAATACTGAGGCTATTCC
13865588 TGTTGTTGAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (18 bp):
CAATACTGAGGCTATTCC
Found at i:13866539 original size:98 final size:99
Alignment explanation
Indices: 13866365--13866565 Score: 368
Period size: 98 Copynumber: 2.0 Consensus size: 99
13866355 AATAATAATA
*
13866365 ATATCATACGCATGTTGCGTACTTATTCCTATTTCGCACTATTGTATGTGGTCAAAAGGGAACTC
1 ATATCATACGCATGTTGCGTACTTATTCCTATTTCGCACTATTGTATGTGGCCAAAAGGGAACTC
13866430 TCAACTTTACATCAAGGAGATTAACTCTAACCTG
66 TCAACTTTACATCAAGGAGATTAACTCTAACCTG
*
13866464 ATAT-ATACGCATGTTGCGTACTTATTCTTATTTCGCACTATTGTATGTGGCCAAAAGGGAACTC
1 ATATCATACGCATGTTGCGTACTTATTCCTATTTCGCACTATTGTATGTGGCCAAAAGGGAACTC
*
13866528 TCAACTTTACATCAAGGAGATTAACTCTAACTTG
66 TCAACTTTACATCAAGGAGATTAACTCTAACCTG
13866562 ATAT
1 ATAT
13866566 GAAGGAGATT
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
98 95 0.96
99 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (99 bp):
ATATCATACGCATGTTGCGTACTTATTCCTATTTCGCACTATTGTATGTGGCCAAAAGGGAACTC
TCAACTTTACATCAAGGAGATTAACTCTAACCTG
Found at i:13866570 original size:26 final size:27
Alignment explanation
Indices: 13866523--13866577 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
13866513 GCCAAAAGGG
*
13866523 AACTCTCAACTTTACATCAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
* *
13866550 AACTCT-AACTTGATATGAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
13866576 AA
1 AA
13866578 TTCAACCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
AACTCTCAACTTGACATCAAGGAGATT
Found at i:13866785 original size:102 final size:101
Alignment explanation
Indices: 13866652--13866929 Score: 270
Period size: 102 Copynumber: 2.7 Consensus size: 101
13866642 AGAAATGAGT
* * * * * * * *
13866652 AATAAAACTAGCGGCCAATAGCATAACATCATTACA-ACAAAATTATGAGTGATAAAGCTAGCGG
1 AATAAAGCTGGCGACCAATAGAAAAATATCATTACAGCCAAAA-TATGAGCGATAAAGCTAGCGG
*
13866716 CTGGAATATGAGTAATAAATTATGGTCAAAGAATAAGC
65 CT-GAATATGAGTAATAAACTATGGTCAAAGAATAAGC
* * * * * * **
13866754 GATAAAGCTTGCGACCAATAGAAAAATATCATTGCAGCCAAAATATGAGCGGTAAACCTTGCGAT
1 AATAAAGCTGGCGACCAATAGAAAAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGC
** * * *
13866819 TGAAGTAAAAGTGATGAACTATGGTCAAAGAATGAGC
66 TGAA-TATGAGTAATAAACTATGGTCAAAGAATAAGC
* * * * * *
13866856 AATAAAGCTGGCGACCAATAGTATAATATAATTATAGCCAAAATATAAGCGATAAAGCTAACGGC
1 AATAAAGCTGGCGACCAATAGAAAAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGC
13866921 TGAATATGA
66 TGAATATGA
13866930 TTTTTTTTTT
Statistics
Matches: 137, Mismatches: 37, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
101 6 0.04
102 126 0.92
103 5 0.04
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (101 bp):
AATAAAGCTGGCGACCAATAGAAAAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGC
TGAATATGAGTAATAAACTATGGTCAAAGAATAAGC
Found at i:13875085 original size:12 final size:12
Alignment explanation
Indices: 13875068--13875093 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13875058 CTAAATATTT
13875068 ATTTTTATAATA
1 ATTTTTATAATA
13875080 ATTTTTATAATA
1 ATTTTTATAATA
13875092 AT
1 AT
13875094 GCCTAGAATT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTTATAATA
Found at i:13875416 original size:12 final size:12
Alignment explanation
Indices: 13875399--13875424 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13875389 CTAAATATTT
13875399 ATTTTTATAATA
1 ATTTTTATAATA
13875411 ATTTTTATAATA
1 ATTTTTATAATA
13875423 AT
1 AT
13875425 GCCTAGAATT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTTATAATA
Found at i:13875451 original size:331 final size:330
Alignment explanation
Indices: 13874848--13875824 Score: 1737
Period size: 331 Copynumber: 3.0 Consensus size: 330
13874838 AAGATTACAA
*
13874848 TGTAGTGTTTGGTCTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
1 TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
* * * *
13874913 TATGAAAAAATAAAGTTGAATAAACTTATATTTTTTTAATGTAAATTTTTATTTTTTCAAACTCT
66 TATG-AAAAACAAAGTTGAATAAAATTATATTTTTTTAATGTAAATTTTTAATTTTTCAAACACT
*
13874978 CTTAAAATAATAAAAAACAACATGACAAAAATAAAATAATATTTGAATACTAATTACTTAAATAT
130 CTTAAAATAATAAAAAA-AACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATAT
13875043 TAAACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCA
194 TAAACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCA
13875108 CACTAATAATAAAAAAATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCT
259 CACTAATAATAAAAAAATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCT
13875173 TGTATAT
324 TGTATAT
*
13875180 TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACGAAATTACCCTTATA
1 TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
13875245 TATGAAAAACAAAGTTGAATAAAATTATATTTTTTTAATGTAAATTTTTAATTTTTCAAACACTC
66 TATGAAAAACAAAGTTGAATAAAATTATATTTTTTTAATGTAAATTTTTAATTTTTCAAACACTC
13875310 TTAAAATAATAAAAAATAACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATATT
131 TTAAAATAATAAAAAA-AACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATATT
13875375 AAACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCAC
195 AAACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCAC
13875440 ACTAATAATAAAAAAATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCTT
260 ACTAATAATAAAAAAATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCTT
13875505 GTATAT
325 GTATAT
13875511 TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
1 TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
13875576 TATGAAAAACAAAGTTGAATAAAATT-TATATTTTTTAATGTAAATTTTTAATTTTTCAAACACT
66 TATGAAAAACAAAGTTGAATAAAATTATAT-TTTTTTAATGTAAATTTTTAATTTTTCAAACACT
13875640 CTTAAAATAATAAAAAAAACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATATT
130 CTTAAAATAATAAAAAAAACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATATT
13875705 AAACTATGAAATTACT-AA-A--TA----T-T--T-ATTTTTATAATAATGCCTAGAATTATCAC
195 AAACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCAC
* *
13875758 ACTAATAATAAAAAACATTATGAATTTTAAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCT
260 ACTAATAATAAAAAA-ATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCT
13875823 TG
324 TG
13875825 ACTTTCCCTC
Statistics
Matches: 632, Mismatches: 11, Indels: 17
0.96 0.02 0.03
Matches are distributed among these distances:
318 44 0.07
319 50 0.08
321 1 0.00
322 1 0.00
326 2 0.00
328 1 0.00
329 2 0.00
330 67 0.11
331 397 0.63
332 67 0.11
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (330 bp):
TGTAGTGTTTGGTTTGTAAGTACTTTATTTGGAATGCAGTGTTAATTTACAAAATTACCCTTATA
TATGAAAAACAAAGTTGAATAAAATTATATTTTTTTAATGTAAATTTTTAATTTTTCAAACACTC
TTAAAATAATAAAAAAAACATGACAAAAATAAAATAATATTTGAATACTAATTATTTAAATATTA
AACTATGAAATTACTAAATATTTATTTTTATAATAATTTTTATAATAATGCCTAGAATTATCACA
CTAATAATAAAAAAATTATGGATTTTCAGCTTGAGAGGGGTGTATTTGTCCAACCTGTTTTCTTG
TATAT
Found at i:13878968 original size:20 final size:19
Alignment explanation
Indices: 13878932--13878970 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
13878922 CTCTTTTCTT
**
13878932 CTTTTTATTTTGTTTAAAA
1 CTTTTTATTTTAATTAAAA
13878951 CTTTTTAATTTTAATTAAAA
1 CTTTTT-ATTTTAATTAAAA
13878971 AATTGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
CTTTTTATTTTAATTAAAA
Found at i:13881158 original size:29 final size:29
Alignment explanation
Indices: 13881117--13881182 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
13881107 CCATAGGATT
* *
13881117 CAAT-CATAACATTTTTGTGATCATTTTC
1 CAATCCATAACATTTTTCTGACCATTTTC
13881145 CAATCCATAACATTTTTCTGACCATTTTC
1 CAATCCATAACATTTTTCTGACCATTTTC
13881174 CAATCCATA
1 CAATCCATA
13881183 TAACTCAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (29 bp):
CAATCCATAACATTTTTCTGACCATTTTC
Found at i:13881236 original size:31 final size:28
Alignment explanation
Indices: 13881168--13881239 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
13881158 TTTTCTGACC
* *
13881168 ATTTTCCAATCCATATAACTCAAGCATA
1 ATTTTCCAATCCATATAACCCAAGAATA
* *
13881196 AATTTCCAATCCATATATCCCAAGTAATCA
1 ATTTTCCAATCCATATAACCCAAG-AAT-A
13881226 ATTTTTCCAATCCA
1 A-TTTTCCAATCCA
13881240 AAGAACTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.58
29 2 0.06
30 2 0.06
31 11 0.31
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (28 bp):
ATTTTCCAATCCATATAACCCAAGAATA
Found at i:13881634 original size:46 final size:47
Alignment explanation
Indices: 13881566--13881658 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 47
13881556 CCAATGAACA
13881566 AAATGCTCAAGTGCTAAAGATGTACAATATTACTAGTGTTTAAATTC
1 AAATGCTCAAGTGCTAAAGATGTACAATATTACTAGTGTTTAAATTC
* * * *
13881613 AAATGCTC-AGTGTTAAAGATGTACAATTTTATTGGTGTTTAAATTC
1 AAATGCTCAAGTGCTAAAGATGTACAATATTACTAGTGTTTAAATTC
13881659 GAACTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 34 0.81
47 8 0.19
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (47 bp):
AAATGCTCAAGTGCTAAAGATGTACAATATTACTAGTGTTTAAATTC
Found at i:13883946 original size:28 final size:28
Alignment explanation
Indices: 13883913--13883977 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
13883903 AATTATAATA
*
13883913 TATATATATATATACACACATACTTTATAT
1 TATATAAAT-TATA-ACACATACTTTATAT
* *
13883943 TATACAAATTGTAACACATACTTTATAT
1 TATATAAATTATAACACATACTTTATAT
13883971 TATATAA
1 TATATAA
13883978 CTTGTAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.68
29 3 0.10
30 7 0.23
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (28 bp):
TATATAAATTATAACACATACTTTATAT
Found at i:13883982 original size:28 final size:28
Alignment explanation
Indices: 13883928--13883984 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
13883918 ATATATATAC
13883928 ACACATACTTTATATTATACAAATTGTA
1 ACACATACTTTATATTATACAAATTGTA
* *
13883956 ACACATACTTTATATTATATAACTTGTA
1 ACACATACTTTATATTATACAAATTGTA
13883984 A
1 A
13883985 TGTCTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (28 bp):
ACACATACTTTATATTATACAAATTGTA
Found at i:13891832 original size:16 final size:14
Alignment explanation
Indices: 13891804--13891855 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 14
13891794 CAAGCTTTTC
13891804 TCTTCTTTCTCCTT
1 TCTTCTTTCTCCTT
13891818 TCTTCTTTTCGTCCTT
1 TCTTC-TTTC-TCCTT
13891834 TCTTCCTTTCTCTCTT
1 TCTT-CTTTCTC-CTT
13891850 TGCTTC
1 T-CTTC
13891856 CAAGCTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 18 0.55
17 4 0.12
ACGTcount: A:0.00, C:0.35, G:0.04, T:0.62
Consensus pattern (14 bp):
TCTTCTTTCTCCTT
Found at i:13891835 original size:8 final size:8
Alignment explanation
Indices: 13891804--13891844 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
13891794 CAAGCTTTTC
13891804 TCTT-CTT
1 TCTTCCTT
13891811 TC-TCCTT
1 TCTTCCTT
*
13891818 TCTTCTTT
1 TCTTCCTT
*
13891826 TCGTCCTT
1 TCTTCCTT
13891834 TCTTCCTT
1 TCTTCCTT
13891842 TCT
1 TCT
13891845 CTCTTTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
6 1 0.04
7 7 0.25
8 20 0.71
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.63
Consensus pattern (8 bp):
TCTTCCTT
Found at i:13893169 original size:40 final size:40
Alignment explanation
Indices: 13893125--13893209 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
13893115 TTCAAATGTT
*
13893125 GTTTAAGTAGTTATTTGAATATTTGTTTTTAGTTATTTAA
1 GTTTAAGTAGTTATTTGAATATTTGTTGTTAGTTATTTAA
* * * *
13893165 GTTTATGTTGTTGTTTGGATATTTGTTGTTAGTTATTTAA
1 GTTTAAGTAGTTATTTGAATATTTGTTGTTAGTTATTTAA
13893205 GTTTA
1 GTTTA
13893210 TGTTTGAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (40 bp):
GTTTAAGTAGTTATTTGAATATTTGTTGTTAGTTATTTAA
Found at i:13893210 original size:40 final size:40
Alignment explanation
Indices: 13893138--13893213 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
13893128 TAAGTAGTTA
*
13893138 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTG
1 TTTGAATATTTGTTGTTAGTTATTTAAGTTTATGTTGTTG
*
13893178 TTTGGATATTTGTTGTTAGTTATTTAAGTTTATGTT
1 TTTGAATATTTGTTGTTAGTTATTTAAGTTTATGTT
13893214 TGAGATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.62
Consensus pattern (40 bp):
TTTGAATATTTGTTGTTAGTTATTTAAGTTTATGTTGTTG
Found at i:13893213 original size:22 final size:21
Alignment explanation
Indices: 13893132--13893204 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
13893122 GTTGTTTAAG
*
13893132 TAGTTATTTGAATATTTGTTTT
1 TAGTTATTT-AATATTTGTTGT
13893154 TAGTTATTTAAGT-TTATGTTGT
1 TAGTTATTTAA-TATT-TGTTGT
**
13893176 T-G-T-TTGGATATTTGTTGT
1 TAGTTATTTAATATTTGTTGT
13893194 TAGTTATTTAA
1 TAGTTATTTAA
13893205 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
18 8 0.20
19 6 0.15
20 2 0.05
21 8 0.20
22 16 0.40
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (21 bp):
TAGTTATTTAATATTTGTTGT
Found at i:13893235 original size:34 final size:34
Alignment explanation
Indices: 13893176--13893243 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
13893166 TTTATGTTGT
* *
13893176 TGTTTGGATATTTGTTGTTAGTTATTTAAGTTTA
1 TGTTTGGATATTTATTGTTAGTTATTTAAATTTA
13893210 TGTTTGAGATATTTATT-TT-GATTATTTAAATTTA
1 TGTTTG-GATATTTATTGTTAG-TTATTTAAATTTA
13893244 AAGTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 20 0.67
35 9 0.30
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (34 bp):
TGTTTGGATATTTATTGTTAGTTATTTAAATTTA
Found at i:13907528 original size:2 final size:2
Alignment explanation
Indices: 13907523--13907554 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13907513 TCCATTCATT
*
13907523 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13907555 GCTTAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13914410 original size:2 final size:2
Alignment explanation
Indices: 13914403--13914428 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13914393 TTTACGTCTA
13914403 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
13914429 TTCAAATGAT
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:13914941 original size:25 final size:25
Alignment explanation
Indices: 13914912--13914999 Score: 133
Period size: 25 Copynumber: 3.5 Consensus size: 25
13914902 TCCATTTATT
*
13914912 TTTA-TTTCATATTAGGCCATGCCCA
1 TTTATTTTC-TATTAGGTCATGCCCA
* *
13914937 CTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTAGGTCATGCCCA
13914962 TTTATTTTCTATTAGGTCATGCCCA
1 TTTATTTTCTATTAGGTCATGCCCA
13914987 TTTATTTTCTATT
1 TTTATTTTCTATT
13915000 TCTTTTCTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 53 0.93
26 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTATTTTCTATTAGGTCATGCCCA
Found at i:13915020 original size:17 final size:17
Alignment explanation
Indices: 13914998--13915063 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 17
13914988 TTATTTTCTA
13914998 TTTCTTTTCTTTTCTTT
1 TTTCTTTTCTTTTCTTT
*
13915015 TTTC-TTTCTTTTTCTCTC
1 TTTCTTTTC-TTTTCT-TT
*
13915033 TTCCATGTTTCTTCTTC-TT
1 TTTC-T-TTTCTT-TTCTTT
13915052 TTTCTTTTCTTT
1 TTTCTTTTCTTT
13915064 CCAGCCCGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
16 5 0.13
17 16 0.41
18 5 0.13
19 4 0.10
20 2 0.05
21 7 0.18
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTCTTTTCTTTTCTTT
Found at i:13915061 original size:11 final size:12
Alignment explanation
Indices: 13914991--13915063 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 12
13914981 TGCCCATTTA
*
13914991 TTTTCTATTTC-
1 TTTTCTCTTTCT
13915002 TTTTCT-TTTCT
1 TTTTCTCTTTCT
13915013 TTTT-TCTTTCT
1 TTTTCTCTTTCT
13915024 TTTTCTCTCTTCCAT
1 TTTTCTCT-TT-C-T
*
13915039 GTTTCT-TCTTCT
1 TTTTCTCT-TTCT
13915051 TTTTCT-TTTCT
1 TTTTCTCTTTCT
13915062 TT
1 TT
13915064 CCAGCCCGTG
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
10 5 0.09
11 25 0.46
12 10 0.19
13 3 0.06
14 5 0.09
15 6 0.11
ACGTcount: A:0.03, C:0.22, G:0.01, T:0.74
Consensus pattern (12 bp):
TTTTCTCTTTCT
Found at i:13915108 original size:22 final size:22
Alignment explanation
Indices: 13915069--13915146 Score: 126
Period size: 22 Copynumber: 3.7 Consensus size: 22
13915059 TCTTTCCAGC
13915069 CCGTGGCTT-C-C-CTTCACCA
1 CCGTGGCTTCCTCTCTTCACCA
13915088 CCGTGGCTTCCTCTCTTCACCA
1 CCGTGGCTTCCTCTCTTCACCA
*
13915110 CCATGGCTTCCTCTCTTCACCA
1 CCGTGGCTTCCTCTCTTCACCA
13915132 CCGTGGCTTCCTCTC
1 CCGTGGCTTCCTCTC
13915147 AAAATCGGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
19 9 0.17
20 1 0.02
21 1 0.02
22 43 0.80
ACGTcount: A:0.09, C:0.46, G:0.14, T:0.31
Consensus pattern (22 bp):
CCGTGGCTTCCTCTCTTCACCA
Found at i:13915308 original size:23 final size:23
Alignment explanation
Indices: 13915282--13915332 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13915272 CAAATTGGCA
* *
13915282 ACAAACAACTCTAATTTTTTTGC
1 ACAAACAACTCCAATTTTTCTGC
* * *
13915305 ACAAATAGCTCCAATTTTTCTGT
1 ACAAACAACTCCAATTTTTCTGC
13915328 ACAAA
1 ACAAA
13915333 TTGGTAGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (23 bp):
ACAAACAACTCCAATTTTTCTGC
Found at i:13915332 original size:57 final size:56
Alignment explanation
Indices: 13915258--13915395 Score: 168
Period size: 57 Copynumber: 2.4 Consensus size: 56
13915248 CACAAAGCTG
* *
13915258 TCCAATTTTTTGCACAAATTGGCAACAAACAACTCTAATTTTTTTGCACAAATAGC
1 TCCAATTTTTTGCACAAATTGGCAACAAACAACTCTAATTTTTCTGCACAAACAGC
* * * ** * *
13915314 TCCAATTTTTCTGTACAAATTGGTAGCAATTAGCTCTAATTTTTCTGCACAAACAGT
1 TCCAATTTTT-TGCACAAATTGGCAACAAACAACTCTAATTTTTCTGCACAAACAGC
*
13915371 TTCAATTTTTTTGCACAAATTGGCA
1 TCCAA-TTTTTTGCACAAATTGGCA
13915396 GCACTTTGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 10 0.15
57 53 0.78
58 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (56 bp):
TCCAATTTTTTGCACAAATTGGCAACAAACAACTCTAATTTTTCTGCACAAACAGC
Found at i:13917306 original size:2 final size:2
Alignment explanation
Indices: 13917299--13917379 Score: 135
Period size: 2 Copynumber: 40.0 Consensus size: 2
13917289 TCCAAACATC
*
13917299 TA TA TA TA GTA AA TA TA 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 TA TA TA TA TA TA TA TA
*
13917342 TA TA TA TA NA TA 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 TA TA TA TA TA TA
13917380 AGCACATACA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
2 72 0.97
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13917595 original size:63 final size:63
Alignment explanation
Indices: 13917483--13917644 Score: 279
Period size: 63 Copynumber: 2.6 Consensus size: 63
13917473 TCATTATCGT
** * *
13917483 CATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTTTCACGACATTGTCATTCAACCGG
1 CATGTGCACTGCCCACTCCGCACATGCACGGTTACAATTATCACAACATTGTCATTCAACCGG
13917546 CATGTGCACTGCCCACTCCGCACATGCACGGTTACAATTATCACAACATTGTCATTCAACCGG
1 CATGTGCACTGCCCACTCCGCACATGCACGGTTACAATTATCACAACATTGTCATTCAACCGG
*
13917609 CATGTGCACTGCCTACTCCGCACATGCACGGTTACA
1 CATGTGCACTGCCCACTCCGCACATGCACGGTTACA
13917645 TCAATTACAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 94 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (63 bp):
CATGTGCACTGCCCACTCCGCACATGCACGGTTACAATTATCACAACATTGTCATTCAACCGG
Found at i:13924306 original size:22 final size:22
Alignment explanation
Indices: 13924281--13924323 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13924271 CGCTTTAACA
* *
13924281 AACAAGTGACGCAATGCCTACC
1 AACAAGTCACGCAATGACTACC
13924303 AACAAGTCACGCAATGACTAC
1 AACAAGTCACGCAATGACTAC
13924324 ATCCCATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.30, G:0.16, T:0.14
Consensus pattern (22 bp):
AACAAGTCACGCAATGACTACC
Found at i:13925311 original size:35 final size:35
Alignment explanation
Indices: 13925221--13925321 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 35
13925211 TAAGCTCAGC
** *
13925221 CACAACCTTTAACAATGGTTTTTCACGGGATCAAC
1 CACAACCTTTAACAATGGTTTTTCAAAGGATCAAA
* * * * *
13925256 CAAAACC--CAA-AATGGCTTTTCAAAGGCTTAAA
1 CACAACCTTTAACAATGGTTTTTCAAAGGATCAAA
13925288 CACAACCTTTAACAATGGTTTTTCACAA-GATCAA
1 CACAACCTTTAACAATGGTTTTTCA-AAGGATCAA
13925322 CCAAAACCCA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
32 22 0.45
33 2 0.04
34 2 0.04
35 21 0.43
36 2 0.04
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (35 bp):
CACAACCTTTAACAATGGTTTTTCAAAGGATCAAA
Found at i:13925840 original size:73 final size:73
Alignment explanation
Indices: 13925719--13925920 Score: 287
Period size: 73 Copynumber: 2.8 Consensus size: 73
13925709 CAGACAGAAT
* * * * *
13925719 GCTCTTAGTCGACTAACTATGCTCCTTAGTCAATTAAGTCGTCTCTGTCTCTGAACCTAGTTTCT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAACCCAGTTTCT
* *
13925784 AGTAGTGA
66 AGCAGTAA
* *
13925792 GTTCTTAGTCAACTAACAATACTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAACCCAGTTTCT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAACCCAGTTTCT
*
13925857 GGCAGTAA
66 AGCAGTAA
* * *
13925865 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCATCTTTGTTTCTGAAC
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAAC
13925921 TGTCCATCTT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 114 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATACTTCTTAGTCAATTAAGTCATCTCTGTCTCTGAACCCAGTTTCT
AGCAGTAA
Found at i:13927091 original size:25 final size:25
Alignment explanation
Indices: 13927028--13927092 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
13927018 AATGACACAT
* *
13927028 GTATATAGATGTTTAAGAAAAATAA
1 GTATAAAGATGTTCAAGAAAAATAA
* * * *
13927053 -CATTTATGAAGTTCAAGAAAAATAA
1 GTA-TAAAGATGTTCAAGAAAAATAA
13927078 GTATAAAGATGTTCA
1 GTATAAAGATGTTCA
13927093 GTAAGCACAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (25 bp):
GTATAAAGATGTTCAAGAAAAATAA
Found at i:13927864 original size:23 final size:22
Alignment explanation
Indices: 13927838--13927886 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
13927828 TCATTAGTCT
* *
13927838 TCAAGCGTTATTCTCAATTATCA
1 TCAAGCG-TATTATCAATCATCA
13927861 TCAA--GTATTATCAATCATCA
1 TCAAGCGTATTATCAATCATCA
13927881 TCAAGC
1 TCAAGC
13927887 ATTCATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
20 17 0.77
21 1 0.05
23 4 0.18
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (22 bp):
TCAAGCGTATTATCAATCATCA
Found at i:13927874 original size:20 final size:20
Alignment explanation
Indices: 13927846--13927885 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13927836 CTTCAAGCGT
* *
13927846 TATTCTCAATTATCATCAAG
1 TATTATCAATCATCATCAAG
13927866 TATTATCAATCATCATCAAG
1 TATTATCAATCATCATCAAG
13927886 CATTCATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (20 bp):
TATTATCAATCATCATCAAG
Found at i:13932689 original size:35 final size:35
Alignment explanation
Indices: 13932643--13932749 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 35
13932633 AAAGCTTTTC
*
13932643 CAATGGCTTTTCATAGGCTCAACCACAACCTTTAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTTTAA
* ** * * *
13932678 CAATGGTTTTTCACGGGATTAACCAAAACC--TAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTTTAA
13932711 -AATGGCTTTTCAAAGGCTCAACCACAACCTTTAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTTTAA
*
13932745 TAATG
1 CAATG
13932750 ATTTTTCACA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 23 0.40
33 3 0.05
34 3 0.05
35 28 0.49
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (35 bp):
CAATGGCTTTTCAAAGGCTCAACCACAACCTTTAA
Found at i:13932734 original size:32 final size:33
Alignment explanation
Indices: 13932643--13932740 Score: 108
Period size: 32 Copynumber: 2.9 Consensus size: 33
13932633 AAAGCTTTTC
*
13932643 CAATGGCTTTTCATAGGCTCAACCACAACCTTTAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACC--TAA
* ** * * *
13932678 CAATGGTTTTTCACGGGATTAACCAAAACCTAA
1 CAATGGCTTTTCAAAGGCTCAACCACAACCTAA
13932711 -AATGGCTTTTCAAAGGCTCAACCACAACCT
1 CAATGGCTTTTCAAAGGCTCAACCACAACCT
13932741 TTAATAATGA
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
32 24 0.47
33 3 0.06
35 24 0.47
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (33 bp):
CAATGGCTTTTCAAAGGCTCAACCACAACCTAA
Found at i:13932755 original size:67 final size:67
Alignment explanation
Indices: 13932644--13932779 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
13932634 AAGCTTTTCC
* * ** * *
13932644 AATGGCTTTTCATAGGCTCAACCACAACCTTTAACAATGGTTTTTCACGGGATTAACCAAAACCT
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGATTTTTCACAAGATCAACCAAAACCC
13932709 AA
66 AA
*
13932711 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAATAATGATTTTTCACAAGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGATTTTTCACAAGATCAACCAAAACCC
13932776 AA
66 AA
13932778 AA
1 AA
13932780 CTAACTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.26
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGATTTTTCACAAGATCAACCAAAACCC
AA
Found at i:13932767 original size:35 final size:34
Alignment explanation
Indices: 13932661--13932774 Score: 108
Period size: 35 Copynumber: 3.4 Consensus size: 34
13932651 TTTCATAGGC
* **
13932661 TCAACCACAACCTTTAACAATGGTTTTTCACGGGA
1 TCAACCAAAACCTTTAA-AATGGTTTTTCACAAGA
* * *
13932696 TTAACCAAAACC--TAAAATGGCTTTTCA-AAGGC
1 TCAACCAAAACCTTTAAAATGGTTTTTCACAA-GA
* *
13932728 TCAACCACAACCTTTAATAATGATTTTTCACAAGA
1 TCAACCAAAACCTTTAA-AATGGTTTTTCACAAGA
13932763 TCAACCAAAACC
1 TCAACCAAAACC
13932775 CAAAACTAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
32 22 0.35
33 3 0.05
34 3 0.05
35 32 0.52
36 2 0.03
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (34 bp):
TCAACCAAAACCTTTAAAATGGTTTTTCACAAGA
Found at i:13933285 original size:73 final size:73
Alignment explanation
Indices: 13933164--13933364 Score: 258
Period size: 73 Copynumber: 2.8 Consensus size: 73
13933154 CAGACAGAAT
* * *
13933164 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCCTTGTCTTTGAACCCAATTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTGAACCCAATTTCT
* * *
13933229 TGCAGTGA
66 GGCAATAA
* * ** * * * *
13933237 GTTCTTAGTCGACTAACAATACTTCTTAGTTAATTAAGTCGTCTTTGTCTCTGAATCTAGTTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTGAACCCAATTTCT
13933302 GGCAATAA
66 GGCAATAA
* *
13933310 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATAAAGTCATCTTTGTTTCTGAA
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTGAA
13933365 TCGTCCATCT
Statistics
Matches: 107, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 107 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTGAACCCAATTTCT
GGCAATAA
Found at i:13934537 original size:25 final size:25
Alignment explanation
Indices: 13934480--13934539 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
13934470 ACATGTATAT
*
13934480 AGATGTTCAAGAAAAATAAAATTTA
1 AGATGTTCAAGAAAAATAAAATTAA
* * *
13934505 TGAAGTTCAAGAAAAATAAGCA-TAA
1 AGATGTTCAAGAAAAATAA-AATTAA
13934530 AGATGTTCAA
1 AGATGTTCAA
13934540 TAAGCACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (25 bp):
AGATGTTCAAGAAAAATAAAATTAA
Found at i:13935480 original size:27 final size:27
Alignment explanation
Indices: 13935450--13935501 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13935440 TTTTAGCAAG
*
13935450 TATTCTTCCAAATCAATTTCAAGCAGT
1 TATTCATCCAAATCAATTTCAAGCAGT
* * *
13935477 TATTCATCCAAGTCATTTTGAAGCA
1 TATTCATCCAAATCAATTTCAAGCA
13935502 AGCATTGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (27 bp):
TATTCATCCAAATCAATTTCAAGCAGT
Found at i:13938556 original size:2 final size:2
Alignment explanation
Indices: 13938549--13938578 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13938539 ATTATGCATG
13938549 TA TA 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 TA TA
13938579 AACACGACTA
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):
TA
Found at i:13949931 original size:83 final size:83
Alignment explanation
Indices: 13949763--13949936 Score: 188
Period size: 83 Copynumber: 2.1 Consensus size: 83
13949753 TGCGATGCCT
* * *
13949763 TATCAACTAGTCATGCAATGACTAAAAACCACTCACACAAACCTTAACTCATGTAGTGCCTACCA
1 TATCAACTAGCCATGCAATGAATAAAAACCACTCACACAAACCTTAACTCATGTAATGCCTACCA
* * **
13949828 ATTAGTCACACAATGTCC
66 ACTAATCACACAATACCC
* * ** ** *
13949846 TATTAACTAGCCATGCAATGAATAAAAACCAGTCA-AGTAATTTCTAAGTCATGTAATGCCTACC
1 TATCAACTAGCCATGCAATGAATAAAAACCACTCACACAAACCT-TAACTCATGTAATGCCTACC
**
13949910 AACTAATCATGCAATACCC
65 AACTAATCACACAATACCC
13949929 TATCAACT
1 TATCAACT
13949937 TGTGACGCAA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
82 4 0.05
83 69 0.95
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (83 bp):
TATCAACTAGCCATGCAATGAATAAAAACCACTCACACAAACCTTAACTCATGTAATGCCTACCA
ACTAATCACACAATACCC
Found at i:13950093 original size:22 final size:22
Alignment explanation
Indices: 13950062--13950135 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
13950052 CAATTTTGTG
13950062 TTGAAGTGATAGCTTTAAGACA
1 TTGAAGTGATAGCTTTAAGACA
*
13950084 TTGAAATGATAGCTTTAAGACA
1 TTGAAGTGATAGCTTTAAGACA
*
13950106 TTGAAGTGGTAGCTTTAAGACA
1 TTGAAGTGATAGCTTTAAGACA
*
13950128 GTGAAGTG
1 TTGAAGTG
13950136 TTAATTAGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (22 bp):
TTGAAGTGATAGCTTTAAGACA
Found at i:13951949 original size:45 final size:45
Alignment explanation
Indices: 13951858--13951959 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
13951848 CATTGGCTAT
* * **
13951858 ATCTCTCGTTAGATCTACAACTGCATTGACTGCATCTACATTTAC
1 ATCTCTCGTTGGATCTACAACTGCATTGACTACATCTACAACTAC
* *
13951903 ATCTCTCGTTGGATCT-CTAGCTGCATTGACTACATCTGCAACTAC
1 ATCTCTCGTTGGATCTAC-AACTGCATTGACTACATCTACAACTAC
* *
13951948 ATGTCCCGTTGG
1 ATCTCTCGTTGG
13951960 CTCTTCACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (45 bp):
ATCTCTCGTTGGATCTACAACTGCATTGACTACATCTACAACTAC
Found at i:13955396 original size:24 final size:25
Alignment explanation
Indices: 13955338--13955401 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
13955328 GCAATGACAA
**
13955338 TCACGTAATGCCCTACAGAAAGTAG
1 TCACGTAATGCCCTACAGAAAACAG
* *
13955363 TCACGCAATGCCTTACA-AAAACAG
1 TCACGTAATGCCCTACAGAAAACAG
*
13955387 TCATGTAATGCCCTA
1 TCACGTAATGCCCTA
13955402 TCAAGCGATC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 17 0.53
25 15 0.47
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (25 bp):
TCACGTAATGCCCTACAGAAAACAG
Found at i:13956710 original size:27 final size:27
Alignment explanation
Indices: 13956666--13956749 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
13956656 CTAATAGTAA
*
13956666 GAATAAATTTAACCACCAGAAGTGAAT
1 GAATACATTTAACCACCAGAAGTGAAT
* *
13956693 GCATACATTTAACCACCAGAAGTGGAT
1 GAATACATTTAACCACCAGAAGTGAAT
* *
13956720 GAATACATTTAACCACTAGAAGTGGAT
1 GAATACATTTAACCACCAGAAGTGAAT
13956747 GAA
1 GAA
13956750 AAATAGAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.23
Consensus pattern (27 bp):
GAATACATTTAACCACCAGAAGTGAAT
Found at i:13959473 original size:35 final size:35
Alignment explanation
Indices: 13959434--13959506 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
13959424 GGAGTGCGTG
* *
13959434 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAAGGAGTGCACA
***
13959469 TGATGATATTGCCTTGTGCATGTAAGGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAAGGAGTGCACA
13959504 TGA
1 TGA
13959507 GCTGAGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCATGTAAGGAGTGCACA
Found at i:13959533 original size:2 final size:2
Alignment explanation
Indices: 13959526--13959559 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13959516 AGTGGCGATG
13959526 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
13959560 ATGCTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:13966399 original size:21 final size:21
Alignment explanation
Indices: 13966373--13966424 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
13966363 CTAATTTGAA
13966373 GTATCGAGACCTCAACTAAAG
1 GTATCGAGACCTCAACTAAAG
* * *
13966394 GTATCGAGACCTCGACTGAGG
1 GTATCGAGACCTCAACTAAAG
*
13966415 GTATGGAGAC
1 GTATCGAGAC
13966425 TATTAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (21 bp):
GTATCGAGACCTCAACTAAAG
Found at i:13966743 original size:72 final size:71
Alignment explanation
Indices: 13966587--13966765 Score: 164
Period size: 72 Copynumber: 2.5 Consensus size: 71
13966577 CTTAGAAGAG
* * * **
13966587 TAAAACTCCAGAGAGTAAGTCCAAGTGTATCGAGACTCAAACTTCAAGTATCAAAACTCTGCTTT
1 TAAAATTCCAGAGAGGAAGTCCAAATGTATCGAGACTCAAACTTCAAGTATCAAAACTCACCTTT
13966652 CAACAT
66 CAACAT
* ** * * * *
13966658 TCAAATTTTAGAGAGGAAGTCCAAATGTATTGAGACTCGAGCTTTCAAGTATCGAAACTTCACCT
1 TAAAATTCCAGAGAGGAAGTCCAAATGTATCGAGACTCAAAC-TTCAAGTATCAAAAC-TCACCT
** *
13966723 TTTGAGA-
64 TTCAACAT
* *
13966730 TAAAATTCCAGAGAGGATGTGTCAAA-GTATCGAGAC
1 TAAAATTCCAGAGAGGAAGT-CCAAATGTATCGAGAC
13966766 AAGAATAACA
Statistics
Matches: 84, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
71 33 0.39
72 39 0.46
73 12 0.14
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (71 bp):
TAAAATTCCAGAGAGGAAGTCCAAATGTATCGAGACTCAAACTTCAAGTATCAAAACTCACCTTT
CAACAT
Found at i:13966781 original size:22 final size:22
Alignment explanation
Indices: 13966755--13966809 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13966745 GATGTGTCAA
13966755 AGTATCGAGACAAGAATAACAC
1 AGTATCGAGACAAGAATAACAC
* * * *
13966777 GGTATCGAGACTAGAATGACAT
1 AGTATCGAGACAAGAATAACAC
13966799 AGTATCGAGAC
1 AGTATCGAGAC
13966810 CGTATCTCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (22 bp):
AGTATCGAGACAAGAATAACAC
Found at i:13972728 original size:68 final size:68
Alignment explanation
Indices: 13972648--13972781 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 68
13972638 TAAAGCGAAT
* * *
13972648 AATGGTCAAAATCCCAT-TTTGATTGGCGAAACCAAAGATACTAAAACTTTTTGCTTTTTTGAAA
1 AATGGTCAAAATCCC-TCTTTGATTGGCGAAACCAAAGATACTAAAACTTATTACTCTTTTGAAA
13972712 AAGC
65 AAGC
* * *
13972716 AATGGTCAAAATCTCTCTTTGGTTGGCTAAACCAAAGATACTAAAACTTATTACTCTTTTGAAAA
1 AATGGTCAAAATCCCTCTTTGATTGGCGAAACCAAAGATACTAAAACTTATTACTCTTTTGAAAA
13972781 A
66 A
13972782 TGAGTCTGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (68 bp):
AATGGTCAAAATCCCTCTTTGATTGGCGAAACCAAAGATACTAAAACTTATTACTCTTTTGAAAA
AGC
Found at i:13974911 original size:20 final size:19
Alignment explanation
Indices: 13974885--13974940 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
13974875 TATTTTCATT
13974885 TTATTTTATTTTTTATTAT-
1 TTATTTTATTTTTTATT-TC
* *
13974904 TGTATTTTCTATTTTATTTC
1 T-TATTTTATTTTTTATTTC
13974924 TTATTATTATTTTTTAT
1 TTATT-TTATTTTTTAT
13974941 ACTTTGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTTTATTTTTTATTTC
Found at i:13974938 original size:27 final size:27
Alignment explanation
Indices: 13974886--13974938 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
13974876 ATTTTCATTT
* *
13974886 TATTTTATTTTTTATTATTGTATTTTC
1 TATTTTATTTCTTATTATTATATTTTC
*
13974913 TATTTTATTTCTTATTATTATTTTTT
1 TATTTTATTTCTTATTATTATATTTT
13974939 ATACTTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (27 bp):
TATTTTATTTCTTATTATTATATTTTC
Found at i:13975041 original size:18 final size:17
Alignment explanation
Indices: 13975013--13975046 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13975003 AACAAAAATT
13975013 TTACTTATTATTATTTC
1 TTACTTATTATTATTTC
13975030 TTACTATATTATTATTT
1 TTACT-TATTATTATTT
13975047 TTTTTATATT
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:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTACTTATTATTATTTC
Found at i:13975060 original size:8 final size:8
Alignment explanation
Indices: 13975047--13975083 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
13975037 ATTATTATTT
13975047 TTTTTATA
1 TTTTTATA
13975055 TTTTTATA
1 TTTTTATA
*
13975063 TTTTTTTA
1 TTTTTATA
*
13975071 TTATTATA
1 TTTTTATA
13975079 TTTTT
1 TTTTT
13975084 TCATAAGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTATA
Found at i:13975072 original size:16 final size:17
Alignment explanation
Indices: 13975034--13975084 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
13975024 TATTTCTTAC
*
13975034 TATATTATTATTTTTTT
1 TATATTATTATATTTTT
*
13975051 TATATTTTTATATTTTT
1 TATATTATTATATTTTT
13975068 T-TATTATTATATTTTT
1 TATATTATTATATTTTT
13975084 T
1 T
13975085 CATAAGCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATATTATTATATTTTT
Found at i:13975075 original size:19 final size:17
Alignment explanation
Indices: 13975018--13975084 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
13975008 AAATTTTACT
**
13975018 TATTATTATTTCTTACTA
1 TATTATTATTT-TTTTTA
13975036 TATTATTATTTTTTTTA
1 TATTATTATTTTTTTTA
*
13975053 TATTTTTATATTTTTTTA
1 TATTATTAT-TTTTTTTA
13975071 TTATTA-TATTTTTT
1 -TATTATTATTTTTT
13975085 CATAAGCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
17 17 0.40
18 22 0.51
19 4 0.09
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTATTATTTTTTTTA
Found at i:13975370 original size:15 final size:15
Alignment explanation
Indices: 13975338--13975371 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13975328 ATTATTATTG
*
13975338 TTTTCATTTTTTTAT
1 TTTTCATTTTTTCAT
*
13975353 TTTTCATTTTTTCCT
1 TTTTCATTTTTTCAT
13975368 TTTT
1 TTTT
13975372 ATCTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCATTTTTTCAT
Found at i:13975898 original size:144 final size:135
Alignment explanation
Indices: 13975730--13976003 Score: 358
Period size: 147 Copynumber: 1.9 Consensus size: 135
13975720 TATTCTTATA
13975730 ACTAAATGACTTTTTCTACCTAATTTTGCTATTATTTATTACATAAATATATA-TT-TATTTTAC
1 ACTAAATGACTTTTTCTACCTAATTTTGCTATTATTTATTACATAAATATATATTTATATTTTAC
*
13975793 TTTCTCCAT-TTTTTTTGCATATATATATTTAAAAAATTTTATTTTCATCCTTATCTATTTTTAT
66 CTTCTCCATATTTTTTTGC--ATATATATTTAAAAAATTTTATTTTCATCCTTATCTATTTTTAT
13975857 TTTTTTT
129 TTTTTTT
*
13975864 NNNNNNNNNNNACTAAATGAC-TTTTCTATCTAATTTTGCTATTATTTATTACATAAATATATAT
1 -----------ACTAAATGACTTTTTCTACCTAATTTTGCTATTATTTATTACATAAATATATA-
*
13975928 TTTTATATTTTACCTTCTCTATATTTTTTTGCATATATATTTAAAAAATTTTATTTTCATCCTTA
54 -TTTATATTTTACCTTCTCCATATTTTTTTGCATATATATTTAAAAAATTTTATTTTCATCCTTA
13975993 TCTATTTTTAT
118 TCTATTTTTAT
13976004 ATATATATTT
Statistics
Matches: 121, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
144 41 0.34
145 10 0.08
147 46 0.38
148 15 0.12
149 9 0.07
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.54
Consensus pattern (135 bp):
ACTAAATGACTTTTTCTACCTAATTTTGCTATTATTTATTACATAAATATATATTTATATTTTAC
CTTCTCCATATTTTTTTGCATATATATTTAAAAAATTTTATTTTCATCCTTATCTATTTTTATTT
TTTTT
Found at i:13977323 original size:1 final size:1
Alignment explanation
Indices: 13977317--13977455 Score: 71
Period size: 1 Copynumber: 139.0 Consensus size: 1
13977307 TCTCTTACCA
* ** * * * * * * * * * *
13977317 TTTTTTTTTGTTTTTTTTTTAGTTTCTTCTTTTTTATTATTATTTATTTTTTTTGTTCTTTGTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * *
13977382 TTTTTTTTTATTATTTTTTTTATGTTTTTTTGTTTTTGTTTTTTGTTTTTTATTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
13977447 TTTGTTTTT
1 TTTTTTTTT
13977456 AATGAACTTC
Statistics
Matches: 93, Mismatches: 45, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (1 bp):
T
Found at i:13977367 original size:45 final size:41
Alignment explanation
Indices: 13977318--13977455 Score: 142
Period size: 42 Copynumber: 3.3 Consensus size: 41
13977308 CTCTTACCAT
13977318 TTTTTTTTGTTTTTTTTTTAGTTTCTTCTTTTTTATTATTATTTA
1 TTTTTTTTGTTTTTTTTTT-GTTT-TT-TTTTTTATTATT-TTTA
* * *
13977363 TTTTTTTTG-TTCTTTGTTGTTTTTTTTTATTATTTTTTTTA
1 TTTTTTTTGTTTTTTTTTTGTTTTTTTTT-TTATTATTTTTA
* *
13977404 TGTTTTTTTG--TTTTTGTT-TTTTGTTTTTTATT-TTTTTA
1 T-TTTTTTTGTTTTTTTTTTGTTTTTTTTTTTATTATTTTTA
13977442 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
13977456 AATGAACTTC
Statistics
Matches: 84, Mismatches: 5, Indels: 14
0.82 0.05 0.14
Matches are distributed among these distances:
37 8 0.10
38 7 0.08
39 8 0.10
40 8 0.10
41 16 0.19
42 17 0.20
43 4 0.05
44 7 0.08
45 9 0.11
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (41 bp):
TTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTATTATTTTTA
Found at i:13977389 original size:39 final size:38
Alignment explanation
Indices: 13977316--13977455 Score: 144
Period size: 41 Copynumber: 3.6 Consensus size: 38
13977306 TTCTCTTACC
* *
13977316 ATTTTT-TTTTGTTTTTTTTTTAGTT-TCTTCTTTTTTATT
1 ATTTTTATTTT-TTTTGTTTTT-GTTGT-TTGTTTTTTATT
13977355 ATTATTTATTTTTTTTGTTCTTTGTTGTTT-TTTTTTATT
1 ATT-TTTATTTTTTTTGTT-TTTGTTGTTTGTTTTTTATT
*
13977394 ATTTTTTTTATGTTTTTTTGTTTTTGTTTTTTGTTTTTTATT
1 A---TTTTTAT-TTTTTTTGTTTTTGTTGTTTGTTTTTTATT
13977436 -TTTTTATTTTTTTTGTTTTT
1 ATTTTTATTTTTTTTGTTTTT
13977456 AATGAACTTC
Statistics
Matches: 90, Mismatches: 2, Indels: 20
0.80 0.02 0.18
Matches are distributed among these distances:
37 13 0.14
38 7 0.08
39 13 0.14
40 14 0.16
41 22 0.24
42 21 0.23
ACGTcount: A:0.08, C:0.02, G:0.07, T:0.83
Consensus pattern (38 bp):
ATTTTTATTTTTTTTGTTTTTGTTGTTTGTTTTTTATT
Found at i:13977544 original size:37 final size:37
Alignment explanation
Indices: 13977488--13977997 Score: 681
Period size: 37 Copynumber: 13.8 Consensus size: 37
13977478 TAATGACACT
* * **
13977488 TTTAAGAATAAACTCCTCAAAATTGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
13977525 TTAAAAAATGAACTCCTCAAAGTTGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
13977562 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACCAAAC
1 -TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
13977600 TTTTAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
13977637 TTTTAAAAATGAAATCCTCAAAGCTGAGGCAATGAAAC
1 -TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
** *
13977675 TTTAAAAATGAACTCCTCAAAATTGAGGCAACGAGAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* **
13977712 TTTTAGAAATGAACTCCTCAAAATTGAGGCAACG--A-
1 -TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
13977747 ---AAAAATGAACTCCTCAAAGCTGAGGCAACGAAAT
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
13977781 TTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
** * *
13977818 TTTTAAAAATGAACTCCTCAAAATTGAGGGAACAAAAC
1 -TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * *
13977856 TTTTAAAATGAACTCCTTAAAGATGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
13977893 TTTAAAAATGAACCCCTCAAAGCTGAGGCAACGAAAC
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * *
13977930 TTTTAAAATGAACTCCTCAAAGCTGAGGCAACAAAAT
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
13977967 TTTAAAAATGAACTCCTCAAAGCTGAGGCAA
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAA
13977998 TGAGACATTT
Statistics
Matches: 422, Mismatches: 41, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
31 27 0.06
33 1 0.00
36 1 0.00
37 259 0.61
38 134 0.32
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (37 bp):
TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
Found at i:13977579 original size:75 final size:75
Alignment explanation
Indices: 13977485--13977997 Score: 720
Period size: 75 Copynumber: 6.9 Consensus size: 75
13977475 AAGTAATGAC
* * ** * *
13977485 ACTTTTAAGAATAAACTCCTCAAAATTGAGGCAACGAAACTTAAAAAATGAACTCCTCAAAGTTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
13977550 AGGCAACGAA
66 AGGCAACGAA
* *
13977560 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACCAAACTTTTAAAATGAACTCCTCAAAGCTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
13977625 AGGCAACGAA
66 AGGCAACGAA
* * **
13977635 ACTTTTAAAAATGAAATCCTCAAAGCTGAGGCAATGAAACTTTAAAAATGAACTCCTCAAAATTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
*
13977700 AGGCAACGAG
66 AGGCAACGAA
* **
13977710 ACTTTTAGAAATGAACTCCTCAAAATTGAGGCAACG--A----AAAAATGAACTCCTCAAAGCTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
13977769 AGGCAACGAA
66 AGGCAACGAA
* **
13977779 A-TTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAATT
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCTCAAAGCT
* *
13977843 GAGGGAACAAA
65 GAGGCAACGAA
* * *
13977854 ACTTTT-AAAATGAACTCCTTAAAGATGAGGCAACGAAACTTTAAAAATGAACCCCTCAAAGCTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
13977918 AGGCAACGAA
66 AGGCAACGAA
* *
13977928 ACTTTT-AAAATGAACTCCTCAAAGCTGAGGCAACAAAATTTTAAAAATGAACTCCTCAAAGCTG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
13977992 AGGCAA
66 AGGCAA
13977998 TGAGACATTT
Statistics
Matches: 389, Mismatches: 41, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
68 32 0.08
69 30 0.08
70 1 0.00
73 1 0.00
74 95 0.24
75 226 0.58
76 4 0.01
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (75 bp):
ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTG
AGGCAACGAA
Found at i:13978355 original size:17 final size:17
Alignment explanation
Indices: 13978323--13978370 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
13978313 CTGCTTCCAT
13978323 TTCT-TTTTTTCTTTTC
1 TTCTCTTTTTTCTTTTC
*
13978339 TTAGTCTTTTTTC-TTTC
1 TT-CTCTTTTTTCTTTTC
13978356 TTCTCTTTTTT-TTTT
1 TTCTCTTTTTTCTTTT
13978371 TTTACATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (17 bp):
TTCTCTTTTTTCTTTTC
Found at i:13990040 original size:11 final size:10
Alignment explanation
Indices: 13989990--13990105 Score: 54
Period size: 10 Copynumber: 12.2 Consensus size: 10
13989980 TGCTAACACA
*
13989990 ATTATCTATT
1 ATTATTTATT
13990000 ATTATTT-TT
1 ATTATTTATT
*
13990009 CTT-TTT-TT
1 ATTATTTATT
* *
13990017 GTCATTTATT
1 ATTATTTATT
13990027 ATTATTTAATT
1 ATTATTT-ATT
*
13990038 ATTATTT-TC
1 ATTATTTATT
13990047 A-T-TTTATT
1 ATTATTTATT
*
13990055 -TTATTTTTT
1 ATTATTTATT
13990064 ATTATTGTATT
1 ATTATT-TATT
*
13990075 -TTCTATT-TT
1 ATTAT-TTATT
13990084 ATT-TCTTATT
1 ATTAT-TTATT
*
13990094 ATTATTTTTT
1 ATTATTTATT
13990104 AT
1 AT
13990106 ACTTTACATT
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.04
8 9 0.11
9 19 0.23
10 35 0.43
11 15 0.19
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTATTTATT
Found at i:13990076 original size:20 final size:19
Alignment explanation
Indices: 13990050--13990105 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
13990040 TATTTTCATT
13990050 TTATTTTATTTTTTATTAT-
1 TTATTTTATTTTTTATT-TC
* *
13990069 TGTATTTTCTATTTTATTTC
1 T-TATTTTATTTTTTATTTC
13990089 TTATTATTATTTTTTAT
1 TTATT-TTATTTTTTAT
13990106 ACTTTACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTTTATTTTTTATTTC
Found at i:13990103 original size:27 final size:27
Alignment explanation
Indices: 13990035--13990103 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
13990025 TTATTATTTA
* *
13990035 ATTATTATTTTCATTTTATTTTATTTTTT
1 ATTATTATTTT--TTCTATTTTATTTCTT
* *
13990064 ATTATTGTATTTTCTATTTTATTTCTT
1 ATTATTATTTTTTCTATTTTATTTCTT
13990091 ATTATTATTTTTT
1 ATTATTATTTTTT
13990104 ATACTTTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 25 0.74
29 9 0.26
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (27 bp):
ATTATTATTTTTTCTATTTTATTTCTT
Found at i:13990111 original size:27 final size:27
Alignment explanation
Indices: 13990035--13990111 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
13990025 TTATTATTTA
* *
13990035 ATTATTATTTTCATTTTATTTTATTTTTT
1 ATTATTATTTT--TTATATTTTATTTCTT
* * *
13990064 ATTATTGTATTTTCTATTTTATTTCTT
1 ATTATTATTTTTTATATTTTATTTCTT
*
13990091 ATTATTATTTTTTATACTTTA
1 ATTATTATTTTTTATATTTTA
13990112 CATTTTTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 31 0.77
29 9 0.22
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (27 bp):
ATTATTATTTTTTATATTTTATTTCTT
Found at i:13990496 original size:11 final size:11
Alignment explanation
Indices: 13990461--13990504 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
13990451 ACATTTAATA
13990461 AAAAATAAAAT
1 AAAAATAAAAT
13990472 AATAAATAGTAAAT
1 AA-AAATA--AAAT
13990486 AAAAATAAAAT
1 AAAAATAAAAT
*
13990497 AATAATAA
1 AAAAATAA
13990505 TATAGCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 13 0.45
12 5 0.17
13 5 0.17
14 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:13996360 original size:2 final size:2
Alignment explanation
Indices: 13996353--13996377 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13996343 CTGCATATTG
13996353 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
13996378 TTCTTAACTT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13999963 original size:52 final size:52
Alignment explanation
Indices: 13999894--13999994 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
13999884 GCCCCTACAC
*
13999894 AATTTTTACTTCCTATCTCTCCTAAATTCTCCTTAAGGTTCCTACCATAGAA
1 AATTTCTACTTCCTATCTCTCCTAAATTCTCCTTAAGGTTCCTACCATAGAA
* *
13999946 AATTTCTACTTCTTATCTCTTCTAAATTCTCCTTAAGGTTCCTACCATA
1 AATTTCTACTTCCTATCTCTCCTAAATTCTCCTTAAGGTTCCTACCATA
13999995 CATCTCCCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.05, T:0.43
Consensus pattern (52 bp):
AATTTCTACTTCCTATCTCTCCTAAATTCTCCTTAAGGTTCCTACCATAGAA
Found at i:14006076 original size:2 final size:2
Alignment explanation
Indices: 14006064--14006093 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14006054 ACCATATACC
*
14006064 AT AT AT GT 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
14006094 CAATCATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14006181 original size:42 final size:42
Alignment explanation
Indices: 14006134--14006250 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 42
14006124 CATCTCATAT
* * *
14006134 GCAACGGCTTATGCT-TACTCCCACTCGCATATAGCCGGGTTA
1 GCAACGGCTTATG-TGCACTCCCACTCGCACATAACCGGGTTA
*
14006176 GCAACGGCTTATGTGCACTCCCACTCGCACATAATCGGGTTA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAACCGGGTTA
* *
14006218 GCAACGACTTATGTGCACTCCTACTCGCACATA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATA
14006251 GTTGGGTCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.99
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAACCGGGTTA
Found at i:14015652 original size:26 final size:26
Alignment explanation
Indices: 14015596--14015654 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
14015586 GGCTGGCCAT
* *
14015596 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
14015622 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
14015648 AAGGAAA
1 AAGGAAA
14015655 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:14035350 original size:29 final size:30
Alignment explanation
Indices: 14035318--14035384 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 30
14035308 ATTTTATAGA
*
14035318 ATTATTTAACTCC-AATTTTGTTATTA-AAT
1 ATTATTTAAATCCAAATTTT-TTATTATAAT
**
14035347 ATTAGCTAAATCCTAAATTTTTTATTATAAT
1 ATTATTTAAATCC-AAATTTTTTATTATAAT
14035378 -TTATTTA
1 ATTATTTA
14035385 TTTTTAGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTATTTAAATCCAAATTTTTTATTATAAT
Found at i:14042378 original size:9 final size:9
Alignment explanation
Indices: 14042361--14042407 Score: 58
Period size: 10 Copynumber: 5.0 Consensus size: 9
14042351 GTAATAAGTT
14042361 TTAAAAAAA
1 TTAAAAAAA
14042370 TTTAAAAAAA
1 -TTAAAAAAA
*
14042380 GGTAAAAAAA
1 -TTAAAAAAA
*
14042390 TCAAAAAAA
1 TTAAAAAAA
14042399 TTAAAAAAA
1 TTAAAAAAA
14042408 GGGAGTTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:14042661 original size:3 final size:3
Alignment explanation
Indices: 14042642--14042675 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
14042632 AAACCCTCCA
14042642 CTT CTAT CTT CTT -TT CTT CTT CTT CTT CTT CTT C
1 CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT C
14042676 AGCCGCTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:14051763 original size:23 final size:23
Alignment explanation
Indices: 14051714--14051767 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
14051704 TTTATTACTT
* * * *
14051714 TATTTATATATTTTATTATTTTT
1 TATTTATTTATTTTATTAATGTA
*
14051737 TATTTATTTATTTTTTTAATGTA
1 TATTTATTTATTTTATTAATGTA
14051760 TA-TTATTT
1 TATTTATTT
14051768 TTTCGTAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TATTTATTTATTTTATTAATGTA
Found at i:14052216 original size:12 final size:12
Alignment explanation
Indices: 14052199--14052225 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14052189 TACTTTTTGT
14052199 TATATATTTATA
1 TATATATTTATA
14052211 TATATATTTATA
1 TATATATTTATA
14052223 TAT
1 TAT
14052226 GCATATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATATTTATA
Found at i:14052671 original size:12 final size:13
Alignment explanation
Indices: 14052654--14052687 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
14052644 TCCCCATTGG
14052654 TTTCTTTCTCTT-
1 TTTCTTTCTCTTC
*
14052666 TTTCTTTTTCTTC
1 TTTCTTTCTCTTC
14052679 TTTCTTTCT
1 TTTCTTTCT
14052688 TTCCTTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTCTTC
Found at i:14052700 original size:6 final size:6
Alignment explanation
Indices: 14052689--14052726 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
14052679 TTTCTTTCTT
* *
14052689 TCCTTC TCCTTC TCATTC TCATTC TCCTTC TCCTTC TC
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TC
14052727 TCTTTTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTTC
Found at i:14052779 original size:17 final size:17
Alignment explanation
Indices: 14052757--14052806 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
14052747 CATACCAGTG
14052757 TTCTTCTCTTTCTCTCT
1 TTCTTCTCTTTCTCTCT
*
14052774 TTCTTCT-TCTCTCTTCT
1 TTCTTCTCTTTCTC-TCT
14052791 TT-TT-TCTTTCTTCTCT
1 TTCTTCTCTTTC-TCTCT
14052807 CCTTCCGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.46
17 14 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTTCTCTTTCTCTCT
Found at i:14052788 original size:7 final size:7
Alignment explanation
Indices: 14052758--14052807 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
14052748 ATACCAGTGT
14052758 TCTTCTC
1 TCTTCTC
14052765 T-TTCTC
1 TCTTCTC
14052771 TCTT-TC
1 TCTTCTC
14052777 TTCTTCTC
1 -TCTTCTC
*
14052785 TCTTCTT
1 TCTTCTC
* *
14052792 TTTTCTT
1 TCTTCTC
14052799 TCTTCTC
1 TCTTCTC
14052806 TC
1 TC
14052808 CTTCCGTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 8 0.22
7 26 0.72
8 2 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (7 bp):
TCTTCTC
Found at i:14053326 original size:6 final size:6
Alignment explanation
Indices: 14053307--14053364 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
14053297 ATCCCTTCTG
* * * *
14053307 TTTT-T TTTTCT TTTTAT TTTAAT TTTTAA TTTTAT TTTT-T ATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
14053353 TATTAT TTTTAT
1 TTTTAT TTTTAT
14053365 ATTACTATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
5 8 0.19
6 34 0.81
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:14056617 original size:21 final size:21
Alignment explanation
Indices: 14056581--14056631 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14056571 ACATGTTGAG
14056581 TAGTT-AA-TTTAAGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
14056600 TAGTTAAATTTTATGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
14056621 TATTTTAAATT
1 TA-GTTAAATT
14056632 ACTTTAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (21 bp):
TAGTTAAATTTTAAGTTATTT
Found at i:14058332 original size:29 final size:28
Alignment explanation
Indices: 14058275--14058341 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 28
14058265 TGATTATTGT
*
14058275 TCACTAAGTTATATGAATTGAACAATGA
1 TCACTTAGTTATATGAATTGAACAATGA
* ** * *
14058303 TTACTTGAGTTATATGGGTTGGACATTGA
1 TCACTT-AGTTATATGAATTGAACAATGA
14058332 TCACTTAGTT
1 TCACTTAGTT
14058342 TACTACATGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (28 bp):
TCACTTAGTTATATGAATTGAACAATGA
Found at i:14082551 original size:16 final size:16
Alignment explanation
Indices: 14082530--14082566 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
14082520 ATTGGTATTT
14082530 AGACAGTGATTGCTCA
1 AGACAGTGATTGCTCA
*
14082546 AGACAGTGTTTGCTCA
1 AGACAGTGATTGCTCA
14082562 AGACA
1 AGACA
14082567 TATGACTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (16 bp):
AGACAGTGATTGCTCA
Found at i:14084270 original size:21 final size:19
Alignment explanation
Indices: 14084236--14084283 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
14084226 CTCCCTTATT
*
14084236 TTTTTAAAATATAATAATAA
1 TTTTTAAAATATAA-AAAAA
*
14084256 TTTTTAAATTAATAAAAAAA
1 TTTTTAAAAT-ATAAAAAAA
14084276 TATTTTAA
1 T-TTTTAA
14084284 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAATATAAAAAAA
Found at i:14084696 original size:72 final size:72
Alignment explanation
Indices: 14084409--14084696 Score: 468
Period size: 72 Copynumber: 4.0 Consensus size: 72
14084399 TTTTTATAAA
* *
14084409 TTTGATTTTAAACAAATTAAATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
1 TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
*
14084474 TAAAATA
66 TAAAATG
* * * *
14084481 TTTGATTTTAAACAAGTTAGATGGATTGCTGTTATCAAAATCTCTTTCTTAACATAATTGGCAGT
1 TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
14084546 TAAAATG
66 TAAAATG
* * * *
14084553 TTTGATTTTAAACAAGTTAGATGAATTGCTACTATCAAAGTTTCTTTCTTAAGATAATTGATAGT
1 TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
14084618 TAAAATG
66 TAAAATG
*
14084625 TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACATT
1 TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
14084690 TAAAATG
66 TAAAATG
14084697 ATACCATCGA
Statistics
Matches: 196, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 196 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (72 bp):
TTTGATTTTAAACAAGTTAGATGGATTGCTGCTATCAAAGTCTCTTTCTTAAGATAATTGACAGT
TAAAATG
Found at i:14085847 original size:22 final size:22
Alignment explanation
Indices: 14085822--14085882 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
14085812 CATTTTTTTG
*
14085822 TTGATGCAATATTAATTATGTA
1 TTGATGCAACATTAATTATGTA
***
14085844 TTGATATGACATTAATTATGTA
1 TTGATGCAACATTAATTATGTA
* **
14085866 CTGATGTGACATTAATT
1 TTGATGCAACATTAATT
14085883 TGACAGACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (22 bp):
TTGATGCAACATTAATTATGTA
Found at i:14087079 original size:20 final size:19
Alignment explanation
Indices: 14087054--14087101 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
14087044 GTTATCATGT
*
14087054 TAATATATTATAATTAATAA
1 TAATATAATAT-ATTAATAA
*
14087074 TAATATAATATATTAAT-T
1 TAATATAATATATTAATAA
14087092 TAATATAATA
1 TAATATAATA
14087102 ATACGATCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 6 0.23
20 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATAATATATTAATAA
Found at i:14087090 original size:23 final size:25
Alignment explanation
Indices: 14087054--14087101 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
14087044 GTTATCATGT
14087054 TAATATATTATAA-TTAATAATAATA
1 TAATATATTATAATTTAAT-ATAATA
14087079 TAATATA-T-TAATTTAATATAATA
1 TAATATATTATAATTTAATATAATA
14087102 ATACGATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 9 0.41
24 6 0.27
25 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATATATTATAATTTAATATAATA
Found at i:14087095 original size:13 final size:13
Alignment explanation
Indices: 14087053--14087103 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
14087043 TGTTATCATG
*
14087053 TTAATATATTATAA
1 TTAATATATTA-AT
14087067 TTAATA-A-TAAT
1 TTAATATATTAAT
*
14087078 ATAATATATTAAT
1 TTAATATATTAAT
*
14087091 TTAATATAATAAT
1 TTAATATATTAAT
14087104 ACGATCAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 6 0.19
12 3 0.10
13 16 0.52
14 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATATATTAAT
Found at i:14114875 original size:37 final size:37
Alignment explanation
Indices: 14114820--14114894 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
14114810 CATCATATCC
* *
14114820 TTTCAACTTTCTCCTACTGACTAACATCCAAGGGTCA
1 TTTCAACTTTCTCATACTGACTAAAATCCAAGGGTCA
14114857 TTTCAACTTTCTCATACTGACTAAAATCCAAGGGTCA
1 TTTCAACTTTCTCATACTGACTAAAATCCAAGGGTCA
14114894 T
1 T
14114895 ATGGTGAGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (37 bp):
TTTCAACTTTCTCATACTGACTAAAATCCAAGGGTCA
Found at i:14116174 original size:2 final size:2
Alignment explanation
Indices: 14116162--14116223 Score: 69
Period size: 2 Copynumber: 32.5 Consensus size: 2
14116152 AGCATGCTTC
*
14116162 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14116202 AT AA AT -T AT A- AT AT AT ANT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT A
14116224 AATTATACCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
1 4 0.08
2 46 0.88
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14116215 original size:19 final size:19
Alignment explanation
Indices: 14116168--14116230 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
14116158 CTTCATATAA
*
14116168 TATATATATATATATATAT
1 TATATATATATATATAAAT
*
14116187 ATATATATATTTTATATAAAT
1 -TATATATA-TATATATAAAT
14116208 TATA-ATATATANTATAAAT
1 TATATATATATA-TATAAAT
14116227 TATA
1 TATA
14116231 CCTTTTGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 3 0.08
19 14 0.37
20 12 0.32
21 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATATATATATATAAAT
Found at i:14116810 original size:30 final size:30
Alignment explanation
Indices: 14116770--14116827 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14116760 ACCAAACCTT
14116770 TATACTTTTATTTT-AAGCCAAATAAGCTTC
1 TATACTTTTATTTTGAA-CCAAATAAGCTTC
* *
14116800 TATATTTTTATTTTGAATCAAATAAGCT
1 TATACTTTTATTTTGAACCAAATAAGCT
14116828 CTTATGACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (30 bp):
TATACTTTTATTTTGAACCAAATAAGCTTC
Found at i:14116870 original size:29 final size:30
Alignment explanation
Indices: 14116824--14116880 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
14116814 GAATCAAATA
*
14116824 AGCTCTTATGACTAATGATTGAC-CTAATT
1 AGCTCTTATGACTAATGATCGACACTAATT
*
14116853 AGCTCTTATGACTGATGATCGACACTAA
1 AGCTCTTATGACTAATGATCGACACTAA
14116881 CGTGACATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (30 bp):
AGCTCTTATGACTAATGATCGACACTAATT
Found at i:14116937 original size:33 final size:33
Alignment explanation
Indices: 14116880--14116960 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
14116870 ATCGACACTA
* * *
14116880 ACGTGACATACTGACATATCATAATTGATGATG
1 ACGTGACATGCTAATATATCATAATTGATGATG
* * * *
14116913 ATGTGGCATGTTAATATATCATAATTGATTATG
1 ACGTGACATGCTAATATATCATAATTGATGATG
14116946 ACGTGACATGCTAAT
1 ACGTGACATGCTAAT
14116961 TTAGCATGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (33 bp):
ACGTGACATGCTAATATATCATAATTGATGATG
Found at i:14116985 original size:46 final size:46
Alignment explanation
Indices: 14116918--14117014 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
14116908 TGATGATGTG
14116918 GCATGTTAATATATCATAATTGATTATGACGTGACATGCTAATTTA
1 GCATGTTAATATATCATAATTGATTATGACGTGACATGCTAATTTA
14116964 GCATGTTAATATATCATAATTGATTATGACGTGACATGCTAATTTA
1 GCATGTTAATATATCATAATTGATTATGACGTGACATGCTAATTTA
14117010 GCATG
1 GCATG
14117015 ATAACATGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (46 bp):
GCATGTTAATATATCATAATTGATTATGACGTGACATGCTAATTTA
Found at i:14125166 original size:35 final size:35
Alignment explanation
Indices: 14125136--14125208 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
14125126 AGAGTGCGTG
*
14125136 TGATGATATTGA-AATGTGCGTGTAGGGAGTGCACA
1 TGATGATATT-ACAATGTGCATGTAGGGAGTGCACA
**
14125171 TGATGATATTACCTTGTGCATGTAGGGAGTGCACA
1 TGATGATATTACAATGTGCATGTAGGGAGTGCACA
14125206 TGA
1 TGA
14125209 GCTGAGTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (35 bp):
TGATGATATTACAATGTGCATGTAGGGAGTGCACA
Found at i:14125991 original size:19 final size:20
Alignment explanation
Indices: 14125967--14126006 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14125957 CCATTTGACT
14125967 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
14125986 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
14126006 T
1 T
14126007 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:14136306 original size:50 final size:50
Alignment explanation
Indices: 14136230--14136329 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
14136220 AACAAATTTG
14136230 CACTAAAGGGATTATACCACATGTGTCCGAATTATTTTAATCCATATAAA
1 CACTAAAGGGATTATACCACATGTGTCCGAATTATTTTAATCCATATAAA
14136280 NCACT-AAGGGATTATACCACATGTGTCCGAATTATTTTAATCCATATAAA
1 -CACTAAAGGGATTATACCACATGTGTCCGAATTATTTTAATCCATATAAA
14136330 AATTTATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 45 0.92
51 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (50 bp):
CACTAAAGGGATTATACCACATGTGTCCGAATTATTTTAATCCATATAAA
Found at i:14139066 original size:25 final size:26
Alignment explanation
Indices: 14138955--14139080 Score: 116
Period size: 26 Copynumber: 4.9 Consensus size: 26
14138945 TACGGTATTC
*
14138955 ATCCACTTCTGATGGTAAAATTATCC
1 ATCCACTTCTGATGGTAAAATTATCT
* * * *
14138981 ATCTACTT-TTAGTGGCAAAATTATCC
1 ATCCACTTCTGA-TGGTAAAATTATCT
* *
14139007 ATCCATTTCTGGTGGTAAAATTATCCT
1 ATCCACTTCTGATGGTAAAATTAT-CT
**
14139034 -TAGA-TTCTGATGGTAAAATTAT-T
1 ATCCACTTCTGATGGTAAAATTATCT
*
14139057 ATCCACTTCTGGTGGTAAAATTAT
1 ATCCACTTCTGATGGTAAAATTAT
14139081 AATTAGAATT
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 36 0.45
26 39 0.49
27 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (26 bp):
ATCCACTTCTGATGGTAAAATTATCT
Done.