Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 37 of 356
Found at i:12273646 original size:13 final size:13
Alignment explanation
Indices: 12273625--12273659 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
12273615 AAATTTTTCC
*
12273625 AAAGCACTTCTCA
1 AAAGCACTTATCA
*
12273638 AAAGTACTTATCA
1 AAAGCACTTATCA
12273651 AAAGCACTT
1 AAAGCACTT
12273660 TTTCACAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGCACTTATCA
Found at i:12275789 original size:104 final size:104
Alignment explanation
Indices: 12275609--12276033 Score: 663
Period size: 104 Copynumber: 4.1 Consensus size: 104
12275599 TGTTGTAAAT
* * *
12275609 TTAGAGGCTTCAAGATTTTCTTGTAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
12275674 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTAAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
12275713 TTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
12275778 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
12275817 TTAGAGGTTTCAAGATTTTCATGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
12275882 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * * *
12275921 TTAGAGGTTTCAAGATTTTTATGTAAATAATTAATCAAAGCTCTTACATTGTAGCAGGAGTTTGT
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
12275986 TTTTGA-TCTGTAATTTTCGCATAAACTCGAGTATTTAAC
66 TTTTGATTC-ATCATTTTCGCTTAAACTTGAGTATTTAAC
*
12276025 TTAGTGGTT
1 TTAGAGGTT
12276034 GGTGCCTGAT
Statistics
Matches: 296, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 2 0.01
104 294 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
Found at i:12278078 original size:91 final size:91
Alignment explanation
Indices: 12277940--12278147 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
12277930 TTGATTTTAG
* *
12277940 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
12278005 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
12278032 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
12278097 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
12278123 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12278148 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:12278116 original size:26 final size:28
Alignment explanation
Indices: 12278062--12278122 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12278052 TATTATCAAG
* *
12278062 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
12278090 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
12278116 AATTATA
1 AATTATA
12278123 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:12278122 original size:44 final size:43
Alignment explanation
Indices: 12277980--12278122 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
12277970 GAATTTTATG
* *
12277980 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
12278024 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
12278071 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
12278115 AAATTATA
1 AAATTATA
12278123 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:12278240 original size:59 final size:57
Alignment explanation
Indices: 12278174--12278362 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
12278164 ATTTTATTAA
12278174 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
12278233 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
12278294 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
12278353 ATCATATATT
1 ATCATATATT
12278363 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:12278271 original size:66 final size:64
Alignment explanation
Indices: 12278201--12278399 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
12278191 AAATATATTT
12278201 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
12278266 G
64 G
* * * * * **
12278267 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
12278321 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
12278386 G
64 G
*
12278387 AATATTGATTATT
1 AATATTAATTATT
12278400 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:12278287 original size:120 final size:120
Alignment explanation
Indices: 12278163--12278460 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
12278153 AATTATTTTA
* * *
12278163 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
12278227 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
12278283 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
12278348 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
12278403 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
12278461 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:12278303 original size:61 final size:61
Alignment explanation
Indices: 12278236--12278423 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
12278226 TTATAGTATC
12278236 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
12278297 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
12278355 C
61 T
*
12278356 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
12278417 ATATATT
1 ATATATT
12278424 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:12278323 original size:15 final size:15
Alignment explanation
Indices: 12278288--12278339 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12278278 TTAAGAATTT
*
12278288 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12278302 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12278316 TATTTAATAATAAT-
1 TATTTAATTATAATA
12278330 TATGTTAATT
1 TAT-TTAATT
12278340 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12278432 original size:18 final size:17
Alignment explanation
Indices: 12278404--12278438 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12278394 ATTATTAAGA
*
12278404 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12278421 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12278439 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12278668 original size:44 final size:45
Alignment explanation
Indices: 12278603--12278693 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
12278593 ACCTCTATTC
* * *
12278603 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
12278647 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
12278692 CA
1 CA
12278694 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:12278708 original size:17 final size:16
Alignment explanation
Indices: 12278674--12278726 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
12278664 GATTAGCTAT
12278674 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12278690 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
12278707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12278723 TACA
1 TACA
12278727 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12278987 original size:3 final size:3
Alignment explanation
Indices: 12278981--12279010 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12278971 ATTAGAGAGA
12278981 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
12279011 AGGGTGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:12279067 original size:27 final size:27
Alignment explanation
Indices: 12279037--12279092 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12279027 GAGAAAGAGG
12279037 GAGGAGAGAGCTTTAATTCATAATATT
1 GAGGAGAGAGCTTTAATTCATAATATT
12279064 GAGGAGAGAGCTTTAATTCATAATATT
1 GAGGAGAGAGCTTTAATTCATAATATT
12279091 GA
1 GA
12279093 TACTAGTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
GAGGAGAGAGCTTTAATTCATAATATT
Found at i:12283158 original size:46 final size:46
Alignment explanation
Indices: 12283105--12283332 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
12283095 AGTGTGCTCT
* *
12283105 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12283151 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12283197 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
12283243 ATGATATGAAATGAACAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
12283289 ATGACA-GAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12283333 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12285030 original size:19 final size:19
Alignment explanation
Indices: 12285006--12285047 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
12284996 TTACGCTTAG
12285006 TAAGTTCATATGAAAATAA
1 TAAGTTCATATGAAAATAA
12285025 TAAGTTCATATGAAAATAA
1 TAAGTTCATATGAAAATAA
12285044 TAAG
1 TAAG
12285048 CAATTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (19 bp):
TAAGTTCATATGAAAATAA
Found at i:12285966 original size:49 final size:49
Alignment explanation
Indices: 12285892--12286078 Score: 230
Period size: 49 Copynumber: 3.8 Consensus size: 49
12285882 TAGCCGAAGC
* *
12285892 TATCTGGTACGCATAGTAGCGTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
12285941 AATCTGGTACACCTAGTAGCCTGCACTTATTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
12285992 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
12286041 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACAC
12286079 CCGTGACCTC
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:12286011 original size:100 final size:100
Alignment explanation
Indices: 12285897--12286084 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
12285887 GAAGCTATCT
* *
12285897 GGTACGCATAGTAGCGTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACCTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACCTAGTAGCC
*
12285962 TGCACTTATTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
12285997 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACCTAGTAGCC
*
12286062 TGCACTTAGTACTACACCCGTGA
66 TGCACTTAGTACTACACACGTGA
12286085 CCTCACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACCTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:12289225 original size:59 final size:57
Alignment explanation
Indices: 12289060--12289226 Score: 165
Period size: 59 Copynumber: 2.9 Consensus size: 57
12289050 TTAATATAAT
**
12289060 ATTTGGTACTTAAACTTAACACTTTTTCCTAATTTGGTATTTAA-TTTTTTTTACCCA
1 ATTTGGTACTTAAACTTAACAC-TTTTCCTAATTTGGTACCTAAGTTTTTTTTACCCA
* * * * * ** * * **
12289117 AATTAGTACTTAAATTTGACAATTTTCCTAATTTGACACCTAAGCTTTTTTTGCATCTG
1 ATTTGGTACTTAAACTTAACACTTTTCCTAATTTGGTACCTAAG-TTTTTTT-TACCCA
* *
12289176 ATTTGGTATTTAAACTTAACACTTTTCCTAATTTGGTACCAAAGTTTTTTT
1 ATTTGGTACTTAAACTTAACACTTTTCCTAATTTGGTACCTAAGTTTTTTT
12289227 AGGTTCAATT
Statistics
Matches: 85, Mismatches: 22, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
56 17 0.20
57 17 0.20
58 14 0.16
59 37 0.44
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.48
Consensus pattern (57 bp):
ATTTGGTACTTAAACTTAACACTTTTCCTAATTTGGTACCTAAGTTTTTTTTACCCA
Found at i:12292591 original size:15 final size:15
Alignment explanation
Indices: 12292571--12292605 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
12292561 TCATTAATAA
12292571 TTTAAACTTGTAAAT
1 TTTAAACTTGTAAAT
12292586 TTTAAACTTGTAAAT
1 TTTAAACTTGTAAAT
12292601 TTTAA
1 TTTAA
12292606 CCCCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (15 bp):
TTTAAACTTGTAAAT
Found at i:12294858 original size:31 final size:31
Alignment explanation
Indices: 12294823--12294881 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
12294813 AAATCCAATG
12294823 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
* *
12294854 ACTTAAGTAAAAACTTTCGAATAGTTCA
1 ACTTAAATAAAAACTTTCAAATAGTTCA
12294882 ATGATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGTTCAGTA
Found at i:12295640 original size:24 final size:23
Alignment explanation
Indices: 12295597--12295644 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
12295587 ATTAAAAATT
* * *
12295597 TTATCATATTTATTATAATTTAAA
1 TTATCATAGTTA-TAAAAATTAAA
12295621 TTATCATAGTTATAAAAATTAAA
1 TTATCATAGTTATAAAAATTAAA
12295644 T
1 T
12295645 ATTCATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATCATAGTTATAAAAATTAAA
Found at i:12295826 original size:6 final size:7
Alignment explanation
Indices: 12295811--12295836 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12295801 TTTATCTCTT
12295811 AAAACAA
1 AAAACAA
12295818 AAAACAA
1 AAAACAA
12295825 AAAACAA
1 AAAACAA
12295832 AAAAC
1 AAAAC
12295837 GCAATCTTTA
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:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:12302430 original size:12 final size:12
Alignment explanation
Indices: 12302413--12302438 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12302403 ATTAATTAAA
12302413 AGTAAAATATTT
1 AGTAAAATATTT
12302425 AGTAAAATATTT
1 AGTAAAATATTT
12302437 AG
1 AG
12302439 ACAGATTACA
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:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (12 bp):
AGTAAAATATTT
Found at i:12307890 original size:23 final size:22
Alignment explanation
Indices: 12307836--12307891 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
12307826 CAAAAAAAAA
12307836 TTACTATT-TTTTTTTGTTATT
1 TTACTATTATTTTTTTGTTATT
* *
12307857 TTAATGA-TATTTTTTTTTCTATT
1 TTACT-ATTATTTTTTTGT-TATT
12307880 TTACTATTATTT
1 TTACTATTATTT
12307892 CATTATTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.18
22 10 0.36
23 13 0.46
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (22 bp):
TTACTATTATTTTTTTGTTATT
Found at i:12311972 original size:30 final size:30
Alignment explanation
Indices: 12311926--12312049 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
12311916 TTTTATTATG
*
12311926 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12311957 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12311987 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
12312017 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12312047 CCA
1 CCA
12312050 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12311981 original size:15 final size:15
Alignment explanation
Indices: 12311936--12312043 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
12311926 CCAATATCTC
12311936 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12311951 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12311966 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12311981 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12311996 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
12312011 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
12312026 GATACCCATATCTTT
1 GATACCCATATCTTT
12312041 GAT
1 GAT
12312044 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:12316662 original size:30 final size:30
Alignment explanation
Indices: 12316616--12316709 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
12316606 TTTTATTATG
*
12316616 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12316647 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
12316677 CCAATATTTGATACCCATATATTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12316707 CCA
1 CCA
12316710 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12316671 original size:15 final size:15
Alignment explanation
Indices: 12316626--12316703 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
12316616 CCAATATCTC
*
12316626 GATACCCATATCTTT
1 GATACCCATATATTT
**
12316641 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
12316656 GATACCCATATCTTT
1 GATACCCATATATTT
**
12316671 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
12316686 GATACCCATATATTT
1 GATACCCATATATTT
12316701 GAT
1 GAT
12316704 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 8 0.17
15 32 0.67
16 8 0.17
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:12326870 original size:12 final size:12
Alignment explanation
Indices: 12326853--12326878 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12326843 AAAACAGGTC
12326853 TTTAGCGGCGTT
1 TTTAGCGGCGTT
12326865 TTTAGCGGCGTT
1 TTTAGCGGCGTT
12326877 TT
1 TT
12326879 CTCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:12327006 original size:41 final size:41
Alignment explanation
Indices: 12326933--12327193 Score: 398
Period size: 41 Copynumber: 6.4 Consensus size: 41
12326923 CGTTTTACCA
** *
12326933 AAAACGCCGCT-AAAAGCAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
12326973 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
12327014 AAAGCGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
** *
12327055 AAAACGCCGCTAAAAATCGGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* ** * * *
12327096 AAAGCGCCGCTAAAAATCGGAGTATTTGGGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
12327137 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
12327178 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
12327194 ATTTAGGGTT
Statistics
Matches: 202, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
40 11 0.05
41 191 0.95
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:12327309 original size:7 final size:7
Alignment explanation
Indices: 12327299--12327325 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12327289 TATGATTTAA
12327299 GGGTTAG
1 GGGTTAG
12327306 GGGTTAG
1 GGGTTAG
12327313 GGGTTAG
1 GGGTTAG
12327320 GGGTTA
1 GGGTTA
12327326 ATACTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:12332831 original size:31 final size:31
Alignment explanation
Indices: 12332785--12332851 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
12332775 TGGTTGTATT
* *
12332785 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
12332816 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
12332847 TTTTA
1 TTTTA
12332852 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:12332952 original size:43 final size:43
Alignment explanation
Indices: 12332927--12333170 Score: 420
Period size: 43 Copynumber: 5.7 Consensus size: 43
12332917 GTAAAAAAAG
12332927 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTATCC-CAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAA
*
12332970 CGCCGCTAAAAGCCTTGACCTTTAGCCGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
* *
12333013 CGCTGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
12333056 CGCCGCTAAAAGCCTTGACCTTTAGTGGCGCTTTT-CTCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTAC-CACAAA
12333099 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
12333142 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
12333171 ATTTTTTCCC
Statistics
Matches: 190, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
42 3 0.02
43 186 0.98
44 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:12337784 original size:51 final size:51
Alignment explanation
Indices: 12337729--12337833 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
12337719 GACAGCCACT
*
12337729 TGGTCAAGAAGAAGCCGTCATGATGAGGCCTCCATGTCCTTACTTATGTCA
1 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
12337780 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
1 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
12337831 TGG
1 TGG
12337834 GTTGTGTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (51 bp):
TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
Found at i:12339385 original size:19 final size:19
Alignment explanation
Indices: 12339348--12339383 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12339338 ATTTAGTTCA
*
12339348 TTTTTATTTAATATTAAAT
1 TTTTTATTTAATATAAAAT
12339367 TTTTTATTTAAT-TAAAA
1 TTTTTATTTAATATAAAA
12339384 ATAACACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATTTAATATAAAAT
Found at i:12342960 original size:17 final size:17
Alignment explanation
Indices: 12342940--12342974 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12342930 TTATATTTTA
12342940 AAAAATCATAAAAAAAT
1 AAAAATCATAAAAAAAT
*
12342957 AAAAATTATAAAAAAAT
1 AAAAATCATAAAAAAAT
12342974 A
1 A
12342975 TAATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATCATAAAAAAAT
Found at i:12344246 original size:12 final size:13
Alignment explanation
Indices: 12344220--12344253 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
12344210 ATGCATCCAA
12344220 ATAATTAATAAAT
1 ATAATTAATAAAT
12344233 ATAATTAA-AAAT
1 ATAATTAATAAAT
12344245 ATAATTAAT
1 ATAATTAAT
12344254 TTGACTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTAATAAAT
Found at i:12346017 original size:31 final size:31
Alignment explanation
Indices: 12345980--12346186 Score: 276
Period size: 31 Copynumber: 6.7 Consensus size: 31
12345970 TTTGTACAAT
*
12345980 GTGAAAAGCGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
12346011 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
12346042 GTAAAAAGTGGTAGCTTCGGTTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
12346073 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
12346104 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
12346135 GTGAATAGTGTTAGCTTCGGCTATC-GA--A
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
12346163 TGTGAAAAGAGATAGCTTCGGCTA
1 -GTGAAAAGTGGTAGCTTCGGCTA
12346187 TCGAATGTGA
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
28 1 0.01
29 20 0.13
30 2 0.01
31 133 0.85
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:12346230 original size:29 final size:29
Alignment explanation
Indices: 12346146--12346230 Score: 152
Period size: 29 Copynumber: 2.9 Consensus size: 29
12346136 TGAATAGTGT
*
12346146 TAGCTTCGGCTATCGAATGTGAAAAGAGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
12346175 TAGCTTCGGCTATCGAATGTGAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
*
12346204 TAGCTTTGGCTATCGAATGTGAAAAGG
1 TAGCTTCGGCTATCGAATGTGAAAAGG
12346231 TTAGGTATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (29 bp):
TAGCTTCGGCTATCGAATGTGAAAAGGGA
Found at i:12346297 original size:32 final size:32
Alignment explanation
Indices: 12346223--12346327 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
12346213 CTATCGAATG
* * * *
12346223 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
12346256 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
12346288 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
12346320 TGAAAAGG
1 TGAAAAGG
12346328 AAAGGTATAC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
32 43 0.63
33 25 0.37
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:12346416 original size:33 final size:33
Alignment explanation
Indices: 12346223--12346416 Score: 207
Period size: 33 Copynumber: 5.9 Consensus size: 33
12346213 CTATCGAATG
** * *
12346223 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
** * * *
12346256 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
** * * *
12346288 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
12346320 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
12346353 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
12346386 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
12346417 CTCAGAAAGA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
32 58 0.39
33 90 0.61
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:12346445 original size:130 final size:130
Alignment explanation
Indices: 12346223--12346460 Score: 291
Period size: 130 Copynumber: 1.8 Consensus size: 130
12346213 CTATCGAATG
** * ** *
12346223 TGAAAAGGTTAGGTATACTTTGTGTATATCACATGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
* ** * * * * * *
12346288 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTATACTTTGTGTATACCATA
66 AGAAAAGGAAACGTACACCTCGAGTGTACAATTGAAAAAGAAAGGTATACTTTGTGTATACCATA
* *
12346353 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTACCAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTA-CAC
12346418 TCAG-AAA-GAAACGTACACCTCGAGTGTACAATTGAAAAAGAAA
65 T-AGAAAAGGAAACGTACACCTCGAGTGTACAATTGAAAAAGAAA
12346461 AGGTCCATCA
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
130 81 0.91
131 7 0.08
132 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (130 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
AGAAAAGGAAACGTACACCTCGAGTGTACAATTGAAAAAGAAAGGTATACTTTGTGTATACCATA
Found at i:12350907 original size:11 final size:11
Alignment explanation
Indices: 12350891--12350916 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12350881 ATACAAATAG
12350891 AAAACTGAATT
1 AAAACTGAATT
12350902 AAAACTGAATT
1 AAAACTGAATT
12350913 AAAA
1 AAAA
12350917 TAAGAGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAACTGAATT
Found at i:12354534 original size:3 final size:3
Alignment explanation
Indices: 12354520--12354606 Score: 60
Period size: 3 Copynumber: 30.0 Consensus size: 3
12354510 ATATATAAGT
* *
12354520 TAA TAA TGA TAA TAA TAA TAA TAA -AA GAA T-A TAA -AA -AA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
12354563 CTTAA TAA TAT TAA AAA TAA -AA TAA TAGG TAA TAA TAA TAA TAA
1 --TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
12354607 GGGTAAATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
2 12 0.18
3 50 0.75
4 2 0.03
5 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:12354750 original size:3 final size:3
Alignment explanation
Indices: 12354744--12354816 Score: 55
Period size: 3 Copynumber: 23.7 Consensus size: 3
12354734 GTAATAGTGG
*
12354744 TAA TAA T-A TAA TAA TGA TAGCA TGAA TAA TATA TACA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA TA--A T-AA TAA TA-A TA-A TAA TAA TAA
12354788 TAA TAAA TAA TAA TAA T-A TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
12354817 TTAAAATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
2 7 0.12
3 40 0.68
4 9 0.15
5 2 0.03
6 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:12354824 original size:11 final size:11
Alignment explanation
Indices: 12354710--12354817 Score: 75
Period size: 11 Copynumber: 10.0 Consensus size: 11
12354700 TAATGATAGC
12354710 AATAATAATACT
1 AATAATAATA-T
12354722 AAT-ATAATA-
1 AATAATAATAT
*
12354731 AAT-GTAATAGT
1 AATAATAATA-T
**
12354742 GGTAATAATAT
1 AATAATAATAT
* *
12354753 AATAATGATAG
1 AATAATAATAT
*
12354764 CATGAATAATAT
1 AAT-AATAATAT
*
12354776 -ATACA-AAAAT
1 AATA-ATAATAT
12354786 AATAATAA-AT
1 AATAATAATAT
12354796 AATAATAATAT
1 AATAATAATAT
12354807 AATAATAATAT
1 AATAATAATAT
12354818 TAAAATACAA
Statistics
Matches: 76, Mismatches: 12, Indels: 17
0.72 0.11 0.16
Matches are distributed among these distances:
9 8 0.11
10 16 0.21
11 38 0.50
12 14 0.18
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (11 bp):
AATAATAATAT
Found at i:12354824 original size:14 final size:14
Alignment explanation
Indices: 12354768--12354856 Score: 56
Period size: 14 Copynumber: 6.1 Consensus size: 14
12354758 TGATAGCATG
12354768 AATAATATATACAAA-
1 AATAATAT-TA-AAAT
*
12354783 AATAATAAT-AAAT
1 AATAATATTAAAAT
* *
12354796 AATAATAATATAAT
1 AATAATATTAAAAT
12354810 AATAATATTAAAAT
1 AATAATATTAAAAT
* * *
12354824 ACAAAAGCTACTATAAT
1 A-ATAA--TATTAAAAT
*
12354841 AAAAATATTAAAAT
1 AATAATATTAAAAT
12354855 AA
1 AA
12354857 AGTAATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
12 3 0.05
13 9 0.15
14 26 0.43
15 10 0.17
16 4 0.07
17 8 0.13
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (14 bp):
AATAATATTAAAAT
Found at i:12355095 original size:23 final size:23
Alignment explanation
Indices: 12354948--12355111 Score: 81
Period size: 23 Copynumber: 7.0 Consensus size: 23
12354938 ATAATTAGTA
* * *
12354948 ATAATAATATATACACAATATGGT
1 ATAAAAATATATACATAATAT-AT
* *
12354972 ATTAAATATATATATATAATAGTAT
1 A-TAAAAATATATACATAATA-TAT
* * *
12354997 TTAAGAATATATACATAAGATGAT
1 ATAAAAATATATACATAATAT-AT
* *
12355021 AT-AAAGTACATACATGGAATAGTAT
1 ATAAAAATATATACAT--AATA-TAT
* *
12355046 A-AGAAATATATA-ACTAATGACAT
1 ATAAAAATATATACA-TAAT-ATAT
12355069 -TAAAAATATATACATAATATAT
1 ATAAAAATATATACATAATATAT
*
12355091 AT-AAAATACAT--ATAATATAT
1 ATAAAAATATATACATAATATAT
12355111 A
1 A
12355112 CAAATATTAG
Statistics
Matches: 106, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
20 10 0.09
22 11 0.10
23 31 0.29
24 22 0.21
25 30 0.28
26 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
ATAAAAATATATACATAATATAT
Found at i:12355101 original size:18 final size:19
Alignment explanation
Indices: 12355078--12355117 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
12355068 TTAAAAATAT
12355078 ATACATA-ATATATATA-AA
1 ATACATATA-ATATATACAA
12355096 ATACATATAATATATACAA
1 ATACATATAATATATACAA
12355115 ATA
1 ATA
12355118 TTAGAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACATATAATATATACAA
Found at i:12358644 original size:29 final size:29
Alignment explanation
Indices: 12358612--12358673 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
12358602 AAAATAGTAT
12358612 ATATTATTT-TATTT-ATATGATATTTTATC
1 ATATTATTTATATTTCAT-T-ATATTTTATC
*
12358641 ATATTATTTATATTTCATTATATTTTATT
1 ATATTATTTATATTTCATTATATTTTATC
12358670 ATAT
1 ATAT
12358674 ATTATTCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 22 0.73
30 6 0.20
31 2 0.07
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (29 bp):
ATATTATTTATATTTCATTATATTTTATC
Found at i:12358678 original size:10 final size:10
Alignment explanation
Indices: 12358609--12358679 Score: 60
Period size: 10 Copynumber: 7.1 Consensus size: 10
12358599 AAAAAAATAG
12358609 TATATATTAT
1 TATATATTAT
*
12358619 TTTAT-TTA-
1 TATATATTAT
12358627 TATGATATT-T
1 TAT-ATATTAT
12358637 TATCATATTAT
1 TAT-ATATTAT
12358648 T-TATATTTCAT
1 TATATA-TT-AT
*
12358659 TATATTTTAT
1 TATATATTAT
12358669 TATATATTAT
1 TATATATTAT
12358679 T
1 T
12358680 CCCTATATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 2 0.04
9 8 0.16
10 29 0.59
11 7 0.14
12 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TATATATTAT
Found at i:12358711 original size:7 final size:7
Alignment explanation
Indices: 12358697--12358732 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
12358687 TTATCTTCCT
12358697 TTTATTA
1 TTTATTA
*
12358704 TATATTA
1 TTTATTA
12358711 TTTCATTA
1 TTT-ATTA
12358719 TTTATTA
1 TTTATTA
12358726 TTTATTA
1 TTTATTA
12358733 GTATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:12361115 original size:18 final size:17
Alignment explanation
Indices: 12361074--12361120 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
12361064 TTACAAGCCC
* *
12361074 AAACCATAGGCCCAAAT
1 AAACCCTAGACCCAAAT
*
12361091 TAACCCTAGACCCAAACT
1 AAACCCTAGACCCAAA-T
12361109 AAACCCTA-ACCC
1 AAACCCTAGACCC
12361121 TCAATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.43, C:0.38, G:0.06, T:0.13
Consensus pattern (17 bp):
AAACCCTAGACCCAAAT
Found at i:12365002 original size:50 final size:52
Alignment explanation
Indices: 12364898--12365003 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 52
12364888 TTATTTTCTC
*
12364898 CTAGTTTCTTTTTTAATATAATTTTTTTATTTTATAACTATTAAATCAGTTAAA
1 CTAGTTTCTTTTTTAATATAA--TTTTTATTTTATAACCATTAAATCAGTTAAA
12364952 CTAGTTTCTTTTTTAATATAA-TTTT-TTTTATAACCATTAAATCAGTTAAA
1 CTAGTTTCTTTTTTAATATAATTTTTATTTTATAACCATTAAATCAGTTAAA
12365002 CT
1 CT
12365004 GAAAATTCTA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
50 26 0.51
51 4 0.08
54 21 0.41
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (52 bp):
CTAGTTTCTTTTTTAATATAATTTTTATTTTATAACCATTAAATCAGTTAAA
Found at i:12373839 original size:6 final size:6
Alignment explanation
Indices: 12373805--12373835 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12373795 GGGAACGGAA
*
12373805 GTTAGG GTTAGG GTTAGG GTTAGG GCTAGG G
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
12373836 CTAGCTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.03, G:0.52, T:0.29
Consensus pattern (6 bp):
GTTAGG
Found at i:12384385 original size:14 final size:15
Alignment explanation
Indices: 12384366--12384394 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12384356 GTCGATACCA
12384366 TTTTTTTATA-TAAT
1 TTTTTTTATACTAAT
12384380 TTTTTTTATACTAAT
1 TTTTTTTATACTAAT
12384395 ACATTGATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTTATACTAAT
Found at i:12384620 original size:21 final size:19
Alignment explanation
Indices: 12384596--12384642 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
12384586 TTTTTAAAAA
*
12384596 ATAATATTAGTTTTAATATAT
1 ATAATATTAATTTT--TATAT
*
12384617 ATAATAATAATTTTTATAT
1 ATAATATTAATTTTTATAT
12384636 -TAATATT
1 ATAATATT
12384643 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 5 0.22
21 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAATATTAATTTTTATAT
Found at i:12385384 original size:21 final size:20
Alignment explanation
Indices: 12385351--12385402 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
12385341 TTTTAAACTT
12385351 TTTTTTACTTTTT-TGACTTTA
1 TTTTTTA-TTTTTGTGA-TTTA
*
12385372 TTTTTTATGTTTTGTTATTTA
1 TTTTTTAT-TTTTGTGATTTA
12385393 TTTATTTATT
1 TTT-TTTATT
12385403 ATTATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 19 0.70
22 7 0.26
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (20 bp):
TTTTTTATTTTTGTGATTTA
Found at i:12385506 original size:21 final size:21
Alignment explanation
Indices: 12385475--12385542 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
12385465 ATATTTTGAA
12385475 ATTACTTTTTTAAATATTAAAT
1 ATTA-TTTTTTAAATATTAAAT
12385497 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
*
12385518 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTT-A-AATATTAAAT
12385540 ATT
1 ATT
12385543 TAAATATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
20 8 0.19
21 19 0.45
22 14 0.33
23 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:12385613 original size:25 final size:26
Alignment explanation
Indices: 12385584--12385633 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
12385574 TTTTATAATA
12385584 TTTTA-AATATTA-TTTAATTTGTTAG
1 TTTTATAAT-TTATTTTAATTTGTTAG
12385609 TTTTATAATTTATTTTAATTTGTTA
1 TTTTATAATTTATTTTAATTTGTTA
12385634 TTAACCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTTATAATTTATTTTAATTTGTTAG
Found at i:12385788 original size:14 final size:15
Alignment explanation
Indices: 12385765--12385797 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
12385755 ATGTTTTGTC
12385765 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
12385780 TTTTA-TTTTATTTA
1 TTTTATTTTTATTTA
12385794 TTTT
1 TTTT
12385798 TTATGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:12386158 original size:19 final size:19
Alignment explanation
Indices: 12386134--12386172 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12386124 AAGTATGCAT
*
12386134 TATTAAA-ATTAAATTAAAA
1 TATTAAATAATAAA-TAAAA
12386153 TATTAAATAATAAATAAAA
1 TATTAAATAATAAATAAAA
12386172 T
1 T
12386173 TATAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTAAATAATAAATAAAA
Found at i:12386184 original size:20 final size:20
Alignment explanation
Indices: 12386143--12386189 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
12386133 TTATTAAAAT
* *
12386143 TAAATTAAAATATTAAATAA
1 TAAATTAAAATATAAAACAA
12386163 TAAA-TAAAATTATAAAACAA
1 TAAATTAAAA-TATAAAACAA
*
12386183 TATATTA
1 TAAATTA
12386190 TTTAGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATTAAAATATAAAACAA
Found at i:12386486 original size:214 final size:206
Alignment explanation
Indices: 12386117--12386565 Score: 747
Period size: 214 Copynumber: 2.1 Consensus size: 206
12386107 CCTACTGCTG
*
12386117 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAATAAATAAAATTATAAAACA
1 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
*
12386182 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATGCATATTTTATTAGGTATAAGTATTTA
66 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
12386247 AATTTTTATTTTTGTAATGTGATACATGCCTAAATCCATATATATATATAATCATATTAG-TGAA
131 AATTTTTATTTTTGTAATGTGATACATG--T--AT--A-A-ATATATATAATCATATT-GTTGAA
12386311 TCTACTAATACATACTTCAT
187 TCTACTAATACATACTTCAT
12386331 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
1 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
* * *
12386396 ATATGTTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTA
66 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
* *
12386461 AATTTTTGTTTTTGTAATGTGATACATGTGTAAATATATATAATCATATTGTTGAATCTACTAAT
131 AATTTTTATTTTTGTAATGTGATACATGTATAAATATATATAATCATATTGTTGAATCTACTAAT
12386526 ACATACTTCAT
196 ACATACTTCAT
12386537 CCGGATAAAGTATGCATTATTAAAATTAA
1 CCGGATAAAGTATGCATTATTAAAATTAA
12386566 TGGTTTGTTT
Statistics
Matches: 227, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
205 1 0.00
206 70 0.31
207 1 0.00
208 1 0.00
210 1 0.00
212 1 0.00
214 152 0.67
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (206 bp):
CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
AATTTTTATTTTTGTAATGTGATACATGTATAAATATATATAATCATATTGTTGAATCTACTAAT
ACATACTTCAT
Found at i:12388129 original size:93 final size:93
Alignment explanation
Indices: 12387970--12388141 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
12387960 CGCCCATAAG
* * *
12387970 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12388035 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
12388063 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12388128 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
12388142 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:12388138 original size:46 final size:46
Alignment explanation
Indices: 12387963--12388138 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
12387953 TGTAACCCGC
* * * *
12387963 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
12388009 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
12388059 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
12388102 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
12388139 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:12390508 original size:15 final size:15
Alignment explanation
Indices: 12390484--12390531 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12390474 AGGAAACCGA
12390484 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
12390499 ATAGAGAAAT-CTAG
1 ATAAAGAAATCCAAG
*
12390513 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
12390529 ATA
1 ATA
12390532 CGATACTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12390838 original size:10 final size:10
Alignment explanation
Indices: 12390823--12390868 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
12390813 AATCATAATT
12390823 TAAAATATTA
1 TAAAATATTA
12390833 TAAAATAAATTA
1 TAAAAT--ATTA
12390845 -AATAATATT-
1 TAA-AATATTA
12390854 TAAAATATTA
1 TAAAATATTA
12390864 TAAAA
1 TAAAA
12390869 CTAATAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 16 0.52
11 2 0.06
12 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATTA
Found at i:12390941 original size:21 final size:21
Alignment explanation
Indices: 12390901--12390967 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
12390891 AAAATATTTA
*
12390901 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
12390924 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
* *
12390944 AATATTTAAAATTTAAAAAGT
1 AATATTTAATATTTAAAAAAT
12390965 AAT
1 AAT
12390968 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.22
21 22 0.55
22 9 0.22
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:12390974 original size:20 final size:19
Alignment explanation
Indices: 12390915--12390975 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 19
12390905 TTTTATATTA
*
12390915 TTAAAAAATATATTTAATAT
1 TTAAAAAATA-ATTTAAAAT
12390935 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-A-ATTTAAAAT
*
12390956 TTAAAAAGTAATTTCAAAAT
1 TTAAAAAATAATTT-AAAAT
12390976 ATATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.11
20 15 0.41
21 18 0.49
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAAAATAATTTAAAAT
Found at i:12391049 original size:13 final size:14
Alignment explanation
Indices: 12391031--12391073 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
12391021 AGTTGATAAT
12391031 AATAAATAAA-ATA
1 AATAAATAAACATA
12391044 AATAAATAAACATA
1 AATAAATAAACATA
*
12391058 AA-AAACAAAACATA
1 AATAAA-TAAACATA
12391072 AA
1 AA
12391074 AAAAAGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (14 bp):
AATAAATAAACATA
Found at i:12391646 original size:20 final size:22
Alignment explanation
Indices: 12391623--12391664 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
12391613 TTTTATTAAT
12391623 ATATTAAAG-AAA-ATATTTTA
1 ATATTAAAGTAAAGATATTTTA
12391643 ATATTAAAGTAAAGATATTTTA
1 ATATTAAAGTAAAGATATTTTA
12391665 CCCAAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
ATATTAAAGTAAAGATATTTTA
Found at i:12391646 original size:22 final size:23
Alignment explanation
Indices: 12391618--12391664 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 23
12391608 AAATATTTTA
12391618 TTAATATATTAAAG-AAA-ATATT
1 TTAA-ATATTAAAGTAAAGATATT
12391640 TT-AATATTAAAGTAAAGATATT
1 TTAAATATTAAAGTAAAGATATT
12391662 TTA
1 TTA
12391665 CCCAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
TTAAATATTAAAGTAAAGATATT
Found at i:12391655 original size:25 final size:25
Alignment explanation
Indices: 12391608--12391657 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12391598 AAAAATTTTG
* * *
12391608 AAATATTTTATTAATATATTAAAGA
1 AAATATTTTAATAATAAAGTAAAGA
*
12391633 AAATATTTTAATATTAAAGTAAAGA
1 AAATATTTTAATAATAAAGTAAAGA
12391658 TATTTTACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATATTTTAATAATAAAGTAAAGA
Found at i:12392038 original size:20 final size:21
Alignment explanation
Indices: 12392015--12392063 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
12392005 TTTTATATTA
*
12392015 TTAAAAAAT-ATATTCAATAT
1 TTAAAAAATCATATTCAAAAT
* *
12392035 TTAAAAAATCATTTTTAAAAT
1 TTAAAAAATCATATTCAAAAT
12392056 TTAAAAAA
1 TTAAAAAA
12392064 ATCTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATCATATTCAAAAT
Found at i:12392084 original size:26 final size:25
Alignment explanation
Indices: 12392054--12392126 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
12392044 CATTTTTAAA
12392054 ATTTAAAAAAATCTAAAAATATATAT
1 ATTTAAAAAAAT-TAAAAATATATAT
*
12392080 ATTT--AAAATTTAAAAATATA-AT
1 ATTTAAAAAAATTAAAAATATATAT
* *
12392102 ATTATAAAACAATT-CAAATATATAT
1 ATT-TAAAAAAATTAAAAATATATAT
12392127 TTCAAGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 5 0.13
23 11 0.28
24 12 0.31
25 7 0.18
26 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTTAAAAAAATTAAAAATATATAT
Found at i:12392093 original size:23 final size:23
Alignment explanation
Indices: 12392061--12392110 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12392051 AAAATTTAAA
12392061 AAAATCTAAAAATATATATATT-T
1 AAAATCTAAAAATATA-ATATTAT
*
12392084 AAAATTTAAAAATATAATATTAT
1 AAAATCTAAAAATATAATATTAT
12392107 AAAA
1 AAAA
12392111 CAATTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATCTAAAAATATAATATTAT
Found at i:12392171 original size:10 final size:9
Alignment explanation
Indices: 12392151--12392212 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
12392141 AATTAATCAT
12392151 AAAAAATAA
1 AAAAAATAA
*
12392160 ATAAAATAA
1 AAAAAATAA
*
12392169 AATAAATAA
1 AAAAAATAA
*
12392178 ATAAAGATAA
1 A-AAAAATAA
12392188 AAAAACATAA
1 AAAAA-ATAA
*
12392198 AAAAATTAA
1 AAAAAATAA
12392207 AAAAAA
1 AAAAAA
12392213 AAGAAACGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 27 0.63
10 16 0.37
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAAATAA
Found at i:12392175 original size:18 final size:18
Alignment explanation
Indices: 12392151--12392212 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
12392141 AATTAATCAT
12392151 AAAAAATAAATAAAATAA
1 AAAAAATAAATAAAATAA
*
12392169 AATAAATAAATAAAGATAA
1 AAAAAATAAATAAA-ATAA
12392188 AAAAACATAAA-AAAATTAA
1 AAAAA-ATAAATAAAA-TAA
12392207 AAAAAA
1 AAAAAA
12392213 AAGAAACGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 15 0.38
19 19 0.49
20 5 0.13
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAATAAATAAAATAA
Found at i:12404341 original size:26 final size:26
Alignment explanation
Indices: 12404301--12404351 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
12404291 CATGCATAAA
* *
12404301 TTAGGCTTAGTACTTAACTTGGGCTG
1 TTAGGCTTAGCACTTAACTTCGGCTG
*
12404327 TTAGGCTTAGCACTTGACTTCGGCT
1 TTAGGCTTAGCACTTAACTTCGGCT
12404352 TGTAACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (26 bp):
TTAGGCTTAGCACTTAACTTCGGCTG
Found at i:12404565 original size:11 final size:12
Alignment explanation
Indices: 12404536--12404568 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
12404526 GACCCGCTCG
12404536 TATTAATTTTTA
1 TATTAATTTTTA
12404548 TATTAATTTTTA
1 TATTAATTTTTA
12404560 TA-TAATTTT
1 TATTAATTTT
12404569 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:12421109 original size:44 final size:44
Alignment explanation
Indices: 12420977--12421462 Score: 458
Period size: 44 Copynumber: 11.0 Consensus size: 44
12420967 TTCTCAATCC
* * * * *
12420977 ACTTCCTACCAATATAGGAAGGCAGGATCCGCTATCTTCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * * **
12421021 ACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCT
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
*** * * *
12421066 ACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* *
12421110 ACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC-GTCGATCC
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTG-CGATCT
* * * * *
12421154 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * * * *
12421198 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * *
12421242 ACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCC
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * * * *
12421286 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * * * *
12421330 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * *
12421374 ACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCC
1 ACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
* * * * *
12421418 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCT
1 ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
12421462 A
1 A
12421463 TAAAATCAAT
Statistics
Matches: 351, Mismatches: 82, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
43 70 0.20
44 180 0.51
45 101 0.29
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
ACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTGCGATCT
Found at i:12421183 original size:132 final size:132
Alignment explanation
Indices: 12420984--12421462 Score: 805
Period size: 132 Copynumber: 3.6 Consensus size: 132
12420974 TCCACTTCCT
* * * * * * * * * *
12420984 ACCAATATAGGAAGGCAGGATCCGCTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
1 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGA
* * * *
12421049 TCTACTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT
64 TCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT
12421114 CGCC
129 CGCC
*
12421118 ACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
12421183 TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
66 TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
12421248 CC
131 CC
12421250 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
12421315 TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
66 TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
12421380 CC
131 CC
12421382 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
12421447 TGCTACCTTCGATCTA
66 TGCTACCTTCGATCTA
12421463 TAAAATCAAT
Statistics
Matches: 329, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
132 294 0.89
133 14 0.04
134 21 0.06
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
CC
Found at i:12442701 original size:24 final size:24
Alignment explanation
Indices: 12442669--12442716 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12442659 TATGATTTTA
*
12442669 CAATAATTTTAAAATAAAATAAAC
1 CAATAATTTAAAAATAAAATAAAC
* *
12442693 CAATAATTTAAAAATTAGATAAAC
1 CAATAATTTAAAAATAAAATAAAC
12442717 TGTATTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (24 bp):
CAATAATTTAAAAATAAAATAAAC
Found at i:12444225 original size:16 final size:16
Alignment explanation
Indices: 12444196--12444229 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12444186 ACTATACTAT
*
12444196 TAAATGTAAAATATTA
1 TAAATCTAAAATATTA
*
12444212 TAAATCTAACATATTA
1 TAAATCTAAAATATTA
12444228 TA
1 TA
12444230 CTACATATAA
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:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATCTAAAATATTA
Found at i:12451170 original size:17 final size:17
Alignment explanation
Indices: 12451122--12451171 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
12451112 TTGTTTTACT
12451122 AAAAA-TAATTTTTTAA
1 AAAAATTAATTTTTTAA
*
12451138 AAATAATTTATTTTTTAA
1 AAA-AATTAATTTTTTAA
12451156 AAAAATTAATATTTTT
1 AAAAATTAAT-TTTTT
12451172 TGTATTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 18 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTAATTTTTTAA
Found at i:12451494 original size:9 final size:9
Alignment explanation
Indices: 12451480--12451507 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12451470 CTTAATTTAA
12451480 ATTACATAT
1 ATTACATAT
12451489 ATTACATAT
1 ATTACATAT
12451498 ATTACATAT
1 ATTACATAT
12451507 A
1 A
12451508 AGAAAGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTACATAT
Found at i:12453684 original size:19 final size:19
Alignment explanation
Indices: 12453646--12453691 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12453636 TTAATTTAAA
* *
12453646 ATTTTTAATTTTTTTTATAT
1 ATTTTT-ATATTTTTAATAT
12453666 ATTTTTATATTTTTAATAT
1 ATTTTTATATTTTTAATAT
*
12453685 TTTTTTA
1 ATTTTTA
12453692 ATAAGATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTATATTTTTAATAT
Found at i:12453692 original size:11 final size:11
Alignment explanation
Indices: 12453647--12453694 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
12453637 TAATTTAAAA
12453647 TTTTTAAT-TT
1 TTTTTAATATT
*
12453657 TTTTT-ATATA
1 TTTTTAATATT
12453667 TTTTT-ATA--
1 TTTTTAATATT
12453675 TTTTTAATATT
1 TTTTTAATATT
12453686 TTTTTAATA
1 TTTTTAATA
12453695 AGATCAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
8 5 0.15
9 5 0.15
10 14 0.42
11 9 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:12454629 original size:24 final size:23
Alignment explanation
Indices: 12454590--12454634 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12454580 ATACAATACC
*
12454590 AATTAACAAACTAATAATTAACA
1 AATTAACAAACCAATAATTAACA
12454613 AATTAACAAAACCAATAATTAA
1 AATTAAC-AAACCAATAATTAA
12454635 GTATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
AATTAACAAACCAATAATTAACA
Found at i:12456973 original size:14 final size:15
Alignment explanation
Indices: 12456949--12456977 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12456939 AATGGTTACC
12456949 AAAATTATAATTAAA
1 AAAATTATAATTAAA
12456964 AAAATT-TAATTAAA
1 AAAATTATAATTAAA
12456978 CGTACTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTATAATTAAA
Found at i:12466047 original size:5 final size:5
Alignment explanation
Indices: 12466037--12466064 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12466027 GAAAGACCAT
12466037 AAGCC AAGCC AAGCC AAGCC AAGCC AAG
1 AAGCC AAGCC AAGCC AAGCC AAGCC AAG
12466065 GCGGAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.36, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGCC
Found at i:12473180 original size:23 final size:22
Alignment explanation
Indices: 12473129--12473180 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
12473119 CCTCGTCTTT
*
12473129 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
12473151 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
12473174 TTCTTTT
1 TTCTTTT
12473181 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:12479962 original size:6 final size:6
Alignment explanation
Indices: 12479951--12479982 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12479941 CTTCCTCTCA
12479951 ACAGCC ACAGCC ACAGCC ACAGCC ACAGCC AC
1 ACAGCC ACAGCC ACAGCC ACAGCC ACAGCC AC
12479983 CGGTCAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACAGCC
Found at i:12489117 original size:26 final size:26
Alignment explanation
Indices: 12489066--12489116 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
12489056 GGCATTAAGG
*
12489066 GTTTTCTTTAAAAAGAAAGAACAAAA
1 GTTTTCTTTAAAAAGAAAGAAAAAAA
*
12489092 GTTTTCTTT-AAAAGCAAGAAAAAAA
1 GTTTTCTTTAAAAAGAAAGAAAAAAA
12489117 AAGGGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (26 bp):
GTTTTCTTTAAAAAGAAAGAAAAAAA
Found at i:12490346 original size:40 final size:38
Alignment explanation
Indices: 12490257--12490372 Score: 128
Period size: 38 Copynumber: 3.0 Consensus size: 38
12490247 CTTTGAGATT
* *
12490257 TAGTGGCATTAGCGGCGT-TTTTAAAAAAACACCGCTAA
1 TAGTGGCATTAGCGGC-TCTTTTTAAAAAACGCCGCTAA
12490295 TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCG-TAA
1 TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
* * * *
12490332 TAGATTGAGTATTAGCGGCGCTTTTTGATAAACGCCGCTAA
1 TAG--TG-GCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
12490373 AGCTCGATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
37 7 0.10
38 30 0.45
39 2 0.03
40 25 0.37
41 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (38 bp):
TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
Found at i:12490922 original size:22 final size:21
Alignment explanation
Indices: 12490877--12490946 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
12490867 CTATAGGCCT
12490877 TAAATT-TCAAAC-CTTAAACTA
1 TAAATTCT-AAACTCTTAAAC-A
12490898 TAAATTCTAAACTCTTAAATCA
1 TAAATTCTAAACTCTTAAA-CA
** * *
12490920 TAAACCCTAAAATCTTAAAAA
1 TAAATTCTAAACTCTTAAACA
12490941 TAAATT
1 TAAATT
12490947 TTAATATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 15 0.38
22 24 0.60
23 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATTCTAAACTCTTAAACA
Found at i:12491374 original size:34 final size:35
Alignment explanation
Indices: 12491324--12491416 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 35
12491314 ATTTAAGTTC
*
12491324 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTTTAT
1 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTAT
* **
12491359 AAGGTTTAAGG-ATTGGGTATT-GGGTTTAGTCTAT
1 AAGGTTTAGGGTATTGGGT-TTAGAATTTAGTCTAT
*
12491393 AGGGTTTAGGGTATTGGGGTTTAG
1 AAGGTTTAGGGTATT-GGGTTTAG
12491417 TGTATTGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 26 0.54
35 17 0.35
36 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (35 bp):
AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTAT
Found at i:12491414 original size:15 final size:15
Alignment explanation
Indices: 12491373--12491424 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
12491363 TTTAAGGATT
12491373 GGGTATT-GGGTTTA
1 GGGTATTGGGGTTTA
** *
12491387 GTCTA-TAGGGTTTA
1 GGGTATTGGGGTTTA
12491401 GGGTATTGGGGTTTA
1 GGGTATTGGGGTTTA
*
12491416 GTGTATTGG
1 GGGTATTGG
12491425 TTTTGGGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 16 0.53
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.42
Consensus pattern (15 bp):
GGGTATTGGGGTTTA
Found at i:12491857 original size:84 final size:84
Alignment explanation
Indices: 12491756--12491935 Score: 270
Period size: 84 Copynumber: 2.1 Consensus size: 84
12491746 GGTAGTGGAT
* * * * *
12491756 TTAGTGGCGCTATCTTATAAACGCCACTAATAATATGAAAAATCGAATGAAAACTACATCGTTTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
* *
12491821 ATGTGGCGCGGTTTAGGAA
66 ATGTGGCACGATTTAGGAA
* * *
12491840 TTAGTGGCGCTACCTTATAAATGCCACTAAGAATATGAGAAACCGAATGAAAAATACGTCATTTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
12491905 ATGTGGCACGATTTAGGAA
66 ATGTGGCACGATTTAGGAA
12491924 TTAGTGGCGCTA
1 TTAGTGGCGCTA
12491936 TCCTAAAAAC
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (84 bp):
TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
ATGTGGCACGATTTAGGAA
Found at i:12492124 original size:14 final size:13
Alignment explanation
Indices: 12492100--12492141 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
12492090 TTTCCCCAAT
12492100 TTAGGTTTAGGGA
1 TTAGGTTTAGGGA
12492113 TTAGGATTTAGGGA
1 TTAGG-TTTAGGGA
*
12492127 TTGGGTATT-GGGA
1 TTAGGT-TTAGGGA
12492140 TT
1 TT
12492142 TGTTTATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (13 bp):
TTAGGTTTAGGGA
Found at i:12493426 original size:41 final size:41
Alignment explanation
Indices: 12493380--12493463 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
12493370 TTGAGAATGT
12493380 TTATGAGCTATTATCTGATGTCGGTGGTAAAAATAATTTTA
1 TTATGAGCTATTATCTGATGTCGGTGGTAAAAATAATTTTA
12493421 TTATGAGCTATTATCTGATGTCGGTGGTAAAAATAATTTTA
1 TTATGAGCTATTATCTGATGTCGGTGGTAAAAATAATTTTA
12493462 TT
1 TT
12493464 TATAAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (41 bp):
TTATGAGCTATTATCTGATGTCGGTGGTAAAAATAATTTTA
Found at i:12495419 original size:9 final size:9
Alignment explanation
Indices: 12495396--12495471 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
12495386 ATTGAATATT
*
12495396 ACTTAAATA
1 ACTTACATA
*
12495405 AATTACATA
1 ACTTACATA
12495414 ACTTACATA
1 ACTTACATA
* *
12495423 ACTCATATA
1 ACTTACATA
12495432 ACTTACATA
1 ACTTACATA
*
12495441 ATTTACATAACA
1 ACTTACAT---A
12495453 ACTTACATA
1 ACTTACATA
*
12495462 ACTCACATA
1 ACTTACATA
12495471 A
1 A
12495472 TTTCCTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 46 0.85
12 8 0.15
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:12495457 original size:21 final size:21
Alignment explanation
Indices: 12495413--12495471 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
12495403 TAAATTACAT
*
12495413 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
12495431 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
12495452 AACTTACATAACTCACATAA
1 AACTTACATAACTCACATAA
12495472 TTTCCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.35
20 3 0.09
21 19 0.56
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:12500087 original size:14 final size:15
Alignment explanation
Indices: 12500068--12500100 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12500058 GAGAGACCAT
12500068 AAAAGAAT-TTTGAA
1 AAAAGAATATTTGAA
*
12500082 AAAAGAATATTTTAA
1 AAAAGAATATTTGAA
12500097 AAAA
1 AAAA
12500101 CCCATAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGAATATTTGAA
Found at i:12502958 original size:15 final size:13
Alignment explanation
Indices: 12502942--12502994 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
12502932 ATGAATATAT
12502942 TAATACATAATAAA
1 TAATA-ATAATAAA
* *
12502956 TTATTAAAAATATAA
1 -TAATAATAATA-AA
12502971 TAATAATAAT-AA
1 TAATAATAATAAA
12502983 TAATAATAATAA
1 TAATAATAATAA
12502995 TAGAGTGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 12 0.38
13 1 0.03
14 13 0.41
15 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:12502973 original size:3 final size:3
Alignment explanation
Indices: 12502967--12502996 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12502957 TATTAAAAAT
12502967 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12502997 GAGTGGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12507957 original size:10 final size:10
Alignment explanation
Indices: 12507944--12507968 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12507934 CAGCTTGTTG
12507944 TTACTTGCAT
1 TTACTTGCAT
12507954 TTACTTGCAT
1 TTACTTGCAT
12507964 TTACT
1 TTACT
12507969 ATTTCATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (10 bp):
TTACTTGCAT
Found at i:12513690 original size:19 final size:19
Alignment explanation
Indices: 12513666--12513710 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
12513656 ATCCAAACAC
12513666 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
12513685 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
12513704 CTAGAAA
1 C-AGAAA
12513711 TCATTTTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTT
Found at i:12513964 original size:21 final size:19
Alignment explanation
Indices: 12513924--12513964 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12513914 ATAATTTAAG
*
12513924 ATTATAAAATATTGTAATT
1 ATTATAAAATATTATAATT
12513943 ATTATCAAAATATATATAATT
1 ATTAT-AAAATAT-TATAATT
12513964 A
1 A
12513965 ATTTCTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTATAAAATATTATAATT
Found at i:12514512 original size:21 final size:21
Alignment explanation
Indices: 12514486--12514538 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12514476 TATCATTGGT
* *
12514486 TTTAATCTCACTATTGCAATA
1 TTTAATCTCACTAATACAATA
*
12514507 TTTAATCTCATTAATACAATA
1 TTTAATCTCACTAATACAATA
*
12514528 ATTAATCTCAC
1 TTTAATCTCAC
12514539 AACCATCACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTAATCTCACTAATACAATA
Found at i:12514846 original size:24 final size:26
Alignment explanation
Indices: 12514819--12514883 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
12514809 CAATGTATTC
* *
12514819 TTTGA-ATTTGAATTGTTTT-TCTAA
1 TTTGATATTTAAATTCTTTTATCTAA
12514843 TTTGATATTTAAATTCTTTTATCTAA
1 TTTGATATTTAAATTCTTTTATCTAA
* * *
12514869 ATTGTTCTTTAAATT
1 TTTGATATTTAAATT
12514884 TATGTTCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 5 0.15
25 12 0.35
26 17 0.50
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTGATATTTAAATTCTTTTATCTAA
Found at i:12516298 original size:4 final size:4
Alignment explanation
Indices: 12516282--12516324 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
12516272 AACAAAAAAA
*
12516282 TTCT TTAT TTCT TTCT TTCT TT-T TTCT TT-T TTCT TT-T TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
12516325 TTTGGCTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 9 0.26
4 25 0.74
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (4 bp):
TTCT
Found at i:12516309 original size:7 final size:7
Alignment explanation
Indices: 12516282--12516327 Score: 74
Period size: 7 Copynumber: 6.3 Consensus size: 7
12516272 AACAAAAAAA
12516282 TTCTTTAT
1 TTCTTT-T
12516290 TTCTTTCT
1 TTCTTT-T
12516298 TTCTTTT
1 TTCTTTT
12516305 TTCTTTT
1 TTCTTTT
12516312 TTCTTTT
1 TTCTTTT
12516319 TTCTTTT
1 TTCTTTT
12516326 TT
1 TT
12516328 GGCTTTCTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 24 0.65
8 13 0.35
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (7 bp):
TTCTTTT
Found at i:12519194 original size:13 final size:14
Alignment explanation
Indices: 12519178--12519213 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
12519168 CAATCTCATA
12519178 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
12519191 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
12519204 TCTC-ATTTCA
1 TCTCAATTTCA
12519214 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:12519203 original size:18 final size:19
Alignment explanation
Indices: 12519165--12519205 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
12519155 TGGTTCATGT
12519165 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
12519184 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
12519202 TTTC
1 TTTC
12519206 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:12519861 original size:15 final size:15
Alignment explanation
Indices: 12519841--12519887 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
12519831 TAATATATAT
12519841 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
12519856 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
12519871 TTCAATCAATATAAA
1 TTCAATCAATATAAA
12519886 TT
1 TT
12519888 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:12520862 original size:31 final size:32
Alignment explanation
Indices: 12520804--12520867 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
12520794 CATACATTTG
* *
12520804 TCATAATTTAATATATTTTTTATATAAAAATC
1 TCATAATATAATATATTTATTATATAAAAATC
*
12520836 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTATATAAAAATC
12520867 T
1 T
12520868 TATTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (32 bp):
TCATAATATAATATATTTATTATATAAAAATC
Done.