Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 61 of 175
Found at i:17910014 original size:24 final size:24
Alignment explanation
Indices: 17909987--17910038 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
17909977 GGCGGTTGTT
17909987 CTTCCTCTGGTGGTGATTGTGGTC
1 CTTCCTCTGGTGGTGATTGTGGTC
* *
17910011 CTTCCTCTGGTGGTGGTTGTGGTT
1 CTTCCTCTGGTGGTGATTGTGGTC
17910035 CTTC
1 CTTC
17910039 TGGTTCCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.02, C:0.21, G:0.33, T:0.44
Consensus pattern (24 bp):
CTTCCTCTGGTGGTGATTGTGGTC
Found at i:17910338 original size:18 final size:18
Alignment explanation
Indices: 17910294--17910339 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
17910284 TATTCGGAAA
* *
17910294 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
17910312 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
17910330 AGGAAACATA
1 AGGATACATA
17910340 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:17910994 original size:7 final size:7
Alignment explanation
Indices: 17910984--17911015 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
17910974 TTATATACAT
17910984 AATACTA
1 AATACTA
17910991 AATACTA
1 AATACTA
17910998 AATACTA
1 AATACTA
17911005 AATACTA
1 AATACTA
17911012 AATA
1 AATA
17911016 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:17912148 original size:30 final size:31
Alignment explanation
Indices: 17912095--17912158 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
17912085 GCCATTGATG
17912095 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
*
17912126 AAAATATAAAAAAA-TTATAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
17912156 AAA
1 AAA
17912159 TGGATTTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:17912192 original size:21 final size:22
Alignment explanation
Indices: 17912164--17912213 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
17912154 AAAAATGGAT
17912164 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17912186 TT-AGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17912207 TTGAGAG
1 TTGAGAG
17912214 GATTAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:17912357 original size:30 final size:31
Alignment explanation
Indices: 17912304--17912367 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
17912294 GCCATTGATG
17912304 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
*
17912335 AAAATATAAAAAAA-TTATAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
17912365 AAA
1 AAA
17912368 TGGATTTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:17912401 original size:21 final size:22
Alignment explanation
Indices: 17912373--17912422 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
17912363 AAAAATGGAT
17912373 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17912395 TT-AGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17912416 TTGAGAG
1 TTGAGAG
17912423 GATTAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:17912429 original size:209 final size:209
Alignment explanation
Indices: 17912069--17912488 Score: 840
Period size: 209 Copynumber: 2.0 Consensus size: 209
17912059 TGCTATCAAG
17912069 ATGAGTCAATGATCCGGCCATTGATGAAAATATAAAAAAATTTAAAATTATTTTAAAAAAATATA
1 ATGAGTCAATGATCCGGCCATTGATGAAAATATAAAAAAATTTAAAATTATTTTAAAAAAATATA
17912134 AAAAAATTATAATTATTTTAAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAGAGAATTTTG
66 AAAAAATTATAATTATTTTAAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAGAGAATTTTG
17912199 GAAGGAAATTGAGAGGATTAGAGAGGAAAAATTAGATAGGATTTGTTTGTGAAAAAAATAAAGGG
131 GAAGGAAATTGAGAGGATTAGAGAGGAAAAATTAGATAGGATTTGTTTGTGAAAAAAATAAAGGG
17912264 GTGGGGGTATTTAT
196 GTGGGGGTATTTAT
17912278 ATGAGTCAATGATCCGGCCATTGATGAAAATATAAAAAAATTTAAAATTATTTTAAAAAAATATA
1 ATGAGTCAATGATCCGGCCATTGATGAAAATATAAAAAAATTTAAAATTATTTTAAAAAAATATA
17912343 AAAAAATTATAATTATTTTAAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAGAGAATTTTG
66 AAAAAATTATAATTATTTTAAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAGAGAATTTTG
17912408 GAAGGAAATTGAGAGGATTAGAGAGGAAAAATTAGATAGGATTTGTTTGTGAAAAAAATAAAGGG
131 GAAGGAAATTGAGAGGATTAGAGAGGAAAAATTAGATAGGATTTGTTTGTGAAAAAAATAAAGGG
17912473 GTGGGGGTATTTAT
196 GTGGGGGTATTTAT
17912487 AT
1 AT
17912489 ATATATATTT
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 211 1.00
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (209 bp):
ATGAGTCAATGATCCGGCCATTGATGAAAATATAAAAAAATTTAAAATTATTTTAAAAAAATATA
AAAAAATTATAATTATTTTAAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAGAGAATTTTG
GAAGGAAATTGAGAGGATTAGAGAGGAAAAATTAGATAGGATTTGTTTGTGAAAAAAATAAAGGG
GTGGGGGTATTTAT
Found at i:17930345 original size:11 final size:11
Alignment explanation
Indices: 17930329--17930355 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17930319 TAGAAATTAG
17930329 TTTGTGAAACT
1 TTTGTGAAACT
17930340 TTTGTGAAACT
1 TTTGTGAAACT
17930351 TTTGT
1 TTTGT
17930356 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:17931908 original size:91 final size:91
Alignment explanation
Indices: 17931761--17931968 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
17931751 TTGATTTTAG
* *
17931761 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
17931826 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
17931853 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
17931918 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
17931944 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
17931969 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:17931937 original size:26 final size:28
Alignment explanation
Indices: 17931883--17931943 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
17931873 TATTATCAAG
* *
17931883 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
17931911 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
17931937 AATTATA
1 AATTATA
17931944 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:17931943 original size:44 final size:43
Alignment explanation
Indices: 17931801--17931943 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
17931791 GAATTTTATG
* *
17931801 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
17931845 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
17931892 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
17931936 AAATTATA
1 AAATTATA
17931944 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:17932013 original size:28 final size:25
Alignment explanation
Indices: 17931958--17932035 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 25
17931948 TTCATATAAG
*
17931958 AAAATTTATTAGTTATAATTATTTT
1 AAAATTTATTAATTATAATTATTTT
17931983 AAAATTTATTAAATTATATATT-TTAATT
1 AAAATTTATT-AATTATA-ATTATT--TT
*
17932011 AAAATATATTTAA-TATTAATTATTT
1 AAAATTTA-TTAATTA-TAATTATTT
17932036 CAAATTATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
25 10 0.23
26 9 0.20
27 8 0.18
28 15 0.34
29 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AAAATTTATTAATTATAATTATTTT
Found at i:17932061 original size:59 final size:58
Alignment explanation
Indices: 17931998--17932423 Score: 213
Period size: 66 Copynumber: 7.1 Consensus size: 58
17931988 TTATTAAATT
*
17931998 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGTATC
* * ** *
17932057 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA--AT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAGTAT
*
17932117 T
58 C
* *
17932118 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTACAGTGTC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGTATC
* ** *
17932177 ATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA--AT
1 ATATATTTTAA-TT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAGTAT
*
17932237 T
58 C
* *
17932238 ATATATTTTAATTAAAATATGTTTAATAATAATTATGTT-AAATTATCTTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAAATTATCTTTTA-AGTATC
* * ** * *
17932297 ATATATTATGATTTGAGTAAATTCATATAAGAATTTTAATTA-TTAAGAATT-T-TATTAA--AT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAGTAT
*
17932357 T
58 C
* * *
17932358 ATATATTTTAATTATAATATATTTAATAATT-ATTATGTT-AATTTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAAT-ATTAATTAT-TTAAAATTATCTTTTA-AGTATC
17932417 ATATATT
1 ATATATT
17932424 ATGATTTGAG
Statistics
Matches: 274, Mismatches: 47, Indels: 92
0.66 0.11 0.22
Matches are distributed among these distances:
54 39 0.14
55 21 0.08
56 19 0.07
57 11 0.04
59 39 0.14
60 20 0.07
61 32 0.12
63 12 0.04
64 17 0.06
65 21 0.08
66 43 0.16
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTAAGTATC
Found at i:17932111 original size:120 final size:120
Alignment explanation
Indices: 17931987--17932521 Score: 905
Period size: 120 Copynumber: 4.5 Consensus size: 120
17931977 TATTTTAAAA
17931987 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTAT
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTT-AAATTATCTTTTAT
17932051 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
65 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
*
17932107 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTAC
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTT-AAATTATCTTTTAT
* *
17932171 AGTGTCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
65 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* *
17932227 TTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTAAATTATCTTTTATA
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAATTATCTTTTATA
*
17932292 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATTTTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* * *
17932347 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATGTTAATTTATATTTTAT
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATGTTAAATTATCTTTTAT
*
17932411 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
65 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* *
17932467 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATG-TTAAAT
17932522 ATGATTAAAT
Statistics
Matches: 393, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.01
120 382 0.97
121 9 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAATTATCTTTTATA
GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
Found at i:17932133 original size:18 final size:17
Alignment explanation
Indices: 17932105--17932139 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17932095 ATTATTAAGA
*
17932105 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17932122 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17932140 TTAATATTAA
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:17932499 original size:16 final size:16
Alignment explanation
Indices: 17932478--17932519 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17932468 TTATTAAATT
*
17932478 ATATATTTTAATTATA
1 ATATATTTTAATAATA
17932494 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
17932509 AT-TATGTTTAA
1 ATATAT-TTTAA
17932520 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:17932504 original size:15 final size:15
Alignment explanation
Indices: 17932469--17932510 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17932459 TTAAGAATTT
*
17932469 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17932483 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17932497 TATTTAATAATAAT
1 TATTTAATTATAAT
17932511 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17933226 original size:21 final size:21
Alignment explanation
Indices: 17933200--17933244 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
17933190 CTAATGAAAT
17933200 CCATTTTCTTCAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
*
17933221 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
17933242 CCA
1 CCA
17933245 ACCAAACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (21 bp):
CCATTTTCTTCAGTTTTCTCA
Found at i:17934743 original size:19 final size:19
Alignment explanation
Indices: 17934720--17934770 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
17934710 ATTATTTTAA
*
17934720 AATTTTAATATTAAAATTT-
1 AATTTTAATAAT-AAATTTG
*
17934739 TATTTTAATAATAAATTTG
1 AATTTTAATAATAAATTTG
17934758 AATTTTAATAATA
1 AATTTTAATAATA
17934771 TTATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTAATAATAAATTTG
Found at i:17935975 original size:3 final size:3
Alignment explanation
Indices: 17935967--17935998 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17935957 TAGCTGGGTG
*
17935967 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
17935999 GAAACCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17938375 original size:17 final size:17
Alignment explanation
Indices: 17938320--17938380 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 17
17938310 ACTTAATCAC
*
17938320 TTTAATATTAAAT-TAA
1 TTTAATATTAAATAAAA
* *
17938336 TATAATATT-TATAAAGA
1 TTTAATATTAAATAAA-A
*
17938353 -TAAATATTAAATAAAA
1 TTTAATATTAAATAAAA
17938369 TTTAATATTAAA
1 TTTAATATTAAA
17938381 ATTTATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.47
17 16 0.47
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAATATTAAATAAAA
Found at i:17938390 original size:59 final size:59
Alignment explanation
Indices: 17938325--17938440 Score: 164
Period size: 59 Copynumber: 1.9 Consensus size: 59
17938315 ATCACTTTAA
* *
17938325 TATTAAATTAATATAATATTTA-TA-AAGATAAATATTAAATAAAATTTAATATTAAAATT
1 TATTAAATTAATAGAATATTTATTACAAGATAAACATTAAATAAAA-TTAA-ATTAAAATT
*
17938384 TATTAAATTAATAGAATATTTATTTACAAGATAAACATTAAATTAAATTAAATTAAA
1 TATTAAATTAATAGAATATTTA-TTACAAGATAAACATTAAATAAAATTAAATTAAA
17938441 TATTAAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
59 21 0.41
60 6 0.12
61 6 0.12
62 18 0.35
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATTACAAGATAAACATTAAATAAAATTAAATTAAAATT
Found at i:17946604 original size:13 final size:13
Alignment explanation
Indices: 17946586--17946610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17946576 GGGTGTGTGG
17946586 GACCACATGGGCA
1 GACCACATGGGCA
17946599 GACCACATGGGC
1 GACCACATGGGC
17946611 GTGTGAGCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.32, T:0.08
Consensus pattern (13 bp):
GACCACATGGGCA
Found at i:17950671 original size:22 final size:21
Alignment explanation
Indices: 17950646--17950742 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 21
17950636 TGCACTTCTA
*
17950646 TGCCTACTACTTTGCACTATGG
1 TGCCTACTAATTTGCACT-TGG
*
17950668 TGCCTAATAATTTGCACTATGG
1 TGCCTACTAATTTGCACT-TGG
* ** *
17950690 TGCTTACTGCTTTGCACTTCAG
1 TGCCTACTAATTTGCACTT-GG
*
17950712 TGCCTACAAATTTGCACCTTGG
1 TGCCTACTAATTTGCA-CTTGG
17950734 TGCCTACTA
1 TGCCTACTA
17950743 TTCAACACTT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.02
22 56 0.93
23 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (21 bp):
TGCCTACTAATTTGCACTTGG
Found at i:17950703 original size:44 final size:44
Alignment explanation
Indices: 17950646--17950742 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
17950636 TGCACTTCTA
*
17950646 TGCCTACTACTTTGCACTAT-GGTGCCTA-ATAATTTGCA-CTATGG
1 TGCCTACTACTTTGCACT-TCAGTGCCTACA-AATTTGCACCT-TGG
* *
17950690 TGCTTACTGCTTTGCACTTCAGTGCCTACAAATTTGCACCTTGG
1 TGCCTACTACTTTGCACTTCAGTGCCTACAAATTTGCACCTTGG
17950734 TGCCTACTA
1 TGCCTACTA
17950743 TTCAACACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 41 0.91
45 3 0.07
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (44 bp):
TGCCTACTACTTTGCACTTCAGTGCCTACAAATTTGCACCTTGG
Found at i:17950759 original size:22 final size:23
Alignment explanation
Indices: 17950733--17950784 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
17950723 TTGCACCTTG
*
17950733 GTGCCTACTATTCAA-CACTTC-
1 GTGCCTACTATTAAAGCACTTCA
17950754 GATGCCTACTATTAAAGCACTTCA
1 G-TGCCTACTATTAAAGCACTTCA
17950778 GTGCCTA
1 GTGCCTA
17950785 TTGGTGTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 13 0.48
23 12 0.44
24 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (23 bp):
GTGCCTACTATTAAAGCACTTCA
Found at i:17956624 original size:16 final size:16
Alignment explanation
Indices: 17956603--17956634 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17956593 TAATTGGTTG
*
17956603 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
17956619 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
17956635 GATTAATTGA
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:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:17957013 original size:19 final size:20
Alignment explanation
Indices: 17956990--17957037 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
17956980 TATAGATACA
* *
17956990 AATTTATTTTATTTTATTTT
1 AATTTATTTCATTTGATTTT
17957010 -ATTTA-TTCATTTGATTTT
1 AATTTATTTCATTTGATTTT
17957028 AATTTATTTC
1 AATTTATTTC
17957038 TAATTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.46
19 10 0.42
20 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
AATTTATTTCATTTGATTTT
Found at i:17960104 original size:37 final size:37
Alignment explanation
Indices: 17960054--17960132 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17960044 TTATTACGAA
* * *
17960054 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
17960091 GTCTTACCCGGACAAAATCCCCACCCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17960128 GTCTT
1 GTCTT
17960133 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17960329 original size:47 final size:47
Alignment explanation
Indices: 17960251--17960721 Score: 755
Period size: 47 Copynumber: 9.9 Consensus size: 47
17960241 CCCTTCGGGA
* * * * * *
17960251 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17960298 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17960345 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17960392 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17960439 CTTATCACATATATACAC-TTCTGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTC-ACATTCATCACATCGGCCATTAGGC
* *
17960486 CTTACCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17960533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17960580 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17960627 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17960676 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
17960722 CACTTTCACA
Statistics
Matches: 397, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
46 3 0.01
47 310 0.78
48 3 0.01
49 81 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17960412 original size:94 final size:94
Alignment explanation
Indices: 17960251--17960990 Score: 877
Period size: 94 Copynumber: 8.0 Consensus size: 94
17960241 CCCTTCGGGA
* * * * * * * *
17960251 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17960316 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
17960345 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
17960410 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
17960439 CTTATCACATATATACAC-TTCTGCATTCATCACATCGGCCATTAGGCCTTACCACATATATACA
1 CTTATCACATATATACACTTTC-ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
17960503 CCTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
17960533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17960598 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
17960627 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
17960692 ACACTTTCACATTCATCACATCGGCCATTA--C
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
** * * *
17960723 ACTT-TCAC--AT-T-CA---TCACA-TCGGC-CATTAGGCC-TTATCGCATATAT-ACACT-T-
1 -CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTA-GGCCT-TATCACA-TATA
* * * *
17960774 T-CACATTCATCA--CATCGGCCATTAGGCC-TTA-TC
61 TACACTTTCA-CATTCATC--ACA-TCGGCCATTAGGC
17960807 GC--AT---ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
17960867 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17960899 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCGCATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
17960964 ACTTTCACATTCATCACATCGGCCATT
64 ACTTTCACATTCATCACATCGGCCATT
17960991 CATCGGCCAT
Statistics
Matches: 560, Mismatches: 42, Indels: 86
0.81 0.06 0.12
Matches are distributed among these distances:
81 4 0.01
82 9 0.02
83 10 0.02
84 11 0.02
85 6 0.01
86 13 0.02
87 16 0.03
88 13 0.02
89 6 0.01
90 9 0.02
91 10 0.02
92 10 0.02
93 9 0.02
94 262 0.47
95 3 0.01
96 128 0.23
97 3 0.01
98 38 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:17960726 original size:29 final size:29
Alignment explanation
Indices: 17960691--17960750 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17960681 CACATATATA
17960691 TACACTTTCACATTCATCACATCGGCCAT
1 TACACTTTCACATTCATCACATCGGCCAT
17960720 TACACTTTCACATTCATCACATCGGCCAT
1 TACACTTTCACATTCATCACATCGGCCAT
17960749 TA
1 TA
17960751 GGCCTTATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.32
Consensus pattern (29 bp):
TACACTTTCACATTCATCACATCGGCCAT
Found at i:17960834 original size:49 final size:49
Alignment explanation
Indices: 17960720--17960990 Score: 496
Period size: 49 Copynumber: 5.6 Consensus size: 49
17960710 CATCGGCCAT
17960720 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGC--ATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
17960767 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
*
17960816 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
17960865 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGC--ATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
*
17960912 TACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCGCATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
17960961 TACACTTTCACATTCATCACATCGGCCATT
1 TACACTTTCACATTCATCACATCGGCCATT
17960991 CATCGGCCAT
Statistics
Matches: 217, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
47 88 0.41
49 129 0.59
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (49 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATA
Found at i:17960911 original size:96 final size:97
Alignment explanation
Indices: 17960720--17960990 Score: 494
Period size: 96 Copynumber: 2.8 Consensus size: 97
17960710 CATCGGCCAT
17960720 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGC--ATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCA
17960783 TCACATCGGCCATTAGGCCTTATCGCATATATA
66 TCACATCGGCCATTAGGCCTTATCGCA-ATATA
*
17960816 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCA
17960881 TCACATCGGCCATTAGGCCTTATCGC-ATATA
66 TCACATCGGCCATTAGGCCTTATCGCAATATA
*
17960912 TACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCGCATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCA
17960977 TCACATCGGCCATT
66 TCACATCGGCCATT
17960991 CATCGGCCAT
Statistics
Matches: 170, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
96 123 0.72
98 47 0.28
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (97 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCGCAATATA
Found at i:17960983 original size:145 final size:145
Alignment explanation
Indices: 17960720--17960990 Score: 533
Period size: 145 Copynumber: 1.9 Consensus size: 145
17960710 CATCGGCCAT
17960720 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATC
*
17960785 ACATCGGCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACATCGGCCATTAGGCCTCATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17960850 CTTATCACATATATA
131 CTTATCACATATATA
17960865 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATC
17960930 ACATCGGCCATTAGGCCTCATCGCATATATATACACTTTCACATTCATCACATCGGCCATT
66 ACATCGGCCATTAGGCCTCATCGCATATATATACACTTTCACATTCATCACATCGGCCATT
17960991 CATCGGCCAT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (145 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTCATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATA
Found at i:17964522 original size:28 final size:29
Alignment explanation
Indices: 17964491--17964567 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
17964481 AAAAATAAAA
17964491 ATTTACCAAAATAT-TACAAATTTTTT-TT
1 ATTTACCAAAATATATA-AAATTTTTTATT
*
17964519 ATTTACCAAAATATATAAACTTTTTTATT
1 ATTTACCAAAATATATAAAATTTTTTATT
17964548 ATTTACCAAAATATATAAAA
1 ATTTACCAAAATATATAAAA
17964568 AAACACAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTACCAAAATATATAAAATTTTTTATT
Found at i:17964670 original size:27 final size:27
Alignment explanation
Indices: 17964640--17964706 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
17964630 CGCCAATGGT
17964640 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
17964667 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
17964694 ATTGGCGGCACCA
1 ATTGGCGGCACCA
17964707 GTTGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:17964778 original size:22 final size:23
Alignment explanation
Indices: 17964753--17964884 Score: 126
Period size: 22 Copynumber: 5.6 Consensus size: 23
17964743 AGAAAAAAAG
17964753 GAAAGAAAGAAAGGAG-AGGAAA
1 GAAAGAAAGAAAGGAGAAGGAAA
17964775 GAAAGAAAGAAAGGAG-AGGAAA
1 GAAAGAAAGAAAGGAGAAGGAAA
*
17964797 GAAAGAAAGGAGAGGAGAAGAGAAA
1 GAAAGAAA-GAAAGGAGAAG-GAAA
* *
17964822 -AAAGGAAAGAAAGAAGAAGAAAA
1 GAAA-GAAAGAAAGGAGAAGGAAA
** *
17964845 GGAGAAGAGAAGAAAAAAGAAAGAAA
1 -GA-AAGA-AAGAAAGGAGAAGGAAA
*
17964871 GAAGGAAAGAAAGG
1 GAAAGAAAGAAAGG
17964885 GAAAGGAGAA
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
22 30 0.33
23 16 0.17
24 17 0.18
25 13 0.14
26 16 0.17
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (23 bp):
GAAAGAAAGAAAGGAGAAGGAAA
Found at i:17964797 original size:40 final size:40
Alignment explanation
Indices: 17964751--17964909 Score: 166
Period size: 40 Copynumber: 3.9 Consensus size: 40
17964741 AGAGAAAAAA
*
17964751 AGGAAAGAAAGAAAGGAGAGGA-AAGAAAGAAAGAAAGGAG
1 AGGAAAGAAAGAAAGGAGAAGAGAAGAAA-AAAGAAAGGAG
* *
17964791 AGGAAAGAAAGAAAGGAGAGGAGAAG-AGAAA-AAAGGA-
1 AGGAAAGAAAGAAAGGAGAAGAGAAGAAAAAAGAAAGGAG
* *
17964828 AAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAAGAAAGAAAG
1 AGGAAAG-A-AAG-AAAGGAGAAGAGAAGAAAAAAGAAAG-GAG
17964872 AAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAAAAAGAAA
1 -AGGAAAGAAA--GAAAGGAGAAGAGAAGAAAAAAGAAA
17964910 AAGAAGAGGG
Statistics
Matches: 102, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
37 6 0.06
38 7 0.07
39 6 0.06
40 37 0.36
41 7 0.07
42 4 0.04
43 13 0.13
44 15 0.15
45 7 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (40 bp):
AGGAAAGAAAGAAAGGAGAAGAGAAGAAAAAAGAAAGGAG
Found at i:17964877 original size:49 final size:43
Alignment explanation
Indices: 17964750--17964927 Score: 155
Period size: 40 Copynumber: 4.3 Consensus size: 43
17964740 AAGAGAAAAA
*
17964750 AAGGAAAGAAA--GAAAGGAG-AG-G-AAAGAAAGAAAGAAAGG
1 AAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAGAAAGAAA-G
* * *
17964789 AGAGGAAAGAAA--GAAAGGAGAGGAGAAGAGAAAA-AAGGAAAG
1 A-AGGAAAGAAAGGGAAAGGAGAAGAGAA-AAAAAAGAAAGAAAG
* *
17964831 AAAG-AAG-AA-GAAAAGGAGAAGAGAAGAAAAAAGAAAGAAAG
1 AAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAAAAAGAAAGAAAG
*
17964872 AAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAGAAAAAGAAG
1 AAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAGAAAGA-AAG
*
17964916 -AGGGAAGAAAGG
1 AAGGAAAGAAAGG
17964928 AAAAAAAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
39 3 0.03
40 40 0.35
41 13 0.11
42 6 0.05
43 31 0.27
44 22 0.19
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (43 bp):
AAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
Found at i:17964888 original size:22 final size:20
Alignment explanation
Indices: 17964750--17964883 Score: 104
Period size: 18 Copynumber: 6.6 Consensus size: 20
17964740 AAGAGAAAAA
*
17964750 AAGGAAAGAAAGAAAG-GAG
1 AAGGAAAGAAAGAAAGAAAG
17964769 -AGGAAAGAAAGAAAGAAAGG
1 AAGGAAAGAAAGAAAGAAA-G
17964789 AGAGGAAAGAAAGAAAGGAGAGGAG
1 A-AGGAAAGAAAGAAA-GA-A--AG
17964814 AAGAGAAA-AAAGGAAAGAAAG
1 AAG-GAAAGAAA-GAAAGAAAG
*
17964835 AA-G-AAGAAA-AGGAGAAGAG
1 AAGGAAAGAAAGA-AAGAA-AG
17964854 AA-GAAA-AAAGAAAGAAAG
1 AAGGAAAGAAAGAAAGAAAG
17964872 AAGGAAAGAAAG
1 AAGGAAAGAAAG
17964884 GGAAAGGAGA
Statistics
Matches: 95, Mismatches: 3, Indels: 33
0.73 0.02 0.25
Matches are distributed among these distances:
17 1 0.01
18 25 0.26
19 21 0.22
20 8 0.08
21 4 0.04
22 14 0.15
23 3 0.03
24 8 0.08
25 10 0.11
26 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGGAAAGAAAGAAAGAAAG
Found at i:17964900 original size:22 final size:21
Alignment explanation
Indices: 17964753--17964930 Score: 103
Period size: 22 Copynumber: 8.6 Consensus size: 21
17964743 AGAAAAAAAG
*
17964753 GAAAGAAA-GAAAGGAGAGGAAA
1 GAAAGAAAGGAAAGGAGA--AGA
*
17964775 GAAAGAAA-GAAAGGAGAGGAAA
1 GAAAGAAAGGAAAGGAGA--AGA
*
17964797 GAAAGAAAGGAGAGGAGAAGA
1 GAAAGAAAGGAAAGGAGAAGA
17964818 GAAA-AAAGGAAA-GA-AAGA
1 GAAAGAAAGGAAAGGAGAAGA
17964836 -AGAAGAAAAGGAGAA-GAG-A-A
1 GA-AAG-AAAGGA-AAGGAGAAGA
*
17964856 GAAA-AAA-GAAAGAAAGAAG-
1 GAAAGAAAGGAAAG-GAGAAGA
17964875 GAAAGAAAGGGAAAGGAGAAGA
1 GAAAGAAA-GGAAAGGAGAAGA
* * *
17964897 GAAAAAAAAGAAA-AAGAAGA
1 GAAAGAAAGGAAAGGAGAAGA
*
17964917 GGGAAGAAAGGAAA
1 -GAAAGAAAGGAAA
17964931 AAAAGGGAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 33
0.75 0.06 0.19
Matches are distributed among these distances:
16 2 0.02
17 3 0.02
18 11 0.09
19 7 0.05
20 25 0.19
21 31 0.24
22 42 0.33
23 8 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGGAAAGGAGAAGA
Found at i:17964912 original size:23 final size:23
Alignment explanation
Indices: 17964820--17964912 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 23
17964810 GGAGAAGAGA
* *
17964820 AAAAAGGA-AAGA-AAGAAGAAG
1 AAAAAGGAGAAGAGAAAAAAAAG
17964841 -AAAAGGAGAAGAGAAGAAAAAAG
1 AAAAAGGAGAAGAGAA-AAAAAAG
*
17964864 AAAGAA--AGAAG-G-AAAGAAAG
1 AAA-AAGGAGAAGAGAAAAAAAAG
**
17964884 GGAAAGGAGAAGAGAAAAAAAAG
1 AAAAAGGAGAAGAGAAAAAAAAG
17964907 AAAAAG
1 AAAAAG
17964913 AAGAGGGAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
19 2 0.04
20 14 0.25
21 10 0.18
22 4 0.07
23 21 0.38
24 2 0.04
25 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAAAGGAGAAGAGAAAAAAAAG
Found at i:17964971 original size:19 final size:19
Alignment explanation
Indices: 17964947--17964984 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17964937 GAAAAAAGGT
17964947 AATTTTATTTATAA-ATTTG
1 AATTTT-TTTATAATATTTG
*
17964966 AATTTTTTTGTAATATTTG
1 AATTTTTTTATAATATTTG
17964985 TGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTTTTTATAATATTTG
Found at i:17967122 original size:13 final size:13
Alignment explanation
Indices: 17967104--17967133 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
17967094 AATAAAAATT
17967104 GTCATTATTTGTA
1 GTCATTATTTGTA
17967117 GTCATTATTTGTA
1 GTCATTATTTGTA
17967130 GTCA
1 GTCA
17967134 GAATGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (13 bp):
GTCATTATTTGTA
Found at i:17969321 original size:3 final size:3
Alignment explanation
Indices: 17969313--17969347 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17969303 TCTTCATACT
17969313 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
17969348 TAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17969447 original size:19 final size:21
Alignment explanation
Indices: 17969423--17969461 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17969413 ACTACAACAA
*
17969423 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
17969442 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
17969462 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:17969542 original size:26 final size:24
Alignment explanation
Indices: 17969522--17969570 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17969512 ACTCTTCTTT
17969522 TTTTTTTTGAATTTTCTCTCTTCAG
1 TTTTTTTT-AATTTTCTCTCTTCAG
*
17969547 TTTTTTTTATTTTTCTCTCTTCAG
1 TTTTTTTTAATTTTCTCTCTTCAG
17969571 CTGGGTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.10, C:0.16, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTTTTTAATTTTCTCTCTTCAG
Found at i:17969638 original size:27 final size:27
Alignment explanation
Indices: 17969600--17969702 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
17969590 ATAATACGAG
17969600 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
*
17969627 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
* *** *
17969654 TGGTGCCACCAATGATTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
17969681 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
17969703 GTGACTAGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:17969807 original size:29 final size:28
Alignment explanation
Indices: 17969761--17969864 Score: 149
Period size: 29 Copynumber: 3.6 Consensus size: 28
17969751 TTGTTTTTTT
17969761 TTTATATATTTTGGTAAATAATAAAAAAG
1 TTTATATATTTTGGTAAATAA-AAAAAAG
*
17969790 TTTATATATTTTGATAAATAAATAAAAAG
1 TTTATATATTTTGGTAAATAAA-AAAAAG
17969819 TTGTA-ATATTTTGGTAAATAAAAAAAAG
1 TT-TATATATTTTGGTAAATAAAAAAAAG
17969847 -TTATAATATTTTGGTAAA
1 TTTAT-ATATTTTGGTAAA
17969865 CTTTTATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.03
27 1 0.01
28 20 0.29
29 44 0.64
30 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:17970106 original size:17 final size:17
Alignment explanation
Indices: 17970084--17970127 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
17970074 TATTTTTTTA
17970084 TATAAAATAATTTATTT
1 TATAAAATAATTTATTT
17970101 TATAAAATAA-TTATTT
1 TATAAAATAATTTATTT
17970117 T-TAAAA-AATTT
1 TATAAAATAATTT
17970128 TGCGGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.08
15 7 0.27
16 7 0.27
17 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAAAATAATTTATTT
Found at i:17970287 original size:75 final size:75
Alignment explanation
Indices: 17970183--17970347 Score: 298
Period size: 75 Copynumber: 2.2 Consensus size: 75
17970173 TTTTCAAATA
*
17970183 TTTTATGGGGTCAA-T-GCACCAATTATATAATTTTTTTAAAAAAAATCTATAAGTAATATTTTT
1 TTTTGTGGGGTCAATTCGCACCAATTATATAATTTTTTTAAAAAAAATCTATAAGTAATATTTTT
17970246 TTTTACATTT
66 TTTTACATTT
*
17970256 TTTTGTGGGGTCAATTCGCACCAATTATATAATTTTTTTTAAAAAAATCTATAAGTAATATTTTT
1 TTTTGTGGGGTCAATTCGCACCAATTATATAATTTTTTTAAAAAAAATCTATAAGTAATATTTTT
17970321 TTTTACATTT
66 TTTTACATTT
17970331 TTTTGTGGGGTCAATTC
1 TTTTGTGGGGTCAATTC
17970348 AATGGTGGCT
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
73 13 0.15
74 1 0.01
75 74 0.84
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (75 bp):
TTTTGTGGGGTCAATTCGCACCAATTATATAATTTTTTTAAAAAAAATCTATAAGTAATATTTTT
TTTTACATTT
Found at i:17982783 original size:165 final size:165
Alignment explanation
Indices: 17982511--17982841 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
17982501 ATTGGTACGT
17982511 TTCTAGCTTTATATTGAATAATGGTTTTATTACCATCTATTCCTATAGCTCTTATTAGATGCTTC
1 TTCTAGCTTTATATTGAATAATGGTTTTATTACCATCTATTCCTATAGCTCTTATTAGATGCTTC
17982576 ATAGGTTCTCACTTTTCTAAAGGAATAACATTTTTTCTGCAACTACTAGTCGTAGTTCTAGTATC
66 ATAGGTTCTCACTTTTCTAAAGGAATAACATTTTTTCTGCAACTACTAGTCGTAGTTCTAGTATC
17982641 TAGTAAAGCATGTAATTAATATGTTTTATATTCTC
131 TAGTAAAGCATGTAATTAATATGTTTTATATTCTC
17982676 TTCTAGCTTTATATTGAATAATGGTTTTATTACCATCTATTCCTATAGCTCTTATTAGATGCTTC
1 TTCTAGCTTTATATTGAATAATGGTTTTATTACCATCTATTCCTATAGCTCTTATTAGATGCTTC
17982741 ATAGGTTCTCACTTTTCTAAAGGAATAACATTTTTTCTGCAACTACTAGTCGTAGTTCTAGTATC
66 ATAGGTTCTCACTTTTCTAAAGGAATAACATTTTTTCTGCAACTACTAGTCGTAGTTCTAGTATC
17982806 TAGTAAAGCATGTAATTAATATGTTTTATATTCTC
131 TAGTAAAGCATGTAATTAATATGTTTTATATTCTC
17982841 T
1 T
17982842 AAATTGAAAT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (165 bp):
TTCTAGCTTTATATTGAATAATGGTTTTATTACCATCTATTCCTATAGCTCTTATTAGATGCTTC
ATAGGTTCTCACTTTTCTAAAGGAATAACATTTTTTCTGCAACTACTAGTCGTAGTTCTAGTATC
TAGTAAAGCATGTAATTAATATGTTTTATATTCTC
Found at i:17984215 original size:21 final size:21
Alignment explanation
Indices: 17984189--17984241 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
17984179 ATAATTACGC
17984189 TTATTTTCTTTAAATTAAGAT-
1 TTATTTT-TTTAAATTAAGATA
* *
17984210 TTATTTTTTTAATTTAATATA
1 TTATTTTTTTAAATTAAGATA
*
17984231 TTATTTATTTA
1 TTATTTTTTTA
17984242 TTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTTTTAAATTAAGATA
Found at i:17995572 original size:5 final size:5
Alignment explanation
Indices: 17995562--17995635 Score: 87
Period size: 5 Copynumber: 14.8 Consensus size: 5
17995552 TAGGACTTTG
17995562 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA -ATCGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TAT-GA TATGA
* * * * *
17995612 CATGC TCTGG TATGA TAAGA TATG
1 TATGA TATGA TATGA TATGA TATG
17995636 TTCTAATATA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
4 2 0.03
5 54 0.93
6 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (5 bp):
TATGA
Found at i:17995932 original size:18 final size:19
Alignment explanation
Indices: 17995892--17995946 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
17995882 TTAGCAAATT
*
17995892 TATTCTTGGATTTTTGGAACTG
1 TATT-TTGG-TTTTTGG-GCTG
17995914 TATTTT-GTTTTTGGGCTG
1 TATTTTGGTTTTTGGGCTG
*
17995932 TGTTTTGGTTTTTGG
1 TATTTTGGTTTTTGG
17995947 TTTTTGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 15 0.50
20 1 0.03
21 2 0.07
22 4 0.13
ACGTcount: A:0.09, C:0.05, G:0.27, T:0.58
Consensus pattern (19 bp):
TATTTTGGTTTTTGGGCTG
Found at i:17998469 original size:50 final size:50
Alignment explanation
Indices: 17998366--17998604 Score: 241
Period size: 50 Copynumber: 4.7 Consensus size: 50
17998356 AAAGAGATCT
17998366 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCC
* *
17998422 CATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * ** *
17998472 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * **
17998522 CATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
*
17998571 CATGTAAGACCATGTATGGGACATGG-ATTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
17998605 TGTTATTATC
Statistics
Matches: 157, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 37 0.24
50 81 0.52
53 3 0.02
55 2 0.01
56 32 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:18004243 original size:21 final size:21
Alignment explanation
Indices: 18004200--18004244 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18004190 GCTGATTCGG
* *
18004200 GATAGTCTAAAAGCAGCTTCC
1 GATAGTCTAAAAGCAGATGCC
18004221 GATAGTC-AAAAGTCAGATGCC
1 GATAGTCTAAAAG-CAGATGCC
18004242 GAT
1 GAT
18004245 CTTAAACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (21 bp):
GATAGTCTAAAAGCAGATGCC
Found at i:18006006 original size:56 final size:51
Alignment explanation
Indices: 18005918--18006107 Score: 231
Period size: 50 Copynumber: 3.7 Consensus size: 51
18005908 AAAGAGATCT
*
18005918 CATGTAAGACCATGTCTGGGACATGTCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---AGAT-ATGAGAGGTCC
* *
18005974 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATATGAGAGGTCC
** * **
18006024 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACC-GATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATATGAGAGGTCC
* *
18006074 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
18006108 GTACATGAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
50 82 0.69
51 1 0.01
52 1 0.01
55 2 0.02
56 32 0.27
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATATGAGAGGTCC
Found at i:18006018 original size:50 final size:50
Alignment explanation
Indices: 18005918--18006149 Score: 223
Period size: 50 Copynumber: 4.5 Consensus size: 50
18005908 AAAGAGATCT
*
18005918 CATGTAAGACCATGTCTGGGACATGTCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---A-A-CATGAGAGGTCC
* *
18005974 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAGGTCC
** * * * **
18006024 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAGGTCC
* * ** * **
18006074 CATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACATGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAGGTCC
* * *
18006123 CATGTAAGTCCATGTATGGGATATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
18006150 TTTGACATGT
Statistics
Matches: 151, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
49 33 0.22
50 82 0.54
51 1 0.01
52 1 0.01
55 2 0.01
56 32 0.21
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAGGTCC
Found at i:18006075 original size:100 final size:103
Alignment explanation
Indices: 18005921--18006107 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 103
18005911 GAGATCTCAT
* * **
18005921 GTAAGACCATGTCTGGGACATGTCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCC-T--GATCATGAGAACTCCCATGTAAGACCA
* *
18005986 TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCC
63 TATCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
18006027 GTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAT-ATGAGAACTCCCATGTAAGACCATAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCCTGATCATGAGAACTCCCATGTAAGACCATAT
*
18006089 CTGGGATATGGCATTGGCA
66 CTGGGACATGGCATTGGCA
18006108 GTACATGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 40 0.54
101 3 0.04
105 2 0.03
106 29 0.39
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCCTGATCATGAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
Found at i:18029012 original size:38 final size:38
Alignment explanation
Indices: 18028929--18029016 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
18028919 TTTTGTCTGC
*
18028929 TTATATTGGAGTGTAGGATGGAGCACTACAATGCATAT
1 TTATATTGGAGTGTAGGATGGAGCACTACAATGCAAAT
* * * *** *
18028967 TTCTATTGGATTGTAGGTTGGAGCACTATGGTGTAAAT
1 TTATATTGGAGTGTAGGATGGAGCACTACAATGCAAAT
18029005 TTATATTGGAGT
1 TTATATTGGAGT
18029017 AATGAATGTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (38 bp):
TTATATTGGAGTGTAGGATGGAGCACTACAATGCAAAT
Found at i:18030996 original size:60 final size:61
Alignment explanation
Indices: 18030800--18030997 Score: 172
Period size: 60 Copynumber: 3.3 Consensus size: 61
18030790 TTGGTCAAAG
* * * * * * * *
18030800 GAAAGCCTTTATGGCAAGTACTGAATGTAAATGACAGAC-TTGTGG-AAAATCTTTAGACAA-
1 GAAAGCCTTTGTGGCGAGTACTGAATGTAAAGGATAGCCTTTCTGGCAAAA-CTCTGGA-AAT
* *
18030860 GAAAGCCTTTGTGGCGAGTACTGAATGTAAAGGATAGCCTTTCTGGCACAACTCTGGACAT
1 GAAAGCCTTTGTGGCGAGTACTGAATGTAAAGGATAGCCTTTCTGGCAAAACTCTGGAAAT
* * * * * *
18030921 GAAATCCTTTATGGCGAGTATTGGATGT-AAGAGAT-GTCTTTGTGGCAAAACTCTGGAAAT
1 GAAAGCCTTTGTGGCGAGTACTGAATGTAAAG-GATAGCCTTTCTGGCAAAACTCTGGAAAT
* *
18030981 GTAAGCCTTCGTGGCGA
1 GAAAGCCTTTGTGGCGA
18030998 ACTTCTTGAA
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
60 72 0.64
61 37 0.33
62 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (61 bp):
GAAAGCCTTTGTGGCGAGTACTGAATGTAAAGGATAGCCTTTCTGGCAAAACTCTGGAAAT
Found at i:18033735 original size:5 final size:5
Alignment explanation
Indices: 18033725--18033751 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18033715 TAAATTATGT
18033725 ATTGA ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA ATTGA ATTGA AT
18033752 AATAGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTGA
Found at i:18037241 original size:19 final size:19
Alignment explanation
Indices: 18037215--18037262 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
18037205 CACTTATGCA
*
18037215 CCAGGATGCACTTCGTGTT
1 CCAGGATGCACTTCGTGTC
* *
18037234 CTAGGATGCGCTTCGTGTC
1 CCAGGATGCACTTCGTGTC
18037253 CCAGGATGCA
1 CCAGGATGCA
18037263 GTTTGTGTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (19 bp):
CCAGGATGCACTTCGTGTC
Found at i:18037270 original size:19 final size:19
Alignment explanation
Indices: 18037215--18037275 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
18037205 CACTTATGCA
* *
18037215 CCAGGATGCACTTCGTGTT
1 CCAGGATGCAGTTCGTGTC
*
18037234 CTAGGATGC-GCTTCGTGTC
1 CCAGGATGCAG-TTCGTGTC
* *
18037253 CCAGGATGCAGTTTGTGTG
1 CCAGGATGCAGTTCGTGTC
18037272 CCAG
1 CCAG
18037276 TATACATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 33 0.97
20 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.30
Consensus pattern (19 bp):
CCAGGATGCAGTTCGTGTC
Found at i:18043483 original size:3 final size:3
Alignment explanation
Indices: 18043475--18043527 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
18043465 TCTGATCTGA
* *
18043475 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18043523 AAG AA
1 AAG AA
18043528 ATAGAGAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18053515 original size:17 final size:17
Alignment explanation
Indices: 18053493--18053565 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 17
18053483 CTGGTACGTA
*
18053493 ATACTGTCCGTCAGGCG
1 ATACTGTCCGCCAGGCG
* * * *
18053510 ATACTGTTCTCCTGGTG
1 ATACTGTCCGCCAGGCG
* * *
18053527 ATGCTGTCTGCCGGGCG
1 ATACTGTCCGCCAGGCG
*
18053544 ATACTGTCCGCCAGGTG
1 ATACTGTCCGCCAGGCG
18053561 ATACT
1 ATACT
18053566 TATCTGCCAA
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (17 bp):
ATACTGTCCGCCAGGCG
Found at i:18067455 original size:20 final size:20
Alignment explanation
Indices: 18067438--18067534 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
18067428 TCGATGCCTT
18067438 TGTTTGCACTTTGGTGCCCC
1 TGTTTGCACTTTGGTGCCCC
* * *
18067458 TGTATACACTTTGGTGTCCC
1 TGTTTGCACTTTGGTGCCCC
* * *
18067478 TGTTCGCACTATGGTGCCCT
1 TGTTTGCACTTTGGTGCCCC
18067498 TGTTTGCACATTT-GTGCCCC
1 TGTTTGCAC-TTTGGTGCCCC
** *
18067518 TGTCCGCACTTCGGTGC
1 TGTTTGCACTTTGGTGC
18067535 TCTTGTTATA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 56 0.93
21 2 0.03
ACGTcount: A:0.09, C:0.30, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTTTGCACTTTGGTGCCCC
Found at i:18069509 original size:57 final size:57
Alignment explanation
Indices: 18069420--18069605 Score: 146
Period size: 57 Copynumber: 3.3 Consensus size: 57
18069410 GGTATTCACG
* * * *
18069420 TTGGACAACATTAAA-ATACACAATCTAG-GACATCGA-AACAACAGCCAT-TATTCACAT
1 TTGGACAACA-TAAATATGCAC-ATCAAGAGACAT-GATAACAACAACCATAAATT-ACAT
* ** * * *
18069477 TTTGACAACATAAATATGTGCATCAAGAGACATTATGACAACAACTATAAATTACAT
1 TTGGACAACATAAATATGCACATCAAGAGACATGATAACAACAACCATAAATTACAT
* ** * * *
18069534 TTGGACAACATAAATATGCACATTAAGAGACATTTTGACAGCAACTATAAATTACAT
1 TTGGACAACATAAATATGCACATCAAGAGACATGATAACAACAACCATAAATTACAT
**
18069591 TAAGACAACATAAAT
1 TTGGACAACATAAAT
18069606 GTAGAAATAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
56 10 0.09
57 94 0.88
58 3 0.03
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.26
Consensus pattern (57 bp):
TTGGACAACATAAATATGCACATCAAGAGACATGATAACAACAACCATAAATTACAT
Found at i:18071299 original size:15 final size:15
Alignment explanation
Indices: 18071279--18071309 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18071269 AAAACAACAT
18071279 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
18071294 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
18071309 A
1 A
18071310 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:18075645 original size:15 final size:15
Alignment explanation
Indices: 18075625--18075655 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18075615 AAAACAACAT
18075625 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
18075640 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
18075655 A
1 A
18075656 CTTACTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:18084251 original size:25 final size:25
Alignment explanation
Indices: 18084222--18084275 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
18084212 GTTGAGTTTG
18084222 ATCATTATTTTGTTCATAAAACTAC
1 ATCATTATTTTGTTCATAAAACTAC
18084247 ATCATTATTTTGTTCATAAAACTAC
1 ATCATTATTTTGTTCATAAAACTAC
18084272 ATCA
1 ATCA
18084276 ACTTTAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.43
Consensus pattern (25 bp):
ATCATTATTTTGTTCATAAAACTAC
Found at i:18102118 original size:21 final size:21
Alignment explanation
Indices: 18102094--18102141 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
18102084 TGTTGTGAAG
*
18102094 GAAGTTGATGCTATAGAAGAA
1 GAAGTTGATGCTACAGAAGAA
* *
18102115 GAAGTTGTTGCTGCAGAAGAA
1 GAAGTTGATGCTACAGAAGAA
18102136 GAAGTT
1 GAAGTT
18102142 ACTGAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (21 bp):
GAAGTTGATGCTACAGAAGAA
Found at i:18105036 original size:24 final size:25
Alignment explanation
Indices: 18104997--18105043 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
18104987 ATACAAAATA
*
18104997 TATTAATTTAATTCATGAATAATTT
1 TATTAATTCAATTCATGAATAATTT
18105022 TATTAA-TCAATTCATGAATAAT
1 TATTAATTCAATTCATGAATAAT
18105044 ACAAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (25 bp):
TATTAATTCAATTCATGAATAATTT
Found at i:18107521 original size:23 final size:24
Alignment explanation
Indices: 18107493--18107554 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
18107483 GCAATTTATC
*
18107493 GCATTTTTATTGGCA-ACTTGTTT
1 GCATTTTTATTGGCAGAATTGTTT
*
18107516 GCATTTTTATTGGCAGAATTTTTT
1 GCATTTTTATTGGCAGAATTGTTT
18107540 GCATATTGTTATTGG
1 GCAT-TT-TTATTGG
18107555 TGGTTTTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 15 0.44
24 10 0.29
25 2 0.06
26 7 0.21
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (24 bp):
GCATTTTTATTGGCAGAATTGTTT
Found at i:18121725 original size:17 final size:18
Alignment explanation
Indices: 18121689--18121725 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
18121679 AATGTCTCTA
18121689 ATTTTAGTTCTTTATATT
1 ATTTTAGTTCTTTATATT
18121707 ATTTTA-TT-TTTATTATT
1 ATTTTAGTTCTTTA-TATT
18121724 AT
1 AT
18121726 AAAAACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTAGTTCTTTATATT
Found at i:18127746 original size:14 final size:14
Alignment explanation
Indices: 18127727--18127753 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18127717 ATTATTTATC
18127727 GTAATATGATTTTT
1 GTAATATGATTTTT
18127741 GTAATATGATTTT
1 GTAATATGATTTT
18127754 ATTTCATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (14 bp):
GTAATATGATTTTT
Found at i:18128738 original size:36 final size:36
Alignment explanation
Indices: 18128691--18128760 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
18128681 GTTCTAAAAT
18128691 AAAGGCAAATTTATACTTTTTTAAGTTTCATATCAA
1 AAAGGCAAATTTATACTTTTTTAAGTTTCATATCAA
*
18128727 AAAGGTAAATTTATACTTTTTTAAGTTTCATATC
1 AAAGGCAAATTTATACTTTTTTAAGTTTCATATC
18128761 GAAACTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (36 bp):
AAAGGCAAATTTATACTTTTTTAAGTTTCATATCAA
Found at i:18131783 original size:23 final size:23
Alignment explanation
Indices: 18131757--18131806 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
18131747 CAATTTTTAA
18131757 ATTTTGAATTATTTAGTAATAAT
1 ATTTTGAATTATTTAGTAATAAT
*
18131780 ATTTTGAATTATTTAGTGATAAT
1 ATTTTGAATTATTTAGTAATAAT
18131803 ATTT
1 ATTT
18131807 AGGAAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (23 bp):
ATTTTGAATTATTTAGTAATAAT
Found at i:18132295 original size:162 final size:162
Alignment explanation
Indices: 18132028--18132356 Score: 622
Period size: 162 Copynumber: 2.0 Consensus size: 162
18132018 CACTTTCCAT
18132028 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
1 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
*
18132093 CGGTTATCACTCCGAAAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
66 CGGTTACCACTCCGAAAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
18132158 TTCGCTATATCTCAAATATATGGGATAGTACA
131 TTCGCTATATCTCAAATATATGGGATAGTACA
*
18132190 AATTCCATTTAAACTATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
1 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
*
18132255 CGGTTACCACTCCGACAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
66 CGGTTACCACTCCGAAAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
*
18132320 TTCGCTATCTCTCAAATATATGGGATAGTACA
131 TTCGCTATATCTCAAATATATGGGATAGTACA
18132352 AATTC
1 AATTC
18132357 GTCCCTCAAA
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (162 bp):
AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
CGGTTACCACTCCGAAAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
TTCGCTATATCTCAAATATATGGGATAGTACA
Found at i:18139973 original size:22 final size:22
Alignment explanation
Indices: 18139948--18139989 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18139938 TTTTTTTACT
18139948 TTTATAATATAATTTGAATAAA
1 TTTATAATATAATTTGAATAAA
*
18139970 TTTATAATATCATTTGAATA
1 TTTATAATATAATTTGAATA
18139990 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTATAATATAATTTGAATAAA
Found at i:18140861 original size:16 final size:16
Alignment explanation
Indices: 18140840--18140895 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 16
18140830 AAAATTAAAC
*
18140840 ATTTTAATAAAATAAT
1 ATTTTAATAAAATTAT
18140856 ATTTTAATTAAAATTAT
1 ATTTTAA-TAAAATTAT
*
18140873 TTTTTAAT-AAATTAT
1 ATTTTAATAAAATTAT
18140888 A-TTTAATA
1 ATTTTAATA
18140896 GGTATGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 6 0.17
15 7 0.20
16 8 0.23
17 14 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAATAAAATTAT
Found at i:18152013 original size:9 final size:9
Alignment explanation
Indices: 18151985--18152032 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
18151975 ATTGCTTGTG
18151985 TGTTTTAATA
1 TGTTTTAA-A
18151995 TGGTTTTTAAA
1 T-G-TTTTAAA
18152006 TGTTTTAAA
1 TGTTTTAAA
*
18152015 TGTGTTAAA
1 TGTTTTAAA
18152024 TGTGTTTAA
1 TGT-TTTAA
18152033 CACCATGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 18 0.55
10 6 0.18
11 3 0.09
12 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (9 bp):
TGTTTTAAA
Found at i:18154311 original size:24 final size:24
Alignment explanation
Indices: 18154281--18154339 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
18154271 CCATTTCATC
18154281 ATCAATTCATACCATATATCATTT
1 ATCAATTCATACCATATATCATTT
** *
18154305 ATCAATTCATGGCATTTATCATTT
1 ATCAATTCATACCATATATCATTT
*
18154329 ATTAATTCATA
1 ATCAATTCATA
18154340 TCATCCTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (24 bp):
ATCAATTCATACCATATATCATTT
Found at i:18159912 original size:41 final size:41
Alignment explanation
Indices: 18159854--18160043 Score: 319
Period size: 41 Copynumber: 4.6 Consensus size: 41
18159844 GACTATACGT
18159854 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
18159895 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTAT-AAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
18159935 CTAGCAGGCTAAGTGCCGGTAATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
18159976 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
18160017 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
18160044 TTAAATTAAG
Statistics
Matches: 139, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 37 0.27
41 97 0.70
42 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:18159993 original size:81 final size:82
Alignment explanation
Indices: 18159854--18160042 Score: 326
Period size: 81 Copynumber: 2.3 Consensus size: 82
18159844 GACTATACGT
* * *
18159854 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAATTGCCGGTGATC
1 CTAGCAGGCTAAGTGCCGGTAATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
18159919 TGAATCAGGTTATAA-C
66 TGAATCAGGCTATAAGC
18159935 CTAGCAGGCTAAGTGCCGGTAATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGCAGGCTAAGTGCCGGTAATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
18160000 TGAATCAGGCTATAAGC
66 TGAATCAGGCTATAAGC
18160017 CTAGCAGGCTAAGTGCCGGTGAATCT
1 CTAGCAGGCTAAGTGCCGGT-AATCT
18160043 GTTAAATTAA
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 76 0.75
82 21 0.21
83 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (82 bp):
CTAGCAGGCTAAGTGCCGGTAATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
TGAATCAGGCTATAAGC
Found at i:18167535 original size:41 final size:41
Alignment explanation
Indices: 18167471--18167661 Score: 301
Period size: 41 Copynumber: 4.6 Consensus size: 41
18167461 GACTATACGG
18167471 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
18167512 TTAGTACGCTAAGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
18167553 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTACAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
18167594 CTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
18167635 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
18167662 TTAAATTAAG
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 130 0.96
42 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:18168635 original size:50 final size:50
Alignment explanation
Indices: 18168577--18168682 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
18168567 TATTGAGGTT
* * * * *
18168577 ATGAGAGGTCTCACAAAAGGCCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACAAAAGACCATGTCTGGGACATGACATGGGCACCGAG
* ** * *
18168627 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACAAAAGACCATGTCTGGGACATGACATGGGCACCGAG
18168677 ATGAGA
1 ATGAGA
18168683 ACTCCTATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACAAAAGACCATGTCTGGGACATGACATGGGCACCGAG
Found at i:18175431 original size:17 final size:17
Alignment explanation
Indices: 18175409--18175447 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18175399 GATTTTTTCT
18175409 ACTTTTCTGA-CTTTGTC
1 ACTTTT-TGACCTTTGTC
*
18175426 ACTTTTTGACCTTTTTC
1 ACTTTTTGACCTTTGTC
18175443 ACTTT
1 ACTTT
18175448 ATCTCACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.13, C:0.23, G:0.08, T:0.56
Consensus pattern (17 bp):
ACTTTTTGACCTTTGTC
Found at i:18182639 original size:14 final size:14
Alignment explanation
Indices: 18182620--18182652 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18182610 AAAGTTTCCT
*
18182620 TTTTCTTCCTTTTA
1 TTTTCTTCCTTTGA
18182634 TTTTCTTCCTTTGA
1 TTTTCTTCCTTTGA
18182648 TTTTC
1 TTTTC
18182653 ATTTATTATT
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:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTCTTCCTTTGA
Found at i:18196373 original size:6 final size:6
Alignment explanation
Indices: 18196347--18196402 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
18196337 GAAGTCTAAG
* *
18196347 AAAATA AAAA-A AAGAACTA AAAATA AACAT- AATATA AAAATA AAAATA
1 AAAATA AAAATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
18196395 AAAATA AA
1 AAAATA AA
18196403 TAAACTCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
5 7 0.16
6 31 0.72
7 2 0.05
8 3 0.07
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:18196386 original size:17 final size:16
Alignment explanation
Indices: 18196364--18196407 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
18196354 AAAAAAGAAC
18196364 TAAAAATAAACATAATA
1 TAAAAATAAACATAA-A
*
18196381 TAAAAATAAAAATAAA
1 TAAAAATAAACATAAA
18196397 -AATAAATAAAC
1 TAA-AAATAAAC
18196408 TCAATGGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 14 0.58
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAATAAACATAAA
Found at i:18196390 original size:23 final size:22
Alignment explanation
Indices: 18196364--18196406 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
18196354 AAAAAAGAAC
*
18196364 TAAAAATAAACATAATATAAAAA
1 TAAAAATAAAAATAA-ATAAAAA
18196387 TAAAAATAAAAATAAATAAA
1 TAAAAATAAAAATAAATAAA
18196407 CTCAATGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAAAATAAAAATAAATAAAAA
Found at i:18201081 original size:50 final size:50
Alignment explanation
Indices: 18200970--18201461 Score: 417
Period size: 50 Copynumber: 9.8 Consensus size: 50
18200960 ATTTGGGTAA
* *
18200970 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
18201026 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
18201076 AGAGGTCCCATATAAGAATATGTCTGGGACATAGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
18201126 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
18201176 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * * * * * *
18201225 AAACATCCCATGTAAGACTATGTTTGTGACATAGCTTTGGCA---TG-TT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
18201271 ATA-TTCAAACA-G-AATACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTC--CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* **
18201320 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
18201370 AGCGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
18201420 AGAACTCCCATGTAAGACCATATCTAGTATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18201462 GTACAAGAAA
Statistics
Matches: 352, Mismatches: 74, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
45 25 0.07
46 3 0.01
47 2 0.01
48 4 0.01
49 39 0.11
50 235 0.67
53 3 0.01
55 1 0.00
56 40 0.11
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18201471 original size:244 final size:244
Alignment explanation
Indices: 18201042--18201528 Score: 884
Period size: 244 Copynumber: 2.0 Consensus size: 244
18201032 CCCATGTAAG
*
18201042 ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATATAAGAATATGTCTGGGACA
1 ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATATAAGAACATGTCTGGGACA
18201107 TAGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
66 TAGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
*
18201172 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACATCCCATG
131 TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCCATG
* * *
18201237 TAAGACTATGTTTGTGACATAGCTTTGGCATGTTATATTCAAACAGAAT
196 TAAGAATATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAGAAT
* *
18201286 ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
1 ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATATAAGAACATGTCTGGGACA
* *
18201351 TAGTGTTGGCACCGAGATGAGCGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
66 TAGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
*
18201416 TATGAGAACTCCCATGTAAGACCATATCTAGTATATGGCATTGGCAGTACAAGAAACATCCCATG
131 TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCCATG
18201481 TAAGAATATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAGAA
196 TAAGAATATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAGAA
18201529 GACCCGAGTA
Statistics
Matches: 233, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 233 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (244 bp):
ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATATAAGAACATGTCTGGGACA
TAGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCCATG
TAAGAATATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAGAAT
Found at i:18206241 original size:40 final size:40
Alignment explanation
Indices: 18206188--18206292 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
18206178 CGTTTGAATA
18206188 AAAATGCCGCTAAAAATCGAGCATTAC-CGGCGCTTTACG
1 AAAATGCCGCTAAAAATCGAGCATTACGCGGCGCTTTACG
* * * *
18206227 AAAATCGCCACTAAAGATCGAGCATT-CGCGGCGTTTTTCG
1 AAAAT-GCCGCTAAAAATCGAGCATTACGCGGCGCTTTACG
*
18206267 AAAAGTGACGCTAAAAAT-GAGCATTA
1 AAAA-TGCCGCTAAAAATCGAGCATTA
18206293 GCTGAGATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 13 0.24
40 41 0.75
41 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAATGCCGCTAAAAATCGAGCATTACGCGGCGCTTTACG
Found at i:18206423 original size:41 final size:41
Alignment explanation
Indices: 18206378--18206635 Score: 274
Period size: 41 Copynumber: 6.4 Consensus size: 41
18206368 GGCGTCTTAA
* *
18206378 AAAAAGCGCCGCTAATGCTCAGGGATTTAGTGGTGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
* *
18206419 AAAAA---CTGCTAATGCTCGGGGATTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
* * *
18206457 AAAAAGCGCCGCTAATGCTCTGGGATTTAGTGGCATTTTTG
1 AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
*
18206498 AAAAAGCGCCGCTAATTCTCTA-GGATTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTC-AGGGATTTAGCGGCGTTTTTG
* * ** * * *
18206539 AAAAACCACCGCTAATTTTCGGGGTTTTAGCGACGTTTCTT-
1 AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTT-TTG
* ** **
18206580 AAAAAGCGCTGCTAATGCTGTGGTCTTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
*
18206621 GAAAAGCGCCGCTAA
1 AAAAAGCGCCGCTAA
18206636 AACCATTTTA
Statistics
Matches: 180, Mismatches: 30, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
38 34 0.19
40 2 0.01
41 142 0.79
42 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (41 bp):
AAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
Found at i:18206609 original size:123 final size:120
Alignment explanation
Indices: 18206357--18206635 Score: 337
Period size: 123 Copynumber: 2.3 Consensus size: 120
18206347 CTTACCTTTA
* ** * *
18206357 TGGTCTTTAGTGGCGTCTTAAAAAAAGCGCCGCTAATGCTCAGGGATTTAGTGGTGTTTTTGAAA
1 TGGTCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAAA
* *
18206422 AACTGCTAATGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
66 AACCGCTAATGCTCGGGGATTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTC
** * *
18206477 TGGGATTTAGTGGCATTTTTGAAAAAGCGCCGCTAATTCTCTA-GGATTTAGCGGCGTTTTTGAA
1 TGGTCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-AGGGATTTAGCGGCGTTTTTG-A
** * * *
18206541 AAACCACCGCTAATTTTCGGGGTTTTAGCGACGTTTCTT-AAAAAGCGCTGCTAATGCTG
64 AAA--ACCGCTAATGCTCGGGGATTTAGCGACGTTT-TTGAAAAAGCGCCGCTAATGCTC
* *
18206600 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 TGGTCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAA
18206636 AACCATTTTA
Statistics
Matches: 133, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
120 51 0.38
121 5 0.04
123 75 0.56
124 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (120 bp):
TGGTCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAAA
AACCGCTAATGCTCGGGGATTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:18206772 original size:23 final size:26
Alignment explanation
Indices: 18206719--18206773 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
18206709 ATCTTCAAAA
*
18206719 AAAATAATAACACGTAGAAATAATTT
1 AAAATAATAACACATAGAAATAATTT
* *
18206745 GAAATAA-AACACATGGAAA-AA-TT
1 AAAATAATAACACATAGAAATAATTT
18206768 AAAATA
1 AAAATA
18206774 CTATTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 10 0.40
26 6 0.24
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAATAATAACACATAGAAATAATTT
Found at i:18207012 original size:7 final size:7
Alignment explanation
Indices: 18206993--18207026 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
18206983 GTTTAGGGAG
18206993 TATGGATT
1 TATGGA-T
18207001 TATGGAT
1 TATGGAT
18207008 TATGGAT
1 TATGGAT
*
18207015 TAGGGAT
1 TATGGAT
18207022 TATGG
1 TATGG
18207027 TGTAAGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (7 bp):
TATGGAT
Found at i:18207038 original size:21 final size:22
Alignment explanation
Indices: 18207014--18207061 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
18207004 GGATTATGGA
*
18207014 TTAGGGA-TTATGGTGTAAGGG
1 TTAGGGATTTAAGGTGTAAGGG
*
18207035 TTA-GGATTTAAGGTTTAAGGG
1 TTAGGGATTTAAGGTGTAAGGG
18207056 TTAGGG
1 TTAGGG
18207062 GTTAGAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (22 bp):
TTAGGGATTTAAGGTGTAAGGG
Found at i:18207081 original size:22 final size:22
Alignment explanation
Indices: 18207056--18207103 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
18207046 GGTTTAAGGG
18207056 TTAGGGGTT-AGAGGTTAGAGG-T
1 TTAGGGGTTAAGA-GTTA-AGGAT
18207078 TTAGGGGTTAAGAGTTAAGGAT
1 TTAGGGGTTAAGAGTTAAGGAT
18207100 TTAG
1 TTAG
18207104 AGTTTAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (22 bp):
TTAGGGGTTAAGAGTTAAGGAT
Found at i:18207396 original size:21 final size:20
Alignment explanation
Indices: 18207362--18207402 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
18207352 TATGGATTTA
*
18207362 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
18207382 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
18207403 AGGAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:18207398 original size:35 final size:32
Alignment explanation
Indices: 18207358--18207467 Score: 94
Period size: 35 Copynumber: 3.2 Consensus size: 32
18207348 TATATATGGA
18207358 TTTAGGGATTATGGTTTAAGGGTTGGGATTTAAGG
1 TTTAGGGATTA-GGTTTAAGGGTTGGG--TTAAGG
* * * *
18207393 TTTAGGGGTTAGGAGTTAGGGGTTAGGGGTTAAGA
1 TTTAGGGATTAGG-TTTAAGGGTT--GGGTTAAGG
*
18207428 TTTAGGGATTTAGGGTTTCAAGGGTCGGGTTAAGG
1 TTTAGGGA-TTA-GGTTT-AAGGGTTGGGTTAAGG
18207463 TTTAG
1 TTTAG
18207468 AGTTTAGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
34 2 0.03
35 43 0.72
36 5 0.08
37 10 0.17
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (32 bp):
TTTAGGGATTAGGTTTAAGGGTTGGGTTAAGG
Found at i:18207404 original size:7 final size:7
Alignment explanation
Indices: 18207394--18207424 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18207384 GATTTAAGGT
18207394 TTAGGGG
1 TTAGGGG
*
18207401 TTAGGAG
1 TTAGGGG
18207408 TTAGGGG
1 TTAGGGG
18207415 TTAGGGG
1 TTAGGGG
18207422 TTA
1 TTA
18207425 AGATTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:18207418 original size:21 final size:21
Alignment explanation
Indices: 18207394--18207434 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18207384 GATTTAAGGT
*
18207394 TTAGGGGTTAGGAGTTAGGGG
1 TTAGGGGTTAAGAGTTAGGGG
*
18207415 TTAGGGGTTAAGATTTAGGG
1 TTAGGGGTTAAGAGTTAGGG
18207435 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (21 bp):
TTAGGGGTTAAGAGTTAGGGG
Found at i:18207443 original size:21 final size:20
Alignment explanation
Indices: 18207370--18207444 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
18207360 TAGGGATTAT
** *
18207370 GGTTTAAGGGTTGGGATTTAA
1 GGTTT-AGGGTTAAGATTTAG
* *
18207391 GGTTTAGGGGTTAGGAGTTAG
1 GGTTTA-GGGTTAAGATTTAG
*
18207412 GGGTTAGGGGTTAAGATTTAG
1 GGTTTA-GGGTTAAGATTTAG
18207433 GGATTTAGGGTT
1 GG-TTTAGGGTT
18207445 TCAAGGGTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.91
22 3 0.07
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (20 bp):
GGTTTAGGGTTAAGATTTAG
Found at i:18207644 original size:18 final size:18
Alignment explanation
Indices: 18207618--18207652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18207608 TATATTGAAT
18207618 GGTTAATTTAAGATTTAA
1 GGTTAATTTAAGATTTAA
* *
18207636 GGTTTATTTGAGATTTA
1 GGTTAATTTAAGATTTA
18207653 TTAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
GGTTAATTTAAGATTTAA
Found at i:18207879 original size:24 final size:24
Alignment explanation
Indices: 18207849--18207899 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
18207839 AATATTACTT
*
18207849 AAAATTTTAATAATTCTTTATGTA
1 AAAATTTTAATAATTCTTTATATA
18207873 AAAATTTTAATAATTCTTTATATA
1 AAAATTTTAATAATTCTTTATATA
18207897 AAA
1 AAA
18207900 TTTATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATTTTAATAATTCTTTATATA
Found at i:18210470 original size:28 final size:28
Alignment explanation
Indices: 18210428--18210488 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18210418 ATTCTTTTCT
*
18210428 TTTGACAAAGAACTT-GAGGTTGAACTGA
1 TTTGACAAAGAACTTGGA-GTTGAACTAA
* *
18210456 TTTGACTAAGGACTTGGAGTTGAACTAA
1 TTTGACAAAGAACTTGGAGTTGAACTAA
18210484 TTTGA
1 TTTGA
18210489 TTCTTGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (28 bp):
TTTGACAAAGAACTTGGAGTTGAACTAA
Found at i:18212441 original size:43 final size:44
Alignment explanation
Indices: 18212157--18212442 Score: 243
Period size: 43 Copynumber: 6.7 Consensus size: 44
18212147 TTTTTGTGAG
**
18212157 AAGCGCCGCTAAAGGT-ATTGAGT-TATAGCGGCGTTTGTGAAAA
1 AAGCGCCGCTAAAGGTCA-TGAGTCTATAGCGGCGTTTGTGGGAA
* * * * *
18212200 AAACGTCGTTAAAGGTCACGA-TCTATAGCGGCGTTTGTGGTAA
1 AAGCGCCGCTAAAGGTCATGAGTCTATAGCGGCGTTTGTGGGAA
* *
18212243 AAGCGCCGCTAAAGCTCTTGAG-CTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGAGTCTATAGCGGCGTTTGTGGGAA
* * * * *
18212286 AAGCGCCGCTAAATGTCTTGAG-CTATAGTGGTGCTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGAGTCTATAGCGGCGTTTGTGGGAA
* * * * *
18212329 AAGCGTCGCTAAAAGTC-TCGAG-CTATAGCGGCATTT-TTGGTA
1 AAGCGCCGCTAAAGGTCAT-GAGTCTATAGCGGCGTTTGTGGGAA
* * **
18212371 AAGCGCCGCTAAAGGTCA--ATGTTTTTAGCGGCGTTTGTTAGAA
1 AAGCGCCGCTAAAGGTCATGA-GTCTATAGCGGCGTTTGTGGGAA
* *
18212414 AAGCGCCGCTATAGGTCATG-GTCTTTAGC
1 AAGCGCCGCTAAAGGTCATGAGTCTATAGC
18212443 AGCACTTTTC
Statistics
Matches: 198, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 32 0.16
43 163 0.82
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (44 bp):
AAGCGCCGCTAAAGGTCATGAGTCTATAGCGGCGTTTGTGGGAA
Found at i:18212959 original size:8 final size:8
Alignment explanation
Indices: 18212946--18212981 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
18212936 CTATATATAT
18212946 TTTTAATA
1 TTTTAATA
18212954 TTTTAATA
1 TTTTAATA
18212962 TTTTAATA
1 TTTTAATA
18212970 TTTTAATA
1 TTTTAATA
18212978 TTTT
1 TTTT
18212982 TATAATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTAATA
Found at i:18213048 original size:20 final size:19
Alignment explanation
Indices: 18212998--18213051 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
18212988 GTTTAATTTT
* *
18212998 TTTTACAATTTATTT-TAG
1 TTTTAAAATTTTTTTATAG
18213016 TTTTAAAATTTTTTTATAG
1 TTTTAAAATTTTTTTATAG
*
18213035 TTTTAATTATTTTTTTA
1 TTTTAA-AATTTTTTTA
18213052 ATAATTCCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 13 0.42
19 9 0.29
20 9 0.29
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAAAATTTTTTTATAG
Found at i:18226892 original size:41 final size:41
Alignment explanation
Indices: 18226832--18226914 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
18226822 TAACCTAATT
**
18226832 AGGAAAATAATTCTTTTATTCTAATAAACTAA-TAAAACATA
1 AGGAAAATAATTCCCTTATTCTAATAAAC-AACTAAAACATA
*
18226873 AGGAAAATAATTCCCTTATTCTAATAAACAACTAAAAGATA
1 AGGAAAATAATTCCCTTATTCTAATAAACAACTAAAACATA
18226914 A
1 A
18226915 AATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
AGGAAAATAATTCCCTTATTCTAATAAACAACTAAAACATA
Found at i:18226980 original size:19 final size:19
Alignment explanation
Indices: 18226952--18226989 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18226942 TGATTTATTC
18226952 TAAGACTTATCTACCTAAA
1 TAAGACTTATCTACCTAAA
*
18226971 TAAGATTTATCTACCTAAA
1 TAAGACTTATCTACCTAAA
18226990 AACATATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAGACTTATCTACCTAAA
Found at i:18227577 original size:24 final size:24
Alignment explanation
Indices: 18227544--18227594 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
18227534 CTTAAAGAAT
18227544 AAGCCATTTCCAGGTGAACTCTTC
1 AAGCCATTTCCAGGTGAACTCTTC
* *
18227568 AAGCCCTTTCTAGGTGAACTCTTC
1 AAGCCATTTCCAGGTGAACTCTTC
18227592 AAG
1 AAG
18227595 TATCTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (24 bp):
AAGCCATTTCCAGGTGAACTCTTC
Found at i:18230793 original size:41 final size:41
Alignment explanation
Indices: 18230736--18230817 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
18230726 AACCTAATTG
18230736 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
*
18230777 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
18230818 AATAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:18238782 original size:16 final size:18
Alignment explanation
Indices: 18238750--18238783 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
18238740 ATTTAAAAAT
18238750 TAAAAATTAACTAAGTAA
1 TAAAAATTAACTAAGTAA
18238768 TAAAAA-TAA-TAAGTAA
1 TAAAAATTAACTAAGTAA
18238784 AAATTCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAATTAACTAAGTAA
Done.