Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012918.1 Kokia drynarioides strain JFW-HI SEQ_127934, whole genome shotgun sequence
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: 211897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
Found at i:1124 original size:16 final size:16
Alignment explanation
Indices: 1103--1141 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1093 GAACTTGCAA
*
1103 ATATTTTAAATTGTTT
1 ATATTTTAAATTATTT
1119 ATA-TTTAAATTATTT
1 ATATTTTAAATTATTT
1134 ATGATTTT
1 AT-ATTTT
1142 TATTAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 13 0.65
16 4 0.20
17 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATATTTTAAATTATTT
Found at i:12495 original size:18 final size:18
Alignment explanation
Indices: 12450--12496 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
12440 ATTGCTCTTT
* *
12450 CAAGGGAGAATTTGGTTC
1 CAAGAGAGACTTTGGTTC
*
12468 CAATAGAGACTTTGGTT-
1 CAAGAGAGACTTTGGTTC
12485 CAAGAGAAGACT
1 CAAGAG-AGACT
12497 AGTGAAAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (18 bp):
CAAGAGAGACTTTGGTTC
Found at i:15387 original size:64 final size:64
Alignment explanation
Indices: 15304--15431 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
15294 AAAATAAAAA
*
15304 AATAGTTTAAAACACCCTAACTAACACATACACACACGGGCAAAAGTAAAAAAATTAGCAACTC
1 AATAGTTTAAAACACCCTAACTAACACATACACACACGAGCAAAAGTAAAAAAATTAGCAACTC
15368 AATAGTTTAAAACACCCTAACTAACACATACACACACGAGCAAAAGTAAAAAAATTAGCAACTC
1 AATAGTTTAAAACACCCTAACTAACACATACACACACGAGCAAAAGTAAAAAAATTAGCAACTC
15432 CTATGAAGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.51, C:0.23, G:0.09, T:0.17
Consensus pattern (64 bp):
AATAGTTTAAAACACCCTAACTAACACATACACACACGAGCAAAAGTAAAAAAATTAGCAACTC
Found at i:15854 original size:23 final size:23
Alignment explanation
Indices: 15821--15865 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15811 AATTGTTTAT
15821 GGTTGTCGAATTTGGAGATTTTG
1 GGTTGTCGAATTTGGAGATTTTG
* *
15844 GGTTGTTGAATTTGGGGATTTT
1 GGTTGTCGAATTTGGAGATTTT
15866 TCGTAAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.47
Consensus pattern (23 bp):
GGTTGTCGAATTTGGAGATTTTG
Found at i:16482 original size:18 final size:18
Alignment explanation
Indices: 16446--16488 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16436 TTTTGTCTTT
*
16446 AAAAATCAGATGGAAGGA
1 AAAAATAAGATGGAAGGA
* *
16464 AAAAATAAGATTGATGGA
1 AAAAATAAGATGGAAGGA
*
16482 AGAAATA
1 AAAAATA
16489 GTGATGAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.16
Consensus pattern (18 bp):
AAAAATAAGATGGAAGGA
Found at i:16571 original size:20 final size:19
Alignment explanation
Indices: 16547--16614 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 19
16537 TAATAATTTT
16547 AATAATTTTATATTTCAAA
1 AATAATTTTATATTTCAAA
* * *
16566 ATATAATATAATAATTT---T
1 A-ATAATTTTAT-ATTTCAAA
16584 AATAATTTTATATTTCAAAA
1 AATAATTTTATATTTC-AAA
16604 AACTAATTTTA
1 AA-TAATTTTA
16615 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.11
17 8 0.22
18 1 0.03
19 1 0.03
20 10 0.28
21 12 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAATTTTATATTTCAAA
Found at i:16573 original size:37 final size:38
Alignment explanation
Indices: 16532--16628 Score: 153
Period size: 37 Copynumber: 2.6 Consensus size: 38
16522 AAATATATTT
*
16532 TAATATAATAATTTTAATAATTTTATATTTCAAAATA-
1 TAATATAATAATTTTAATAATTTTATATTTCAAAAAAC
16569 TAATATAATAATTTTAATAATTTTATATTTCAAAAAAC
1 TAATATAATAATTTTAATAATTTTATATTTCAAAAAAC
*
16607 TAATTTTAATAATTTTAA-AATT
1 TAA-TATAATAATTTTAATAATT
16629 ATTTGCTGAC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
37 36 0.64
38 7 0.12
39 13 0.23
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (38 bp):
TAATATAATAATTTTAATAATTTTATATTTCAAAAAAC
Found at i:16914 original size:27 final size:28
Alignment explanation
Indices: 16868--16933 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
16858 TCATTATGCC
* **
16868 TTTACAGTTCTGCCAATA-TTTTCTTAT
1 TTTACAGTTTTGCCAATATTTTTCAAAT
16895 TTTACAGTTTTG-CAACTATTTTTCAAAT
1 TTTACAGTTTTGCCAA-TATTTTTCAAAT
16923 TTTACAGTTTT
1 TTTACAGTTTT
16934 ACTATAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.09
27 13 0.38
28 18 0.53
ACGTcount: A:0.24, C:0.15, G:0.08, T:0.53
Consensus pattern (28 bp):
TTTACAGTTTTGCCAATATTTTTCAAAT
Found at i:17324 original size:14 final size:14
Alignment explanation
Indices: 17305--17333 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17295 CAAGGGCCCT
17305 ATTTATAGTCTTGG
1 ATTTATAGTCTTGG
17319 ATTTATAGTCTTGG
1 ATTTATAGTCTTGG
17333 A
1 A
17334 CGGTCGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTATAGTCTTGG
Found at i:19971 original size:20 final size:20
Alignment explanation
Indices: 19946--19988 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19936 AAACTTTCCT
19946 TTTCGAGCTTGGAAAGTATA
1 TTTCGAGCTTGGAAAGTATA
19966 TTTCGAGCTTGGAAAGTATA
1 TTTCGAGCTTGGAAAGTATA
19986 TTT
1 TTT
19989 GAAACTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (20 bp):
TTTCGAGCTTGGAAAGTATA
Found at i:26823 original size:18 final size:18
Alignment explanation
Indices: 26796--26830 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26786 ATGATTTAAA
* *
26796 TAACATTGAGGTTCAGAT
1 TAACAATGAGGATCAGAT
26814 TAACAATGAGGATCAGA
1 TAACAATGAGGATCAGA
26831 CTATGCTATT
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:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
TAACAATGAGGATCAGAT
Found at i:30596 original size:20 final size:20
Alignment explanation
Indices: 30557--30616 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
30547 TTTGAAACAA
* *
30557 ATTTTAAAATCAAGTTAAAAT
1 ATTTT-AAACCAAGTCAAAAT
30578 GATTTTAAA-CAAGTCAAAAT
1 -ATTTTAAACCAAGTCAAAAT
* *
30598 AATTTAAACCAAATCAAAA
1 ATTTTAAACCAAGTCAAAA
30617 ACTTTTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.21
20 19 0.56
21 3 0.09
22 5 0.15
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (20 bp):
ATTTTAAACCAAGTCAAAAT
Found at i:50026 original size:24 final size:26
Alignment explanation
Indices: 49994--50041 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
49984 AACGAAAGGC
49994 AAAAATAAA-AGCGAAAAA-AAACGT
1 AAAAATAAAGAGCGAAAAAGAAACGT
* *
50018 AAAACTAAAGAGGGAAAAAGAAAC
1 AAAAATAAAGAGCGAAAAAGAAAC
50042 AATTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 8 0.40
26 4 0.20
ACGTcount: A:0.69, C:0.08, G:0.17, T:0.06
Consensus pattern (26 bp):
AAAAATAAAGAGCGAAAAAGAAACGT
Found at i:61939 original size:22 final size:22
Alignment explanation
Indices: 61914--61959 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
61904 TATATAGTTC
61914 ATACATAATTCAACTGATTTAG
1 ATACATAATTCAACTGATTTAG
61936 ATACATAATTCAACTGATTTAG
1 ATACATAATTCAACTGATTTAG
61958 AT
1 AT
61960 TTAAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (22 bp):
ATACATAATTCAACTGATTTAG
Found at i:63307 original size:24 final size:23
Alignment explanation
Indices: 63258--63307 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
63248 TAAAGTAAGT
* *
63258 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
63281 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
63305 TAT
1 TAT
63308 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:63412 original size:57 final size:56
Alignment explanation
Indices: 63277--63449 Score: 188
Period size: 57 Copynumber: 2.9 Consensus size: 56
63267 TTTTTCTAAT
*
63277 ATTATATATTATGATTT-TTACTAATTCATATTTTAATAATAATTATATTAAAAATTTATTAA
1 ATTATATATTAT--TTTATTA--AATT-ATA-TTTAATAATAA-TATATTAAAAATTAATTAA
* *
63339 ATTATATATTATTTTATTAAATTGTATTTAATAATAATATGTT-AAAATATAATTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATATATTAAAAAT-TAATTAA
* * *
63395 ATTATTTATTATTTTTATTAAATTATATTTAATAATAATCTTATTAAAATTTAAT
1 ATTATATATTA-TTTTATTAAATTATATTTAATAATAAT-ATATTAAAAATTAAT
63450 AACAATAATC
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
55 5 0.05
56 21 0.21
57 37 0.38
58 9 0.09
59 8 0.08
60 3 0.03
61 3 0.03
62 12 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (56 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATAATATATTAAAAATTAATTAA
Found at i:65623 original size:21 final size:21
Alignment explanation
Indices: 65597--65638 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
65587 GCTAATTTTC
65597 TATCCAATAGTTAAAATAACT
1 TATCCAATAGTTAAAATAACT
*
65618 TATCCAATAGTTAAACTAACT
1 TATCCAATAGTTAAAATAACT
65639 CAGCTTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (21 bp):
TATCCAATAGTTAAAATAACT
Found at i:67514 original size:22 final size:22
Alignment explanation
Indices: 67454--67520 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
67444 AATTTTGTTG
* *
67454 TTTTA-AATTTAAGTTTTTAATT
1 TTTTATAA-TTAAATTTTAAATT
*
67476 TTTTAT-CTTAAACATTTTAAATT
1 TTTTATAATT-AA-ATTTTAAATT
*
67499 TTTTATAATTAAATTTAAAATT
1 TTTTATAATTAAATTTTAAATT
67521 AAACTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTATAATTAAATTTTAAATT
Found at i:67632 original size:23 final size:21
Alignment explanation
Indices: 67594--67635 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
67584 TATATTTATA
*
67594 TGCATGTAATTGAAATATATT
1 TGCATGTAATTAAAATATATT
67615 TGCATGTATATATAAAATATA
1 TGCATGTA-AT-TAAAATATA
67636 ATTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 2 0.11
23 8 0.44
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
TGCATGTAATTAAAATATATT
Found at i:70550 original size:18 final size:19
Alignment explanation
Indices: 70524--70564 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
70514 CATATATATA
70524 TTTTCTTCTTTTTC-CTTT
1 TTTTCTTCTTTTTCACTTT
*
70542 TTTTTTTCTTTTTCACTTT
1 TTTTCTTCTTTTTCACTTT
70561 TTTT
1 TTTT
70565 ATGTGACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTCTTTTTCACTTT
Found at i:79808 original size:36 final size:36
Alignment explanation
Indices: 79761--79834 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
79751 AAATTCTTAA
79761 TTAAACTAGAACTCTAACTAATCTAAACAAGAAACT
1 TTAAACTAGAACTCTAACTAATCTAAACAAGAAACT
79797 TTAAACTAGAACTCTAACTAATCTAAACAAGAAACT
1 TTAAACTAGAACTCTAACTAATCTAAACAAGAAACT
79833 TT
1 TT
79835 CTTGTTGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (36 bp):
TTAAACTAGAACTCTAACTAATCTAAACAAGAAACT
Found at i:94171 original size:231 final size:232
Alignment explanation
Indices: 93768--94231 Score: 851
Period size: 231 Copynumber: 2.0 Consensus size: 232
93758 TGACCAAAGT
*
93768 CCACCAAACCACTATTTTTAACCACTTATTCAACACATTAGGCCATGGAATATACAGACATATTC
1 CCACCAAACCACCATTTTTAACCACTTATTCAACACATTAGGCCATGGAATATACAGACATATTC
* *
93833 ACTTACACTTTTATTTCAACATTAATTTTGTTGGAGATTTTGAGTGGAGAAGACAGATTCGGAGA
66 ACTTACAATTTTATTTCAACATTAATTTTGTTGGAGATTTTGAGTGGAGAAGACAAATTCGGAGA
93898 CAATATTGAATTAAACAGTAGACTTCAAAGCACGGATGACATTTTCCAAAGAGAATTTTTTCCCC
131 CAATATTGAATTAAACAGTAGACTTCAAAGCACGGATGACATTTTCCAAAGAGAATTTTTTCCCC
*
93963 CACACAAAGTTGCTACAAGGTTAAGACAAA-GTCTTC
196 CACACAAAGTTACTACAAGGTTAAGACAAAGGTCTTC
93999 CCACCAAACCACCATTTTTAACCACTTATTCAACACATTAGGCCATGGAATATACAGACATATTC
1 CCACCAAACCACCATTTTTAACCACTTATTCAACACATTAGGCCATGGAATATACAGACATATTC
94064 ACTTACAATTTTATTTCAACATTAATTTTGTTGGAGATTTTGAGTGGAGAAGACAAATTCGGAGA
66 ACTTACAATTTTATTTCAACATTAATTTTGTTGGAGATTTTGAGTGGAGAAGACAAATTCGGAGA
* *
94129 CAATATTGAATTAAACAGTAGCCTTCGAAGCACAGG-TGACATTTTCCAAAGAGAATTTTTTCCC
131 CAATATTGAATTAAACAGTAGACTTCAAAGCAC-GGATGACATTTTCCAAAGAGAATTTTTTCCC
94193 CCACACAAAGTTACTACAAGGTTAAGACAAAGGTCTTC
195 CCACACAAAGTTACTACAAGGTTAAGACAAAGGTCTTC
94231 C
1 C
94232 TGGGATACAA
Statistics
Matches: 225, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
231 216 0.96
232 9 0.04
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (232 bp):
CCACCAAACCACCATTTTTAACCACTTATTCAACACATTAGGCCATGGAATATACAGACATATTC
ACTTACAATTTTATTTCAACATTAATTTTGTTGGAGATTTTGAGTGGAGAAGACAAATTCGGAGA
CAATATTGAATTAAACAGTAGACTTCAAAGCACGGATGACATTTTCCAAAGAGAATTTTTTCCCC
CACACAAAGTTACTACAAGGTTAAGACAAAGGTCTTC
Found at i:99859 original size:150 final size:150
Alignment explanation
Indices: 99523--100032 Score: 675
Period size: 150 Copynumber: 3.3 Consensus size: 150
99513 AATCATTACA
*
99523 TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTA-AAAAAATCAAAACTTTCTTAAAAATTT
1 TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTTTGTTAAAAATTT
* * **
99587 AAATTTTTTCTTTAAAATAACTAGAAAACAAATTTTTGTTTTTTTTTTTTTAATCTAAACTTTCT
66 AAATTTTTTCTTTAAAATAACTA-AAAA-AAA-TATT-TTTATTTTTTTAAAATCTAAACTTTCT
*
99652 CTTTTTTTTTAAAGAAAATCACTATT
127 C--TTTTTTAAAAGAAAATCACTATT
* * * * * *
99678 TTGCTTAAAAATCTAAATTTTTATTTTGAAATAATTAGAAAAAATCAAAACTTTGTTAAAATTTT
1 TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTTTGTTAAAAATTT
* *
99743 AAATTTTTTCTTTAAAATAACTAAAAAATATGTTTTTATTTTTTTAAAATCTAAACTTTCTCTTT
66 AAATTTTTTCTTTAAAATAACTAAAAAAAATATTTTTATTTTTTTAAAATCTAAACTTTCTCTTT
99808 TTTAAAAGAAAATCACTATT
131 TTTAAAAGAAAATCACTATT
*
99828 TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAATTTTGTTAAAAATTT
1 TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTTTGTTAAAAATTT
* * *
99893 AAACTTTTTCTTTAAAATAACTAAAAAACAA-ATTTTTATTTTTTTTAAAATTTAAATTTTCTC-
66 AAATTTTTTCTTTAAAATAACTAAAAAA-AATATTTTTA-TTTTTTTAAAATCTAAACTTTCTCT
99956 TTTTTAAAAGAAAATCACTATT
129 TTTTTAAAAGAAAATCACTATT
* * * * * *
99978 TTGCTTTAAAAAAATCAAAACTTTTATTTCAAAATTGTTTAAAAAAAAACAAAAC
1 TTAC-TT--AAAAATCCAAACTTTTATTTCGAAATAG-TTAGAAAAAATCAAAAC
100033 ATTTCCCAAA
Statistics
Matches: 316, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
150 138 0.44
151 25 0.08
152 25 0.08
153 28 0.09
154 16 0.05
155 36 0.11
156 48 0.15
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (150 bp):
TTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTTTGTTAAAAATTT
AAATTTTTTCTTTAAAATAACTAAAAAAAATATTTTTATTTTTTTAAAATCTAAACTTTCTCTTT
TTTAAAAGAAAATCACTATT
Found at i:99911 original size:51 final size:51
Alignment explanation
Indices: 99666--99920 Score: 145
Period size: 51 Copynumber: 5.1 Consensus size: 51
99656 TTTTTTAAAG
* * *
99666 AAAATCACTATTTTGCTTAAAAATCTAAA-TTTTTATTTTGAAATAATTAGAA
1 AAAATCAATATTTTG-TTAAAAATCTAAACTTTTT-CTTTAAAATAATTAGAA
* * * * * *
99718 AAAATCAAAACTTTGTTAAAATTTTAAATTTTTTCTTTAAAATAACTA-AA
1 AAAATCAATATTTTGTTAAAAATCTAAACTTTTTCTTTAAAATAATTAGAA
*** * * *
99768 AAATATGTTTTTATTTT-TTTAAAATCTAAACTTTCTCTTT----T--TTAAAA
1 AAA-A--TCAATATTTTGTTAAAAATCTAAACTTTTTCTTTAAAATAATTAGAA
* * * ** *
99815 GAAAATCACTATTTTACTTAAAAATCCAAACTTTTAT-TTCGAAATAGTTAGAA
1 -AAAATCAATATTTT-GTTAAAAATCTAAACTTTT-TCTTTAAAATAATTAGAA
* * *
99868 AAAATCAAAATTTTGTTAAAAATTTAAACTTTTTCTTTAAAATAACTA-AA
1 AAAATCAATATTTTGTTAAAAATCTAAACTTTTTCTTTAAAATAATTAGAA
99918 AAA
1 AAA
99921 CAAATTTTTA
Statistics
Matches: 151, Mismatches: 36, Indels: 34
0.68 0.16 0.15
Matches are distributed among these distances:
45 7 0.05
46 2 0.01
47 20 0.13
48 5 0.03
50 11 0.07
51 49 0.32
52 47 0.31
53 10 0.07
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (51 bp):
AAAATCAATATTTTGTTAAAAATCTAAACTTTTTCTTTAAAATAATTAGAA
Found at i:100911 original size:42 final size:42
Alignment explanation
Indices: 100857--101476 Score: 662
Period size: 42 Copynumber: 15.1 Consensus size: 42
100847 AAAATAAATG
* * * * * *
100857 AATGGACCTCTACGCCTAGGCCTCTAAATGTAATAAAAAATA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
100899 AATGGGCCTCTACACCTGGGCCTTTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
100941 AATGGACCTCCACACCTAGGCCTCTGATTGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
100983 CACGGGCCTCCACACTTGGGCCTCTAAATGCAAAT-AAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGC-AATGAAAAGTA
* *
101025 AATGGACCTCCACACCTGGGCCTTTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
101067 AATGGGCCTCCATACCTGGACCTTTGAATGCGAA-GAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGC-AATGAAAAGTA
* * *
101109 AATAGACCTCCACACCTAGGCCTCTGAATGCAATG---AGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
101148 AATGGGCC-CTCACACCTGGGCCTTTGAATGCGATGAAAAGTA
1 AATGGACCTC-CACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
101190 AATGGACCTCTACACCTAGGCCTCTAAATGCTATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
101232 AATGGACCTTCACACCTGGGCCTCTAAATGTAATCAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
101274 AATGGATCTCAACACCTGGGCCTTTAAATG---T----AG--
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
101307 --TGGACCTCCACACCTGAGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
101347 AATGGACCTCCACACCTAGACCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
101389 AATGGACCTCCACACTTGGGCCTCTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
101431 AATGGGCCTCCACACCTGGGCCTTTGAATGCGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
101473 AATG
1 AATG
101477 AATGCTTTCC
Statistics
Matches: 483, Mismatches: 75, Indels: 40
0.81 0.13 0.07
Matches are distributed among these distances:
31 24 0.05
34 1 0.00
35 2 0.00
38 3 0.01
39 33 0.07
41 5 0.01
42 409 0.85
43 6 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
Found at i:101333 original size:31 final size:31
Alignment explanation
Indices: 101276--101334 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
101266 CAAAAGTAAA
* * *
101276 TGGATCTCAACACCTGGGCCTTTAAATGTAG
1 TGGACCTCAACACCTGAGCCTCTAAATGTAG
*
101307 TGGACCTCCACACCTGAGCCTCTAAATG
1 TGGACCTCAACACCTGAGCCTCTAAATG
101335 CAATGAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (31 bp):
TGGACCTCAACACCTGAGCCTCTAAATGTAG
Found at i:101344 original size:115 final size:115
Alignment explanation
Indices: 101192--101420 Score: 343
Period size: 115 Copynumber: 2.0 Consensus size: 115
101182 GAAAAGTAAA
* * * * *
101192 TGGACCTCTACACCTAGGCCTCTAAATGCTATGAAAAGTAAATGGACCTTCACACCTGGGCCTCT
1 TGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGACCTCT
* * *
101257 AAATGTAATCAAAAGTAAATGGATCTCAACACCTGGGCCTTTAAATGTAG
66 AAATGCAATCAAAAGTAAATGGACCTCAACACCTGGGCCTCTAAATGTAG
101307 TGGACCTCCACACCT-GAGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGACCTC
1 TGGACCTCCACACCTAG-GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGACCTC
* * *
101371 TAAATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGTA
65 TAAATGCAATCAAAAGTAAATGGACCTCAACACCTGGGCCTCTAAATGTA
101421 ATGAAAAGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
114 1 0.01
115 101 0.99
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (115 bp):
TGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGACCTCT
AAATGCAATCAAAAGTAAATGGACCTCAACACCTGGGCCTCTAAATGTAG
Found at i:101371 original size:157 final size:158
Alignment explanation
Indices: 100989--101460 Score: 558
Period size: 157 Copynumber: 2.9 Consensus size: 158
100979 AGTACACGGG
* * *
100989 CCTCCACACTTGGGCCTCTAAATGCAAAT-AAAAGTAAATGGACCTCCACACCTGGGCCTTTAAA
1 CCTCCACACCTGGGCCTCTAAATGC-AATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAA
* * * * * * *
101053 TG-TAATGAAAAGTAAATGGGCCTCCATACCTGGACCTTTGAATGCGAA-GAAAAGTAAATAGAC
65 TGCT-ATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG-TAATGAAAAGTAAATGGAC
* * *
101116 CTCCACACCTAGGCCTCTGAATGCAATGAGTAAATGGG
128 CTCCACACCTGGGCCT-T---T-AAAT--GTAAATGGA
* * * *
101154 CC-CTCACACCTGGGCCTTTGAATGCGATGAAAAGTAAATGGACCTCTACACCTAGGCCTCTAAA
1 CCTC-CACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAA
* * *
101218 TGCTATGAAAAGTAAATGGACCTTCACACCTGGGCCTCTAAATGTAATCAAAAGTAAATGGATCT
65 TGCTATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCT
* *
101283 CAACACCTGGGCCTTTAAATGT-AGTGGA
130 CCACACCTGGGCCTTTAAATGTAAATGGA
* *
101311 CCTCCACACCTGAGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGACCTCTAAAT
1 CCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAAT
* * *
101376 GCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGTAATGAAAAGTAAATGGGCCTC
66 GCTATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCTC
*
101441 CACACCTGGGCCTTTGAATG
131 CACACCTGGGCCTTTAAATG
101461 CGATGAAAAG
Statistics
Matches: 266, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
157 138 0.52
158 3 0.01
160 3 0.01
161 1 0.00
164 6 0.02
165 114 0.43
166 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (158 bp):
CCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAAT
GCTATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGGACCTC
CACACCTGGGCCTTTAAATGTAAATGGA
Found at i:101917 original size:8 final size:8
Alignment explanation
Indices: 101881--101907 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
101871 TTGCTCTCTC
101881 TTTCTATT
1 TTTCTATT
101889 TTTCTATT
1 TTTCTATT
101897 TTTCTATT
1 TTTCTATT
101905 TTT
1 TTT
101908 TTGTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCTATT
Found at i:114922 original size:151 final size:151
Alignment explanation
Indices: 114752--115247 Score: 788
Period size: 151 Copynumber: 3.3 Consensus size: 151
114742 TGATTAAACA
* * * *
114752 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTA-AAAAAACCAAAACTT
1 AAAATCATTATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTT
* *
114816 TGTTAAAATTTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTTAAAAAATCT
66 TGTTAAAAATTAAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTT-AAAAATCT
114881 AAACTTTCTCTTTTTTTTAAAG
130 AAACTTTCTCTTTTTTTTAAAG
114903 AAAATCATTATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAAC-T
1 AAAATCATTATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTT
*
114967 TGTTAAAAATTAAAACTTTTTCTTTAAAAATAACTAAAAAATAAATTTTTATTTTTTAAAAATCT
66 TGTTAAAAATTAAAACTTTTTCTTT-AAAATAACTAAAAAATAGATTTTTATTTTTTAAAAATCT
115032 AAACTTTCTC--TTTTTTAAAG
130 AAACTTTCTCTTTTTTTTAAAG
* *
115052 AAAAT-TTCTATTTTGCTTAAAAATCCAAACTTTTATTTCTAAATAGTTAGAAAAAATCAAAACT
1 AAAATCAT-TATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACT
* * *
115116 TTGTTAAAAATTAAAACTTTTTCTTTAAAATATCTAAAAAACAGATTTTTATTTTTTAAAAATTT
65 TTGTTAAAAATTAAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTTAAAAATCT
115181 AAACTTTCTCTTTTTTTTAAAG
130 AAACTTTCTCTTTTTTTTAAAG
*
115203 AAAATCATTATTTTGCTTAAAAAAT-CAAAGTTTTTATTTCGAAAT
1 AAAATCATTATTTTGCTT-AAAAATCCAAA-CTTTTATTTCGAAAT
115248 TGTTTAAAAA
Statistics
Matches: 320, Mismatches: 16, Indels: 17
0.91 0.05 0.05
Matches are distributed among these distances:
148 1 0.00
149 114 0.36
150 26 0.08
151 117 0.37
152 62 0.19
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (151 bp):
AAAATCATTATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTT
TGTTAAAAATTAAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTTAAAAATCTA
AACTTTCTCTTTTTTTTAAAG
Found at i:116165 original size:15 final size:15
Alignment explanation
Indices: 116145--116177 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
116135 TTTCTATAAC
116145 CATGACCACTAAGTT
1 CATGACCACTAAGTT
116160 CATGACCACTAAGTT
1 CATGACCACTAAGTT
116175 CAT
1 CAT
116178 ATACTCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (15 bp):
CATGACCACTAAGTT
Found at i:120774 original size:6 final size:6
Alignment explanation
Indices: 120765--120799 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
120755 GCCAACGCCA
120765 CCACCG CCACCG CCACCG CCACCG CCACCG CCACC
1 CCACCG CCACCG CCACCG CCACCG CCACCG CCACC
120800 ACTGTCACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.69, G:0.14, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:122253 original size:30 final size:30
Alignment explanation
Indices: 122217--122290 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
122207 AATAATTTAT
122217 ATTTTTATAATTTTTAAAATATTAAATCAA
1 ATTTTTATAATTTTTAAAATATTAAATCAA
122247 ATTTTTATAATTTTTAAAATATTAAATCAA
1 ATTTTTATAATTTTTAAAATATTAAATCAA
122277 ATTTTTATAATTTT
1 ATTTTTATAATTTT
122291 AGAAGAGATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAATATTAAATCAA
Found at i:122347 original size:14 final size:14
Alignment explanation
Indices: 122330--122359 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
122320 TTTAAAAATT
122330 AAAAATTAAATAAA
1 AAAAATTAAATAAA
*
122344 AAAACTTAAATAAA
1 AAAAATTAAATAAA
122358 AA
1 AA
122360 TTTTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATTAAATAAA
Found at i:125177 original size:4 final size:4
Alignment explanation
Indices: 125164--125246 Score: 73
Period size: 4 Copynumber: 20.5 Consensus size: 4
125154 AAATTTGAAG
* *
125164 GAAA -AAA GAAA GAAA GAAA GAAA GAAA GAAA G-AA GGAA GAAT G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* *
125209 GAAA GAGAA GAAGA GGAA GAAGGA GAAA GAAA AAAA GA
1 GAAA GA-AA GAA-A GAAA GAA--A GAAA GAAA GAAA GA
125247 TAATGTGTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
3 8 0.12
4 46 0.71
5 7 0.11
6 4 0.06
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:126340 original size:14 final size:15
Alignment explanation
Indices: 126321--126366 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
126311 AACCTAACTA
126321 ATTAATTACCAAAAT
1 ATTAATTACCAAAAT
*
126336 A-TAATATA-AAAAAT
1 ATTAAT-TACCAAAAT
126350 AATTAATTACCAAAAT
1 -ATTAATTACCAAAAT
126366 A
1 A
126367 ATATTTGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAATTACCAAAAT
Found at i:126364 original size:16 final size:16
Alignment explanation
Indices: 126319--126368 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
126309 TAAACCTAAC
126319 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
*
126335 T-A-TAATATA-AAAAA
1 TAATTAAT-TACCAAAA
126349 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
126365 TAAT
1 TAAT
126369 ATTTGCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATTAATTACCAAAA
Found at i:126435 original size:30 final size:30
Alignment explanation
Indices: 126401--126495 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
126391 AAATAGTACA
*
126401 AAATAAATATTTATTTTGTACCATTTTAGG
1 AAATAAATATATATTTTGTACCATTTTAGG
** * * *
126431 AAAT-AAT-GGTGTGTGGATACCATTTT-GG
1 AAATAAATATATATTTTG-TACCATTTTAGG
* *
126459 TATATAAATATATATTTTGTACCATTTTAGT
1 -AAATAAATATATATTTTGTACCATTTTAGG
126490 AAATAA
1 AAATAA
126496 CCTATTTTGG
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 6 0.13
29 15 0.32
30 21 0.45
31 5 0.11
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (30 bp):
AAATAAATATATATTTTGTACCATTTTAGG
Found at i:128382 original size:45 final size:45
Alignment explanation
Indices: 128318--128405 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
128308 AGCTCATCAT
128318 GCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATACTCAA
1 GCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATACTCAA
* *
128363 GCCAAGGATATCAGCCTCAGTTTGACGAGCCACTGCAATACTC
1 GCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATACTC
128406 TACTCCTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (45 bp):
GCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATACTCAA
Found at i:128872 original size:21 final size:21
Alignment explanation
Indices: 128813--128862 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
128803 TAAGACCCAA
* *
128813 AACCCTAAATTTAAAACCTTT
1 AACCCTAAATTAAAAACCCTT
128834 AACCCTAAATTAAAAACCCTT
1 AACCCTAAATTAAAAACCCTT
128855 AACCCTAA
1 AACCCTAA
128863 TTCCAAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCCTAAATTAAAAACCCTT
Found at i:131763 original size:4 final size:4
Alignment explanation
Indices: 131741--131807 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
131731 AACACATTAC
* * * * *
131741 CTTT CTTT CCTCT CATT CTTT CTTT CCTT CATT CTTT CTTT CCTT CTTT
1 CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
131790 ATTTT CTTT CTTT CTTT C
1 -CTTT CTTT CTTT CTTT C
131808 CCGTTTATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
4 44 0.88
5 6 0.12
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (4 bp):
CTTT
Found at i:131774 original size:16 final size:16
Alignment explanation
Indices: 131741--131786 Score: 83
Period size: 16 Copynumber: 2.8 Consensus size: 16
131731 AACACATTAC
131741 CTTTCTTTCCTCTCATT
1 CTTTCTTTCCT-TCATT
131758 CTTTCTTTCCTTCATT
1 CTTTCTTTCCTTCATT
131774 CTTTCTTTCCTTC
1 CTTTCTTTCCTTC
131787 TTTATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 18 0.62
17 11 0.38
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.61
Consensus pattern (16 bp):
CTTTCTTTCCTTCATT
Found at i:132002 original size:27 final size:26
Alignment explanation
Indices: 131951--132002 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
131941 GCCAAGTGGT
* *
131951 AAAATACCCCTTAGTGCCGCTACTTC
1 AAAATACCCCTTAGTGCCACCACTTC
131977 AAAAT-CCTCCTTCAGTGCCACCACTT
1 AAAATACC-CCTT-AGTGCCACCACTT
132003 TATGTCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 9 0.41
27 11 0.50
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (26 bp):
AAAATACCCCTTAGTGCCACCACTTC
Found at i:137368 original size:205 final size:205
Alignment explanation
Indices: 137057--137527 Score: 547
Period size: 205 Copynumber: 2.3 Consensus size: 205
137047 CTTCTCTGTG
* * **
137057 TCTCATCAAGGAGCTAACCACTT-TATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAATTA
1 TCTCACCAAGAAGCTAA-C-CTTCTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTA
** **
137121 GAGTTCGAAGATTTTCTCACATCGGGCGTGAGTTTAATTTGGTCTTCTTCTCAGTATCTCATCGG
64 GAGTTCGAAGATTTTCTCACATCAAGCGTGAGTTTAATTTGGTCTTCTTCTCAGTATCTCATCAA
*** ** * *
137186 GAAGATGGTTGTGTCGTTTGTTTCAATTCG-TTCCTCAGTATCTCATCAGTAAAACGAATTTGGT
129 GAAGATGACCGCATCGTTTGTTTCAATCCGCTT-CTCAGTATCTCATCAGGAAAACGAATTTGGT
**
137250 CCACTTCTCCGTA
193 CCACTTCTCAATA
* * *
137263 TCTTACCAAGAAGCTAACCTT-TTTTGGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGG
1 TCTCACCAAGAAGCTAACCTTCTATT-GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAG
* * ** *
137327 GGTTCGAGGATTTGT-TCGTATCAAGCGTG-GCTTTGATTTGGTCTTCTTCTCAGTATCTCATCA
65 AGTTCGAAGATTT-TCTCACATCAAGCGTGAG-TTTAATTTGGTCTTCTTCTCAGTATCTCATCA
** *
137390 AGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGT
128 AGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCAGTATCTCATCAGGAAAACGAATTTGGT
137455 CCACTTCTCAATA
193 CCACTTCTCAATA
* * * * * *
137468 TCTCATCAGGAAGCTAACCTTCTATTGCTTTGACTTGCTTCTCAATATCTCATCAGGAAG
1 TCTCACCAAGAAGCTAACCTTCTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAG
137528 ATGACCGTAT
Statistics
Matches: 224, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
204 7 0.03
205 197 0.88
206 20 0.09
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (205 bp):
TCTCACCAAGAAGCTAACCTTCTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGA
GTTCGAAGATTTTCTCACATCAAGCGTGAGTTTAATTTGGTCTTCTTCTCAGTATCTCATCAAGA
AGATGACCGCATCGTTTGTTTCAATCCGCTTCTCAGTATCTCATCAGGAAAACGAATTTGGTCCA
CTTCTCAATA
Found at i:137610 original size:133 final size:133
Alignment explanation
Indices: 137372--137660 Score: 506
Period size: 133 Copynumber: 2.2 Consensus size: 133
137362 ATTTGGTCTT
*
137372 CTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTTTGTATCTCAT
1 CTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
*
137437 CAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCTTCTATTGCTTTGAC
66 CAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCTTCTATTGCTTCGAC
*
137502 TTG
131 CTG
* * *
137505 CTTCTCAATATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* *
137570 CAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTCTATTGCTTCGAC
66 CAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCTTCTATTGCTTCGAC
137635 CTG
131 CTG
137638 CTTCTCAGTATCTCATCAAGAAG
1 CTTCTCAGTATCTCATCAAGAAG
137661 TTGGAGTTCG
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 146 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (133 bp):
CTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCTTCTATTGCTTCGAC
CTG
Found at i:137847 original size:196 final size:196
Alignment explanation
Indices: 137513--137874 Score: 643
Period size: 196 Copynumber: 1.8 Consensus size: 196
137503 TGCTTCTCAA
* * *
137513 TATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGTATCTCATCAGGAAGA
* * *
137578 TGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTCTATTGCTTCGACCTGCTTCT
66 CGAATTTGGTCCAATTCTCAGTATCTCATAAGGAAGCTAACCTTCTATTGCTTCGACCTGCTTCT
* *
137643 CAGTATCTCATCAAGAAGTTGGAGTTCGAGGATTTGTTCGTGAGTCTAATCTGGTCTTCTTCTCG
131 CAGTATCTCATCAAGAAGCTGGAGTTCGAAGATTTGTTCGTGAGTCTAATCTGGTCTTCTTCTCG
137708 G
196 G
137709 TATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGTATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGTATCTCATCAGGAAGA
137774 CGAATTTGGTCCAATTCTCAGTATCTCATAAGGAAGCTAACCTTCTATTGCTTCGACCTGCTTCT
66 CGAATTTGGTCCAATTCTCAGTATCTCATAAGGAAGCTAACCTTCTATTGCTTCGACCTGCTTCT
*
137839 CAGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTG
131 CAGTATCTCATCAAGAAGCTGGAGTTCGAAGATTTG
137875 CTCACATCGA
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
196 157 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (196 bp):
TATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGTATCTCATCAGGAAGA
CGAATTTGGTCCAATTCTCAGTATCTCATAAGGAAGCTAACCTTCTATTGCTTCGACCTGCTTCT
CAGTATCTCATCAAGAAGCTGGAGTTCGAAGATTTGTTCGTGAGTCTAATCTGGTCTTCTTCTCG
G
Found at i:137848 original size:329 final size:333
Alignment explanation
Indices: 137167--137856 Score: 978
Period size: 329 Copynumber: 2.1 Consensus size: 333
137157 ATTTGGTCTT
* *** * *
137167 CTTCTCAGTATCTCATCGGGAAGATGGTTGTGTCGTTTGTTTCAATTCGTTCCTCAGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCGTTCCTCAGTATCTCAT
* * * *
137232 CAGTAAAACGAATTTGGTCCACTTCTCCGTATCTTACCAAGAAGCTAACCTTTTTTGGCTTCGAC
66 CAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCACCAAGAAGCTAACCTTTATTGGCTTCGAC
* * * * *
137297 CTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCAAGCGTGGCTTTG
131 CTGCTTCTCAGTATCTCATCAAGAAGCTGGAGTTCGAGGATTTGTTCG-AT--AGAGT-GC-TTA
* * * *
137362 ATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTT
191 ATCTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCACTTATC
* *
137427 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCTTCTA
256 TGTATCTCATCAGGAAGACGAATTTGGTCCAATTCTCAATATCTCATAAGGAAGCTAACCTTCTA
* *
137492 TTGCTTTGACTTG
321 TTGCTTCGACCTG
* *
137505 CTTCTCAATATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCGCTT-CTCTGTATCTCA
1 CTTCTCAGTATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCG-TTCCTCAGTATCTCA
* * * *
137569 TCAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTCTATT-GCTTCG
65 TCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCACCAAGAAGCTAACCTT-TATTGGCTTCG
*
137633 ACCTGCTTCTCAGTATCTCATCAAGAAGTTGGAGTTCGAGGATTTGTTCG-T-GAGT-C-TAATC
129 ACCTGCTTCTCAGTATCTCATCAAGAAGCTGGAGTTCGAGGATTTGTTCGATAGAGTGCTTAATC
* *
137694 TGGTCTTCTTCTCGGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGT
194 TGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGT
*
137759 ATCTCATCAGGAAGACGAATTTGGTCCAATTCTCAGTATCTCATAAGGAAGCTAACCTTCTATTG
259 ATCTCATCAGGAAGACGAATTTGGTCCAATTCTCAATATCTCATAAGGAAGCTAACCTTCTATTG
137824 CTTCGACCTG
324 CTTCGACCTG
137834 CTTCTCAGTATCTCATCAGGAAG
1 CTTCTCAGTATCTCATCAGGAAG
137857 CTGGAGTTCG
Statistics
Matches: 316, Mismatches: 34, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
329 155 0.49
331 1 0.00
333 3 0.01
336 1 0.00
338 151 0.48
339 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (333 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGTATCGTTTGTTTCAATCCGTTCCTCAGTATCTCAT
CAGGAAAACGAATTTGGTCCACTTCTCAGTATCTCACCAAGAAGCTAACCTTTATTGGCTTCGAC
CTGCTTCTCAGTATCTCATCAAGAAGCTGGAGTTCGAGGATTTGTTCGATAGAGTGCTTAATCTG
GTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCACTTATCTGTAT
CTCATCAGGAAGACGAATTTGGTCCAATTCTCAATATCTCATAAGGAAGCTAACCTTCTATTGCT
TCGACCTG
Found at i:149782 original size:30 final size:32
Alignment explanation
Indices: 149718--149782 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 32
149708 GCACGGGGGC
* * *
149718 AAAATGGTAGTTTTAGGAAATTTTAGGGTTAA
1 AAAATGGTAATTTTAGGAAATTTAAGGGTAAA
*
149750 AAAATGG-AATTTTA-GACATTTAAGGGTAAA
1 AAAATGGTAATTTTAGGAAATTTAAGGGTAAA
149780 AAA
1 AAA
149783 GGTAACTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 16 0.55
31 6 0.21
32 7 0.24
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.32
Consensus pattern (32 bp):
AAAATGGTAATTTTAGGAAATTTAAGGGTAAA
Found at i:149893 original size:29 final size:27
Alignment explanation
Indices: 149834--150275 Score: 235
Period size: 29 Copynumber: 14.9 Consensus size: 27
149824 ACATCCGGGA
149834 GTAAAATGGTAATTTTTTTGGAAGTATTGGG
1 GTAAAATGGT-A--TTTTTGGAAGT-TTGGG
*
149865 GTCAAAAATGATATTTTTGGAAGTTTGGGG
1 GT--AAAATGGTATTTTTGGAAGTTT-GGG
*
149895 GTAAAATGGTAATTTTTTGAAAGTTTTGGG
1 GTAAAATGGT-A-TTTTTGGAAG-TTTGGG
*
149925 GTTAAAAATGAG-ATTTTTGGAA-TATTAAGG
1 G-T-AAAATG-GTATTTTTGGAAGT-TT-GGG
*
149955 GTAAAATGGTAATTTTAGGAAGTTTTGGG
1 GTAAAATGGT-ATTTTTGGAAG-TTTGGG
* *
149984 GTTAAGAAATGAG-ATTTTTAGAAGTTCGAGG
1 G-T-A-AAATG-GTATTTTTGGAAGTTTG-GG
*
150015 GTAAAATGGTAATTTTAGGAAGTTTTGAGG
1 GTAAAATGGT-ATTTTTGGAAG-TTTG-GG
* * * *
150045 TTAAAAATGGGATTTTTTGAAGTTCGAGG
1 GT-AAAATGGTATTTTTGGAAGTTTG-GG
* * *
150074 GTAAAATGGTAATTTTAGAAAGTTTTGAG
1 GTAAAATGGT-ATTTTTGGAAG-TTTGGG
*
150103 GTCAAAAATGGAATTTTTGGAAGTTTGGGG
1 GT--AAAATGGTATTTTTGGAAGTTT-GGG
* *
150133 GTAAAATGGTAATTTTTAGAAGGTTCGGG
1 GTAAAATGGT-ATTTTTGGAA-GTTTGGG
150162 GTTAAAATGAG-ATTTTTGGAAGTTTTGGG
1 G-TAAAATG-GTATTTTTGGAAG-TTTGGG
* * *
150191 GTAAAATGATAAGTTTTGAAAGTTTTGGG
1 GTAAAATGGT-ATTTTTGGAAG-TTTGGG
* * * **
150220 GTTAAAAATGGGATTTTTTGAAGTTCGAAT
1 G-T-AAAATGGTATTTTTGGAAGTTTG-GG
150250 GTAAAATGGTAATTTTTGGATAGTTT
1 GTAAAATGGT-ATTTTTGGA-AGTTT
150276 AGGTTCCTCC
Statistics
Matches: 322, Mismatches: 48, Indels: 83
0.71 0.11 0.18
Matches are distributed among these distances:
27 2 0.01
28 48 0.15
29 106 0.33
30 103 0.32
31 42 0.13
32 12 0.04
33 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.28, T:0.38
Consensus pattern (27 bp):
GTAAAATGGTATTTTTGGAAGTTTGGG
Found at i:150082 original size:59 final size:60
Alignment explanation
Indices: 149834--150275 Score: 508
Period size: 59 Copynumber: 7.4 Consensus size: 60
149824 ACATCCGGGA
* * * * *
149834 GTAAAATGGTAATTTTTTTGGAAGTATTGGGGTCAAAAATGATATTTTTGGAAGTTTGGGG
1 GTAAAATGGTAA-TTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAGTTTGAGG
* * *
149895 GTAAAATGGTAATTTTTTGAAAGTTTTGGGGTTAAAAATGAGATTTTTGGAA-TATTAAGG
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAGT-TTGAGG
* *
149955 GTAAAATGGTAA-TTTTAGGAAGTTTTGGGGTTAAGAAATGAGATTTTTAGAAGTTCGAGG
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAA-AAATGAGATTTTTGGAAGTTTGAGG
* * * *
150015 GTAAAATGGTAA-TTTTAGGAAGTTTTGAGGTTAAAAATGGGATTTTTTGAAGTTCGAGG
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAGTTTGAGG
* * * *
150074 GTAAAATGGTAA-TTTTAGAAAGTTTTGAGGTCAAAAATG-GAATTTTTGGAAGTTTGGGG
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAG-ATTTTTGGAAGTTTGAGG
* *
150133 GTAAAATGGTAATTTTTA-GAAGGTTCGGGGTT-AAAATGAGATTTTTGGAAGTTTTG-GG
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAG-TTTGAGG
* * * * * * **
150191 GTAAAATGATAAGTTTT-GAAAGTTTTGGGGTTAAAAATGGGATTTTTTGAAGTTCGAAT
1 GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAGTTTGAGG
150250 GTAAAATGGTAATTTTT-GGATAGTTT
1 GTAAAATGGTAATTTTTAGGA-AGTTT
150276 AGGTTCCTCC
Statistics
Matches: 333, Mismatches: 37, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
58 49 0.15
59 156 0.47
60 115 0.35
61 13 0.04
ACGTcount: A:0.32, C:0.01, G:0.28, T:0.38
Consensus pattern (60 bp):
GTAAAATGGTAATTTTTAGGAAGTTTTGGGGTTAAAAATGAGATTTTTGGAAGTTTGAGG
Found at i:151371 original size:26 final size:27
Alignment explanation
Indices: 151337--151390 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
151327 GTATACTTTT
151337 TTATTATTAATAATTAAA-AATTATTA
1 TTATTATTAATAATTAAACAATTATTA
* * *
151363 TTATTATTATTATTTAAACATTTATTA
1 TTATTATTAATAATTAAACAATTATTA
151390 T
1 T
151391 AAAAAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATTATTAATAATTAAACAATTATTA
Found at i:152094 original size:17 final size:17
Alignment explanation
Indices: 152069--152151 Score: 78
Period size: 17 Copynumber: 4.9 Consensus size: 17
152059 TTTGGACATT
*
152069 TAAAATTAAATTTATAA
1 TAAATTTAAATTTATAA
**
152086 TAAATTTAAATTTCA-GC
1 TAAATTTAAATTT-ATAA
152103 TAAATTTAAATTTATAA
1 TAAATTTAAATTTATAA
* * * *
152120 TAAACTCAATTTTAAAA
1 TAAATTTAAATTTATAA
*
152137 TAAATTTAAGTTTAT
1 TAAATTTAAATTTAT
152152 TGGGCCCAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
16 1 0.02
17 49 0.96
18 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:152141 original size:34 final size:34
Alignment explanation
Indices: 152069--152151 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
152059 TTTGGACATT
* * * * **
152069 TAAAATTAAATTTATAATAAATTTAAATTTCAGC
1 TAAATTTAAATTTATAATAAACTCAAATTTAAAA
*
152103 TAAATTTAAATTTATAATAAACTCAATTTTAAAA
1 TAAATTTAAATTTATAATAAACTCAAATTTAAAA
*
152137 TAAATTTAAGTTTAT
1 TAAATTTAAATTTAT
152152 TGGGCCCAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (34 bp):
TAAATTTAAATTTATAATAAACTCAAATTTAAAA
Found at i:165830 original size:13 final size:12
Alignment explanation
Indices: 165812--165854 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
165802 TGGTTTTATA
165812 AAAATTAAAAAT
1 AAAATTAAAAAT
*
165824 AACAATTATAAAT
1 AA-AATTAAAAAT
165837 AAAA-TAAAATAT
1 AAAATTAAAA-AT
165849 AAAATT
1 AAAATT
165855 CACCTCATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 12 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:167227 original size:18 final size:19
Alignment explanation
Indices: 167193--167228 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
167183 AATAATTTTT
167193 AAATTTAAAATATTTATAA
1 AAATTTAAAATATTTATAA
*
167212 AAATTTCAAA-ATTTATA
1 AAATTTAAAATATTTATA
167229 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTAAAATATTTATAA
Found at i:176863 original size:16 final size:16
Alignment explanation
Indices: 176842--176872 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
176832 TTCATTATTA
*
176842 TGTCTTTTGTATTTTT
1 TGTCTTTCGTATTTTT
176858 TGTCTTTCGTATTTT
1 TGTCTTTCGTATTTT
176873 GAATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.10, G:0.13, T:0.71
Consensus pattern (16 bp):
TGTCTTTCGTATTTTT
Found at i:189578 original size:26 final size:25
Alignment explanation
Indices: 189532--189580 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
189522 AATAATAAAA
*
189532 TATAAAATTATATTTAATAATTTAT
1 TATAAAATTATAATTAATAATTTAT
*
189557 TATAAAATATTTAATTAATAATTT
1 TATAAAAT-TATAATTAATAATTT
189581 GGGCTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATAAAATTATAATTAATAATTTAT
Found at i:189592 original size:22 final size:22
Alignment explanation
Indices: 189567--189612 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
189557 TATAAAATAT
*
189567 TTAATTA-ATAATTTGGGCTTAA
1 TTAATTATATAAATTGGG-TTAA
*
189589 TTAATTATTTAAATTGGGTTAA
1 TTAATTATATAAATTGGGTTAA
189611 TT
1 TT
189613 TTATTCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (22 bp):
TTAATTATATAAATTGGGTTAA
Found at i:206229 original size:45 final size:45
Alignment explanation
Indices: 206168--206936 Score: 735
Period size: 45 Copynumber: 17.2 Consensus size: 45
206158 GGTGAAACGT
* * * *
206168 ATATCATGTATGTCGTATAGTATAATTAATCAAATAATATTTACC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* * *
206213 ATATCACGAATATCGTATAACATAATCAATCAAATAATATTTATC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* *
206258 ATATCATGCATATCGTATAGCATAATCAAGCAAATAATATTTACC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* * * *
206303 ATATCATGTATATCGTATAGCACACTTAATCAAATAATATTTACC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
** * * *
206348 ATATCAT-AATTAATCAAATA--ATAATTACCACATCATGCAT-ATCATATAGC
1 ATATCATGAA-T-ATCGTATAGCATAA-T--CA-ATCA--AATAAT-ATTTACC
* * * * * *
206398 ACATCATGCATATCATATAGCACAATCAATAAAATAATATTTCCC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* *
206443 ATATCAT-ACATATCGTATAGCATAATCAATTAGATAATATTTACC
1 ATATCATGA-ATATCGTATAGCATAATCAATCAAATAATATTTACC
* * * * * * *
206488 ATGTCATGCATATCATATATCATAATCAATCAAGTAATATATATC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* * *
206533 ATATCAT-ACATGTTGTATAGCATAATCAATCAAATAATATTTATC
1 ATATCATGA-ATATCGTATAGCATAATCAATCAAATAATATTTACC
*
206578 ATATCAT-ACATATCGTATAGCATAATCAATCAAATAATATTTACT
1 ATATCATGA-ATATCGTATAGCATAATCAATCAAATAATATTTACC
* * *
206623 ATGTCATGCATATCGTATAGTATAATCAATCAAATAATATTTACC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* * *
206668 ATGTCATGCATATCGTACAGCATAATCAATCAAATAATATTTACC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
*
206713 ATATCAT-ACATATCGTATAGCATAATCAATCAAATAATATTTATC
1 ATATCATGA-ATATCGTATAGCATAATCAATCAAATAATATTTACC
* * *
206758 ATGTC-T---TA-C--ATA-CATTATCAATCAAATAATATTTATC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
*
206795 ATATCAT-ACATATCGTATAGCATAATTAATCAAATAATATTTACC
1 ATATCATGA-ATATCGTATAGCATAATCAATCAAATAATATTTACC
* ** * * * * *
206840 ATGTCATTCATATCGTATAGAATACTTAATCAAATAATATTGATC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
* * * ** *
206885 ATATCATGCATATCATATAACATAGCCAATCAAATAATATTTAAC
1 ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
206930 ATATCAT
1 ATATCAT
206937 ATAGCATAAT
Statistics
Matches: 602, Mismatches: 95, Indels: 54
0.80 0.13 0.07
Matches are distributed among these distances:
37 28 0.05
38 4 0.01
40 1 0.00
41 4 0.01
42 1 0.00
44 7 0.01
45 511 0.85
46 8 0.01
47 4 0.01
48 6 0.01
49 9 0.01
50 15 0.02
51 4 0.01
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (45 bp):
ATATCATGAATATCGTATAGCATAATCAATCAAATAATATTTACC
Found at i:206317 original size:90 final size:90
Alignment explanation
Indices: 206180--206936 Score: 829
Period size: 90 Copynumber: 8.4 Consensus size: 90
206170 ATCATGTATG
* * * * *
206180 TCGTATAGTATAATTAATCAAATAATATTTACCATATCACGAATATCGTATAACATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
*
206245 AATAATATTTATCATATCATGCATA
66 AATAATATTTATCATATCATACATA
* * * * *
206270 TCGTATAGCATAATCAAGCAAATAATATTTACCATATCATGTATATCGTATAGCACACTTAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
*
206335 AATAATATTTACCATATCATA-ATTAA
66 AATAATATTTATCATATCATACA-T-A
** * * * * * *
206361 TCAAATA--ATAATTACCACATCATGCAT-ATCATATAGCACATCATGCATATCATATAGCACAA
1 TCGTATAGCATAA-T--CA-ATCA--AATAAT-ATTTACCATATCATGCATATCGTATAGCATAA
* **
206423 TCAATAAAATAATATTTCCCATATCATACATA
59 TCAATCAAATAATATTTATCATATCATACATA
* * * * *
206455 TCGTATAGCATAATCAATTAGATAATATTTACCATGTCATGCATATCATATATCATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
* * *
206520 AGTAATATATATCATATCATACATG
66 AATAATATTTATCATATCATACATA
* * *
206545 TTGTATAGCATAATCAATCAAATAATATTTATCATATCATACATATCGTATAGCATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
* *
206610 AATAATATTTA-CTATGTCATGCATA
66 AATAATATTTATC-ATATCATACATA
* * *
206635 TCGTATAGTATAATCAATCAAATAATATTTACCATGTCATGCATATCGTACAGCATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
*
206700 AATAATATTTACCATATCATACATA
66 AATAATATTTATCATATCATACATA
* * *
206725 TCGTATAGCATAATCAATCAAATAATATTTATCATGTC-T---TA-C--ATA-CATTATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
206782 AATAATATTTATCATATCATACATA
66 AATAATATTTATCATATCATACATA
* * * * * *
206807 TCGTATAGCATAATTAATCAAATAATATTTACCATGTCATTCATATCGTATAGAATACTTAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
* *
206872 AATAATATTGATCATATCATGCATA
66 AATAATATTTATCATATCATACATA
* * ** *
206897 TCATATAACATAGCCAATCAAATAATATTTAACATATCAT
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
206937 ATAGCATAAT
Statistics
Matches: 563, Mismatches: 81, Indels: 46
0.82 0.12 0.07
Matches are distributed among these distances:
82 71 0.13
83 3 0.01
85 1 0.00
86 4 0.01
87 1 0.00
89 10 0.02
90 386 0.69
91 9 0.02
92 5 0.01
93 5 0.01
94 8 0.01
95 55 0.10
96 5 0.01
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (90 bp):
TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCA
AATAATATTTATCATATCATACATA
Found at i:206361 original size:29 final size:29
Alignment explanation
Indices: 206328--206383 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
206318 TATAGCACAC
* *
206328 TTAATCAAATAATATTTACCATATCATAA
1 TTAATCAAATAATAATTACCACATCATAA
206357 TTAATCAAATAATAATTACCACATCAT
1 TTAATCAAATAATAATTACCACATCAT
206384 GCATATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (29 bp):
TTAATCAAATAATAATTACCACATCATAA
Found at i:206373 original size:15 final size:15
Alignment explanation
Indices: 206328--206374 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
206318 TATAGCACAC
206328 TTAATCAAATAAT-A
1 TTAATCAAATAATAA
* * * *
206342 TTTACCATATCATAA
1 TTAATCAAATAATAA
206357 TTAATCAAATAATAA
1 TTAATCAAATAATAA
206372 TTA
1 TTA
206375 CCACATCATG
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATCAAATAATAA
Found at i:206400 original size:21 final size:21
Alignment explanation
Indices: 206376--206421 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
206366 TAATAATTAC
206376 CACATCATGCATATCATATAG
1 CACATCATGCATATCATATAG
206397 CACATCATGCATATCATATAG
1 CACATCATGCATATCATATAG
206418 CACA
1 CACA
206422 ATCAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (21 bp):
CACATCATGCATATCATATAG
Found at i:206582 original size:135 final size:135
Alignment explanation
Indices: 206180--206937 Score: 854
Period size: 135 Copynumber: 5.6 Consensus size: 135
206170 ATCATGTATG
* * * * * *
206180 TCGTATAGTATAATTAATCAAATAATATTTACCATATCACGAATATCGTATAACATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATATCATAATCAATCA
* *
206245 AATAATATTTATCATATCATGCATATCGTATAGCATAATCAAGCAAATAATATTTACCATATCAT
66 AATAATATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
**
206310 GTATA
131 ACATA
* * * * * * * *
206315 TCGTATAGCACACTTAATCAAATAATATTTACCATATCAT-AATTAATCAAATAATAATTACCAC
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCA-T-ATCATAT-ATCATAATCA-
* * * * * * * * *
206379 ATCATGCAT-ATCATATAGCACATCATGCATATCATATAGCACAATCAATAAAATAATATTTCCC
62 ATCA--AATAAT-ATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACC
206443 ATATCATACATA
124 ATATCATACATA
* * *
206455 TCGTATAGCATAATCAATTAGATAATATTTACCATGTCATGCATATCATATATCATAATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATATCATAATCAATCA
* * * * *
206520 AGTAATATATATCATATCATACATGTTGTATAGCATAATCAATCAAATAATATTTATCATATCAT
66 AATAATATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
206585 ACATA
131 ACATA
* * *
206590 TCGTATAGCATAATCAATCAAATAATATTTACTATGTCATGCATATCGTATAGT-ATAATCAATC
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATA-TCATAATCAATC
* * * *
206654 AAATAATATTTACCATGTCATGCATATCGTACAGCATAATCAATCAAATAATATTTACCATATCA
65 AAATAATATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCA
206719 TACATA
130 TACATA
* * *
206725 TCGTATAGCATAATCAATCAAATAATATTTATCATGTC-T---TA-C--ATA-CATTATCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATATCATAATCAATCA
* *
206782 AATAATATTTATCATATCATACATATCGTATAGCATAATTAATCAAATAATATTTACCATGTCAT
66 AATAATATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
*
206847 TCATA
131 ACATA
* * * * * * **
206852 TCGTATAGAATACTTAATCAAATAATATTGATCATATCATGCATATCATATAACATAGCCAATCA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATATCATAATCAATCA
*
206917 AATAATATTTAACATATCATA
66 AATAATATTTATCATATCATA
206938 TAGCATAATC
Statistics
Matches: 528, Mismatches: 76, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
127 106 0.20
128 4 0.01
130 1 0.00
131 4 0.01
132 1 0.00
134 6 0.01
135 277 0.52
136 8 0.02
137 10 0.02
138 11 0.02
139 8 0.02
140 91 0.17
141 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (135 bp):
TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCATATATCATAATCAATCA
AATAATATTTATCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
ACATA
Found at i:206785 original size:82 final size:83
Alignment explanation
Indices: 206686--206970 Score: 308
Period size: 82 Copynumber: 3.4 Consensus size: 83
206676 CATATCGTAC
*
206686 AGCATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAAT
1 AGCATTATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAAT
*
206751 ATTTATCATGTCTTACAT
66 ATTTAACATGTCTTACAT
* *
206769 A-CATTATCAATCAAATAATATTTATCATATCATACATATCGTATAGCATAATTAATCAAATAAT
1 AGCATTATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAAT
*
206833 ATTTACCATGTCATTCATATCGTAT
66 ATTTAACATGTC--T--TA-C--AT
* * * * * * * **
206858 AG-AATACTTAATCAAATAATATTGATCATATCATGCATATCATATAACATAGCCAATCAAATAA
1 AGCATTA-TCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAA
* *
206922 TATTTAACATATC--ATAT
65 TATTTAACATGTCTTACAT
* *
206939 AGCATAATCAATCAAATAACATTTACCATATC
1 AGCATTATCAATCAAATAATATTTACCATATC
206971 GTATAGCATA
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
81 25 0.15
82 73 0.43
83 1 0.01
84 2 0.01
86 2 0.01
87 1 0.01
89 6 0.04
90 60 0.35
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (83 bp):
AGCATTATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAAT
ATTTAACATGTCTTACAT
Found at i:206951 original size:36 final size:36
Alignment explanation
Indices: 206893--207028 Score: 182
Period size: 36 Copynumber: 3.8 Consensus size: 36
206883 TCATATCATG
* ** *
206893 CATATCATATAACATAGCCAATCAAATAATATTTAA
1 CATATCATATAGCATAATCAATCAAATAATATTTAC
*
206929 CATATCATATAGCATAATCAATCAAATAACATTTAC
1 CATATCATATAGCATAATCAATCAAATAATATTTAC
* * *
206965 CATATCGTATAGCATAATTAATCTAATAATATTTAC
1 CATATCATATAGCATAATCAATCAAATAATATTTAC
* *
207001 CTTATCATATAGCATAATTAATCAAATA
1 CATATCATATAGCATAATCAATCAAATA
207029 CTAACTAACT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (36 bp):
CATATCATATAGCATAATCAATCAAATAATATTTAC
Found at i:207603 original size:29 final size:28
Alignment explanation
Indices: 207530--207891 Score: 266
Period size: 28 Copynumber: 12.6 Consensus size: 28
207520 TGAAATATAA
*
207530 TGGCAAAACTGTAAAATTTGG-AAACTAG
1 TGGCAAAACTGTAAAATCTGGAAAAC-AG
* * * *
207558 TGGTAAAACTTTAAATTTTGGAAAACAG
1 TGGCAAAACTGTAAAATCTGGAAAACAG
* * *
207586 TGACAAAACTGTAAAATTTGGAAAACCAA
1 TGGCAAAACTGTAAAATCTGGAAAA-CAG
* * *
207615 T-G-ACAACTGTAAAATCTAGAAAATTAG
1 TGGCAAAACTGTAAAATCTGGAAAA-CAG
* * *
207642 TGGTAAAACTGTAAAATCTGGAAATCCAA
1 TGGCAAAACTGTAAAATCTGGAAA-ACAG
* **
207671 TGACAAAACTGTAAAATCTAAAAAACAG
1 TGGCAAAACTGTAAAATCTGGAAAACAG
* * ** *
207699 TGGTAAAATTGTAAAATCTAAAAAACAA
1 TGGCAAAACTGTAAAATCTGGAAAACAG
* *
207727 TGG-AAAACTGTAAAATCTGGAAATCCG
1 TGGCAAAACTGTAAAATCTGGAAAACAG
* * *
207754 ATGGCAAAACTAT-AAATCTAGAAAACAA
1 -TGGCAAAACTGTAAAATCTGGAAAACAG
* * * *
207782 TGTCAAAACTATAAAATTTAGAAGAAAAAAAAATAG
1 TGGCAAAACTGTAAAATCT-G--G-----AAAACAG
* *
207818 TGGCAAAACTGTAAAATTTAGAAAACAG
1 TGGCAAAACTGTAAAATCTGGAAAACAG
207846 TGGCAAAACTGTAAAATCTGGAAAACTAG
1 TGGCAAAACTGTAAAATCTGGAAAAC-AG
207875 TGGCAAAACTGTAAAAT
1 TGGCAAAACTGTAAAAT
207892 AGTGGCAGTT
Statistics
Matches: 265, Mismatches: 52, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
27 49 0.18
28 120 0.45
29 72 0.27
31 1 0.00
33 1 0.00
36 22 0.08
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (28 bp):
TGGCAAAACTGTAAAATCTGGAAAACAG
Found at i:208389 original size:3 final size:3
Alignment explanation
Indices: 208368--208405 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
208358 GGGAAAAAAG
* *
208368 AAT AAT TAT AAT CAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
208406 ATATAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:209567 original size:21 final size:21
Alignment explanation
Indices: 209541--209580 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
209531 CAGAGTATGA
209541 TTAATCTCTAGCTTATCCAAT
1 TTAATCTCTAGCTTATCCAAT
209562 TTAATCTCTAGCTTATCCA
1 TTAATCTCTAGCTTATCCA
209581 GTTTTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (21 bp):
TTAATCTCTAGCTTATCCAAT
Found at i:211335 original size:108 final size:108
Alignment explanation
Indices: 211143--211358 Score: 362
Period size: 108 Copynumber: 2.0 Consensus size: 108
211133 GAGGTTGAAA
* * * * *
211143 GTCATTCTTGGTGCACTTTATTTTGAACGCTCTTCCACCTTAGTATGAGTCATTTAAGATCTCCT
1 GTCATTCTTGGCGCACTTTATTTTGAACACTCTTCCACCTCAATATGAGTCATTTAAAATCTCCT
211208 ATAACACACATAAAGATAAGTGGTCTATCGATGAGCTTTTGAC
66 ATAACACACATAAAGATAAGTGGTCTATCGATGAGCTTTTGAC
211251 GTCATTCTTGGCGCACTTTATTTTGAACACTCTTCCACCTCAATATGAGTCATTTAAAATCTCCT
1 GTCATTCTTGGCGCACTTTATTTTGAACACTCTTCCACCTCAATATGAGTCATTTAAAATCTCCT
*
211316 ATAACACACAT-AAGTATAAGTGGTCTATTGATGAGCTTTTGAC
66 ATAACACACATAAAG-ATAAGTGGTCTATCGATGAGCTTTTGAC
211359 CATGTGTGAT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 3 0.03
108 98 0.97
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (108 bp):
GTCATTCTTGGCGCACTTTATTTTGAACACTCTTCCACCTCAATATGAGTCATTTAAAATCTCCT
ATAACACACATAAAGATAAGTGGTCTATCGATGAGCTTTTGAC
Done.