Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 98 of 173
Found at i:30611327 original size:67 final size:66
Alignment explanation
Indices: 30610986--30611314 Score: 150
Period size: 73 Copynumber: 4.9 Consensus size: 66
30610976 TTAAATTAGG
* * * *
30610986 TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTGAATTAATTTAGGTTACAGTTAG
1 TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA-GATTTAGGATT-A---A-GTTA-GGTTAG
**
30611051 GGTTAGGG
59 GGTTAGAA
* * * * * *
30611059 TTAAGGTTAGGGTTTTTAATTAGGGTTTTTAATTATGGTTTTGAATTAATTTAGGTTAGGGTTAG
1 TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA-GATTTAGGATTAAGTTAGGTTAGGGTTA-
30611124 GGTTAA
64 -G--AA
* * *
30611130 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGATTTTGAATTAA-TTAGGTTAGGGTT
1 --TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA-GATTTAGGATTAAGTTAGGTTAGGGTT
**
30611194 AGGGT
63 A-GAA
**** * * *
30611199 TTTTAATTAGGGTATTTAATTA-GG---TT--TT-G-----GAATTAATTTAGGTTAGGGTTAGA
1 TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGATTTAGGATTAAGTTAGGTTAGGGTTAGA
*
30611252 T
66 A
30611253 TTAGGGTTAGGGTTTTTAATTAGGGT-TTTGAATTA-ATTTAGG-TTAAGGTTAGGGTTAGGGTT
1 TTAGGGTTAGGGTTTTTAATTAGGGTATTT-AATTAGATTTAGGATTAA-GTTA-GGTTAGGGTT
30611315 TTTAATTAGG
Statistics
Matches: 209, Mismatches: 26, Indels: 49
0.74 0.09 0.17
Matches are distributed among these distances:
54 26 0.12
55 16 0.08
57 2 0.01
59 1 0.00
60 2 0.01
61 2 0.01
63 2 0.01
64 4 0.02
65 4 0.02
66 12 0.06
67 27 0.13
68 3 0.01
69 2 0.01
71 2 0.01
72 15 0.07
73 89 0.43
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (66 bp):
TTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGATTTAGGATTAAGTTAGGTTAGGGTTAGA
A
Found at i:30611328 original size:169 final size:167
Alignment explanation
Indices: 30611124--30611558 Score: 619
Period size: 169 Copynumber: 2.6 Consensus size: 167
30611114 TTAGGGTTAG
* * *
30611124 GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGATTTTGAATTAATTAGGTTA
1 GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTA--ATTTAG-GTTAATTAGGTTA
30611189 GGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTGGAATTAATTTAGGTTAGGGTTAGAT-
63 GGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTGGAATTAATTTAGGTTAGGGTTAG-TG
* *
30611253 TTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTA-ATTTA
127 TTAGGGTTAGGGTTTTGAATTAGGGTTTTAAATTAGATTTA
*
30611293 GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTA
1 GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTA--ATTA-GGTTA
* * * *
30611358 GGGCTAGGATTTTTAATTAAGGTATTTAATTAGGTTTTTGAATTAATTTAGGTTAGGGTTAGTGT
63 GGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTGGAATTAATTTAGGTTAGGGTTAGTGT
*
30611423 TAGGGTTAGGGTTTTGAATTAGGGTTTTAAATTAGGGTTTA
128 TAGGGTTAGGGTTTTGAATTAGGGTTTTAAATTA-GATTTA
* * *
30611464 GGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGGTTTTGAATTAATTTAGGTT-A--GGGTTAGGG
1 GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAATTAGGTTAGGG
* *
30611526 TTAGGGTTTTTAATTAGGGTTTTTATTTAGGTT
66 TTAGGGTTTTTAATTAGGGTATTTAATTAGGTT
30611559 AGAGTTTTTA
Statistics
Matches: 240, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
165 36 0.15
166 3 0.01
167 5 0.02
168 4 0.02
169 138 0.57
171 54 0.22
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (167 bp):
GGTTAAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAATTAGGTTAGGG
TTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTGGAATTAATTTAGGTTAGGGTTAGTGTTAG
GGTTAGGGTTTTGAATTAGGGTTTTAAATTAGATTTA
Found at i:30611386 original size:67 final size:66
Alignment explanation
Indices: 30611314--30611462 Score: 217
Period size: 67 Copynumber: 2.2 Consensus size: 66
30611304 GGGTTAGGGT
* *
30611314 TTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGGCTAGGATTTTTAATTAAG
1 TTTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTGAATTAAG
30611379 G
66 G
* * * * *
30611380 TATTTAATTAGGTTTTTGAATTAATTTAGGTTAGGGTTAGTGTTAGGGTTAGGGTTTTGAATTAG
1 T-TTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTGAATTAA
30611445 GG
65 GG
30611447 TTTTAAATTAGGGTTT
1 TTTT-AATTAGGGTTT
30611463 AGGTTAGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
66 4 0.05
67 69 0.95
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.47
Consensus pattern (66 bp):
TTTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTGAATTAAG
G
Found at i:30611419 original size:6 final size:6
Alignment explanation
Indices: 30611408--30611485 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
30611398 AATTAATTTA
* * ** **
30611408 GGTTAG GGTTAG TGTTAG GGTTAG GGTTTTG AATTAG GGTTTTA- AATTAG
1 GGTTAG GGTTAG GGTTAG GGTTAG GG-TTAG GGTTAG GG--TTAG GGTTAG
30611458 GGTTTA- GGTTAG GGTTAG GGTTAG GGTT
1 GG-TTAG GGTTAG GGTTAG GGTTAG GGTT
30611486 TTTAATTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
5 6 0.11
6 39 0.72
7 6 0.11
8 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (6 bp):
GGTTAG
Found at i:30611446 original size:13 final size:13
Alignment explanation
Indices: 30611428--30611506 Score: 72
Period size: 13 Copynumber: 6.2 Consensus size: 13
30611418 AGTGTTAGGG
30611428 TTAGGGTTTTGAA
1 TTAGGGTTTTGAA
*
30611441 TTAGGGTTTTAAA
1 TTAGGGTTTTGAA
* *
30611454 TTAGGGTTTAG-G
1 TTAGGGTTTTGAA
* **
30611466 TTAGGG-TTAGGG
1 TTAGGGTTTTGAA
*
30611478 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
*
30611491 TTAAGGTTTTGAA
1 TTAGGGTTTTGAA
30611504 TTA
1 TTA
30611507 ATTTAGGTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
11 4 0.07
12 13 0.24
13 37 0.69
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:30611558 original size:12 final size:13
Alignment explanation
Indices: 30611526--30611556 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30611516 AGGGTTAGGG
30611526 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
30611539 TTAGGGTTTTTAT
1 TTAGGGTTTTTAA
30611552 TTAGG
1 TTAGG
30611557 TTAGAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:30611604 original size:25 final size:25
Alignment explanation
Indices: 30611564--30611676 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
30611554 AGGTTAGAGT
*
30611564 TTTTATTACATTAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
30611589 TGTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
30611612 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
30611634 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
30611659 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
30611677 TATTTAAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 2 0.03
24 11 0.16
25 42 0.60
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:30612112 original size:18 final size:18
Alignment explanation
Indices: 30612078--30612112 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30612068 CGGAAAAGGA
*
30612078 TACATATAAGCGTTAGGG
1 TACATATAAGCGCTAGGG
*
30612096 TACATATAAGGGCTAGG
1 TACATATAAGCGCTAGG
30612113 AAACGCACCT
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:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
TACATATAAGCGCTAGGG
Found at i:30612775 original size:7 final size:7
Alignment explanation
Indices: 30612765--30612789 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30612755 TTATATACAT
30612765 AATACTA
1 AATACTA
30612772 AATACTA
1 AATACTA
30612779 AATACTA
1 AATACTA
30612786 AATA
1 AATA
30612790 TTAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30613998 original size:11 final size:11
Alignment explanation
Indices: 30613982--30614060 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 11
30613972 TAATTTTAGA
30613982 AGGAAATTGAG
1 AGGAAATTGAG
*
30613993 AGGAAATTGAA
1 AGGAAATTGAG
*
30614004 ATGAAATATGAGTTTG
1 AGGAAAT-TGA----G
* *
30614020 AGAGAATTTTAG
1 AG-GAAATTGAG
30614032 AAGGAAATTGAG
1 -AGGAAATTGAG
30614044 A-GAAATTGAG
1 AGGAAATTGAG
30614054 AGGAAAT
1 AGGAAAT
30614061 ATTAGAGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
10 10 0.19
11 22 0.42
12 11 0.21
13 2 0.04
16 3 0.06
17 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:30614000 original size:51 final size:51
Alignment explanation
Indices: 30613933--30614062 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 51
30613923 TTTAAAAACA
* * * *
30613933 GAAATTTAGAGAAAATTGAAATTAAATATG-GATTTGAAATAATTTTAGAAG
1 GAAATTGAGAGGAAATTGAAATGAAATATGAG-TTTGAAAGAATTTTAGAAG
*
30613984 GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAGAGAATTTTAGAAG
1 GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAAG
* *
30614035 GAAATTGAGA-GAAATTGAGAGGAAATAT
1 GAAATTGAGAGGAAATTGAAATGAAATAT
30614063 TAGAGGATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
50 16 0.23
51 54 0.76
52 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAAG
Found at i:30614045 original size:22 final size:21
Alignment explanation
Indices: 30614017--30614060 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
30614007 AAATATGAGT
* *
30614017 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAAATTGAG-AGGAAA
30614039 TTGAGAGAAATTGAGAGGAAA
1 TTGAGAGAAATTGAGAGGAAA
30614060 T
1 T
30614061 ATTAGAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:30614917 original size:19 final size:19
Alignment explanation
Indices: 30614890--30614931 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
30614880 TTCTCTCATC
* *
30614890 GCTGGTTCTTTGTTCCTCT
1 GCTGCTTCTTTGATCCTCT
30614909 GCTGCTTCTTTGATCCTCT
1 GCTGCTTCTTTGATCCTCT
30614928 GCTG
1 GCTG
30614932 GTGCTGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.29, G:0.21, T:0.48
Consensus pattern (19 bp):
GCTGCTTCTTTGATCCTCT
Found at i:30614942 original size:25 final size:25
Alignment explanation
Indices: 30614890--30615036 Score: 189
Period size: 25 Copynumber: 6.1 Consensus size: 25
30614880 TTCTCTCATC
30614890 GCTGGTTCTTTGTTCCTCTGC---T
1 GCTGGTTCTTTGTTCCTCTGCTGGT
*
30614912 GC---TTCTTTGATCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGGT
*
30614934 GCTGGTTCTTTGTTCTTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGGT
* *
30614959 GCTAGTTCTTTGTTCTTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGGT
**
30614984 GCAAGTTCTTTGTTCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGGT
*
30615009 GCTGGTTCTTTCTTCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGGT
30615034 GCT
1 GCT
30615037 TTGTTCCTCT
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.14
22 5 0.05
25 90 0.82
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (25 bp):
GCTGGTTCTTTGTTCCTCTGCTGGT
Found at i:30614957 original size:19 final size:19
Alignment explanation
Indices: 30614890--30614958 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
30614880 TTCTCTCATC
*
30614890 GCTGGTTCTTTGTTCCTCT
1 GCTGGTTCTTTGTTCTTCT
* *
30614909 GCTGCTTCTTTGATCCTCTGCTGGT
1 GCTGGTTCTTTG-T--TCT--T-CT
30614934 GCTGGTTCTTTGTTCTTCT
1 GCTGGTTCTTTGTTCTTCT
30614953 GCTGGT
1 GCTGGT
30614959 GCTAGTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
19 18 0.46
20 2 0.05
22 5 0.13
24 2 0.05
25 12 0.31
ACGTcount: A:0.01, C:0.25, G:0.25, T:0.49
Consensus pattern (19 bp):
GCTGGTTCTTTGTTCTTCT
Found at i:30615032 original size:19 final size:19
Alignment explanation
Indices: 30615008--30615046 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30614998 CCTCTGCTGG
*
30615008 TGCTGGTTCTTTCTTCCTC
1 TGCTGGTGCTTTCTTCCTC
*
30615027 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTGCTTTCTTCCTC
30615046 T
1 T
30615047 TTTCCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.21, T:0.51
Consensus pattern (19 bp):
TGCTGGTGCTTTCTTCCTC
Found at i:30618283 original size:27 final size:25
Alignment explanation
Indices: 30618253--30618302 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
30618243 TTTATTAATA
*
30618253 ATTTTTTAATTTAATATTCTATAAATT
1 ATTTTATAATTT-ATATTC-ATAAATT
30618280 ATTTTATAATTTATATTCATAAA
1 ATTTTATAATTTATATTCATAAA
30618303 CATAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTATAATTTATATTCATAAATT
Found at i:30618311 original size:27 final size:27
Alignment explanation
Indices: 30618253--30618316 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
30618243 TTTATTAATA
* *
30618253 ATTTTTTAATTTAATATTCTATAAATT
1 ATTTTATAATTTAATATTCTATAAAAT
30618280 ATTTTATAATTT-ATATTC-ATAAACAT
1 ATTTTATAATTTAATATTCTATAAA-AT
*
30618306 AGTTT-TAATTT
1 ATTTTATAATTT
30618317 TGTGACTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 11 0.33
26 11 0.33
27 11 0.33
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTTATAATTTAATATTCTATAAAAT
Found at i:30618314 original size:25 final size:26
Alignment explanation
Indices: 30618256--30618316 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
30618246 ATTAATAATT
* *
30618256 TTTTAATTTAATATTCTATAAATTAT
1 TTTTAATTTAATATTCTATAAAATAG
30618282 TTTATAATTT-ATATTC-ATAAACATAG
1 TTT-TAATTTAATATTCTATAAA-ATAG
30618308 TTTTAATTT
1 TTTTAATTT
30618317 TGTGACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.35
26 14 0.45
27 6 0.19
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAATTTAATATTCTATAAAATAG
Found at i:30619098 original size:19 final size:19
Alignment explanation
Indices: 30619070--30619122 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
30619060 ATCTTCAGGA
*
30619070 ATATGCAATCTTAGATATG
1 ATATACAATCTTAGATATG
*
30619089 ATATATAATCTTAGATATG
1 ATATACAATCTTAGATATG
*
30619108 ATATGCAATCTTAGA
1 ATATACAATCTTAGA
30619123 AGATATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
ATATACAATCTTAGATATG
Found at i:30619148 original size:22 final size:21
Alignment explanation
Indices: 30619070--30619148 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 21
30619060 ATCTTCAGGA
*
30619070 ATATGCAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
30619089 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
30619108 ATATGCAATCTTAGAAGATATG
1 ATATGTAATCTTAG-AGATATG
*
30619130 ATTTTGTAATCTTAGAGAT
1 A-TATGTAATCTTAGAGAT
30619149 TTAATTTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 27 0.54
22 12 0.24
23 11 0.22
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
ATATGTAATCTTAGAGATATG
Found at i:30619814 original size:100 final size:101
Alignment explanation
Indices: 30619691--30619901 Score: 309
Period size: 100 Copynumber: 2.1 Consensus size: 101
30619681 TTTTTAAGTT
* * * * * * *
30619691 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATTTATATATGTAC-ATATA
1 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGATATA
30619755 TATATAATACTTTCTATAC-ATATTTTATAATTTCTA
66 TATATAATACTTTCTAT-CTATATTTTATAATTTCTA
30619791 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACG-ATAT
*
30619856 ATATATTATACTTTCTATCTATATTTTATAATTTCTA
65 ATATATAATACTTTCTATCTATATTTTATAATTTCTA
*
30619893 TATGTATAT
1 TATATATAT
30619902 TTTTCTTTAT
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 52 0.53
101 1 0.01
102 46 0.46
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (101 bp):
TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGATATA
TATATAATACTTTCTATCTATATTTTATAATTTCTA
Found at i:30619840 original size:16 final size:16
Alignment explanation
Indices: 30619819--30619868 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30619809 CTTTATGATC
*
30619819 TATATATTTATTAACT
1 TATATATATATTAACT
*
30619835 TATATATATATGT-ACG
1 TATATATATAT-TAACT
30619851 TATATATATATTATACT
1 TATATATATATTA-ACT
30619868 T
1 T
30619869 TCTATCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.82
17 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATATATATTAACT
Found at i:30619878 original size:20 final size:20
Alignment explanation
Indices: 30619855--30619893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30619845 TGTACGTATA
*
30619855 TATATATTATACTTTCTATC
1 TATATATTATAATTTCTATC
*
30619875 TATATTTTATAATTTCTAT
1 TATATATTATAATTTCTAT
30619894 ATGTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATATTATAATTTCTATC
Found at i:30624762 original size:15 final size:14
Alignment explanation
Indices: 30624715--30624762 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
30624705 ATATTTTCTG
*
30624715 TTTTATGTACATAT
1 TTTTATATACATAT
30624729 TTTTA-ATGA-ATAT
1 TTTTATAT-ACATAT
30624742 TTTTATATACATAT
1 TTTTATATACATAT
30624756 ATTTTAT
1 -TTTTAT
30624763 TTTTATGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.38
14 12 0.41
15 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (14 bp):
TTTTATATACATAT
Found at i:30624787 original size:22 final size:20
Alignment explanation
Indices: 30624739--30624790 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
30624729 TTTTAATGAA
30624739 TATTTTTATATACATATATTT
1 TATTTTT-TATACATATATTT
30624760 TA-TTTTTATGACA-ATTATTAT
1 TATTTTTTAT-ACATA-TATT-T
30624781 TATTTTTTAT
1 TATTTTTTAT
30624791 TTTTACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.15
20 11 0.41
21 5 0.19
22 7 0.26
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTTTATACATATATTT
Found at i:30625547 original size:98 final size:98
Alignment explanation
Indices: 30625424--30625618 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
30625414 AAAAATCATG
* * *
30625424 AAGGAAATGTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
30625489 AAATCTTGGATAAATGAATGTTCTTTTAAAGTA
66 AAATCTTGGATAAATGAATGTTCTTTTAAAGTA
* * *
30625522 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTAGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
* * *
30625587 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAATGAATGTTCTTTTAAAGT
30625619 TTTATTGTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
AAATCTTGGATAAATGAATGTTCTTTTAAAGTA
Found at i:30626230 original size:17 final size:17
Alignment explanation
Indices: 30626208--30626242 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30626198 AGTGAGAAGC
30626208 TATGCCTTCGTGAGGTT
1 TATGCCTTCGTGAGGTT
30626225 TATGCCTTCGTGAGGTT
1 TATGCCTTCGTGAGGTT
30626242 T
1 T
30626243 TTACCTCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.43
Consensus pattern (17 bp):
TATGCCTTCGTGAGGTT
Found at i:30637231 original size:44 final size:43
Alignment explanation
Indices: 30637060--30637893 Score: 201
Period size: 44 Copynumber: 19.0 Consensus size: 43
30637050 TAAAGATTTC
* * * *
30637060 AGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGT
* * * **
30637103 CGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA
1 AG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACGT
* * * * * * *
30637149 AG-CCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
*
30637192 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGT
** * **
30637234 ATGAATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAGCCACCA
1 A-G-ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACGT
* * * * * * * * *
30637281 AG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAGGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
*
30637324 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGT
** * * **
30637366 ATGACTCTTATCTTTCTAAG-A-TAGTTGAAAGCAGATTTAAGCCACCA
1 A-GA-TCTTATCTCCCTAAGCAGTAG-TG-GAGCAGATTGAAG--ACGT
* * * * * * * * **
30637413 AG-CCTTGTCTCCCTGAGCAGCAGCGAAGTAGGTTGAAGATTAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
* * *
30637456 AGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GT
* * **
30637500 -GAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA
1 AG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACGT
* * * * * * * **
30637545 AG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
* *
30637588 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GT
** * **
30637632 -GAATCTTATCT-TTTCAAG-A-TAGTGGGAAGCAGATTTAAGCCACCA
1 AG-ATCTTATCTCCCT-AAGCAGTAGT-GG-AGCAGATTGAAG--ACGT
* * * * ** * * **
30637677 AGCT-TTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
*
30637720 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GT
* *
30637764 -GAATCTTATCTTCCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCAC-C
1 AG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACGT
* * * * * * * * **
30637808 AAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGT
* * *
30637852 AGATCTTATCTCCCTAAGCAGTAGTGAAGCATATCGAAGACG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
30637894 GCAAATCTTA
Statistics
Matches: 545, Mismatches: 174, Indels: 144
0.63 0.20 0.17
Matches are distributed among these distances:
42 30 0.06
43 49 0.09
44 406 0.74
45 28 0.05
46 30 0.06
47 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (43 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGT
Found at i:30637289 original size:132 final size:132
Alignment explanation
Indices: 30637052--30637972 Score: 1522
Period size: 132 Copynumber: 7.0 Consensus size: 132
30637042 AGGCAGACTA
* * *
30637052 AAGATT-TCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 AAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT
* *
30637116 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGG
65 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
30637181 TTG
130 TTG
* *
30637184 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
*
30637249 CTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637314 TG
131 TG
* * * *
30637316 AGGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGACTCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* * * *
30637381 CTAAGATAGTTGAAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637446 TG
131 TG
* *
30637448 AAGATTATAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
30637513 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637578 TG
131 TG
*
30637580 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* * *
30637645 TCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCTTTGTCTCCCTGAGCAGCAGCAGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637710 TG
131 TG
*
30637712 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTC
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
*
30637777 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637842 TG
131 TG
* * **
30637844 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGAAGCATATCGAAGACGGCAAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* * * * *
30637909 CCAAGATAGTGGGAAGCAGATTT-AGCCACCAAGCTTTGTCTCCCTAAGTAGTAGTGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
30637973 CGCATCCAAT
Statistics
Matches: 743, Mismatches: 45, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
131 35 0.05
132 707 0.95
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
TG
Found at i:30642639 original size:132 final size:132
Alignment explanation
Indices: 30642483--30643504 Score: 1705
Period size: 132 Copynumber: 7.8 Consensus size: 132
30642473 ACAGCGAAGT
30642483 AGATCGAAGATGGCA-GATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 AGATCGAAGATGG-AGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
30642547 TACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
65 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
30642612 AGC
130 AGC
*
30642615 AGATCGAAGATGGAAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
30642680 ACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
30642745 GC
131 GC
* * * *
30642747 AGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGACTACATTGAAGCTAGTAATTCT
1 AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
30642812 ACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAATAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
30642877 GC
131 GC
* * *
30642879 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTAAAGCCAGTAATTCT
1 AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
30642944 ACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
*
30643009 GT
131 GC
*
30643011 AGATCGAAGAT-GACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 AGATCGAAGATGGA-GGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
30643075 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
65 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
30643140 AGC
130 AGC
* *
30643143 AAATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCT
1 AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
30643208 ACTTCCCTGGACAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
30643273 GC
131 GC
* *
30643275 AGATCGAAGAT-GACAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 AGATCGAAGATGGA-GGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
30643339 TACTTCCCTTGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
65 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
30643404 AGC
130 AGC
*
30643407 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TC-
1 AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* ** *
30643470 A-TCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
66 ACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
30643505 GTAAGTCCTA
Statistics
Matches: 835, Mismatches: 49, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
129 1 0.00
130 27 0.03
131 6 0.01
132 798 0.96
133 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:30643855 original size:19 final size:19
Alignment explanation
Indices: 30643831--30643941 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
30643821 AATCTTCAGG
30643831 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30643850 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
30643869 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30643888 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
30643907 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30643926 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
30643942 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30643881 original size:38 final size:38
Alignment explanation
Indices: 30643838--30643941 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
30643828 AGGGATATGC
30643838 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
30643876 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
30643914 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
30643942 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:30644595 original size:20 final size:20
Alignment explanation
Indices: 30644572--30644622 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
30644562 TATATGTACG
*
30644572 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* *
30644592 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
30644612 TATATATATAT
1 TATATATATAT
30644623 GTAATCATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:30644618 original size:52 final size:51
Alignment explanation
Indices: 30644560--30644718 Score: 152
Period size: 52 Copynumber: 3.1 Consensus size: 51
30644550 TATTACCTTA
30644560 TATATATGTACGTATATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATGTACGTATATATATATTATACTTTCTAT-CATATTTTATAATTTC
* * * * *
30644612 TATATATATATGTA-AT-CAT-TT-T-CTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTACGTATATATATATTATACTTTCT-ATC-ATAT-TTTA-TAA-TT-TC
30644664 TATATATGTACG--TATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATGTACGTATATATATATTATACTTTCTAT-CATATTTTATAATTTC
30644714 TATAT
1 TATAT
30644719 GTATATTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
47 6 0.07
48 7 0.08
49 6 0.07
50 11 0.13
51 8 0.09
52 28 0.33
53 6 0.07
54 7 0.08
55 6 0.07
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (51 bp):
TATATATGTACGTATATATATATTATACTTTCTATCATATTTTATAATTTC
Found at i:30644686 original size:102 final size:100
Alignment explanation
Indices: 30644515--30644724 Score: 316
Period size: 102 Copynumber: 2.1 Consensus size: 100
30644505 TTTTTAAGTT
* *
30644515 TATATATGTAATTATTATTTTTATGATTTATATATTATTACCTTATATATATGTACGTATATATA
1 TATATATGTAATCATTATTTTTATGATCTATATATTATTACCTTATATATATGTACG-ATATATA
30644580 TATTATACTTTCTATACATATTTTATAATTTCTATA
65 TATTATACTTTCTATACATATTTTATAATTTCTATA
*
30644616 TATATATGTAATCATT-TTCTTTATGATCTATATATTTATTAACTTATATATATATGTACG-TAT
1 TATATATGTAATCATTATT-TTTATGATCTATATA-TTATT-ACCT-TATATATATGTACGATAT
*
30644679 ATATATTATACTTTCTATCCATATTTTATAATTTCTATA
62 ATATATTATACTTTCTATACATATTTTATAATTTCTATA
*
30644718 TGTATAT
1 TATATAT
30644725 TTTTCTTTAT
Statistics
Matches: 100, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
100 2 0.02
101 29 0.29
102 52 0.52
103 3 0.03
104 14 0.14
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (100 bp):
TATATATGTAATCATTATTTTTATGATCTATATATTATTACCTTATATATATGTACGATATATAT
ATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:30644702 original size:20 final size:20
Alignment explanation
Indices: 30644679--30644716 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30644669 ATGTACGTAT
*
30644679 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
30644699 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
30644717 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:30644718 original size:48 final size:48
Alignment explanation
Indices: 30644562--30644721 Score: 137
Period size: 48 Copynumber: 3.2 Consensus size: 48
30644552 TTACCTTATA
*
30644562 TATATGTACGTATATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTACG--TATATATATTATACTTTCTATCCATATTTTATAATTTC
* * * * * *
30644612 TATATATA--TATGTAATCATT-TTCTTTATGATCTATATATTTATTAACTTATATA
1 TATATGTACGTATAT-AT-ATTATACTTTCT-ATCCATAT-TTTA-TAA--T-T-TC
30644666 TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
30644714 TATATGTA
1 TATATGTA
30644722 TATTTTTCTT
Statistics
Matches: 85, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
46 4 0.05
47 8 0.09
48 18 0.21
49 5 0.06
50 11 0.13
52 4 0.05
53 5 0.06
54 18 0.21
55 8 0.09
56 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
Found at i:30644774 original size:18 final size:19
Alignment explanation
Indices: 30644751--30644788 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30644741 GAATGTATTA
30644751 TATATAAA-TATATATTTT
1 TATATAAATTATATATTTT
*
30644769 TATATAAATTTTATATTTT
1 TATATAAATTATATATTTT
30644788 T
1 T
30644789 TTCCATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATAAATTATATATTTT
Found at i:30644863 original size:31 final size:31
Alignment explanation
Indices: 30644828--30644886 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
30644818 CTTTCTTTTC
* *
30644828 TTCAT-TTTTTATATGTTTGTTGATTTATGTT
1 TTCATATTTTTATAT-TTTGCTCATTTATGTT
*
30644859 TTCATATTTTTTTATTTTGCTCATTTAT
1 TTCATATTTTTATATTTTGCTCATTTAT
30644887 TTGATACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.67
32 8 0.33
ACGTcount: A:0.17, C:0.07, G:0.08, T:0.68
Consensus pattern (31 bp):
TTCATATTTTTATATTTTGCTCATTTATGTT
Found at i:30644981 original size:13 final size:13
Alignment explanation
Indices: 30644963--30644987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30644953 ACAATTGTCG
30644963 TATTTATTATTGT
1 TATTTATTATTGT
30644976 TATTTATTATTG
1 TATTTATTATTG
30644988 CGACATTTAT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TATTTATTATTGT
Found at i:30648215 original size:20 final size:21
Alignment explanation
Indices: 30648192--30648242 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
30648182 AATGTTTTCT
30648192 TTATACA-ACTTTGTCTAAGC
1 TTATACAGACTTTGTCTAAGC
30648212 TTATACATGTGACTTTGTCTAAGC
1 TTATACA---GACTTTGTCTAAGC
30648236 TTATACA
1 TTATACA
30648243 TGTGATTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
24 20 0.74
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
TTATACAGACTTTGTCTAAGC
Found at i:30648231 original size:24 final size:24
Alignment explanation
Indices: 30648199--30648247 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30648189 TCTTTATACA
30648199 ACTTTGTCTAAGCTTATACATGTG
1 ACTTTGTCTAAGCTTATACATGTG
30648223 ACTTTGTCTAAGCTTATACATGTG
1 ACTTTGTCTAAGCTTATACATGTG
30648247 A
1 A
30648248 TTGTGAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (24 bp):
ACTTTGTCTAAGCTTATACATGTG
Found at i:30650831 original size:21 final size:21
Alignment explanation
Indices: 30650797--30650838 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
30650787 TAGAAAAATT
30650797 ATTTTTTTAATAAAATATTTATG
1 ATTTTTTT-ATAAAAT-TTTATG
30650820 ATTTTTTT-TAAAATTTTAT
1 ATTTTTTTATAAAATTTTAT
30650839 CAAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
23 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTTTATAAAATTTTATG
Found at i:30652313 original size:29 final size:27
Alignment explanation
Indices: 30652281--30652342 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
30652271 TTACTTATAG
*
30652281 TATTTAATTTCAATAATGT-TTAAATTTAT
1 TATTTAATTT-AA-AATGTAATAAA-TTAT
*
30652310 TATTATAGTTTAAAATGTAATAAATTAT
1 TATT-TAATTTAAAATGTAATAAATTAT
30652338 TATTT
1 TATTT
30652343 TTCCGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 13 0.45
29 10 0.34
30 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTTAATTTAAAATGTAATAAATTAT
Found at i:30659698 original size:129 final size:129
Alignment explanation
Indices: 30659468--30659744 Score: 455
Period size: 129 Copynumber: 2.1 Consensus size: 129
30659458 TCGGTGAAGT
30659468 CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
1 CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
* *
30659533 GCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
** * *
30659597 CACAAGTCCTATATCTTTGGTCATCAGTGGAATAGGTTGGGAAATTATAGATCTTGTCTCCCTAA
1 CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
* * *
30659662 GTAGTAGCGGGGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
66 GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
30659726 CACAAATCCTATCTCCCTG
1 CACAAGTCCTATATCCCTG
30659745 AAGTTGTAGT
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 135 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (129 bp):
CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
Found at i:30659792 original size:44 final size:44
Alignment explanation
Indices: 30659713--30660185 Score: 344
Period size: 44 Copynumber: 11.0 Consensus size: 44
30659703 AGTGTAAGGA
* * * * *
30659713 AGCAGATTTAAGCCACAAATCCTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
30659757 AGCGGATTAAAGTAATAAATCTTATCTCTCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
** * * * *
30659801 AGTGGA-T--CGCATTAAATCTTATCTTCCTGAGGTTGCAGTGG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
30659842 AGCAGATTGAAGGCGAT-AATCCTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATT-AAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
30659886 AGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGTAGTAG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
** *
30659930 AGTGGA-T--AGCATTAAATCTTATCTCCCTG-AGATTGCAGTGG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAG-TTGCAGTGG
* * *
30659971 AGCAGATTGAAGGCGAT-AATCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATT-AAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * ** *
30660015 AGCATATTAAAGTAATAGATCTTATCTTTCTGAAGTTGCAGTAG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
** * * * *
30660059 AGTGGA-T--CGCATTAAATCTTATCTCCCTGAGGTTGCAGTTG
1 AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
30660100 AGCAGATTGAAGCCAAT-AATCCTACCTCCCTGAAGTTGTAGTTG
1 AGCAGATTAAAG-CAATAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
30660144 AG-TGAATTAAAGTAATAGATTTTATCTCTCTGAAGTTGCAGT
1 AGCAG-ATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGT
30660186 AGAGTGGACC
Statistics
Matches: 329, Mismatches: 82, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
40 2 0.01
41 91 0.28
42 3 0.01
43 17 0.05
44 205 0.62
45 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:30659809 original size:129 final size:129
Alignment explanation
Indices: 30659713--30660234 Score: 728
Period size: 129 Copynumber: 4.0 Consensus size: 129
30659703 AGTGTAAGGA
* * *
30659713 AGCAGATTTAA-GCCACAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAAAT
1 AGCAGATTGAAGGCCA-AAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGAT
* * *
30659777 CTTATCTCTCTGAAGTTGCAGTGGAGTGGATCGCATTAAATCTTATCTTCCTGAGGTTGCAGTGG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* *
30659842 AGCAGATTGAAGGCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATC
1 AGCAGATTGAAGGCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATC
* * * *
30659907 TTATCTCTCTGAAGTTGTAGTAGAGTGGATAGCATTAAATCTTATCTCCCTGAGATTGCAGTGG
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* * * *
30659971 AGCAGATTGAAGGCGATAATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGTAATAGATC
1 AGCAGATTGAAGGCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATC
* * *
30660036 TTATCTTTCTGAAGTTGCAGTAGAGTGGATCGCATTAAATCTTATCTCCCTGAGGTTGCAGTTG
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* * *
30660100 AGCAGATTGAA-GCCAATAATCCTACCTCCCTGAAGTTGTAGTTGAG-TGAATTAAAGTAATAGA
1 AGCAGATTGAAGGCCAA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCAG-ATTAAAGTAATAGA
* * * * *
30660163 TTTTATCTCTCTGAAGTTGCAGTAGAGTGGACCGCA-TCAAGTCTTATCTCCCTGAAGTTACAGT
64 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACT-AAATCTTATCTCCCTGAGGTTGCAGT
30660227 GG
128 GG
*
30660229 GGCAGA
1 AGCAGA
30660235 CTGAGAATAG
Statistics
Matches: 357, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
128 4 0.01
129 350 0.98
130 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (129 bp):
AGCAGATTGAAGGCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
Found at i:30659830 original size:85 final size:85
Alignment explanation
Indices: 30659729--30660147 Score: 337
Period size: 85 Copynumber: 4.9 Consensus size: 85
30659719 TTTAAGCCAC
* * * *
30659729 AAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTATCTCTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTT
30659794 GCAGTGGAGTGGATCGCATT
66 GCAGTGGAGTGGATCGCATT
* * * * * *
30659814 AAATCTTATCTTCCTGAGGTTGCAGTGGAGCAGATTGAAGGCGAT-AATCCTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-AAAGCAATAAATCTTATCTCCCTGAAGT
* ** * * *
30659878 TGTAGTGGAGCAGATTAAAGTAAT
65 TGCAGTGGAGTGGA-T--CGCATT
* * * ** *
30659902 AGATCTTATCTCTCTGAAGTTGTAGTAGAGTGGA-T--AGCATTAAATCTTATCTCCCTG-AGAT
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAG-T
** * * **
30659963 TGCAGTGGAGCAGATTGAAGGCG
65 TGCAGTGGAGTGGATCGCA--TT
* * * **
30659986 ATAATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGTAATAGATCTTATCTTTCTGAAGT
1 A-AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGT
*
30660051 TGCAGTAGAGTGGATCGCATT
65 TGCAGTGGAGTGGATCGCATT
* * * * * *
30660072 AAATCTTATCTCCCTGAGGTTGCAGTTGAGCAGATTGAAGCCAAT-AATCCTACCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-CAATAAATCTTATCTCCCTGAAGT
* *
30660136 TGTAGTTGAGTG
65 TGCAGTGGAGTG
30660148 AATTAAAGTA
Statistics
Matches: 256, Mismatches: 64, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
82 2 0.01
84 7 0.03
85 172 0.67
86 11 0.04
87 1 0.00
88 61 0.24
89 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (85 bp):
AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTT
GCAGTGGAGTGGATCGCATT
Found at i:30660344 original size:50 final size:50
Alignment explanation
Indices: 30660283--30660459 Score: 192
Period size: 50 Copynumber: 3.5 Consensus size: 50
30660273 GAACAGCTTG
* * *
30660283 AAGCTACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
* * * ** * ** *
30660333 AAGCCATAACAGCGAATCTTACTTCCCTGGCGGTGCAATGGAACAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
* * * * *
30660383 AAGCTACAACGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
*
30660433 AAGCCACAACTGCGAATCTTACTTCCC
1 AAGCCACAACAGCGAATCTTACTTCCC
30660460 TTGCAGTGCA
Statistics
Matches: 97, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (50 bp):
AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
Found at i:30660422 original size:100 final size:100
Alignment explanation
Indices: 30660249--30660520 Score: 375
Period size: 100 Copynumber: 2.7 Consensus size: 100
30660239 GAATAGCAAT
* * * * * * *
30660249 TCTTACTTCCCAGGCGGTACAGTGGAACAGCTTGAAGCTACAACAGCGAATCTTGCTTCCCCGAC
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
* *
30660314 ATTACAGTTAAAAAGATTAAAGCCATAACAGCGAA
66 ATTGCAGTTAAAAAGATTAAAGCCACAACAGCGAA
*
30660349 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCAAC
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
*
30660414 ATTGCAGTTAAAAAGATTAAAGCCACAACTGCGAA
66 ATTGCAGTTAAAAAGATTAAAGCCACAACAGCGAA
* * * * *
30660449 TCTTACTTCCCTTGCAGTGCAATGAAACAGATTAAAGCTACGAA-GGCAAATCTTGTTTCCCCAA
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTAC-AACGGCGAATCTTGCTTCCCCAA
*
30660513 CACTGCAG
65 CATTGCAG
30660521 CAAAACAGAA
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
100 151 0.99
101 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (100 bp):
TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
ATTGCAGTTAAAAAGATTAAAGCCACAACAGCGAA
Found at i:30660509 original size:50 final size:50
Alignment explanation
Indices: 30660274--30660509 Score: 179
Period size: 50 Copynumber: 4.7 Consensus size: 50
30660264 GGTACAGTGG
* * * * * * * *
30660274 AACAGCTTGAAGCTACAACAGCGAATCTTGCTTCCC-CGACATTACAGTTA
1 AACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTAG-CAGTGCAATGA
* * * * * * * *
30660324 AAAAGATTAAAGCCATAACAGCGAATCTTACTTCCCTGGCGGTGCAATGG
1 AACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTAGCAGTGCAATGA
* * * * * *
30660374 AACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCAACATTGCAGTTA
1 AACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTAGCAGTGCAATGA
* * * * *
30660424 AAAAGATTAAAGCCACAACTGCGAATCTTACTTCCCTTGCAGTGCAATGA
1 AACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTAGCAGTGCAATGA
* *
30660474 AACAGATTAAAGCTACGAA-GGCAAATCTTGTTTCCC
1 AACAGATTAAAGCTAC-AACGGCGAATCTTGCTTCCC
30660510 CAACACTGCA
Statistics
Matches: 140, Mismatches: 44, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
50 137 0.98
51 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (50 bp):
AACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTAGCAGTGCAATGA
Found at i:30667482 original size:27 final size:28
Alignment explanation
Indices: 30667452--30667511 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
30667442 CAAGGGATAA
*
30667452 TCTTTCATAATTCACCAC-GAGGCTTAT
1 TCTTTCATAATTCACCACAAAGGCTTAT
* *
30667479 TCTTTCATAGTTCGCCACAAAGGCTTAT
1 TCTTTCATAATTCACCACAAAGGCTTAT
30667507 TCTTT
1 TCTTT
30667512 TCTAACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (28 bp):
TCTTTCATAATTCACCACAAAGGCTTAT
Found at i:30668273 original size:49 final size:49
Alignment explanation
Indices: 30668197--30668293 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
30668187 TTATGCTATG
* *
30668197 CATTTCTAAACTTGGTCGTCCATTGTCTACACTCTTATCACTATTTATA
1 CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTATA
*
30668246 CATTTCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTAT
30668294 CCCTTCTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (49 bp):
CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTATA
Found at i:30672259 original size:26 final size:25
Alignment explanation
Indices: 30672229--30672290 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
30672219 TAATAAAACA
30672229 TAAATAGTAAT-AATTATATTATAAAT
1 TAAATA-TAATAAATT-TATTATAAAT
30672255 TAAATATGAATAAATTTATTATAAAT
1 TAAATAT-AATAAATTTATTATAAAT
30672281 T--ATATAATAA
1 TAAATATAATAA
30672291 TGGAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 1 0.03
26 20 0.59
27 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
TAAATATAATAAATTTATTATAAAT
Found at i:30673658 original size:56 final size:54
Alignment explanation
Indices: 30673524--30673667 Score: 153
Period size: 56 Copynumber: 2.6 Consensus size: 54
30673514 GCGATATATG
* * ** * *
30673524 AATGTATGTAAGACCATGACCTTAAGATCCATGGAAAGATCGATATAACTGAACG
1 AATGCATGTAAGACCATAAGGTTAAGACCCAT-GAAAGATCGATATAACTGAACA
* * *
30673579 AATGCATGTAAGACCATAAGGTTAAGACCCATGACAAGATCTGATATTATTGAATA
1 AATGCATGTAAGACCATAAGGTTAAGACCCATGA-AAGATC-GATATAACTGAACA
* * *
30673635 AATGTATGTAAGACTATATGGTTAAGACCCATG
1 AATGCATGTAAGACCATAAGGTTAAGACCCATG
30673668 GCATTATATG
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
54 2 0.03
55 33 0.44
56 40 0.53
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (54 bp):
AATGCATGTAAGACCATAAGGTTAAGACCCATGAAAGATCGATATAACTGAACA
Found at i:30673692 original size:56 final size:56
Alignment explanation
Indices: 30673579--30673695 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 56
30673569 TAACTGAACG
* * *
30673579 AATGCATGTAAGACCATAAGGTTAAGACCCATGACAAGATCTGATATTATTGAATA
1 AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAATTATTGAATA
* * * ** *
30673635 AATGTATGTAAGACTATATGGTTAAGACCCATGGCATTATATGAAATGT-TTGTATA
1 AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAAT-TATTGAATA
30673691 AATGT
1 AATGT
30673696 TCATTGCATA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 50 0.98
57 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (56 bp):
AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAATTATTGAATA
Found at i:30676426 original size:26 final size:26
Alignment explanation
Indices: 30676390--30676442 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30676380 TAGACTCAAT
30676390 AATGTTCGTTTTAGATTTTGTTTTTA
1 AATGTTCGTTTTAGATTTTGTTTTTA
30676416 AATGTTCGTTTTAGATTTTGTTTTTA
1 AATGTTCGTTTTAGATTTTGTTTTTA
30676442 A
1 A
30676443 CTTGGCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.15, T:0.60
Consensus pattern (26 bp):
AATGTTCGTTTTAGATTTTGTTTTTA
Found at i:30676440 original size:13 final size:13
Alignment explanation
Indices: 30676398--30676441 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
30676388 ATAATGTTCG
30676398 TTTTAGATTTTGT
1 TTTTAGATTTTGT
* *
30676411 TTTTAAATGTTCG-
1 TTTTAGAT-TTTGT
30676424 TTTTAGATTTTGT
1 TTTTAGATTTTGT
30676437 TTTTA
1 TTTTA
30676442 ACTTGGCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTGT
Found at i:30677451 original size:3 final size:3
Alignment explanation
Indices: 30677443--30677500 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
30677433 TTAACTTTTA
30677443 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30677491 ATT ATT ATT A
1 ATT ATT ATT A
30677501 AATGTGGCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30677829 original size:19 final size:20
Alignment explanation
Indices: 30677804--30677848 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
30677794 AATTATAAAA
30677804 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* *
30677824 -ATAAAAATCATTAAACTTT
1 AATAAAAATCAATAAAATTT
30677843 AATAAA
1 AATAAA
30677849 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:30677861 original size:13 final size:13
Alignment explanation
Indices: 30677843--30677869 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30677833 ATTAAACTTT
30677843 AATAAATATTTAA
1 AATAAATATTTAA
30677856 AATAAATATTTAA
1 AATAAATATTTAA
30677869 A
1 A
30677870 TTTTACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATATTTAA
Found at i:30678122 original size:9 final size:9
Alignment explanation
Indices: 30678108--30678328 Score: 58
Period size: 9 Copynumber: 23.2 Consensus size: 9
30678098 GGCATGATAA
30678108 TTATAATTT
1 TTATAATTT
30678117 TTATAATTCTT
1 TTATAA-T-TT
30678128 TTATGAA-TT
1 TTAT-AATTT
*
30678137 TTATATTTCT
1 TTATAATT-T
* *
30678147 TTACATTTT
1 TTATAATTT
*
30678156 TTATCATTTT
1 TTAT-AATTT
* *
30678166 CTTATGA-CT
1 -TTATAATTT
*
30678175 TTATAAAATT
1 TTAT-AATTT
30678185 TTATATATTT
1 TTATA-ATTT
* *
30678195 TCTCT-ATAT
1 T-TATAATTT
30678204 TTATAATTT
1 TTATAATTT
**
30678213 TTAGGATTT
1 TTATAATTT
30678222 TTATAATCTTTT
1 TTATAA---TTT
*
30678234 TTCTAATTT
1 TTATAATTT
***
30678243 TTAATAAAAA
1 TT-ATAATTT
*
30678253 TTAAATATTT
1 TTATA-ATTT
30678263 CTTAT-ATTT
1 -TTATAATTT
*
30678272 TTATTAAAATT
1 TTA-T-AATTT
*
30678283 TAATAATTT
1 TTATAATTT
30678292 TTATAATTT
1 TTATAATTT
*
30678301 TTATTGATTT
1 TTA-TAATTT
30678311 TTAT--TTT
1 TTATAATTT
*
30678318 TTATCATTT
1 TTATAATTT
30678327 TT
1 TT
30678329 TGTCACATGT
Statistics
Matches: 156, Mismatches: 32, Indels: 48
0.66 0.14 0.20
Matches are distributed among these distances:
7 7 0.04
8 10 0.06
9 71 0.46
10 38 0.24
11 20 0.13
12 10 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:30678187 original size:29 final size:29
Alignment explanation
Indices: 30678154--30678209 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
30678144 TCTTTACATT
30678154 TTTTAT-CATTTTCT-TATGACTTTATAAAA
1 TTTTATACATTTTCTCTAT-A-TTTATAAAA
*
30678183 TTTTATATATTTTCTCTATATTTATAA
1 TTTTATACATTTTCTCTATATTTATAA
30678210 TTTTTAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 13 0.54
30 8 0.33
31 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTATACATTTTCTCTATATTTATAAAA
Found at i:30678281 original size:28 final size:29
Alignment explanation
Indices: 30678231--30678305 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
30678221 TTTATAATCT
* *
30678231 TTTTTCTAATTTTTAATAAAAATTAAAT-A
1 TTTTTATAATTTTT-ATTAAAATTAAATAA
*
30678260 TTTCTTAT-ATTTTTATTAAAATTTAATAA
1 TTT-TTATAATTTTTATTAAAATTAAATAA
30678289 TTTTTATAATTTTTATT
1 TTTTTATAATTTTTATT
30678306 GATTTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.38
29 22 0.55
30 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAATTAAATAA
Found at i:30678314 original size:10 final size:10
Alignment explanation
Indices: 30678268--30678315 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
30678258 TATTTCTTAT
30678268 ATTTTTATTA
1 ATTTTTATTA
** *
30678278 AAATTTAATA
1 ATTTTTATTA
30678288 ATTTTTA-TA
1 ATTTTTATTA
*
30678297 ATTTTTATTG
1 ATTTTTATTA
30678307 ATTTTTATT
1 ATTTTTATT
30678316 TTTTATCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:30680922 original size:20 final size:20
Alignment explanation
Indices: 30680885--30680928 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30680875 TTAAAAATAT
*
30680885 TTTTATATTTATGTTTTAAA
1 TTTTATATTTATGATTTAAA
*
30680905 TTTTATAATTTAT-ATTTACA
1 TTTTAT-ATTTATGATTTAAA
30680925 TTTT
1 TTTT
30680929 TCTCATCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATATTTATGATTTAAA
Found at i:30681398 original size:11 final size:11
Alignment explanation
Indices: 30681382--30681406 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30681372 TTATAATTTT
30681382 AATATTTTTAA
1 AATATTTTTAA
30681393 AATATTTTTAA
1 AATATTTTTAA
30681404 AAT
1 AAT
30681407 TTCTATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTTTAA
Found at i:30681703 original size:3 final size:3
Alignment explanation
Indices: 30681695--30681722 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30681685 TACCCAAAAG
30681695 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30681723 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30689285 original size:224 final size:225
Alignment explanation
Indices: 30688880--30689303 Score: 620
Period size: 224 Copynumber: 1.9 Consensus size: 225
30688870 TTTATTTTTG
** *
30688880 TTTGCTGAAAACTCTTCATCTTCTTTCTCAACACCTGACTATGTTCCAATGTTTGCTCCTATTGT
1 TTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCTATTGT
* * * *
30688945 ATAGTCTCAGTCACATCACTCTATCTCTCCTAATAGAGATGCCGACATACGAAGTCCTGCAGTTT
66 ACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTCCTACAGTTT
* * * * * * * * *
30689010 AGTCTTATGGTACCTTAGACTTGCCATTTTTGGAAATTGATGTCAGTGCCTTGGGTC-CAGTAGC
131 AGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGACAGTGCCTTAGATCACAGTAAC
30689074 AACACCTCTCCCCCCACACTTGAGTTGTTT
196 AACACCTCTCCCCCCACACTTGAGTTGTTT
* * *
30689104 TTTGCTGAGAACTCTTCATCTTCTACCTCAACACCTGACTGTGTTCCAACGTTTGCTCCTCTTGT
1 TTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCTATTGT
*
30689169 ACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGTCGACATACAAAG-CTCTACAGTT
66 ACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTC-CTACAGTT
*
30689233 TAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGAT-ACGGGTGCCTTAGATCACAGTA
130 TAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGAC-AGTGCCTTAGATCACAGTA
30689297 ACAACAC
194 ACAACAC
30689304 TTCTTCCCAC
Statistics
Matches: 176, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
223 2 0.01
224 163 0.93
225 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.33
Consensus pattern (225 bp):
TTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCTATTGT
ACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTCCTACAGTTT
AGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGACAGTGCCTTAGATCACAGTAAC
AACACCTCTCCCCCCACACTTGAGTTGTTT
Found at i:30711641 original size:41 final size:40
Alignment explanation
Indices: 30711581--30711776 Score: 236
Period size: 41 Copynumber: 4.8 Consensus size: 40
30711571 CGACCTTTCG
*
30711581 GGGCTTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
30711622 GGAGCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAATGCTC
1 GG-GCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGCTC
* * *
30711663 AGGCTTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
* ** *
30711704 GGGGCTTTAGCGGCATTTTCCA-AGAAGCGCCGCTAATGCTTA
1 -GGGCTTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGC-TC
30711746 GGGCTTTAGCGGCGTTTTTG-GAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
30711777 AAAAACATTT
Statistics
Matches: 134, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
40 13 0.10
41 115 0.86
42 6 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
Found at i:30711732 original size:82 final size:83
Alignment explanation
Indices: 30711581--30711776 Score: 283
Period size: 82 Copynumber: 2.4 Consensus size: 83
30711571 CGACCTTTCG
* * **
30711581 GGGCTTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCGGAGCTTTAGCGGCGTTTTTGGAA
1 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGATTTTCCAA
30711646 AAGCGCCGCTAATGCTCA
66 AAGCGCCGCTAATGCTCA
* * *
30711664 -GGCTTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGC-ATTTTCCAA
1 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGATTTTCCAA
*
30711727 GAAGCGCCGCTAATGCTTA
66 -AAGCGCCGCTAATGCTCA
30711746 GGGC-TTTAGCGGCGTTTTTG-GAAAGCGCCGC
1 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGC
30711777 AAAAACATTT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 16 0.16
82 82 0.81
83 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (83 bp):
GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGATTTTCCAA
AAGCGCCGCTAATGCTCA
Found at i:30712194 original size:15 final size:14
Alignment explanation
Indices: 30712176--30712210 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
30712166 TTATGGAATT
30712176 AGGGATTCTGATTTA
1 AGGG-TTCTGATTTA
*
30712191 AGGGTTGTGATTTA
1 AGGGTTCTGATTTA
30712205 AGGGTT
1 AGGGTT
30712211 AAGGGTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.23, C:0.03, G:0.34, T:0.40
Consensus pattern (14 bp):
AGGGTTCTGATTTA
Found at i:30712203 original size:14 final size:14
Alignment explanation
Indices: 30712184--30712210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30712174 TTAGGGATTC
30712184 TGATTTAAGGGTTG
1 TGATTTAAGGGTTG
30712198 TGATTTAAGGGTT
1 TGATTTAAGGGTT
30712211 AAGGGTTGGG
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:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TGATTTAAGGGTTG
Found at i:30712509 original size:15 final size:15
Alignment explanation
Indices: 30712485--30712514 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30712475 TTATGATTTA
30712485 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
30712500 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
30712515 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (15 bp):
GGGTTTAGGAGATAG
Found at i:30714685 original size:31 final size:31
Alignment explanation
Indices: 30714650--30714711 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
30714640 TATGTGATAG
*
30714650 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
30714681 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
30714712 GCTTTTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.47
Consensus pattern (31 bp):
AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
Found at i:30716729 original size:43 final size:43
Alignment explanation
Indices: 30716628--30716851 Score: 245
Period size: 43 Copynumber: 5.2 Consensus size: 43
30716618 AGATTATGTT
* ** * *
30716628 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
* *
30716670 TTTAGCGGCATTTGTGGGAGAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
* * * *
30716713 TTTAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGGTCAAGGTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
* * ** * *
30716756 TATCGCGATGTTTGTAGGAGAAGCGCCGCTAAAGGTTA-GCGTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATG-GTC
* * *
30716799 TTTAGCGGTGTTTATAGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
30716842 TTTAGCGGCG
1 TTTAGCGGCG
30716852 CTTTTCCAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
42 33 0.22
43 118 0.78
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
Found at i:30717419 original size:25 final size:25
Alignment explanation
Indices: 30717386--30717468 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
30717376 GCTCTGCTCC
* * *
30717386 GTTCCGTTCTATTCTGTTCCATCTT
1 GTTCTGTTCTACTCTGTTCCATCCT
* *
30717411 GTTTTGTTCTGCTCTGTTCCATCCT
1 GTTCTGTTCTACTCTGTTCCATCCT
* ** *
30717436 GTTCTGTTCTACTCTATTCGGTTCT
1 GTTCTGTTCTACTCTGTTCCATCCT
30717461 GTTCTGTT
1 GTTCTGTT
30717469 TGAATTGCGT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (25 bp):
GTTCTGTTCTACTCTGTTCCATCCT
Found at i:30719047 original size:18 final size:18
Alignment explanation
Indices: 30719014--30719048 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30719004 TATAGAAATG
*
30719014 AAATGATTTACCAATATA
1 AAATGATTTAACAATATA
*
30719032 AAATGATTTAATAATAT
1 AAATGATTTAACAATAT
30719049 TTTTGTATGG
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:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATGATTTAACAATATA
Found at i:30727697 original size:13 final size:14
Alignment explanation
Indices: 30727676--30727708 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30727666 TATAGGGACC
*
30727676 AATTTATGT-TAAA
1 AATTAATGTATAAA
30727689 AATTAATGTATAAA
1 AATTAATGTATAAA
30727703 AATTAA
1 AATTAA
30727709 AATTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
AATTAATGTATAAA
Found at i:30727762 original size:85 final size:85
Alignment explanation
Indices: 30727673--30727838 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
30727663 AAATATAGGG
* * * *
30727673 ACCAATTTATGTTAAAAATTAATGTATAAAAATTAAAATTAAAATT-TAGACATTTTAGACTGAC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATT-AAATTAAAATTATAGAAATTTTAGACAGAC
* *
30727737 CAATATTAAAATTTAATAGAA
65 CAAAACTAAAATTTAATAGAA
* *
30727758 ACCAATTTATGTTAAAAATTAAAGAATAATAATTAAATTTAAATTATAGAAATTTTAGACAGACC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAATTAAAATTATAGAAATTTTAGACAGACC
*
30727823 AAAACTGAAATTTAAT
66 AAAACTAAAATTTAAT
30727839 CAAATTGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 10 0.14
85 61 0.86
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (85 bp):
ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAATTAAAATTATAGAAATTTTAGACAGACC
AAAACTAAAATTTAATAGAA
Found at i:30743255 original size:45 final size:45
Alignment explanation
Indices: 30743191--30743282 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
30743181 CTTTGGGGAG
30743191 TTATACAGTGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
1 TTATACAGTGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
* * *
30743236 TTATACAGTGAAATCGCGATATTTAAATGAGGATATCGCGATTTC
1 TTATACAGTGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
30743281 TT
1 TT
30743283 CAACATATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (45 bp):
TTATACAGTGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
Found at i:30743274 original size:22 final size:21
Alignment explanation
Indices: 30743203--30743277 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
30743193 ATACAGTGAA
*
30743203 ATCGCGATATCTAAAGGAGGAT
1 ATCGCGATATTTAAA-GAGGAT
* * * * *
30743225 ATCGCAATTTCTTATACAGTGAA
1 ATCGCGATAT-TTAAAGAG-GAT
30743248 ATCGCGATATTTAAATGAGGAT
1 ATCGCGATATTTAAA-GAGGAT
30743270 ATCGCGAT
1 ATCGCGAT
30743278 TTCTTCAACA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
22 24 0.62
23 15 0.38
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (21 bp):
ATCGCGATATTTAAAGAGGAT
Found at i:30757856 original size:21 final size:21
Alignment explanation
Indices: 30757832--30757886 Score: 56
Period size: 27 Copynumber: 2.3 Consensus size: 21
30757822 CTTGTACAAC
30757832 ATTTAGTTGATTTAGATTTAA
1 ATTTAGTTGATTTAGATTTAA
30757853 ATTTAGTACTCGTTGATTTAGATTTAA
1 A-TT--TA---GTTGATTTAGATTTAA
30757880 ATTTAGT
1 ATTTAGT
30757887 ATTCTAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
24 4 0.14
26 2 0.07
27 17 0.61
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTTAGTTGATTTAGATTTAA
Found at i:30758892 original size:43 final size:46
Alignment explanation
Indices: 30758850--30758946 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 46
30758840 TATGAAATTA
* * *
30758850 TATATAGTGTTGAGCTTTTGATTCATGATATTTAACTTAATTATAATTT
1 TATA-AGTGTTCACCTTTTGATTCATGATATTAAACTTAATTATAA--T
30758899 TATGAAGTGTTCACCTTTTGATTCATGATATTAAACTTAAATT-TAAT
1 TAT-AAGTGTTCACCTTTTGATTCATGATATTAAACTT-AATTATAAT
30758946 T
1 T
30758947 TGTTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 2 0.05
49 36 0.84
50 5 0.12
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (46 bp):
TATAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTATAAT
Found at i:30760490 original size:91 final size:91
Alignment explanation
Indices: 30760175--30760480 Score: 542
Period size: 91 Copynumber: 3.4 Consensus size: 91
30760165 TGATTTTAGT
* * *
30760175 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
30760240 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
30760266 AAATTCATATAAGAAAATTTATTA-TAAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
30760330 TTTAATAATATTTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
*
30760357 AAATTCATATAAGAAAATTTATTAGTAAGAGTTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
30760422 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
*
30760448 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT
30760481 ATTTTAAATT
Statistics
Matches: 206, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
90 1 0.00
91 204 0.99
92 1 0.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:30760510 original size:17 final size:16
Alignment explanation
Indices: 30760488--30760537 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 16
30760478 ATTATTTTAA
30760488 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA--ATAT
30760505 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
30760521 A-TTTAA-TAAAAT-T
1 ATTTTAATTAAAATAT
30760534 ATTT
1 ATTT
30760538 CAAATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.06
14 8 0.26
15 5 0.16
16 5 0.16
17 5 0.16
18 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:30760601 original size:66 final size:64
Alignment explanation
Indices: 30760531--30760722 Score: 174
Period size: 66 Copynumber: 3.1 Consensus size: 64
30760521 ATTTAATAAA
30760531 ATTATTTCAAATTATATTCTATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTCAAATTATATT-TATAGTATCATA-ATTATGATTTTAGTAAATTCATATAAGAATATT
30760596 G
64 G
* * * * ** *
30760597 ATTA-TT--AA-GA-ATTT-TA-T-T-A-AATTATATATTTTAATTAAAAT-ATAT-TTAATAAT
1 ATTATTTCAAATTATATTTATAGTATCATAATTAT-GATTTT-AGTAAATTCATATAAGAATATT
*
30760650 A
64 G
30760651 ATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTCAAATTATA-TTTATAGTATCATA-ATTATGATTTTAGTAAATTCATATAAGAATATT
30760716 G
64 G
30760717 ATTATT
1 ATTATT
30760723 AAGAATTTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 32
0.66 0.11 0.23
Matches are distributed among these distances:
54 14 0.15
55 12 0.13
56 7 0.07
57 3 0.03
58 2 0.02
59 3 0.03
60 4 0.04
61 5 0.05
62 2 0.02
63 3 0.03
64 7 0.07
65 12 0.13
66 20 0.21
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (64 bp):
ATTATTTCAAATTATATTTATAGTATCATAATTATGATTTTAGTAAATTCATATAAGAATATTG
Found at i:30760635 original size:18 final size:17
Alignment explanation
Indices: 30760607--30760641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30760597 ATTATTAAGA
*
30760607 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30760624 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30760642 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30760699 original size:120 final size:120
Alignment explanation
Indices: 30760487--30760775 Score: 544
Period size: 120 Copynumber: 2.4 Consensus size: 120
30760477 AATTATTTTA
*
30760487 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAA-AATTATTTCAAATTATATTCT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
30760551 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
30760606 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
*
30760671 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
30760726 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
30760776 GTTAAAATAT
Statistics
Matches: 166, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 42 0.25
120 124 0.75
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:30760743 original size:59 final size:59
Alignment explanation
Indices: 30760563--30760743 Score: 169
Period size: 57 Copynumber: 3.0 Consensus size: 59
30760553 AGTATCATAC
30760563 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* * * * * * *
30760622 A-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTATCA
1 ATTATGATTTTAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AAT--
30760680 TAT
57 TAT
30760683 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
30760742 AT
1 AT
30760744 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.07
57 17 0.18
58 10 0.11
59 14 0.15
61 12 0.13
62 10 0.11
63 17 0.18
64 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (59 bp):
ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
Found at i:30760744 original size:61 final size:61
Alignment explanation
Indices: 30760563--30760746 Score: 189
Period size: 61 Copynumber: 3.0 Consensus size: 61
30760553 AGTATCATAC
30760563 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
* * ** * * * * * * * * *
30760624 ATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTATCATAT
1 ATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-AATTATAT
30760683 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
30760744 ATT
1 ATT
30760747 TTAATTAAAA
Statistics
Matches: 89, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
58 5 0.06
59 31 0.35
60 14 0.16
61 34 0.38
62 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
Found at i:30760755 original size:18 final size:17
Alignment explanation
Indices: 30760727--30760761 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30760717 ATTATTAAGA
*
30760727 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30760744 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30760762 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30760998 original size:46 final size:44
Alignment explanation
Indices: 30760914--30761001 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
30760904 TTACACATCC
* * * *
30760914 ATTCCATTCAACTAAATACAAGAATACTATTACGCCTCTATTCT
1 ATTCCATTCAACCAAACAAAAAAATACTATTACGCCTCTATTCT
*
30760958 ATTCCATTCAACCAAACAAAAAAATTACCTATTGCGCCTCTATT
1 ATTCCATTCAACCAAACAAAAAAA-TA-CTATTACGCCTCTATT
30761002 TCATTACACC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 20 0.54
45 2 0.05
46 15 0.41
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (44 bp):
ATTCCATTCAACCAAACAAAAAAATACTATTACGCCTCTATTCT
Found at i:30771208 original size:18 final size:18
Alignment explanation
Indices: 30771185--30771236 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30771175 GAAACTCTAT
*
30771185 ATCCTTAGGGGATTTTTA
1 ATCCTTAGAGGATTTTTA
**
30771203 ATCCTTTTAGGATTTTTA
1 ATCCTTAGAGGATTTTTA
30771221 ATCCTTCA-AGGATTTT
1 ATCCTT-AGAGGATTTT
30771237 CAGATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.48
Consensus pattern (18 bp):
ATCCTTAGAGGATTTTTA
Found at i:30777078 original size:20 final size:21
Alignment explanation
Indices: 30777033--30777071 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
30777023 CAATATAAGT
30777033 ATATATTAATTATTATTTAAC
1 ATATATTAATTATTATTTAAC
30777054 ATATA-TAATTGATT-TTTA
1 ATATATTAATT-ATTATTTA
30777072 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATATTAATTATTATTTAAC
Found at i:30777310 original size:25 final size:24
Alignment explanation
Indices: 30777265--30777312 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30777255 AATTTAAAGG
* * *
30777265 TTTAACTAAATTTAAACTATTTAC
1 TTTAACTAAAATAAAAATATTTAC
30777289 TTTAACTAAAATAAAATATATTTA
1 TTTAACTAAAATAAAA-ATATTTA
30777313 ATATCATAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTAACTAAAATAAAAATATTTAC
Found at i:30777846 original size:21 final size:22
Alignment explanation
Indices: 30777805--30777860 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
30777795 AATATCGGTG
*
30777805 GCGGTGAGATT-AATTACTGTA
1 GCGGTGAGATTGGATTACTGTA
*
30777826 GCGGTGAGATTGGA-TATTGTA
1 GCGGTGAGATTGGATTACTGTA
*
30777847 ACGGTGAGATTGGA
1 GCGGTGAGATTGGA
30777861 AACAATGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (22 bp):
GCGGTGAGATTGGATTACTGTA
Found at i:30781211 original size:26 final size:26
Alignment explanation
Indices: 30781176--30781226 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30781166 TAAAATAAAC
*
30781176 AGTTAATAGAATCAGTTGGTCAAATT
1 AGTTAATAGAATCAGTTGATCAAATT
* *
30781202 AGTTATTAGAATTAGTTGATCAAAT
1 AGTTAATAGAATCAGTTGATCAAAT
30781227 CAGTCACTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (26 bp):
AGTTAATAGAATCAGTTGATCAAATT
Found at i:30781427 original size:16 final size:17
Alignment explanation
Indices: 30781408--30781440 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30781398 AAACTTGAAA
30781408 AGTATATATAA-ATATT
1 AGTATATATAATATATT
*
30781424 AGTATTTATAATATATT
1 AGTATATATAATATATT
30781441 TAAAAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AGTATATATAATATATT
Found at i:30788011 original size:13 final size:13
Alignment explanation
Indices: 30787993--30788019 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30787983 AATTTTATAC
30787993 TTGTGCAAGTGGA
1 TTGTGCAAGTGGA
30788006 TTGTGCAAGTGGA
1 TTGTGCAAGTGGA
30788019 T
1 T
30788020 CCCTTCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.33
Consensus pattern (13 bp):
TTGTGCAAGTGGA
Found at i:30794183 original size:28 final size:28
Alignment explanation
Indices: 30794151--30794227 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
30794141 TCATGAGATT
30794151 GGCACTAAGT-TGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
30794180 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30794207 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30794228 GATTATTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.12
28 9 0.21
29 25 0.60
30 3 0.07
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30801262 original size:42 final size:42
Alignment explanation
Indices: 30801203--30801289 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
30801193 ATACAAATGA
30801203 AATGGTAAGTTGTGTTTAAGTTATACGAGCTTACTAAGCATT
1 AATGGTAAGTTGTGTTTAAGTTATACGAGCTTACTAAGCATT
30801245 AATGGTAAGTTGTGTTTAAGTTATACGAGCTTACTAAGCATT
1 AATGGTAAGTTGTGTTTAAGTTATACGAGCTTACTAAGCATT
30801287 AAT
1 AAT
30801290 TACTTACGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (42 bp):
AATGGTAAGTTGTGTTTAAGTTATACGAGCTTACTAAGCATT
Found at i:30804140 original size:22 final size:22
Alignment explanation
Indices: 30804093--30804140 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
30804083 TTAGTCTTTT
* **
30804093 AAATTTCTAACTCTAATCTCTT
1 AAATTTCTAACTCTAATATCGG
30804115 AAATTTCTAACTCTAAGTAT-GG
1 AAATTTCTAACTCTAA-TATCGG
30804137 AAAT
1 AAAT
30804141 GACTTGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATTTCTAACTCTAATATCGG
Found at i:30808528 original size:17 final size:17
Alignment explanation
Indices: 30808506--30808558 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
30808496 TTTAAAAGAA
30808506 ACATAATTAAAAATCCT
1 ACATAATTAAAAATCCT
*
30808523 ACATAA-TAAATAT--T
1 ACATAATTAAAAATCCT
30808537 --ATAATTAAAAATCCT
1 ACATAATTAAAAATCCT
30808552 ACATAAT
1 ACATAAT
30808559 AAATATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 1 0.03
15 1 0.03
16 6 0.21
17 11 0.38
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (17 bp):
ACATAATTAAAAATCCT
Found at i:30808550 original size:29 final size:29
Alignment explanation
Indices: 30808508--30808566 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30808498 TAAAAGAAAC
30808508 ATAATTAAAAATCCTACATAATAAATATT
1 ATAATTAAAAATCCTACATAATAAATATT
30808537 ATAATTAAAAATCCTACATAATAAATATT
1 ATAATTAAAAATCCTACATAATAAATATT
30808566 A
1 A
30808567 AGACAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAATTAAAAATCCTACATAATAAATATT
Found at i:30811920 original size:17 final size:19
Alignment explanation
Indices: 30811889--30811923 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
30811879 TGGGGTAGCA
30811889 AAAAATATAATAATAAAAT
1 AAAAATATAATAATAAAAT
30811908 AAAAATA-AA-AATAAAA
1 AAAAATATAATAATAAAA
30811924 GGAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATATAATAATAAAAT
Found at i:30811929 original size:17 final size:19
Alignment explanation
Indices: 30811889--30811930 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
30811879 TGGGGTAGCA
*
30811889 AAAAATATAATAATAAAAT
1 AAAAATATAATAATAAAAG
30811908 AAAAATA-AA-AATAAAAGG
1 AAAAATATAATAATAAAA-G
30811926 AAAAA
1 AAAAA
30811931 GAAATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAATATAATAATAAAAG
Found at i:30816670 original size:46 final size:45
Alignment explanation
Indices: 30816563--30816888 Score: 386
Period size: 46 Copynumber: 7.6 Consensus size: 45
30816553 TACATATGAT
* *
30816563 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
30816606 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
30816652 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
30816688 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
30816734 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
30816770 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
30816816 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
30816862 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30816889 AGTACTCAAA
Statistics
Matches: 246, Mismatches: 14, Indels: 43
0.81 0.05 0.14
Matches are distributed among these distances:
36 57 0.23
38 4 0.02
39 1 0.00
40 5 0.02
41 2 0.01
42 5 0.02
43 11 0.04
44 9 0.04
45 21 0.09
46 131 0.53
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:30816693 original size:36 final size:36
Alignment explanation
Indices: 30816652--30816806 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
30816642 CTAAGGCTAA
30816652 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
30816688 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
30816730 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
30816770 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
30816806 C
1 C
30816807 TAATGCTACC
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:30816713 original size:82 final size:82
Alignment explanation
Indices: 30816606--30816852 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
30816596 GCTAGGCTAC
* * *
30816606 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
30816671 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
30816688 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
30816753 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* * *
30816770 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
30816835 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
30816852 C
1 C
30816853 TAATGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:30816755 original size:128 final size:123
Alignment explanation
Indices: 30816652--30816888 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 123
30816642 CTAAGGCTAA
*
30816652 CACTTATCACTTTGTCACTTGATCAGATAAG-TA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTGTCACTTGATCAGATAAGATACTAATGCCACTTATCACTTTCTCACTTGATC
* *
30816712 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
*
30816770 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-ATA-CTAATG---CCACTTATCACTTTCTCACT
*
30816835 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
30816889 AGTACTCAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
118 30 0.29
120 2 0.02
122 1 0.01
123 1 0.01
124 1 0.01
128 69 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (123 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGATACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:30819590 original size:38 final size:38
Alignment explanation
Indices: 30819539--30819614 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
30819529 ATAACTCTAT
* *
30819539 AATCCTATATTTTCCTCCTAAAGTCACTCCAACACTCC
1 AATCCCATATTTTCCTCCTAAAATCACTCCAACACTCC
30819577 AATCCCATATTTTCCTCCTAAAATCACTCCAACACTCC
1 AATCCCATATTTTCCTCCTAAAATCACTCCAACACTCC
30819615 CCCACCAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.38, G:0.01, T:0.30
Consensus pattern (38 bp):
AATCCCATATTTTCCTCCTAAAATCACTCCAACACTCC
Found at i:30822296 original size:11 final size:10
Alignment explanation
Indices: 30822268--30822322 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
30822258 AATTAAAATG
30822268 TTAAAATAAA
1 TTAAAATAAA
*
30822278 TTTAAATAAA
1 TTAAAATAAA
30822288 TTAACAAT--A
1 TTAA-AATAAA
* *
30822297 TTGAAATAAT
1 TTAAAATAAA
*
30822307 TTGAAATAAA
1 TTAAAATAAA
30822317 TTAAAA
1 TTAAAA
30822323 AATGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:30822305 original size:29 final size:28
Alignment explanation
Indices: 30822258--30822372 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 28
30822248 ATAATATATG
*
30822258 AATTAAAATGTTAAAATAAATTT-AAATA
1 AATTAAAATATTAAAAT-AATTTGAAATA
*
30822286 AATTAACAATATTGAAATAATTTGAAATA
1 AATTAA-AATATTAAAATAATTTGAAATA
* *
30822315 AATTAAAAAATGTTAAAAT-ATTTGAAAGA
1 AATT--AAAATATTAAAATAATTTGAAATA
* *
30822344 GA-TAAAATATTTATATAATAATATGAAAT
1 AATTAAAATA-TTA-A-AATAATTTGAAAT
30822373 TAACAATAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
26 5 0.07
27 3 0.04
28 13 0.19
29 31 0.44
30 16 0.23
31 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (28 bp):
AATTAAAATATTAAAATAATTTGAAATA
Found at i:30823782 original size:6 final size:7
Alignment explanation
Indices: 30823761--30823785 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30823751 ATTTATATAC
30823761 TTTATTT
1 TTTATTT
30823768 TTTATTT
1 TTTATTT
30823775 TTTATTT
1 TTTATTT
30823782 TTTA
1 TTTA
30823786 CTACATCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:30823952 original size:3 final size:3
Alignment explanation
Indices: 30823946--30823970 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30823936 ATTTTTTTAC
30823946 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
30823971 ATATACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30824464 original size:47 final size:47
Alignment explanation
Indices: 30824393--30824482 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
30824383 CGTCGCACCA
30824393 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
1 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
* *
30824440 TTTTCTTTCACTTTCCTCCTATCCAAACACCGACCACTTCATT
1 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATT
30824483 CCTAGCAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.21, C:0.39, G:0.02, T:0.38
Consensus pattern (47 bp):
TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
Found at i:30825529 original size:118 final size:118
Alignment explanation
Indices: 30825321--30825546 Score: 425
Period size: 118 Copynumber: 1.9 Consensus size: 118
30825311 CCTCATGCAG
*
30825321 AAATTAGATTAGAGAGCGTTGCAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTAA
1 AAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTAA
30825386 GTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTTA
66 GTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTTA
*
30825439 AAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCGTTTAAAATTGTTTCTGTTAA
1 AAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTAA
*
30825504 GTATGGCTCCTATTTTTAGTCAAATTTGAGAAATAATCTTTTA
66 GTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTA
30825547 GTTAAACTCT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (118 bp):
AAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTAA
GTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTTA
Found at i:30832613 original size:119 final size:115
Alignment explanation
Indices: 30832355--30832813 Score: 390
Period size: 119 Copynumber: 3.9 Consensus size: 115
30832345 CACATGTCCA
* * * * * *
30832355 TGTACCATGACAAATTCGATTTATTGTCACTTTAAGATGTAAATATTTGAAATTTTTTATTTT--
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTG-AATTTATGATTTTGA
* * * * * *
30832418 CA-AAGG-AGCCAATATTTGATCTCTCTGTTAGACCAAGACATG-TGTGTGTC
65 CATAAGGTA-CCAATGTTTGATCTGTCTCTGAGACAAAGACA-GATATGTGTC
** *
30832468 TGTGTAGTATGACTAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTTCATGATTTT
1 --TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTT-ATGA-TTT
* *
30832533 TGACATAAGGTACCAAGGTTTGATCTGTCTCTGAGACAAAGACAGAT-TCGCTTGTG
62 TGACATAAGGTACCAATGTTTGATCTGTCTCTGAGACAAAGACAGATAT-G--TGTC
* * * * *
30832589 TGTTCTATGGCAAATTCCATTTATTGTTGCTTTAAAATGTAAATATTTGAATTTTATCATTTTGA
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAA-TTTATGATTTTGA
* * * * *
30832654 CATAAAGTACCAATGTTTGGTCCGTGTCTCTTAGACCAAGGACATATATGTGTC
65 CATAAGGTACCAATGTTTGAT-C-TGTCTCTGAGA-CAAAGACAGATATGTGTC
* * * * *
30832708 TGTACAATGACAAATTCCTTTTATTATTACTTCAAAGTGTAAAGATTTGAAATTTATGATTTTGA
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTG-AATTTATGATTTTGA
* * * * *
30832773 GATAAGGTAGCATTGTTTGAGATGTGTCTCTGAGACCAAGA
65 CATAAGGTACCAATGTTT--GATCTGTCTCTGAGACAAAGA
30832814 ATTATGTCAT
Statistics
Matches: 279, Mismatches: 47, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
114 5 0.02
115 45 0.16
116 4 0.01
118 32 0.11
119 161 0.58
120 16 0.06
121 15 0.05
122 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (115 bp):
TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTTATGATTTTGAC
ATAAGGTACCAATGTTTGATCTGTCTCTGAGACAAAGACAGATATGTGTC
Done.