Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 315 of 316
Found at i:103455748 original size:18 final size:17
Alignment explanation
Indices: 103455726--103455860 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
103455716 AATACTAAGA
103455726 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
103455743 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
103455759 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
103455773 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
103455792 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
103455808 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
103455826 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
103455843 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
103455861 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:103455756 original size:120 final size:120
Alignment explanation
Indices: 103455584--103455826 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
103455574 TGATACAATC
103455584 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
103455649 AATTATTTAAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTAAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
103455704 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
*
103455769 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTAAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
103455824 ATA
1 ATA
103455827 TTTTATTAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTAAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:103455779 original size:26 final size:25
Alignment explanation
Indices: 103455741--103455799 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
103455731 ATTAAATTAT
*
103455741 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
103455767 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
103455793 ATATTAT
1 ATATTAT
103455800 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:103455798 original size:15 final size:15
Alignment explanation
Indices: 103455754--103455809 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
103455744 TTTTTGTTAA
*
103455754 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
103455769 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
103455780 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
103455795 ATTATATATTATAAT
1 ATTATATTTTATAAT
103455810 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:103455827 original size:41 final size:40
Alignment explanation
Indices: 103455605--103455845 Score: 121
Period size: 41 Copynumber: 6.0 Consensus size: 40
103455595 TAATACTAAG
* *
103455605 AATTTTATTAAATTATATATTTTTGTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATA-TTTT-ATAATATTATATATT-AT
* * * *
103455646 AATAATTATTTAAAAT-TATATTTTATAGTATTATATATTAT
1 AAT-TTTA-GTAAATTATATATTTTATAATATTATATATTAT
* * * *
103455687 GATTTTAGTAAATTCATATA----AGAATATT-TAATACTAAG
1 AATTTTAGTAAATT-ATATATTTTATAATATTAT-ATA-TTAT
* *
103455725 AATTTTATTAAATTATATATTTTTGTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATA-TTTT-ATAATATTATATATT-AT
**
103455766 AATAATTATTTTAAA-T-TATATTTTATAATATTATATATTAT
1 AAT--TT-TAGTAAATTATATATTTTATAATATTATATATTAT
103455807 AATTTTAGTAAATTCATATATTTTATTAA-ATTATATATT
1 AATTTTAGTAAATT-ATATATTTTA-TAATATTATATATT
103455846 TTTATTAAAT
Statistics
Matches: 153, Mismatches: 22, Indels: 50
0.68 0.10 0.22
Matches are distributed among these distances:
36 1 0.01
37 14 0.09
38 19 0.12
39 8 0.05
40 9 0.06
41 61 0.40
42 23 0.15
43 12 0.08
44 6 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (40 bp):
AATTTTAGTAAATTATATATTTTATAATATTATATATTAT
Found at i:103456050 original size:21 final size:21
Alignment explanation
Indices: 103456024--103456078 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
103456014 ACCGCTGTTT
*
103456024 CTAATCTCACTGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
103456046 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
103456066 CTAATCTCACCGC
1 CTAATCTCACCGC
103456079 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:103456756 original size:275 final size:274
Alignment explanation
Indices: 103456257--103456759 Score: 699
Period size: 275 Copynumber: 1.8 Consensus size: 274
103456247 GGCACACATG
* *
103456257 GCCCATATACCTCCAAAAGGCCTTTTACCACTTAAGTGTTGCTATCCTTTTATATAGTCCAGGTC
1 GCCCATATACCCCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACCCTTTTATATAGTCCAGGTC
* * *
103456322 TCTCTTATGCTTTGATGATGTAGATTTCTCTAAGGTATTACATCCACCCCCCTTAGGGACTCAAT
66 TCTCTCATGCTTTGACGATGAAGATTTCTCTAAGGTATTACATCCACCCCCCTTAGGGACTCAAT
* * * *
103456387 GTCCTCATTGAGGTTTGTCCCACCATCACTCAAGAAGCACAACAAGTGACTCTGATATCAATAAA
131 GTCCTCACTGAGGTTTGCCCCACCATCACTCAAGAAGCACAACAAATAACTCTGATATCAATAAA
* * *
103456452 TTTCATAGCCAACACCTAACCCGGTAAGATATTGTTTGCTTTAAGCGCACATGACCCTTATAGCT
196 TGTCATAGCCAACACCCAACCCAGTAAGATATTGTTTGCTTTAAGCGCACATGACCCTTATAGCT
103456517 TTATTCTTGGGAGT
261 TTATTCTTGGGAGT
*
103456531 GCCCATATACCCCCAAGAGGCCTTTTACCACTTAAGTGTTGCTACCCTTTTATATAG-CCTAGGT
1 GCCCATATACCCCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACCCTTTTATATAGTCC-AGGT
* * * *
103456595 CTCTCTCGTGCTTTGCCGATGAAGGATTTGC-CTAGGGTATTACATTCACCCCCCTTAGGGAC-C
65 CTCTCTCATGCTTTGACGATGAA-GATTT-CTCTAAGGTATTACATCCACCCCCCTTAGGGACTC
* * ** * **
103456658 TAATGTCTTCGCTGAGGTTTGCCCCACCATTGCTCAAGAGGCATGACAAATAACTCTGATA-CTA
128 -AATGTCCTCACTGAGGTTTGCCCCACCATCACTCAAGAAGCACAACAAATAACTCTGATATC-A
* *
103456722 ATAAATGTCATAGCCAATACCCAACCTAGTAAGATATT
191 ATAAATGTCATAGCCAACACCCAACCCAGTAAGATATT
103456760 ATCCGCTTTG
Statistics
Matches: 198, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
273 2 0.01
274 78 0.39
275 117 0.59
276 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (274 bp):
GCCCATATACCCCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACCCTTTTATATAGTCCAGGTC
TCTCTCATGCTTTGACGATGAAGATTTCTCTAAGGTATTACATCCACCCCCCTTAGGGACTCAAT
GTCCTCACTGAGGTTTGCCCCACCATCACTCAAGAAGCACAACAAATAACTCTGATATCAATAAA
TGTCATAGCCAACACCCAACCCAGTAAGATATTGTTTGCTTTAAGCGCACATGACCCTTATAGCT
TTATTCTTGGGAGT
Found at i:103457981 original size:18 final size:18
Alignment explanation
Indices: 103457958--103457992 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
103457948 CAAGATAGTT
103457958 GAATTGCTTCTTTAAGAA
1 GAATTGCTTCTTTAAGAA
103457976 GAATTGCTTCTTTAAGA
1 GAATTGCTTCTTTAAGA
103457993 TGCATCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
GAATTGCTTCTTTAAGAA
Found at i:103465423 original size:15 final size:15
Alignment explanation
Indices: 103465403--103465432 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
103465393 GTGATTCAGG
103465403 TCTCGAACACTAACC
1 TCTCGAACACTAACC
103465418 TCTCGAACACTAACC
1 TCTCGAACACTAACC
103465433 GTCAGATATT
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:0.33, C:0.40, G:0.07, T:0.20
Consensus pattern (15 bp):
TCTCGAACACTAACC
Found at i:103466317 original size:8 final size:8
Alignment explanation
Indices: 103466300--103466332 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
103466290 ACGATATCAC
103466300 TCTT-CTT
1 TCTTCCTT
103466307 TCTTCCTT
1 TCTTCCTT
103466315 TCTTCCTT
1 TCTTCCTT
*
103466323 TCTTTCTT
1 TCTTCCTT
103466331 TC
1 TC
103466333 CTATTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TCTTCCTT
Found at i:103507741 original size:21 final size:21
Alignment explanation
Indices: 103507715--103507755 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103507705 ATCTGCTCAA
* *
103507715 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
103507736 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
103507756 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:103534023 original size:27 final size:27
Alignment explanation
Indices: 103533992--103534059 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
103533982 CCTCAATGAA
103533992 GAAGCTGAGTTGAGTGAAGACGACATT
1 GAAGCTGAGTTGAGTGAAGACGACATT
*
103534019 GAAGCTCAGTTGAGTGAAGACGACATT
1 GAAGCTGAGTTGAGTGAAGACGACATT
103534046 GAAGCTGAGTTGAG
1 GAAGCTGAGTTGAG
103534060 AGAGAGAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (27 bp):
GAAGCTGAGTTGAGTGAAGACGACATT
Found at i:103534875 original size:15 final size:16
Alignment explanation
Indices: 103534842--103534875 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103534832 TCGATCATTT
*
103534842 TTGTTAAAAATTTATA
1 TTGTTAAAAATTTACA
103534858 TTGTTAAAAA-TTACA
1 TTGTTAAAAATTTACA
103534873 TTG
1 TTG
103534876 GCTGACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
TTGTTAAAAATTTACA
Found at i:103536014 original size:5 final size:5
Alignment explanation
Indices: 103535961--103536007 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
103535951 TGTGTTAAAA
* *
103535961 TATAT ATATAT TAAAT TATTAT TATAT TATAG TATAT TATAT TATAT
1 TATAT -TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
103536008 ATTATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:103537354 original size:18 final size:19
Alignment explanation
Indices: 103537331--103537369 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
103537321 ATATATAGAT
103537331 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
103537349 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
103537368 AT
1 AT
103537370 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:103545063 original size:102 final size:102
Alignment explanation
Indices: 103544927--103545549 Score: 537
Period size: 111 Copynumber: 5.8 Consensus size: 102
103544917 AATTCAATGG
* ** * ** * * **
103544927 CATTTCACCTGCAAG-ATCTCTTGCATCAGAGGGTGTTGGCATATTTGGCTCTTGCGTTCCAGGC
1 CATTTCACCTGC-AGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGC
103544991 ATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGC
65 ATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGC
103545029 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
1 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
103545094 TGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGC
66 TGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGC
* *
103545131 CATTTCATCTGCAGCATCTCTTACATCATCGGGTGCTGGAATATTCAGCTCTTGCCTTTCTTGCA
1 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
* * *
103545196 TGCTACGGTTCATGTTTTGATGGACTTGATCGTCGGAGCTCGATGG
66 TGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGATGC
* ** * **
103545242 CATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTTGCA
1 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
* * * * *
103545307 TGCTACAGTTCATTTTTTGATGGGCTTGATCGTCGGAGCTCGATGG
66 TGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGATGC
* * ** * ** *
103545353 CATTTCACCTGAAGCATCTCTTGCATCAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTTGCG
1 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
* * * * *
103545418 TGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGG
66 TGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGATGC
* ** * *** * *
103545464 CATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTATCATATTCAGCTCTTGCCTTCCCTGCA
1 CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
* *
103545529 TGCTACTGTTCATGTTTTGAT
66 TGCTACGGTTCGTGTTTTGAT
103545550 AAACTTGATT
Statistics
Matches: 471, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
101 2 0.00
102 172 0.37
105 1 0.00
107 2 0.00
110 1 0.00
111 293 0.62
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (102 bp):
CATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATATTCAGCTCTTGCCTTTCTTGCA
TGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGC
Found at i:103545286 original size:111 final size:111
Alignment explanation
Indices: 103545110--103545657 Score: 681
Period size: 111 Copynumber: 4.9 Consensus size: 111
103545100 GGTTCGTGTT
* * * * ** * * **
103545110 TTGATCGAT-GGAACTCGATGCCATTTCATCTGCAGCATCTCTTACATCATCGGGTGCTGGAATA
1 TTGATCG-TCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATA
103545174 TTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
65 TTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
103545221 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
1 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
* * *
103545286 TCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATTTTTTGATGGGC
66 TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
*
103545332 TTGATCGTCGGAGCTCGATGGCATTTCACCTGAAGCATCTCTTGCATCAAAGGATGTTGTCATAT
1 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
* *
103545397 TCAGCTCTTGCCTTTCTTGCGTGCTACGATTCATGTTTTGATGGAC
66 TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
* *
103545443 TTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTATCATAT
1 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
* * * **
103545508 TCAGCTCTTGCCTTCCCTGCATGCTACTGTTCATGTTTTGATAAAC
66 TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
* * * * * * * * *
103545554 TTGATTTGT-GGAACTCAATGGCCA-TACACCTACAGCATGTCTTGCATAAAAGGGTCTCTGT-A
1 TTGA-TCGTCGGAGCTCGATGG-CATTTCACCTGCAGCATCTCTTGCATCAAAGGATGT-TGTCA
* * * * * * *
103545616 TATTCGGTTCTTGCCATCCCTGCATGCTTCGGCTCATGTTTT
63 TATTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTT
103545658 CGTAAACTTG
Statistics
Matches: 387, Mismatches: 46, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
110 1 0.00
111 379 0.98
112 7 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (111 bp):
TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
Found at i:103545437 original size:222 final size:213
Alignment explanation
Indices: 103545008--103545549 Score: 726
Period size: 222 Copynumber: 2.5 Consensus size: 213
103544998 GGTTCGTGTT
* * * ** * **
103545008 TTGATCGAT-GGAACTCGATGCCATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATA
1 TTGATCG-TCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATA
* *
103545072 TTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTC
65 TTCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATGTTTTGATCGATGGAACTCGATGCCATTTC
* * ** *
103545137 ATCTGCAGCATCTCTTACATCATCGGGTGCTGGAATATTCAGCTCTTGCCTTTCTTGCATGCTAC
130 ACCTGAAGCATCTCTTACATCAAAGGATGCTGGAATATTCAGCTCTTGCCTTTCTTGCATGCTAC
*
103545202 GGTTCATGTTTTGATGGAC
195 GATTCATGTTTTGATGGAC
103545221 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
1 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
* *
103545286 TCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATTTTTTGATGGGCTTGATCGTCGGAGCTCGAT
66 TCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATGTTTTGAT---C--GA---T-GGAACTCGAT
* * * **
103545351 GGCATTTCACCTGAAGCATCTCTTGCATCAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTTG
122 GCCATTTCACCTGAAGCATCTCTTACATCAAAGGATGCTGGAATATTCAGCTCTTGCCTTTCTTG
*
103545416 CGTGCTACGATTCATGTTTTGATGGAC
187 CATGCTACGATTCATGTTTTGATGGAC
* *
103545443 TTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTATCATAT
1 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
* * *
103545508 TCAGCTCTTGCCTTCCCTGCATGCTACTGTTCATGTTTTGAT
66 TCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATGTTTTGAT
103545550 AAACTTGATT
Statistics
Matches: 289, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
212 1 0.00
213 94 0.33
216 1 0.00
218 2 0.01
221 1 0.00
222 190 0.66
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (213 bp):
TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
TCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATGTTTTGATCGATGGAACTCGATGCCATTTCA
CCTGAAGCATCTCTTACATCAAAGGATGCTGGAATATTCAGCTCTTGCCTTTCTTGCATGCTACG
ATTCATGTTTTGATGGAC
Found at i:103545599 original size:222 final size:222
Alignment explanation
Indices: 103544858--103545606 Score: 687
Period size: 222 Copynumber: 3.5 Consensus size: 222
103544848 TGATCGTCAC
* * * * * ** * * * *
103544858 TTCAGGCTCTTGCCTTCCTTGCATGCCATAGTCCATGTCTTGATTGACTTGGTCTTTGGAATTCA
1 TTCA-GCTCTTGCCTTCCCTGCATGCTACAGTTCATGTTTTGATAAACTTGATCGTCGGAACTCA
* * * * * ** * *
103544923 ATGGCATTTCACCTGCAAG-ATCTCTTGCATCAGAGGGTGTTGGCATATTTGGCTCTTGCGTTCC
65 ATGGCATTACACCTG-AAGCATCTCTTGCATAAAAGGATGTTGTCATATTCAGCTCTTGCCTTTC
** * * * * *
103544987 AGGCATGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGATGCCATTTCACCTGCAG
129 TTGCATGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGGCATTTCACCTGCAG
* ** * ***
103545043 CATCTCTTACATCATCGGGTGTTGGAATA
194 CATCTCTTGCATCAAAGGATGTTATCATA
* * * * *
103545072 TTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGA
1 TTCAGCTCTTGCCTTCCCTGCATGCTACAGTTCATGTTTTGATAAACTTGATCGTCGGAACTCAA
* * * * * * ** * * **
103545128 TGCCATTTCATCTGCAGCATCTCTTACATCATCGGGTGCTGGAATATTCAGCTCTTGCCTTTCTT
66 TGGCATTACACCTGAAGCATCTCTTGCATAAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTT
* *
103545193 GCATGCTACGGTTCATGTTTTGATGGACTTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCA
131 GCATGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCA
*
103545258 TCTCTTGCATCAAAGGATGTTGTCATA
196 TCTCTTGCATCAAAGGATGTTATCATA
* * * *** * *
103545285 TTCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATTTTTTGATGGGCTTGATCGTCGGAGCTCGA
1 TTCAGCTCTTGCCTTCCCTGCATGCTACAGTTCATGTTTTGATAAACTTGATCGTCGGAACTCAA
* *
103545350 TGGCATTTCACCTGAAGCATCTCTTGCATCAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTT
66 TGGCATTACACCTGAAGCATCTCTTGCATAAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTT
*
103545415 GCGTGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCA
131 GCATGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCA
103545480 TCTCTTGCATCAAAGGATGTTATCATA
196 TCTCTTGCATCAAAGGATGTTATCATA
* *
103545507 TTCAGCTCTTGCCTTCCCTGCATGCTACTGTTCATGTTTTGATAAACTTGATTTGT-GGAACTCA
1 TTCAGCTCTTGCCTTCCCTGCATGCTACAGTTCATGTTTTGATAAACTTGA-TCGTCGGAACTCA
*
103545571 ATGGCCA-TACACCT-ACAGCATGTCTTGCATAAAAGG
65 ATGG-CATTACACCTGA-AGCATCTCTTGCATAAAAGG
103545607 GTCTCTGTAT
Statistics
Matches: 449, Mismatches: 64, Indels: 36
0.82 0.12 0.07
Matches are distributed among these distances:
203 2 0.00
204 78 0.17
205 1 0.00
207 1 0.00
208 1 0.00
209 2 0.00
210 1 0.00
212 1 0.00
213 119 0.27
214 4 0.01
216 1 0.00
218 2 0.00
221 2 0.00
222 229 0.51
223 5 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (222 bp):
TTCAGCTCTTGCCTTCCCTGCATGCTACAGTTCATGTTTTGATAAACTTGATCGTCGGAACTCAA
TGGCATTACACCTGAAGCATCTCTTGCATAAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTT
GCATGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGATGGCATTTCACCTGCAGCA
TCTCTTGCATCAAAGGATGTTATCATA
Found at i:103545642 original size:333 final size:324
Alignment explanation
Indices: 103545008--103545643 Score: 740
Period size: 333 Copynumber: 1.9 Consensus size: 324
103544998 GGTTCGTGTT
* ** *
103545008 TTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACATCATCGGGTGTTGGAATAT
1 TTGATCGATGGAACTCGATGCCATTTCACCTGAAGCATCTCTTACATCAAAGGATGTTGGAATAT
* * *
103545073 TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCA
66 TCAGCTCTTGCCTTTCTTGCATGCTACGATTCATGTTTTGATCGATGGAACTAGATGCCATTTCA
* ** * * * *
103545138 TCTGCAGCATCTCTTACATCATCGGGTGCTGGAATATTCAGCTCTTGCCTTTCTTGCATGCTACG
131 CCTGCAGCATCTCTTACATCAAAGGATGCTAGAATATTCAGCTCTTGCCTTCCCTGCATGCTACG
** * * * *
103545203 GTTCATGTTTTGATGGACTTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCAT
196 GTTCATGTTTTGATAAACTTGATCGTCGGAACTCAATGGCATTACACCTACAGCATCTCTTGCAT
* * * * *
103545268 CAAAGGATGTTGTCATATTCAGCTCTTGCCTTTCTTGCATGCTACAGTTCATTTTTTGATGGGC
261 AAAAGGATCTTGTCATATTCAGCTCTTGCCATCCCTGCATGCTACAGTTCATTTTTTGATGGGC
* * * **
103545332 TTGATCG-TCGGAGCTCGATGGCATTTCACCTGAAGCATCTCTTGCATCAAAGGATGTTGTCATA
1 TTGATCGAT-GGAACTCGATGCCATTTCACCTGAAGCATCTCTTACATCAAAGGATGTTGGAATA
* *
103545396 TTCAGCTCTTGCCTTTCTTGCGTGCTACGATTCATGTTTTGATGGACTTGATCGTCGGAGCTAGA
65 TTCAGCTCTTGCCTTTCTTGCATGCTACGATTCATGTTTTGAT---C--GA---T-GGAACTAGA
* * * **
103545461 TGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTATCATATTCAGCTCTTGCCTTCCCT
121 TGCCATTTCACCTGCAGCATCTCTTACATCAAAGGATGCTAGAATATTCAGCTCTTGCCTTCCCT
* *
103545526 GCATGCTACTGTTCATGTTTTGATAAACTTGATTTGT-GGAACTCAATGGCCA-TACACCTACAG
186 GCATGCTACGGTTCATGTTTTGATAAACTTGA-TCGTCGGAACTCAATGG-CATTACACCTACAG
* * * *
103545589 CATGTCTTGCATAAAAGGGTCTCTGT-ATATTCGGTTCTTGCCATCCCTGCATGCT
249 CATCTCTTGCATAAAAGGATCT-TGTCATATTCAGCTCTTGCCATCCCTGCATGCT
103545644 TCGGCTCATG
Statistics
Matches: 256, Mismatches: 43, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
323 1 0.00
324 93 0.36
327 1 0.00
329 2 0.01
332 1 0.00
333 150 0.59
334 8 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (324 bp):
TTGATCGATGGAACTCGATGCCATTTCACCTGAAGCATCTCTTACATCAAAGGATGTTGGAATAT
TCAGCTCTTGCCTTTCTTGCATGCTACGATTCATGTTTTGATCGATGGAACTAGATGCCATTTCA
CCTGCAGCATCTCTTACATCAAAGGATGCTAGAATATTCAGCTCTTGCCTTCCCTGCATGCTACG
GTTCATGTTTTGATAAACTTGATCGTCGGAACTCAATGGCATTACACCTACAGCATCTCTTGCAT
AAAAGGATCTTGTCATATTCAGCTCTTGCCATCCCTGCATGCTACAGTTCATTTTTTGATGGGC
Found at i:103545664 original size:111 final size:110
Alignment explanation
Indices: 103545469--103545741 Score: 314
Period size: 111 Copynumber: 2.5 Consensus size: 110
103545459 GATGGCATTT
* * * * * * *
103545469 CACCTGCAGCATCTCTTGCATCAAAGGATGTTATCATATTCAGCTCTTGCCTTCCCTGCATGCTA
1 CACCTACAGCATCTCTTGCATAAAAGGGTCTTGT-ATATTCGGCTCTTGCCATCCCTGCATGCTA
* * ** **
103545534 CTGTTCATGTTTTGATAAACTTGATTTGTGGAACTCAATGGCCATA
65 CGGCTCATGTTTTGATAAACTTGATTAATGGAAAACAATGGCCATA
* * *
103545580 CACCTACAGCATGTCTTGCATAAAAGGGTCTCTGTATATTCGGTTCTTGCCATCCCTGCATGCTT
1 CACCTACAGCATCTCTTGCATAAAAGGGTCT-TGTATATTCGGCTCTTGCCATCCCTGCATGCTA
**
103545645 CGGCTCATGTTTTCG-TAAACTTGATTAATGGAAAACAATGGCTGTA
65 CGGCTCATGTTTT-GATAAACTTGATTAATGGAAAACAATGGCCATA
* * *
103545691 CACCTACAGCACCTCTTCCATAAAAGGGTCTTTGAATATTCGGCTCTTGCC
1 CACCTACAGCATCTCTTGCATAAAAGGGTC-TTGTATATTCGGCTCTTGCC
103545742 TATATACTTG
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
111 132 0.97
112 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
CACCTACAGCATCTCTTGCATAAAAGGGTCTTGTATATTCGGCTCTTGCCATCCCTGCATGCTAC
GGCTCATGTTTTGATAAACTTGATTAATGGAAAACAATGGCCATA
Found at i:103548998 original size:22 final size:22
Alignment explanation
Indices: 103548973--103549015 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
103548963 GAATCAACTA
*
103548973 TTTTGCTACCATTTCGTTATTG
1 TTTTGCTACAATTTCGTTATTG
*
103548995 TTTTGCTGCAATTTCGTTATT
1 TTTTGCTACAATTTCGTTATT
103549016 ATATTGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (22 bp):
TTTTGCTACAATTTCGTTATTG
Found at i:103550637 original size:30 final size:30
Alignment explanation
Indices: 103550603--103550662 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
103550593 TATTTTATTA
103550603 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
103550633 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
103550663 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:103550801 original size:11 final size:11
Alignment explanation
Indices: 103550785--103550815 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
103550775 ATATATATTT
103550785 TAAAAATTATA
1 TAAAAATTATA
*
103550796 TAAAAATAATA
1 TAAAAATTATA
103550807 TAAAAATTA
1 TAAAAATTA
103550816 ATATGAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:103550812 original size:12 final size:11
Alignment explanation
Indices: 103550785--103550819 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
103550775 ATATATATTT
*
103550785 TAAAAATTATA
1 TAAAAATAATA
103550796 TAAAAATAATA
1 TAAAAATAATA
103550807 TAAAAATTAATA
1 TAAAAA-TAATA
103550819 T
1 T
103550820 GAGCAGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:103554186 original size:30 final size:30
Alignment explanation
Indices: 103554140--103554263 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
103554130 TTTTATTATG
*
103554140 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
103554171 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
103554201 CCAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
103554231 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
103554261 CCA
1 CCA
103554264 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:103554195 original size:15 final size:15
Alignment explanation
Indices: 103554150--103554257 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
103554140 CCAATATCTC
103554150 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
103554165 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
103554180 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
103554195 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
*
103554210 GATACTCATATCTTT
1 GATACCCATATCTTT
** * *
103554225 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
103554240 GATACCCATATCTTT
1 GATACCCATATCTTT
103554255 GAT
1 GAT
103554258 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:103558872 original size:30 final size:30
Alignment explanation
Indices: 103558826--103558949 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
103558816 TTTTATTATG
*
103558826 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
103558857 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
103558887 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
103558917 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
103558947 CCA
1 CCA
103558950 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:103558881 original size:15 final size:15
Alignment explanation
Indices: 103558836--103558943 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
103558826 CCAATATCTC
103558836 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
103558851 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
103558866 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
103558881 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
103558896 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
103558911 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
103558926 GATACCCATATCTTT
1 GATACCCATATCTTT
103558941 GAT
1 GAT
103558944 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:103564285 original size:11 final size:11
Alignment explanation
Indices: 103564269--103564298 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
103564259 TAAATTATTA
103564269 TATTTTAATTT
1 TATTTTAATTT
103564280 TATTTTAATTT
1 TATTTTAATTT
*
103564291 TTTTTTAA
1 TATTTTAA
103564299 AAATTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTAATTT
Found at i:103565884 original size:4 final size:4
Alignment explanation
Indices: 103565870--103565903 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
103565860 AAGGAAATTA
*
103565870 AAAT AAAAT AAAT AAAT AAAT AAAT CAAT AAAT A
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
103565904 TATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:103567665 original size:15 final size:15
Alignment explanation
Indices: 103567645--103567674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103567635 TTTAATCCTT
*
103567645 TATAAATTATAAAAA
1 TATAAACTATAAAAA
103567660 TATAAACTATAAAAA
1 TATAAACTATAAAAA
103567675 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:103567759 original size:5 final size:6
Alignment explanation
Indices: 103567745--103567769 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
103567735 GAATTATCAC
103567745 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
103567770 TCAAAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:103568058 original size:14 final size:13
Alignment explanation
Indices: 103568039--103568086 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
103568029 TTCTTTAAAC
103568039 TTTTCTTCTTCATT
1 TTTTCTT-TTCATT
*
103568053 TTTTCTTTTCTTT
1 TTTTCTTTTCATT
*
103568066 TTTTCATTTTCTTCT
1 TTTTC-TTTTCAT-T
103568081 TTTTCT
1 TTTTCT
103568087 CCATCTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.32
14 15 0.48
15 6 0.19
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTCATT
Found at i:103568060 original size:19 final size:21
Alignment explanation
Indices: 103568038--103568083 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
103568028 GTTCTTTAAA
103568038 CTTTTC-TTCTTCATTTT-TT
1 CTTTTCTTTCTTCATTTTCTT
*
103568057 CTTTTCTTTTTTTCATTTTCTT
1 CTTTTC-TTTCTTCATTTTCTT
103568079 CTTTT
1 CTTTT
103568084 TCTCCATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
21 10 0.43
22 7 0.30
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTCTTTCTTCATTTTCTT
Found at i:103568115 original size:20 final size:20
Alignment explanation
Indices: 103568090--103568129 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
103568080 TTTTTCTCCA
103568090 TCTGTTTTCCTACATTTTCT
1 TCTGTTTTCCTACATTTTCT
*
103568110 TCTGTTTTCTTACATTTTCT
1 TCTGTTTTCCTACATTTTCT
103568130 ATTTCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.05, T:0.62
Consensus pattern (20 bp):
TCTGTTTTCCTACATTTTCT
Found at i:103568837 original size:26 final size:28
Alignment explanation
Indices: 103568794--103568846 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
103568784 ATAACAATCC
* *
103568794 ATTTTTGTTTAAT-TTTTTATGAATTTT
1 ATTTTTGTTGAATATTTTTATAAATTTT
103568821 ATTTTT-TTGAATATTTTTATAAATTT
1 ATTTTTGTTGAATATTTTTATAAATTT
103568847 CAAATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (28 bp):
ATTTTTGTTGAATATTTTTATAAATTTT
Found at i:103569414 original size:15 final size:15
Alignment explanation
Indices: 103569394--103569423 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103569384 TTTAATCCTT
*
103569394 TATAAATTATAAAAA
1 TATAAACTATAAAAA
103569409 TATAAACTATAAAAA
1 TATAAACTATAAAAA
103569424 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:103569692 original size:29 final size:28
Alignment explanation
Indices: 103569646--103569703 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
103569636 AATATAATTT
* *
103569646 TTTTTAAAAAAATTTAAAATCAT-TAAAA
1 TTTTAAAAAAAAATTAAAAT-ATATAAAA
103569674 TTTTAAAAACAAAATTAAAATATATAAAA
1 TTTTAAAAA-AAAATTAAAATATATAAAA
103569703 T
1 T
103569704 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
TTTTAAAAAAAAATTAAAATATATAAAA
Found at i:103579706 original size:16 final size:15
Alignment explanation
Indices: 103579685--103579737 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
103579675 GTTCTGAAAG
103579685 AAAATTGAAAAGATGA
1 AAAATT-AAAAGATGA
* *
103579701 AAAATTAAAGGGATAA
1 AAAATTAAA-AGATGA
*
103579717 AAAAATAGAAAGATGA
1 AAAATTA-AAAGATGA
103579733 AAAAT
1 AAAAT
103579738 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.83
17 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
AAAATTAAAAGATGA
Found at i:103585097 original size:11 final size:11
Alignment explanation
Indices: 103585083--103585116 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
103585073 CGAAACAGGG
103585083 GAGAAAGAAAA
1 GAGAAAGAAAA
103585094 GAGAAAGAAAA
1 GAGAAAGAAAA
*
103585105 GAAAAAGGAAAA
1 GAGAAA-GAAAA
103585117 TTAGAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
GAGAAAGAAAA
Found at i:103585382 original size:8 final size:8
Alignment explanation
Indices: 103585369--103585397 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
103585359 AATAGGGACT
103585369 AAATTGTA
1 AAATTGTA
103585377 AAATTGTA
1 AAATTGTA
103585385 AAATTGTA
1 AAATTGTA
103585393 AAATT
1 AAATT
103585398 AGGGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (8 bp):
AAATTGTA
Found at i:103586886 original size:20 final size:20
Alignment explanation
Indices: 103586843--103586886 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
103586833 ATTGATTTTT
*
103586843 TTGACATGTTTTAAAGATGT
1 TTGACATGTTTTAAAGATGG
*
103586863 TTGACTATGTTTTGAAG-TGG
1 TTGAC-ATGTTTTAAAGATGG
103586883 TTGA
1 TTGA
103586887 ACGATTGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (20 bp):
TTGACATGTTTTAAAGATGG
Found at i:103588041 original size:13 final size:14
Alignment explanation
Indices: 103588025--103588060 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
103588015 CAATCTCATA
103588025 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
103588038 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
103588051 TCTC-ATTTCA
1 TCTCAATTTCA
103588061 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:103588050 original size:18 final size:19
Alignment explanation
Indices: 103588012--103588052 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
103588002 TGGTTCATGT
103588012 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
103588031 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
103588049 TTTC
1 TTTC
103588053 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:103588244 original size:21 final size:21
Alignment explanation
Indices: 103588218--103588300 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
103588208 ATCAGTATAT
*
103588218 GACACATAAAGTGCCTAAAAC
1 GACACACAAAGTGCCTAAAAC
* * * *
103588239 GACACACGAGGTGCCTGATAC
1 GACACACAAAGTGCCTAAAAC
* *
103588260 GACACACGAGGTGCCTGAAATAC
1 GACACACAAAGTGCCT-AAA-AC
* *
103588283 GACACATAAAGTACCTAA
1 GACACACAAAGTGCCTAA
103588301 TCGGTAAAGC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 32 0.65
22 3 0.06
23 14 0.29
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.14
Consensus pattern (21 bp):
GACACACAAAGTGCCTAAAAC
Found at i:103588266 original size:23 final size:22
Alignment explanation
Indices: 103588228--103588288 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
103588218 GACACATAAA
*
103588228 GTGCCT-AAAACGACACACGAG
1 GTGCCTGAATACGACACACGAG
103588249 GTGCCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
103588270 GTGCCTGAAATACGACACA
1 GTGCCTG-AATACGACACA
103588289 TAAAGTACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 26 0.72
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:103588612 original size:15 final size:15
Alignment explanation
Indices: 103588587--103588640 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
103588577 TCATATATAT
103588587 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
103588603 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
103588618 AATAATTTCAATCAA
1 TATAAATTCAATCAA
103588633 TATAAATT
1 TATAAATT
103588641 TATCACACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:103613139 original size:207 final size:207
Alignment explanation
Indices: 103612784--103613195 Score: 806
Period size: 207 Copynumber: 2.0 Consensus size: 207
103612774 TAGTTTACCT
103612784 AACAATAATATCAACACTCATATGATAAGAAATTTGGTGCATTTTAAGTAAAATTTTGGGCTCGA
1 AACAATAATATCAACACTCATATGATAAGAAATTTGGTGCATTTTAAGTAAAATTTTGGGCTCGA
*
103612849 GTTTTGTGGATAAAAGAAAACAACGATAAGAGAACTTTGCCCCTAATTTAAAAGGTGACTAGACT
66 GTTTTGTGGATAAAAGAAAACAACGATAAGAGAACTTTGCCCCCAATTTAAAAGGTGACTAGACT
*
103612914 TGACTCTAGATTTAGTTAAGATCCAATTTAGATTAAATTCTACTATGTATAGCCTCTCACTTTAA
131 TGACTCTAGATTTAGTTAAGATCCAATTTAGATTAAATTCTACTATGTATAGCCTCTCACCTTAA
103612979 ATTTCAATTTAC
196 ATTTCAATTTAC
103612991 AACAATAATATCAACACTCATATGATAAGAAATTTGGTGCATTTTAAGTAAAATTTTGGGCTCGA
1 AACAATAATATCAACACTCATATGATAAGAAATTTGGTGCATTTTAAGTAAAATTTTGGGCTCGA
103613056 GTTTTGTGGATAAAAGAAAACAACGATAAGAGAACTTTGCCCCCAATTTAAAAGGTGACTAGACT
66 GTTTTGTGGATAAAAGAAAACAACGATAAGAGAACTTTGCCCCCAATTTAAAAGGTGACTAGACT
103613121 TGACTCTAGATTTAGTTAAGATCCAATTTAGATTAAATTCTACTATGTATAGCCTCTCACCTTAA
131 TGACTCTAGATTTAGTTAAGATCCAATTTAGATTAAATTCTACTATGTATAGCCTCTCACCTTAA
103613186 ATTTCAATTT
196 ATTTCAATTT
103613196 GATTGTAATT
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 203 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (207 bp):
AACAATAATATCAACACTCATATGATAAGAAATTTGGTGCATTTTAAGTAAAATTTTGGGCTCGA
GTTTTGTGGATAAAAGAAAACAACGATAAGAGAACTTTGCCCCCAATTTAAAAGGTGACTAGACT
TGACTCTAGATTTAGTTAAGATCCAATTTAGATTAAATTCTACTATGTATAGCCTCTCACCTTAA
ATTTCAATTTAC
Found at i:103613980 original size:51 final size:51
Alignment explanation
Indices: 103613904--103614001 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
103613894 TACATTGTAA
*
103613904 GTTACCAATTTAGTCCTCCCCTAGACCCCTACTCTAATTTTATCATTCATC
1 GTTACCAATTTAGTCCTCCCCTAGACCCCTACTCTAATTTTACCATTCATC
103613955 GTTACCAATTTAGTCCTCCCCTAGACCCCTACTCTAATTTTACCATT
1 GTTACCAATTTAGTCCTCCCCTAGACCCCTACTCTAATTTTACCATT
103614002 TATCAGTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (51 bp):
GTTACCAATTTAGTCCTCCCCTAGACCCCTACTCTAATTTTACCATTCATC
Found at i:103616919 original size:29 final size:29
Alignment explanation
Indices: 103616880--103616937 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
103616870 CTGTCATGCA
*
103616880 AATATGTCATCACGTATGAAACAATCAAT
1 AATATGTCATCACGTACGAAACAATCAAT
103616909 AATATGTCATCACGTACGAAACAATCAAT
1 AATATGTCATCACGTACGAAACAATCAAT
103616938 CATTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (29 bp):
AATATGTCATCACGTACGAAACAATCAAT
Found at i:103619360 original size:54 final size:54
Alignment explanation
Indices: 103619290--103619396 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
103619280 GGAGACATTG
* *
103619290 GTTTTATTGTTTGAGTTTGATTCAAATTCTAAGCCATTTCGAATTTAAACTAAA
1 GTTTTATGGTTCGAGTTTGATTCAAATTCTAAGCCATTTCGAATTTAAACTAAA
103619344 GTTTTATGGTTCGAGTTTGATTCAAATTCTAAGCCATTTCGAATTTAAACTAA
1 GTTTTATGGTTCGAGTTTGATTCAAATTCTAAGCCATTTCGAATTTAAACTAA
103619397 TGGATTTGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (54 bp):
GTTTTATGGTTCGAGTTTGATTCAAATTCTAAGCCATTTCGAATTTAAACTAAA
Found at i:103622079 original size:45 final size:45
Alignment explanation
Indices: 103622014--103622111 Score: 178
Period size: 45 Copynumber: 2.2 Consensus size: 45
103622004 GTTTAAAAGA
*
103622014 GAAAGAGAAAACATCACGGGGAGAGAAATTCTAGATTAATAAACAT
1 GAAAGA-AAAACAACACGGGGAGAGAAATTCTAGATTAATAAACAT
103622060 GAAAGAAAAACAACACGGGGAGAGAAATTCTAGATTAATAAACAT
1 GAAAGAAAAACAACACGGGGAGAGAAATTCTAGATTAATAAACAT
103622105 GAAAGAA
1 GAAAGAA
103622112 CCTTCTTCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 45 0.88
46 6 0.12
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.15
Consensus pattern (45 bp):
GAAAGAAAAACAACACGGGGAGAGAAATTCTAGATTAATAAACAT
Found at i:103633076 original size:287 final size:289
Alignment explanation
Indices: 103632525--103633192 Score: 986
Period size: 287 Copynumber: 2.3 Consensus size: 289
103632515 TGAATGCGAA
* * * * *
103632525 AACATAGCATCGAACTACAA-TTATGCTTATCATATACCATAATAAAAAAGATGCCATCCAGATC
1 AACATAGCATCAAACTACAAGCTATACTTATCATATACCATAATCAAAAAGATGCCATCCAAATC
* * * * ** * *
103632589 ATCATCAAACTAAGCTGAAAACCA-GAACCCATGAATGCTTAAATGATAACAAAAGAATAGGAAA
66 ATCATCAAACTATGTTGAAAA-TAGGAAACCACAAATGCTTAAACGATAACAAAAGAACAGGAAA
103632653 GTCGACTGTTCTTAAACCACTTGAAAGCATAATTAAATGACTTCACATTTTTAAGTCAAAAAATG
130 GTCGA-TGTTCTTAAACCACTTGAAAGCATAATTAAATGACTTCACATTTTTAAGTCAAAAAATG
* *
103632718 TAGTAATATCACTTCCGAAGCACGTTATTATATCGGCTTTTCACTACCAATCACTACTTCCAAAT
194 TAGTAATATCACTTCCAAAGCACGTTATTATATCGGCTTTTCACTACCAATCACTACTTCCAAAC
103632783 AACTTCAAAGTTAAAAGCAAAAGAATAGGAC
259 AACTTCAAAGTTAAAAGCAAAAGAATAGGAC
* ** * *
103632814 AACATAGCATCAAACTACAAGCTATTCTTATCATATACCATAATCGGAAAGATGTCACCCAAATC
1 AACATAGCATCAAACTACAAGCTATACTTATCATATACCATAATCAAAAAGATGCCATCCAAATC
** *
103632879 ATCATCAAACTATGTTGAAAATAGGAAATTACAAATGCTTATACGA-AACCAAAAGAACAGGAAA
66 ATCATCAAACTATGTTGAAAATAGGAAACCACAAATGCTTAAACGATAA-CAAAAGAACAGGAAA
* * *
103632943 GTTG-TGTTCTTAAACCACTTGAAAGCATAA-TCAATGACTTCACATTTTTAAGTTAAAAAATGT
130 GTCGATGTTCTTAAACCACTTGAAAGCATAATTAAATGACTTCACATTTTTAAGTCAAAAAATGT
*
103633006 AGTAATATCACTTCCAAAGCACGTTATTATATTGGCTTTTCACTACCAATCACTACTTCCAAACA
195 AGTAATATCACTTCCAAAGCACGTTATTATATCGGCTTTTCACTACCAATCACTACTTCCAAACA
*
103633071 ACTTCAAAGTTAAAAGCAAAAGAATAGGGC
260 ACTTCAAAGTTAAAAGCAAAAGAATAGGAC
* * *
103633101 AACATAGCATCAAACTACAAGCTATACTTACCATATTCCATAATCAAAAAGATGCCTTCCAAATC
1 AACATAGCATCAAACTACAAGCTATACTTATCATATACCATAATCAAAAAGATGCCATCCAAATC
*
103633166 ATCATCAAACTATGTTGAAGATAGGAA
66 ATCATCAAACTATGTTGAAAATAGGAA
103633193 GTGTTCTTAA
Statistics
Matches: 340, Mismatches: 36, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
287 205 0.60
288 26 0.08
289 22 0.06
290 87 0.26
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (289 bp):
AACATAGCATCAAACTACAAGCTATACTTATCATATACCATAATCAAAAAGATGCCATCCAAATC
ATCATCAAACTATGTTGAAAATAGGAAACCACAAATGCTTAAACGATAACAAAAGAACAGGAAAG
TCGATGTTCTTAAACCACTTGAAAGCATAATTAAATGACTTCACATTTTTAAGTCAAAAAATGTA
GTAATATCACTTCCAAAGCACGTTATTATATCGGCTTTTCACTACCAATCACTACTTCCAAACAA
CTTCAAAGTTAAAAGCAAAAGAATAGGAC
Found at i:103635228 original size:33 final size:33
Alignment explanation
Indices: 103635186--103635276 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
103635176 TTTCTTCTTG
*
103635186 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
103635219 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
103635252 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
103635277 TGAAACAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:103638332 original size:13 final size:13
Alignment explanation
Indices: 103638316--103638343 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103638306 AATGTGACTA
103638316 GTTAATCTAGATG
1 GTTAATCTAGATG
103638329 GTTAATCTAGATG
1 GTTAATCTAGATG
103638342 GT
1 GT
103638344 GTACATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (13 bp):
GTTAATCTAGATG
Found at i:103644498 original size:3 final size:3
Alignment explanation
Indices: 103644492--103644518 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
103644482 CCGAAGAAGA
103644492 CGC CGC CGC CGC CGC CGC CGC CGC CGC
1 CGC CGC CGC CGC CGC CGC CGC CGC CGC
103644519 TCCTGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.33, T:0.00
Consensus pattern (3 bp):
CGC
Found at i:103647242 original size:5 final size:5
Alignment explanation
Indices: 103647216--103647273 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
103647206 ATGTGTTAAA
* *
103647216 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
103647265 ATATT ATAT
1 ATATT ATAT
103647274 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:103647252 original size:10 final size:9
Alignment explanation
Indices: 103647217--103647274 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
103647207 TGTGTTAAAA
103647217 TATATATAT
1 TATATATAT
*
103647226 TAAAT-TAT
1 TATATATAT
103647234 TAT-TATAT
1 TATATATAT
103647242 TATAGTATAT
1 TATA-TATAT
103647252 TATAT-TA-
1 TATATATAT
103647259 TATATTATAT
1 TATA-TATAT
103647269 TATATA
1 TATATA
103647275 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:103647264 original size:12 final size:12
Alignment explanation
Indices: 103647219--103647274 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
103647209 TGTTAAAATA
*
103647219 TATATATTAAAT
1 TATATATTATAT
103647231 TAT-TATTATATT
1 TATATATTATA-T
103647243 ATAGTATATTATAT
1 -TA-TATATTATAT
103647257 TATATATTATAT
1 TATATATTATAT
103647269 TATATA
1 TATATA
103647275 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:103648617 original size:18 final size:19
Alignment explanation
Indices: 103648594--103648632 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
103648584 ATATATATAT
103648594 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
103648612 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
103648631 AT
1 AT
103648633 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:103649150 original size:18 final size:19
Alignment explanation
Indices: 103649129--103649169 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
103649119 AATGAAATGA
103649129 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
103649147 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
103649166 GAAA
1 GAAA
103649170 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:103652645 original size:36 final size:36
Alignment explanation
Indices: 103652586--103652663 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
103652576 GTAACAAGAC
* *
103652586 TAACAATAAAAGAAGAGTTATATAATATAC-AAATAA
1 TAACAACAAAAGAAGAGTAATATAATA-ACGAAATAA
103652622 TAACAACAAAA-AAGTAGTAATATAATAACGAAATAA
1 TAACAACAAAAGAAG-AGTAATATAATAACGAAATAA
*
103652658 CAACAA
1 TAACAA
103652664 AACAATGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.63, C:0.09, G:0.08, T:0.21
Consensus pattern (36 bp):
TAACAACAAAAGAAGAGTAATATAATAACGAAATAA
Found at i:103656951 original size:50 final size:49
Alignment explanation
Indices: 103656872--103656972 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 49
103656862 CCTATATATT
* *
103656872 TTTCATTCGGTTATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTC
1 TTTCATTCGGTTATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
*
103656921 TTTCATTCGGTTGTTTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
1 TTTCATTCGGTT-ATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
103656971 TT
1 TT
103656973 CTGCCGCTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 12 0.25
50 36 0.75
ACGTcount: A:0.10, C:0.27, G:0.08, T:0.55
Consensus pattern (49 bp):
TTTCATTCGGTTATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
Found at i:103657338 original size:10 final size:10
Alignment explanation
Indices: 103657325--103657349 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
103657315 TTTTATATGT
103657325 ATATATATAC
1 ATATATATAC
103657335 ATATATATAC
1 ATATATATAC
103657345 ATATA
1 ATATA
103657350 ATCTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:103657460 original size:50 final size:49
Alignment explanation
Indices: 103657381--103657481 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 49
103657371 CCTATATATT
* *
103657381 TTTCATTCGGTTATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTC
1 TTTCATTCGGTTATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
*
103657430 TTTCATTCGGTTGTTTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
1 TTTCATTCGGTT-ATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
103657480 TT
1 TT
103657482 CTGCCGCTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 12 0.25
50 36 0.75
ACGTcount: A:0.10, C:0.27, G:0.08, T:0.55
Consensus pattern (49 bp):
TTTCATTCGGTTATTTTTGTCACCATCTTCACTACTCTTCTTCTTCTTC
Found at i:103657775 original size:509 final size:508
Alignment explanation
Indices: 103656818--103657826 Score: 2009
Period size: 509 Copynumber: 2.0 Consensus size: 508
103656808 ATAAACAAAC
103656818 ATATATACATATATATACATATAATCTTATTTCTCGAACTCATCCCTATATATTTTTCATTCGGT
1 ATATATACATATATATACATATAATCTTATTTCTCGAACTCATCCCTATATATTTTTCATTCGGT
103656883 TATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTCTTTCATTCGGTTGTTTTTTGTCACCAT
66 TATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTCTTTCATTCGGTTGTTTTTTGTCACCAT
103656948 CTTCACTACTCTTCTTCTTCTTCTTCTGCCGCTGTTTAACGTAAAAAGAAATGGCTTCTTCGAGA
131 CTTCACTACTCTTCTTCTTCTTCTTCTGCCGCTGTTTAACGTAAAAAGAAATGGCTTCTTCGAGA
103657013 GAACCATGGTTACTGGAAAATGGAAACTTGAAGGGTTTAAGTAAGGAAATTCGCCATGGGAGGAC
196 GAACCATGGTTACTGGAAAATGGAAACTTGAAGGGTTTAAGTAAGGAAATTCGCCATGGGAGGAC
103657078 TGCACATAACATGTCATCTTCTTCGTTACGTAAAAAGTCGCATTTGACCCTGGTTTCTAAGGTTC
261 TGCACATAACATGTCATCTTCTTCGTTACGTAAAAAGTCGCATTTGACCCTGGTTTCTAAGGTTC
103657143 CATGTAGGAAACTTAGGCAGTTCTTGGCTAATCTACAGGAGGTCATTTTAGGGACTAAACTCTCT
326 CATGTAGGAAACTTAGGCAGTTCTTGGCTAATCTACAGGAGGTCATTTTAGGGACTAAACTCTCT
103657208 GTTCTTTTCCCTGCTATTCCTTTGGCCATTGTTGCTGATTGCTATGGTTTCGCAAGGGTGAGCCT
391 GTTCTTTTCCCTGCTATTCCTTTGGCCATTGTTGCTGATTGCTATGGTTTCGCAAGGGTGAGCCT
103657273 TTTTTTTTTCTCTTTTCTTTTTTATGGTTTTAGTCCCTTTGGTTTTATATGTAT
456 TTTTTTTTTCTCTTTTCTTTTTTATGGTTTTAGTCCCTTT-GTTTTATATGTAT
103657327 ATATATACATATATATACATATAATCTTATTTCTCGAACTCATCCCTATATATTTTTCATTCGGT
1 ATATATACATATATATACATATAATCTTATTTCTCGAACTCATCCCTATATATTTTTCATTCGGT
103657392 TATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTCTTTCATTCGGTTGTTTTTTGTCACCAT
66 TATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTCTTTCATTCGGTTGTTTTTTGTCACCAT
103657457 CTTCACTACTCTTCTTCTTCTTCTTCTGCCGCTGTTTAACGTAAAAAGAAATGGCTTCTTCGAGA
131 CTTCACTACTCTTCTTCTTCTTCTTCTGCCGCTGTTTAACGTAAAAAGAAATGGCTTCTTCGAGA
103657522 GAACCATGGTTACTGGAAAATGGAAACTTGAAGGGTTTAAGTAAGGAAATTCGCCATGGGAGGAC
196 GAACCATGGTTACTGGAAAATGGAAACTTGAAGGGTTTAAGTAAGGAAATTCGCCATGGGAGGAC
103657587 TGCACATAACATGTCATCTTCTTCGTTACGTAAAAAGTCGCATTTGACCCTGGTTTCTAAGGTTC
261 TGCACATAACATGTCATCTTCTTCGTTACGTAAAAAGTCGCATTTGACCCTGGTTTCTAAGGTTC
103657652 CATGTAGGAAACTTAGGCAGTTCTTGGCTAATCTACAGGAGGTCATTTTAGGGACTAAACTCTCT
326 CATGTAGGAAACTTAGGCAGTTCTTGGCTAATCTACAGGAGGTCATTTTAGGGACTAAACTCTCT
103657717 GTTCTTTTCCCTGCTATTCCTTTGGCCATTGTTGCTGATTGCTATGGTTTCGCAAGGGTGAGCCT
391 GTTCTTTTCCCTGCTATTCCTTTGGCCATTGTTGCTGATTGCTATGGTTTCGCAAGGGTGAGCCT
103657782 TTTTTTTTTCTCTTTTCTTTTTTATGGTTTTAGTCCCTTTGTTTT
456 TTTTTTTTTCTCTTTTCTTTTTTATGGTTTTAGTCCCTTTGTTTT
103657827 GTTGAAGTTT
Statistics
Matches: 500, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
508 5 0.01
509 495 0.99
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (508 bp):
ATATATACATATATATACATATAATCTTATTTCTCGAACTCATCCCTATATATTTTTCATTCGGT
TATTTTTGTCACCATCTTCGCTATTCTTCTTCTTCTTCTTTCATTCGGTTGTTTTTTGTCACCAT
CTTCACTACTCTTCTTCTTCTTCTTCTGCCGCTGTTTAACGTAAAAAGAAATGGCTTCTTCGAGA
GAACCATGGTTACTGGAAAATGGAAACTTGAAGGGTTTAAGTAAGGAAATTCGCCATGGGAGGAC
TGCACATAACATGTCATCTTCTTCGTTACGTAAAAAGTCGCATTTGACCCTGGTTTCTAAGGTTC
CATGTAGGAAACTTAGGCAGTTCTTGGCTAATCTACAGGAGGTCATTTTAGGGACTAAACTCTCT
GTTCTTTTCCCTGCTATTCCTTTGGCCATTGTTGCTGATTGCTATGGTTTCGCAAGGGTGAGCCT
TTTTTTTTTCTCTTTTCTTTTTTATGGTTTTAGTCCCTTTGTTTTATATGTAT
Found at i:103661502 original size:10 final size:10
Alignment explanation
Indices: 103661487--103661512 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
103661477 TAAAACAGCT
103661487 TATATACATA
1 TATATACATA
103661497 TATATACATA
1 TATATACATA
103661507 TATATA
1 TATATA
103661513 TTCACTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATACATA
Found at i:103672356 original size:49 final size:49
Alignment explanation
Indices: 103672277--103672521 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
103672267 TAGCCGAAGC
* * *
103672277 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
103672326 TATCCGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
103672376 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
103672427 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGGCCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
103672476 TATCTAGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
103672522 TCACAATAGC
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 79 0.48
50 47 0.29
51 37 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:103672518 original size:100 final size:99
Alignment explanation
Indices: 103672290--103672521 Score: 306
Period size: 100 Copynumber: 2.3 Consensus size: 99
103672280 CTGGTACGCA
* * * * *
103672290 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCATTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
103672355 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* *
103672389 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* * **
103672454 TAGTACTACACATGCGGCC-AATTATCT-AGTACACG
64 TAGTACTACACACGCGACCTAACCATCTGA-TACACG
*
103672489 TAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
103672522 TCACAATAGC
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 31 0.27
100 45 0.39
101 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:103673879 original size:17 final size:17
Alignment explanation
Indices: 103673859--103673910 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 17
103673849 ATACTACTCC
103673859 AATGTAAATATTAAAAT
1 AATGTAAATATTAAAAT
*
103673876 AATGTTAATA-TAAAAT
1 AATGTAAATATTAAAAT
*
103673892 TAT-TAAATATTAAAAT
1 AATGTAAATATTAAAAT
103673908 AAT
1 AAT
103673911 ATAATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 5 0.17
16 16 0.53
17 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
AATGTAAATATTAAAAT
Found at i:103673899 original size:32 final size:31
Alignment explanation
Indices: 103673863--103673945 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
103673853 TACTCCAATG
*
103673863 TAAATATTAAAATAATGTTAATATAAA-ATTAT
1 TAAATATTAAAATAAT-ATAATATAAATATT-T
103673895 TAAATATTAAAATAATATAATATAAATATTT
1 TAAATATTAAAATAATATAATATAAATATTT
*
103673926 TAAAAATTTTAAAATAATAT
1 T--AAATATTAAAATAATAT
103673946 GGGCGAGCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
31 11 0.24
32 19 0.41
33 16 0.35
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
TAAATATTAAAATAATATAATATAAATATTT
Found at i:103673916 original size:16 final size:15
Alignment explanation
Indices: 103673865--103673917 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
103673855 CTCCAATGTA
103673865 AATATTAAAATAATGTT
1 AATATTAAAATAA--TT
*
103673882 AATA-TAAAATTATT
1 AATATTAAAATAATT
103673896 AAATATTAAAATAATAT
1 -AATATTAAAATAAT-T
103673913 AATAT
1 AATAT
103673918 AAATATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 20 0.65
17 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATTAAAATAATT
Found at i:103685426 original size:4 final size:4
Alignment explanation
Indices: 103685401--103685451 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
103685391 TTTGATTGCA
* * *
103685401 TATG TATG TGTG TGTG TGTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
103685449 TAT
1 TAT
103685452 ATGTGTTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:103689336 original size:21 final size:21
Alignment explanation
Indices: 103689312--103689354 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
103689302 AAAAGCCAAG
103689312 TAAAACTGATTTTTTTATTAC
1 TAAAACTGATTTTTTTATTAC
*
103689333 TAAAACTGATTTTTTTTTTAC
1 TAAAACTGATTTTTTTATTAC
103689354 T
1 T
103689355 TTTTTTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (21 bp):
TAAAACTGATTTTTTTATTAC
Found at i:103692407 original size:31 final size:31
Alignment explanation
Indices: 103692369--103692439 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
103692359 TTTTAAATAT
103692369 AAGTGACTAAAACGTAACCTGAGATAAACAA
1 AAGTGACTAAAACGTAACCTGAGATAAACAA
* *
103692400 AAGTGACTAAAATGTAACTTGAGATAAACAA
1 AAGTGACTAAAACGTAACCTGAGATAAACAA
103692431 AAGTGACTA
1 AAGTGACTA
103692440 TTTTGACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AAGTGACTAAAACGTAACCTGAGATAAACAA
Found at i:103692925 original size:21 final size:21
Alignment explanation
Indices: 103692899--103692941 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
103692889 CAGAAAAAAA
* *
103692899 AAAAAAAACCCAAAGAGGGAG
1 AAAAAAAACACAAAGAGAGAG
*
103692920 AAAAAAAATACAAAGAGAGAG
1 AAAAAAAACACAAAGAGAGAG
103692941 A
1 A
103692942 GAGGGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.09, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAAAAAACACAAAGAGAGAG
Found at i:103701586 original size:24 final size:24
Alignment explanation
Indices: 103701551--103701598 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
103701541 AAAATATCCA
*
103701551 TAAAATGTTAAAAACGAT-AAATG
1 TAAAATGTTAAAAACAATGAAATG
*
103701574 TAAAATTTATAAAAACAATGAAATG
1 TAAAATGT-TAAAAACAATGAAATG
103701599 AATGGTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.27
Consensus pattern (24 bp):
TAAAATGTTAAAAACAATGAAATG
Found at i:103706570 original size:17 final size:17
Alignment explanation
Indices: 103706548--103706581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103706538 ATCCACTAAT
*
103706548 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
103706565 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
103706582 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:103711209 original size:17 final size:17
Alignment explanation
Indices: 103711187--103711220 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103711177 ATCCACTAAT
*
103711187 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
103711204 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
103711221 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:103712615 original size:118 final size:118
Alignment explanation
Indices: 103712470--103712700 Score: 403
Period size: 118 Copynumber: 2.0 Consensus size: 118
103712460 TTTCAACTTG
*
103712470 AAATAATTTCCTTTCGTACAAAGAGCTTTACTTGGTCTTCACTC-CTTTCTACTATGCTTGATCT
1 AAATAATTTCCTTTCGTACAAAAAGCTTTACTTGGTCTTCACTCTC-TTCTACTATGCTTGATCT
*
103712534 TCGTAGCACCACATCTATG-TTTGTTGTCGTAAACACCTCTTTTACGGTAGCTGA
65 TCGTAGCAACACATCTATGCTTT-TTGTCGTAAACACCTCTTTTACGGTAGCTGA
103712588 AAATAATTTCCTTTCGTACAAAAAGCTTTACTTGGTCTTCACTCTCTTCTACTATGCTTGATCTT
1 AAATAATTTCCTTTCGTACAAAAAGCTTTACTTGGTCTTCACTCTCTTCTACTATGCTTGATCTT
*
103712653 CGTAGCAACACATCTATGCTTTTTGTCGTAAACACCTCTTTTATGGTA
66 CGTAGCAACACATCTATGCTTTTTGTCGTAAACACCTCTTTTACGGTA
103712701 AAAATATTAT
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
118 104 0.96
119 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (118 bp):
AAATAATTTCCTTTCGTACAAAAAGCTTTACTTGGTCTTCACTCTCTTCTACTATGCTTGATCTT
CGTAGCAACACATCTATGCTTTTTGTCGTAAACACCTCTTTTACGGTAGCTGA
Found at i:103713878 original size:22 final size:21
Alignment explanation
Indices: 103713819--103713878 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
103713809 AATGGCATAG
*
103713819 AAATTAAAGAAATTGTAAATTA
1 AAATTAAA-AAATTATAAATTA
***
103713841 AAATTAAGAGGTTTATAAATTA
1 AAATTAA-AAAATTATAAATTA
103713863 AAATTATAAAAATTAT
1 AAATTA-AAAAATTAT
103713879 GGTACATATG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATTAAAAAATTATAAATTA
Found at i:103722650 original size:18 final size:18
Alignment explanation
Indices: 103722623--103722715 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
103722613 TACGACCGTT
* *
103722623 TACGATACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
103722641 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
* *
103722659 TACAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
103722677 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
103722695 TACGGTACTGTTCATGTA
1 TACGGTACTATTCACGTA
103722713 TAC
1 TAC
103722716 AGTAGTTGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:103735496 original size:17 final size:17
Alignment explanation
Indices: 103735474--103735507 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
103735464 AAGGCCCTTT
103735474 CTCTAAACTGATATTCA
1 CTCTAAACTGATATTCA
103735491 CTCTAAACTGATATTCA
1 CTCTAAACTGATATTCA
103735508 AATTTGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
CTCTAAACTGATATTCA
Found at i:103740475 original size:13 final size:13
Alignment explanation
Indices: 103740459--103740506 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
103740449 TAAATCAAAT
103740459 TTTTCAAAAACAC
1 TTTTCAAAAACAC
* *
103740472 TTTTCCACAACAC
1 TTTTCAAAAACAC
* *
103740485 TTTTTAAAAGCAC
1 TTTTCAAAAACAC
103740498 TTTTCAAAA
1 TTTTCAAAA
103740507 GTATTGCCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:103752696 original size:27 final size:28
Alignment explanation
Indices: 103752663--103752727 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
103752653 AATTTTGATG
*
103752663 TAAACTTAAAAATTCAATCCAATCAA-T
1 TAAACTTAAAAATTCAATACAATCAATT
*
103752690 TAAACTTAAAAATTCAATACGATCAATT
1 TAAACTTAAAAATTCAATACAATCAATT
*
103752718 TAAATTTAAA
1 TAAACTTAAA
103752728 GTAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAACTTAAAAATTCAATACAATCAATT
Found at i:103756800 original size:31 final size:29
Alignment explanation
Indices: 103756750--103756807 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
103756740 TATATCTATG
103756750 AAATTTTGATTGCAGTTCAAATGTATACATA
1 AAATTTTGATTGCAGTTC-AAT-TATACATA
*
103756781 AAATTTTGATTTC-GATTCAATTATACA
1 AAATTTTGATTGCAG-TTCAATTATACA
103756808 CATTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 6 0.24
30 4 0.16
31 15 0.60
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
AAATTTTGATTGCAGTTCAATTATACATA
Found at i:103765066 original size:18 final size:18
Alignment explanation
Indices: 103765043--103765135 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
103765033 CTCAACTACT
*
103765043 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
103765061 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
103765079 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
103765097 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
103765115 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
103765133 GTA
1 GTA
103765136 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:103765095 original size:36 final size:36
Alignment explanation
Indices: 103765043--103765135 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
103765033 CTCAACTACT
*
103765043 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
103765079 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
103765115 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
103765136 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:103771693 original size:6 final size:6
Alignment explanation
Indices: 103771682--103771715 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
103771672 AAAGTTGAAC
103771682 TATACA TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATACA TATA
103771716 TATACCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TATACA
Found at i:103797543 original size:27 final size:27
Alignment explanation
Indices: 103797505--103797558 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
103797495 CGTGGACCAG
103797505 GTCACTCTCTCGGGATGATATGCGGCC
1 GTCACTCTCTCGGGATGATATGCGGCC
103797532 GTCACTCTCTCGGGATGATATGCGGCC
1 GTCACTCTCTCGGGATGATATGCGGCC
103797559 TCTCAGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (27 bp):
GTCACTCTCTCGGGATGATATGCGGCC
Found at i:103799776 original size:13 final size:13
Alignment explanation
Indices: 103799758--103799786 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
103799748 TTAAATATAT
103799758 AATTTTGAAAAGC
1 AATTTTGAAAAGC
103799771 AATTTTGAAAAGC
1 AATTTTGAAAAGC
103799784 AAT
1 AAT
103799787 GAGAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (13 bp):
AATTTTGAAAAGC
Found at i:103802288 original size:33 final size:34
Alignment explanation
Indices: 103802245--103802311 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
103802235 TATAACACAC
*
103802245 TCTCACAGCTTTAGTCCCTTTC-CCCAAATCTTG
1 TCTCAAAGCTTTAGTCCCTTTCACCCAAATCTTG
*
103802278 TCTCAAAGCTTTAGTCCTTTTCACCCAAATCTTG
1 TCTCAAAGCTTTAGTCCCTTTCACCCAAATCTTG
103802312 GCAAAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (34 bp):
TCTCAAAGCTTTAGTCCCTTTCACCCAAATCTTG
Found at i:103803620 original size:12 final size:12
Alignment explanation
Indices: 103803603--103803627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103803593 TTCACATTAC
103803603 AAAAATGAGATA
1 AAAAATGAGATA
103803615 AAAAATGAGATA
1 AAAAATGAGATA
103803627 A
1 A
103803628 GTATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAAATGAGATA
Found at i:103815372 original size:15 final size:16
Alignment explanation
Indices: 103815352--103815389 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
103815342 TAGTCCATAT
*
103815352 TTTTTAATT-GGATCA
1 TTTTTAATTCGGATAA
*
103815367 TTTTTAATTCGTATAA
1 TTTTTAATTCGGATAA
103815383 TTTTTAA
1 TTTTTAA
103815390 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (16 bp):
TTTTTAATTCGGATAA
Found at i:103819389 original size:24 final size:23
Alignment explanation
Indices: 103819362--103819412 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
103819352 GTTCCTACTT
*
103819362 TATAATCTTTTTAGTAAATAAATA
1 TATAATATTTTT-GTAAATAAATA
* *
103819386 TAT-ATATTTTTGTAACTTAATA
1 TATAATATTTTTGTAAATAAATA
103819408 TATAA
1 TATAA
103819413 ATATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TATAATATTTTTGTAAATAAATA
Found at i:103821502 original size:28 final size:29
Alignment explanation
Indices: 103821447--103821525 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 29
103821437 ACTAACCATG
*
103821447 AACTTTGATTTAATGTACAATTTTATACA-A
1 AACTTTGATTT--TGTTCAATTTTATACAGA
103821477 AACTTTGATTTTGTTCAATTTTATACATGA
1 AACTTTGATTTTGTTCAATTTTATACA-GA
103821507 AA-TTTGA-TTTGATTCAATT
1 AACTTTGATTTTG-TTCAATT
103821526 CTCACAAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 19 0.42
29 12 0.27
30 14 0.31
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (29 bp):
AACTTTGATTTTGTTCAATTTTATACAGA
Found at i:103838153 original size:17 final size:17
Alignment explanation
Indices: 103838116--103838154 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
103838106 AAAATAAATA
*
103838116 AAAAAAATTAAATATTT
1 AAAAAAATTAAATATTC
103838133 AAAAAAATTATAA-ATTC
1 AAAAAAATTA-AATATTC
103838150 AAAAA
1 AAAAA
103838155 TTAAAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAATTAAATATTC
Found at i:103865117 original size:4 final size:4
Alignment explanation
Indices: 103865108--103865140 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
103865098 CCACAAGACA
103865108 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
103865141 CACGTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:103875533 original size:6 final size:6
Alignment explanation
Indices: 103875524--103875562 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
103875514 AAAAGGAAAC
*
103875524 GGTATT GGTATT GGTATT GGTATT GGTATT GGTAAT GGT
1 GGTATT GGTATT GGTATT GGTATT GGTATT GGTATT GGT
103875563 TTTTGATTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (6 bp):
GGTATT
Found at i:103876138 original size:16 final size:17
Alignment explanation
Indices: 103876109--103876146 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
103876099 TCTATTTAAC
* *
103876109 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
103876126 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
103876142 ATAAA
1 ATAAA
103876147 TTTTTTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:103876271 original size:11 final size:11
Alignment explanation
Indices: 103876255--103876288 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
103876245 TTCCCCCCTC
103876255 CCTTCTCTCTT
1 CCTTCTCTCTT
103876266 CCTTCTCTCTT
1 CCTTCTCTCTT
*
103876277 CCCTCTCTCTT
1 CCTTCTCTCTT
103876288 C
1 C
103876289 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:103876774 original size:6 final size:6
Alignment explanation
Indices: 103876774--103876807 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
103876764 TTATTAGTAT
103876774 TATTAG TATTAG TATTAG TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
103876808 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:103876936 original size:3 final size:3
Alignment explanation
Indices: 103876923--103876961 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
103876913 TATTCCAATG
* * *
103876923 TTA TCA TTA TTA TTA TTA TTA TTC TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
103876962 GTTTATGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:103877107 original size:19 final size:19
Alignment explanation
Indices: 103877072--103877108 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
103877062 ATATATTACC
**
103877072 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
103877091 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
103877109 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:103878784 original size:82 final size:82
Alignment explanation
Indices: 103878647--103878809 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
103878637 ATAATATAAG
*
103878647 GTATTATAAACTTAAAAACGGGTCAAGCTAGGCTCAAGCCTTGAATGTTCAAGCTCGAACCCAAC
1 GTATTATAAACTTAAAAACGGGTCAAGCTAGGCTCAAGCATTGAATGTTCAAGCTCGAACCCAAC
103878712 CCAGATTTTAAAAGGGC
66 CCAGATTTTAAAAGGGC
* * *
103878729 GTATTATAAACTTAAAAACGGGTCGAGC-CGGACTCAAGCATTGAATGTTCAAGCTCGAATCCAA
1 GTATTATAAACTTAAAAACGGGTCAAGCTAGG-CTCAAGCATTGAATGTTCAAGCTCGAACCCAA
*
103878793 CCCATATTTTAAAAGGG
65 CCCAGATTTTAAAAGGG
103878810 ATTAATTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
81 2 0.03
82 73 0.97
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (82 bp):
GTATTATAAACTTAAAAACGGGTCAAGCTAGGCTCAAGCATTGAATGTTCAAGCTCGAACCCAAC
CCAGATTTTAAAAGGGC
Found at i:103887093 original size:17 final size:17
Alignment explanation
Indices: 103887071--103887125 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
103887061 TTTTTATGCT
103887071 TTATATATATTATTTTA
1 TTATATATATTATTTTA
*
103887088 TTATATATTATATATTATA
1 TTATATA-TAT-TATTTTA
*
103887107 TTATATTATATTATATTA
1 TTATA-TATATTATTTTA
103887125 T
1 T
103887126 ATTGTATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 14 0.44
20 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATATATTATTTTA
Found at i:103887098 original size:24 final size:24
Alignment explanation
Indices: 103887074--103887117 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
103887064 TTATGCTTTA
103887074 TATATATTAT-TT-TATTATATAT
1 TATATATTATATTATATTATATAT
103887096 TATATATTATATTATATTATAT
1 TATATATTATATTATATTATAT
103887118 TATATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTATATTATATTATATAT
Found at i:103887099 original size:5 final size:5
Alignment explanation
Indices: 103887071--103887147 Score: 83
Period size: 5 Copynumber: 16.2 Consensus size: 5
103887061 TTTTTATGCT
103887071 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
* * *
103887117 TTATA TTATA TTGTA TTGTG TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
103887148 AAGTAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.02
4 11 0.18
5 49 0.79
6 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:103887099 original size:22 final size:22
Alignment explanation
Indices: 103887074--103887122 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
103887064 TTATGCTTTA
*
103887074 TATATATTATTTTAT-TATATAT
1 TATATATTATATTATAT-TATAT
103887096 TATATATTATATTATATTATAT
1 TATATATTATATTATATTATAT
103887118 TATAT
1 TATAT
103887123 TATATTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATATTATATTATATTATAT
Found at i:103887969 original size:3 final size:3
Alignment explanation
Indices: 103887961--103888001 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
103887951 AATAAAAATT
* * *
103887961 TTA TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
103888002 TTAATGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:103888015 original size:9 final size:9
Alignment explanation
Indices: 103887961--103888017 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
103887951 AATAAAAATT
*
103887961 TTATTATTA
1 TTATTATAA
**
103887970 TTATTATTG
1 TTATTATAA
*
103887979 TTAATATAA
1 TTATTATAA
*
103887988 TTATTATTA
1 TTATTATAA
*
103887997 TTATTTTAA
1 TTATTATAA
*
103888006 TGATTATAA
1 TTATTATAA
103888015 TTA
1 TTA
103888018 AAAGTGAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
TTATTATAA
Found at i:103895744 original size:27 final size:29
Alignment explanation
Indices: 103895700--103895753 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
103895690 TATATAATTA
* *
103895700 ATTTTATTTTTTACAATA-CAAAATAAAT
1 ATTTTATTATTTAAAATAGCAAAATAAAT
*
103895728 ATTTTA-TATTTAAAATAGTAAAATAA
1 ATTTTATTATTTAAAATAGCAAAATAA
103895754 GTAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTTATTATTTAAAATAGCAAAATAAAT
Found at i:103895874 original size:19 final size:19
Alignment explanation
Indices: 103895852--103895906 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
103895842 CTATTTTATT
*
103895852 AAAATAAATCTAAAAAATA
1 AAAATAAATATAAAAAATA
*
103895871 AAAATAAAAAT-AAAAATA
1 AAAATAAATATAAAAAATA
103895889 AAAA-ATAATATAAAAAAT
1 AAAATA-AATATAAAAAAT
103895907 CGAAAGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 15 0.48
19 15 0.48
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAATATAAAAAATA
Found at i:103895896 original size:7 final size:6
Alignment explanation
Indices: 103895864--103895892 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
103895854 AATAAATCTA
103895864 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
103895893 ATAATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:103895901 original size:12 final size:13
Alignment explanation
Indices: 103895852--103895906 Score: 69
Period size: 12 Copynumber: 4.4 Consensus size: 13
103895842 CTATTTTATT
*
103895852 AAAATAAATCTAA
1 AAAATAAATATAA
*
103895865 AAAATAAAAAT-A
1 AAAATAAATATAA
*
103895877 AAAATAAAAATAA
1 AAAATAAATATAA
103895890 AAAAT-AATATAA
1 AAAATAAATATAA
103895902 AAAAT
1 AAAAT
103895907 CGAAAGTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
12 23 0.61
13 15 0.39
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:103895906 original size:25 final size:25
Alignment explanation
Indices: 103895852--103895904 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
103895842 CTATTTTATT
**
103895852 AAAATAAATCTAAAAAATAAAAATA
1 AAAATAAAAATAAAAAATAAAAATA
*
103895877 AAAATAAAAATAAAAAAT-AATATA
1 AAAATAAAAATAAAAAATAAAAATA
103895901 AAAA
1 AAAA
103895905 ATCGAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (25 bp):
AAAATAAAAATAAAAAATAAAAATA
Found at i:103896391 original size:16 final size:16
Alignment explanation
Indices: 103896370--103896405 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
103896360 CCGCTCAGGT
103896370 CAATCATTCTCGAAAC
1 CAATCATTCTCGAAAC
103896386 CAATCATTCTCGAAAC
1 CAATCATTCTCGAAAC
103896402 CAAT
1 CAAT
103896406 TAGTTAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
CAATCATTCTCGAAAC
Found at i:103896488 original size:17 final size:16
Alignment explanation
Indices: 103896466--103896511 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
103896456 CACAAACTTC
*
103896466 TTTCTACTTTATTTATT
1 TTTCTACTTT-TTCATT
103896483 TTTCTATCCTTTTTCATT
1 TTTCTA--CTTTTTCATT
103896501 TTTCTACTTTT
1 TTTCTACTTTT
103896512 AATTCCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 11 0.42
19 4 0.15
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTACTTTTTCATT
Found at i:103903757 original size:113 final size:113
Alignment explanation
Indices: 103903559--103903784 Score: 407
Period size: 113 Copynumber: 2.0 Consensus size: 113
103903549 TAGTAGAGTA
* **
103903559 AATTAAACAATTGTCACCAGTCCATCATATTTCTAGGAATTAACACACCAATAAAGGAGATGCCA
1 AATTAAACAATTCTCACCAACCCATCATATTTCTAGGAATTAACACACCAATAAAGGAGATGCCA
*
103903624 AATACATATATGATATTCAATCAAGACATGTTTTTTCTTTTGCAAATT
66 AATACATATATGATATTCAATCAAGACAGGTTTTTTCTTTTGCAAATT
*
103903672 AATTAAACAATTCTCACCAACCCATCATATTTCTAGGAATTAACACACCAATAAAGGAGATGGCA
1 AATTAAACAATTCTCACCAACCCATCATATTTCTAGGAATTAACACACCAATAAAGGAGATGCCA
103903737 AATACATATATGATATTCAATCAAGACAGGTTTTTTCTTTTGCAAATT
66 AATACATATATGATATTCAATCAAGACAGGTTTTTTCTTTTGCAAATT
103903785 TAGTAATTAC
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (113 bp):
AATTAAACAATTCTCACCAACCCATCATATTTCTAGGAATTAACACACCAATAAAGGAGATGCCA
AATACATATATGATATTCAATCAAGACAGGTTTTTTCTTTTGCAAATT
Done.