Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 23 of 161
Found at i:7480673 original size:3 final size:3
Alignment explanation
Indices: 7480665--7480695 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7480655 GTATGCTCTA
7480665 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7480696 CTCTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7486672 original size:15 final size:15
Alignment explanation
Indices: 7486654--7486692 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
7486644 ATAATATAAA
7486654 ATTTATTAATATATT
1 ATTTATTAATATATT
* * *
7486669 ATTTGTTATTATCTT
1 ATTTATTAATATATT
7486684 ATTTATTAA
1 ATTTATTAA
7486693 AAATATTAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATTAATATATT
Found at i:7495732 original size:22 final size:23
Alignment explanation
Indices: 7495704--7495748 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7495694 ATGTAATCTT
7495704 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
7495726 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
7495749 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:7495751 original size:22 final size:21
Alignment explanation
Indices: 7495691--7495751 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
7495681 TCCGCATCAA
7495691 GATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7495710 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
7495732 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
7495752 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:7503248 original size:44 final size:43
Alignment explanation
Indices: 7503157--7503298 Score: 162
Period size: 44 Copynumber: 3.2 Consensus size: 43
7503147 CATAGTACAA
* * * *
7503157 CTTATCTCCCTGAAATTGCAGTGGAGCAGGTTCAAGT-TA-CAAGT
1 CTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAA-TAAACCAA-T
*
7503201 CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAATAAACCAAT
1 CTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAATAAACCAAT
*
7503245 CTTATCTCCGTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAAT
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAATAAACCAAT
*
7503289 CCTATCTCCT
1 CTTATCTCCT
7503299 TAAAGTTATA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.05
44 79 0.92
45 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (43 bp):
CTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAATAAACCAAT
Found at i:7503305 original size:44 final size:44
Alignment explanation
Indices: 7503213--7503320 Score: 144
Period size: 44 Copynumber: 2.5 Consensus size: 44
7503203 TATCTCTCTG
* * * *
7503213 AAGTTGCAGTGGAGCAGACTGAATAAACCAATCTTATCTCCGTG
1 AAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCGTA
*
7503257 AAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCTTA
1 AAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCGTA
** *
7503301 AAGTTATAGTAGAGCAGATT
1 AAGTTGCAGTGGAGCAGATT
7503321 AAAATGATGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCGTA
Found at i:7503316 original size:88 final size:88
Alignment explanation
Indices: 7503157--7503318 Score: 193
Period size: 88 Copynumber: 1.8 Consensus size: 88
7503147 CATAGTACAA
* ** * * *
7503157 CTTATCTCCCTGAAATTGCAGTGGAGCAGGTTCAAGTTACAAGTCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAATTGCAGTGGAGCAGATTCAAGAAACAAGTCCTATCTCTCTAAAGTTACAG
*
7503222 TGGAGCAGACTGAATAAACCAAT
66 TAGAGCAGACTGAATAAACCAAT
* * * *
7503245 CTTATCTCCGTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAA-TCCTATCTC-CTTAAAGTTAT
1 CTTATCTCCCTGAAATTGCAGTGGAGCAGATTCAAGAAA-CAAGTCCTATCTCTC-TAAAGTTAC
7503308 AGTAGAGCAGA
64 AGTAGAGCAGA
7503319 TTAAAATGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
87 1 0.02
88 57 0.93
89 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (88 bp):
CTTATCTCCCTGAAATTGCAGTGGAGCAGATTCAAGAAACAAGTCCTATCTCTCTAAAGTTACAG
TAGAGCAGACTGAATAAACCAAT
Found at i:7503498 original size:45 final size:45
Alignment explanation
Indices: 7503449--7503582 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 45
7503439 CGGAGTAGGG
*
7503449 TGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
1 TGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGAT
* ** * * * * * *
7503494 TGAAGACACCAG-CCTTGCCTCCCTG-AGTTTGCAGCGGAGCAGAC
1 TGAAGATAGTAGATCTTGTCTTCCTGTA-TTGGCAGCGAAGCAGAT
* * * *
7503538 TAAAAATAGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGAT
1 TGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGAT
7503583 CGAAAACACC
Statistics
Matches: 63, Mismatches: 23, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
43 1 0.02
44 30 0.48
45 31 0.49
46 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (45 bp):
TGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGAT
Found at i:7503639 original size:89 final size:89
Alignment explanation
Indices: 7503415--7503647 Score: 295
Period size: 89 Copynumber: 2.6 Consensus size: 89
7503405 GGAAGCTACA
* *
7503415 AGTCTTGCCTCCCTGAGTTTACAGCGGAGTAGGGTGAAGATAGTAGATCTTGTCTTCCTGTATTG
1 AGTCTTGCCTCCCTGAGTTTACAGCGGAGTAGGCTGAAGATAGTAGATCTTGTCTTCCTGTACTG
* * *
7503480 GCAGCGAAGTAGATTGAAGACACC
66 GCAGCGAAGCAGATCGAAAACACC
* * * * * *
7503504 AGCCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAAATAGTAGATCTTGTCTTCCTGTACTG
1 AGTCTTGCCTCCCTGAGTTTACAGCGGAGTAGGCTGAAGATAGTAGATCTTGTCTTCCTGTACTG
*
7503569 GCAGTGAAGCAGATCGAAAACACC
66 GCAGCGAAGCAGATCGAAAACACC
* * * * * * *
7503593 AGTCTTGCCTCTCTGAGTTTTCAGTGGATTAGGTTGAAGATTGTAGATCCTGTCT
1 AGTCTTGCCTCCCTGAGTTTACAGCGGAGTAGGCTGAAGATAGTAGATCTTGTCT
7503648 CTCTAAGCAG
Statistics
Matches: 120, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 120 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (89 bp):
AGTCTTGCCTCCCTGAGTTTACAGCGGAGTAGGCTGAAGATAGTAGATCTTGTCTTCCTGTACTG
GCAGCGAAGCAGATCGAAAACACC
Found at i:7503792 original size:44 final size:44
Alignment explanation
Indices: 7503626--7503931 Score: 150
Period size: 44 Copynumber: 7.0 Consensus size: 44
7503616 GTGGATTAGG
* * *
7503626 TTGAAGATTGTAGATCCTGTCTCTCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
** * * * *
7503670 TCAAAGACGGT-GAATCTTATCTTCCC-AAGGTAGTAG-GGAAGCGGA
1 TTGAAGACTGTAG-ATCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGA
* * *** * * *
7503715 TTTAAGCCACCAG-TCCTATCT-CCTGAG-ATGTAGTGGAGTAGG
1 TTGAAGACTGTAGATCCTATCTCCCTAAGCA-GTAGTGGAGCAGA
*
7503757 TTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** * * *
7503801 TCGAAGAC-GGCGAATCTTATCTTCCC-GAGACAGTAG-GAAGCAGA
1 TTGAAGACTGTAG-ATCCTATC-TCCCTAAG-CAGTAGTGGAGCAGA
* * *** * * *
7503845 TTTAAGCCACCAG-TCCTATCT-CCTGAG-ATGTAGTGGAGTAGG
1 TTGAAGACTGTAGATCCTATCTCCCTAAGCA-GTAGTGGAGCAGA
*
7503887 TTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
7503931 T
1 T
7503932 CAAAGATGGC
Statistics
Matches: 186, Mismatches: 55, Indels: 42
0.66 0.19 0.15
Matches are distributed among these distances:
40 1 0.01
41 7 0.04
42 35 0.19
43 27 0.15
44 83 0.45
45 32 0.17
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:7503901 original size:130 final size:131
Alignment explanation
Indices: 7503615--7504024 Score: 635
Period size: 130 Copynumber: 3.1 Consensus size: 131
7503605 CTGAGTTTTC
* * *
7503615 AGTGGATTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
7503680 TGAATCTTATCTTCCCAAGGTAGTAGGGAAGCGGATTTAAGCCACCAGTCCTATCTCCTGAGATG
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTGAGATG
7503745 T
131 T
*
7503746 AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
1 AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* **
7503811 CGAATCTTATCTTCCCGAGACAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCCTGAGATG
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTGAGATG
7503875 T
131 T
*
7503876 AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
1 AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * * *
7503941 CGAGTCTTATCTTCTCAAGGTAGTAGGGAAGCAGGTTTAAGCCACCAG-CCTTATCTCCCTAAAG
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCC-TATCT-CCT-GAG
*
7504005 TTGT
128 ATGT
*
7504009 AGTGGAGCAGGTTGAA
1 AGTGGAGTAGGTTGAA
7504025 ATTACCAATT
Statistics
Matches: 255, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
130 124 0.49
131 108 0.42
132 3 0.01
133 20 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (131 bp):
AGTGGAGTAGGTTGAAGACTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTGAGATG
T
Found at i:7504513 original size:22 final size:19
Alignment explanation
Indices: 7504451--7504504 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
7504441 AATCCTCAAG
* *
7504451 GATATGCAATATTAGGTAT
1 GATATGCAATCTTAGATAT
7504470 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7504489 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7504505 ATATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7505399 original size:15 final size:16
Alignment explanation
Indices: 7505369--7505401 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7505359 TTTTCCCTTA
7505369 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
*
7505385 TTATT-ATTTTTAAAT
1 TTATTCATTTTCAAAT
7505400 TT
1 TT
7505402 GTTTACACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:7506114 original size:188 final size:188
Alignment explanation
Indices: 7505797--7506173 Score: 754
Period size: 188 Copynumber: 2.0 Consensus size: 188
7505787 TTATTACTTC
7505797 GGGACAAGGAGGTCTTAACATCAAATTCGATTTATTCAGGTTTTTTAAAGAGGATTGTATTTTAA
1 GGGACAAGGAGGTCTTAACATCAAATTCGATTTATTCAGGTTTTTTAAAGAGGATTGTATTTTAA
7505862 AATCTTTTCAAATTTTCACATTAGGACATTAATTAATCAATTTGGTACCAATTTTTGGGCGTTGC
66 AATCTTTTCAAATTTTCACATTAGGACATTAATTAATCAATTTGGTACCAATTTTTGGGCGTTGC
7505927 GAGGGTGCTAATCCTTCCTCGTGTGTAACTGAATCCCGAGCCCATTTTGTCAAATTTA
131 GAGGGTGCTAATCCTTCCTCGTGTGTAACTGAATCCCGAGCCCATTTTGTCAAATTTA
7505985 GGGACAAGGAGGTCTTAACATCAAATTCGATTTATTCAGGTTTTTTAAAGAGGATTGTATTTTAA
1 GGGACAAGGAGGTCTTAACATCAAATTCGATTTATTCAGGTTTTTTAAAGAGGATTGTATTTTAA
7506050 AATCTTTTCAAATTTTCACATTAGGACATTAATTAATCAATTTGGTACCAATTTTTGGGCGTTGC
66 AATCTTTTCAAATTTTCACATTAGGACATTAATTAATCAATTTGGTACCAATTTTTGGGCGTTGC
7506115 GAGGGTGCTAATCCTTCCTCGTGTGTAACTGAATCCCGAGCCCATTTTGTCAAATTTA
131 GAGGGTGCTAATCCTTCCTCGTGTGTAACTGAATCCCGAGCCCATTTTGTCAAATTTA
7506173 G
1 G
7506174 TAGACCAAAA
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (188 bp):
GGGACAAGGAGGTCTTAACATCAAATTCGATTTATTCAGGTTTTTTAAAGAGGATTGTATTTTAA
AATCTTTTCAAATTTTCACATTAGGACATTAATTAATCAATTTGGTACCAATTTTTGGGCGTTGC
GAGGGTGCTAATCCTTCCTCGTGTGTAACTGAATCCCGAGCCCATTTTGTCAAATTTA
Found at i:7509966 original size:3 final size:3
Alignment explanation
Indices: 7509958--7509994 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7509948 ATATGCTCTA
7509958 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7509995 CTCTCTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7512594 original size:47 final size:47
Alignment explanation
Indices: 7512540--7512685 Score: 256
Period size: 47 Copynumber: 3.1 Consensus size: 47
7512530 TGAACAAGTC
*
7512540 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTACGCTGT
1 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTGCGCTGT
*
7512587 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTGCACTGT
1 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTGCGCTGT
* *
7512634 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGACCTGCGATGT
1 TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTGCGCTGT
7512681 TGATG
1 TGATG
7512686 TCCACAAAAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (47 bp):
TGATGCTCCCATATCAACAAGATCACTCATTCTCTGGCCTGCGCTGT
Found at i:7513577 original size:95 final size:95
Alignment explanation
Indices: 7513414--7513603 Score: 301
Period size: 95 Copynumber: 2.0 Consensus size: 95
7513404 GAAATCCTAG
7513414 TTCAACTAGGTTGTAAAAGGTGACAACCCTAGTTAATTATACTAGGGTTTGTCATCCCCCTTATT
1 TTCAACTAGGTTGTAAAAGGTGACAACCCTAGTTAATTATACTAGGGTTTGTCATCCCCCTTATT
* *
7513479 AAATAAG-GAGCTATTGGACTTCTTCCATAT
66 AAATAAGAG-GCTATTAGACCTCTTCCATAT
** * *
7513509 TTCAACTAGGTTGTAGGAGGTGACAACCCTAGTTAATTTTACTAGGGTTTGTCGTCCCCCTTATT
1 TTCAACTAGGTTGTAAAAGGTGACAACCCTAGTTAATTATACTAGGGTTTGTCATCCCCCTTATT
*
7513574 AAATAAGAGGCTATTAGACCTCTTTCATAT
66 AAATAAGAGGCTATTAGACCTCTTCCATAT
7513604 CTGGTCCAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 86 0.99
96 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (95 bp):
TTCAACTAGGTTGTAAAAGGTGACAACCCTAGTTAATTATACTAGGGTTTGTCATCCCCCTTATT
AAATAAGAGGCTATTAGACCTCTTCCATAT
Found at i:7523693 original size:8 final size:8
Alignment explanation
Indices: 7523680--7523712 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
7523670 ATTATTTTTA
7523680 TTTATTAT
1 TTTATTAT
7523688 TTTATTAT
1 TTTATTAT
7523696 TTTATTAT
1 TTTATTAT
7523704 TTTATTAT
1 TTTATTAT
7523712 T
1 T
7523713 ATTTTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:7523695 original size:3 final size:3
Alignment explanation
Indices: 7523670--7523715 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
7523660 TGACAAGTAA
*
7523670 ATT ATT TTT ATTT ATT ATT -TT ATT ATT -TT ATT ATT -TT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7523713 ATT
1 ATT
7523716 TTAGAAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 6 0.16
3 28 0.76
4 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
ATT
Found at i:7524797 original size:41 final size:41
Alignment explanation
Indices: 7524737--7524844 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
7524727 AATTATTTTA
* * *
7524737 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCGC
1 TGAATTACACATACGTGCCCCTGTTTGGACTTCGATACCGC
* * * * *
7524778 TGAATTTCACATACATGCCCTTGTTGGGACTTCGATACCTC
1 TGAATTACACATACGTGCCCCTGTTTGGACTTCGATACCGC
* * *
7524819 TAAATTACATATATGTGCCCCTGTTT
1 TGAATTACACATACGTGCCCCTGTTT
7524845 ACACTCTGAT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (41 bp):
TGAATTACACATACGTGCCCCTGTTTGGACTTCGATACCGC
Found at i:7536105 original size:26 final size:25
Alignment explanation
Indices: 7536076--7536124 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
7536066 ACATATTTAC
* *
7536076 CCTCTTTTGAGTTCTCAAATATCTTG
1 CCTCTTCTGAGTCCTCAAA-ATCTTG
7536102 CCTCTTCTGAGTCCTCAAAATCT
1 CCTCTTCTGAGTCCTCAAAATCT
7536125 AAATATCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (25 bp):
CCTCTTCTGAGTCCTCAAAATCTTG
Found at i:7544175 original size:13 final size:13
Alignment explanation
Indices: 7544157--7544181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7544147 GATATTAGTA
7544157 AAATTATTTACAC
1 AAATTATTTACAC
7544170 AAATTATTTACA
1 AAATTATTTACA
7544182 GATAAGTTTC
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATTTACAC
Found at i:7548138 original size:2 final size:2
Alignment explanation
Indices: 7548131--7548170 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7548121 AGTGAACAGG
7548131 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7548171 ACACACACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7549961 original size:18 final size:17
Alignment explanation
Indices: 7549938--7549974 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7549928 AATTATTATT
7549938 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
7549954 AAATATATGATTTAATA
1 AAATATATGATTTAATA
7549971 AAAT
1 AAAT
7549975 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:7550081 original size:18 final size:17
Alignment explanation
Indices: 7550058--7550094 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7550048 AATTATTATT
7550058 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
7550074 AAATATATGATTTAATA
1 AAATATATGATTTAATA
7550091 AAAT
1 AAAT
7550095 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:7550104 original size:120 final size:120
Alignment explanation
Indices: 7549687--7550095 Score: 750
Period size: 120 Copynumber: 3.4 Consensus size: 120
7549677 ATATTTTAAC
7549687 ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATAT
*
7549752 TCTTATATGAATTTACTCAAATCATAATA-ATGATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
7549805 GATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATA
*
7549870 TTCTTATATGAATGTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
7549926 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATAT
*
7549991 TCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
7550046 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATT
7550096 TAAAATAATT
Statistics
Matches: 283, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
119 92 0.33
120 189 0.67
121 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATAAGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:7550130 original size:47 final size:46
Alignment explanation
Indices: 7550077--7550244 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 46
7550067 TTAATTAAAA
*
7550077 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* *
7550124 TATATGAATTTGTATAATTTAAAATAATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
7550169 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
7550215 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
7550245 ATATTGAATA
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
43 3 0.03
44 22 0.22
45 10 0.10
46 9 0.09
47 47 0.48
48 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:7550151 original size:101 final size:92
Alignment explanation
Indices: 7550092--7550263 Score: 260
Period size: 91 Copynumber: 1.9 Consensus size: 92
7550082 GATTTAATAA
*
7550092 AATTT-AAAATAATTATT-ACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATTGA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAT
7550155 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * *
7550183 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
1 AATTTCAAAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTATTA
*
7550248 TTGAATATAATTTAAT
66 TTAAATATAATTTAAT
7550264 AATCTTTACT
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
91 69 0.95
92 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (92 bp):
AATTTCAAAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTATTA
TTAAATATAATTTAATTAATAATATAT
Found at i:7561282 original size:35 final size:34
Alignment explanation
Indices: 7561234--7561392 Score: 99
Period size: 34 Copynumber: 4.5 Consensus size: 34
7561224 TCTACTCACT
*
7561234 AACAAATCAAGAACAATTTCCAGCAGACTATCAA
1 AACAAATCCAGAACAATTTCCAGCAGACTATCAA
* * * * * *
7561268 AACAATTTCCAGAACAA-ATCAAGAACAATATCAA
1 AACAA-ATCCAGAACAATTTCCAGCAGACTATCAA
* ** *
7561302 AACAAATGC--AACAATTTCCAGTTTCATCTTCTACTCACT
1 AACAAATCCAGAACAATTTCCAG---CA--GACTA-TCA-A
*
7561341 AACAAATCAAGAACAATTTCCAGCAGACTATCAA
1 AACAAATCCAGAACAATTTCCAGCAGACTATCAA
*
7561375 AACAATTTCCAGAACAAT
1 AACAA-ATCCAGAACAAT
7561393 ATCAAAACAA
Statistics
Matches: 90, Mismatches: 23, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
31 5 0.06
32 4 0.04
33 2 0.02
34 27 0.30
35 23 0.26
36 3 0.03
37 2 0.02
38 5 0.06
39 7 0.08
41 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (34 bp):
AACAAATCCAGAACAATTTCCAGCAGACTATCAA
Found at i:7561294 original size:23 final size:24
Alignment explanation
Indices: 7561234--7561296 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
7561224 TCTACTCACT
7561234 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
7561258 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
7561280 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
7561297 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:7561305 original size:22 final size:22
Alignment explanation
Indices: 7561263--7561308 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7561253 CCAGCAGACT
* *
7561263 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
7561285 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
7561307 AT
1 AT
7561309 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:7561323 original size:107 final size:107
Alignment explanation
Indices: 7561206--7561402 Score: 378
Period size: 107 Copynumber: 1.8 Consensus size: 107
7561196 ACTATACTTG
7561206 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
7561271 AATTTCCAGAACAA-ATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAATATCAA-AACAATATCAAAACAAATGCAA
7561313 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
7561378 AATTTCCAGAACAATATCAAAACAA
66 AATTTCCAGAACAATATCAAAACAA
7561403 ATGCAACAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
107 84 0.94
108 5 0.06
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (107 bp):
CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
AATTTCCAGAACAATATCAAAACAATATCAAAACAAATGCAA
Found at i:7561379 original size:23 final size:23
Alignment explanation
Indices: 7561341--7561402 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
7561331 TCTACTCACT
7561341 AACAA-ATCAAGAACAATTTCCAG
1 AACAATATCAA-AACAATTTCCAG
* * *
7561364 CAGACTATCAAAACAATTTCCAG
1 AACAATATCAAAACAATTTCCAG
7561387 AACAATATCAAAACAA
1 AACAATATCAAAACAA
7561403 ATGCAACAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (23 bp):
AACAATATCAAAACAATTTCCAG
Found at i:7561978 original size:27 final size:27
Alignment explanation
Indices: 7561946--7562000 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
7561936 AACATGGAAG
7561946 TAAAGATGAAATAGAGCAAGGGAAGTC
1 TAAAGATGAAATAGAGCAAGGGAAGTC
*
7561973 TAAAGATGAAATAGAGCAGGGGAAGTC
1 TAAAGATGAAATAGAGCAAGGGAAGTC
7562000 T
1 T
7562001 TTTTCTCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.16
Consensus pattern (27 bp):
TAAAGATGAAATAGAGCAAGGGAAGTC
Found at i:7562812 original size:21 final size:22
Alignment explanation
Indices: 7562770--7562812 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
7562760 AAGTGAACAG
7562770 TGCAATAATCGATGAAGAAGAACC
1 TGCAATAATCGAT--AGAAGAACC
7562794 TGCAATAATCGAT-GAAGAA
1 TGCAATAATCGATAGAAGAA
7562813 AAAGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
24 13 0.68
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (22 bp):
TGCAATAATCGATAGAAGAACC
Found at i:7581122 original size:15 final size:15
Alignment explanation
Indices: 7581102--7581131 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7581092 TCTAATGTTT
7581102 GAGATAAGTGGTTGA
1 GAGATAAGTGGTTGA
7581117 GAGATAAGTGGTTGA
1 GAGATAAGTGGTTGA
7581132 TATAGGAAAT
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:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
GAGATAAGTGGTTGA
Found at i:7585405 original size:25 final size:25
Alignment explanation
Indices: 7585373--7585424 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
7585363 TGTCAAGTTT
7585373 AAAAGTTGGCTTGAAAAGAAAGGTA
1 AAAAGTTGGCTTGAAAAGAAAGGTA
7585398 AAAAGTTGGCTTGAAAAGAAAGGTA
1 AAAAGTTGGCTTGAAAAGAAAGGTA
7585423 AA
1 AA
7585425 TCAATCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.27, T:0.19
Consensus pattern (25 bp):
AAAAGTTGGCTTGAAAAGAAAGGTA
Found at i:7586385 original size:37 final size:37
Alignment explanation
Indices: 7586335--7586409 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
7586325 TTTAGAGGTC
* *
7586335 ACACTGCCGTGTGGCTAGGCCGTGTAACAATCAAATT
1 ACACTACCGTGTGGCCAGGCCGTGTAACAATCAAATT
7586372 ACACTACCGTGTGGCCAGGCCGTGTAACAATCAAATT
1 ACACTACCGTGTGGCCAGGCCGTGTAACAATCAAATT
7586409 A
1 A
7586410 GGGACAGACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (37 bp):
ACACTACCGTGTGGCCAGGCCGTGTAACAATCAAATT
Found at i:7601631 original size:12 final size:12
Alignment explanation
Indices: 7601616--7601640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7601606 ACAAAATTTC
7601616 ATTCAAATTTAA
1 ATTCAAATTTAA
7601628 ATTCAAATTTAA
1 ATTCAAATTTAA
7601640 A
1 A
7601641 CTCTTCAAAT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTCAAATTTAA
Found at i:7603618 original size:84 final size:84
Alignment explanation
Indices: 7603518--7603794 Score: 389
Period size: 84 Copynumber: 3.3 Consensus size: 84
7603508 AAGGATCCCG
*
7603518 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGTAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
7603583 TTTTACAATCAAGGATACA
66 TTTTACAATCAAGGATACA
* *
7603602 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGTACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
*
7603667 TTTCACAATCAAGGATACA
66 TTTTACAATCAAGGATACA
* * ** * *
7603686 ATGGAATCAGCACTTAAAAACCACCTTATAATCAATGATATGGGGAATCAGCACATAACAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
** * *
7603751 TTTT-TGATCAATGATTCA
66 TTTTACAATCAAGGATACA
**
7603769 G-GGAATCTGCACTTAGCAACC-CCTTA
1 GTGGAATCAACACTTAGCAACCACCTTA
7603795 CATTTAAAGA
Statistics
Matches: 172, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
81 5 0.03
82 17 0.10
83 10 0.06
84 140 0.81
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (84 bp):
GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTTACAATCAAGGATACA
Found at i:7603661 original size:41 final size:40
Alignment explanation
Indices: 7603520--7603794 Score: 253
Period size: 41 Copynumber: 6.6 Consensus size: 40
7603510 GGATCCCGGT
* * *
7603520 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACAG
* * *
7603561 GGAATCAGCACATAGTAACCCCTTTTACAATCAAGGATACAG
1 GGAATCAGCACATAGCAACCCC--TTATAATCAATGATACAG
* *
7603603 TGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACAG
* * * *
7603645 GGAATCAGTACATAGCAACCCCTTTCACAATCAAGGATACAAT
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATAC-AG
* ** **
7603688 GGAATCAGCACTTAAAAACCACCTTATAATCAATGATATGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACAG
* * * *
7603729 GGAATCAGCACATAACAACCCCTTTTTGATCAATGATTCAG
1 GGAATCAGCACATAGCAACCCC-TTATAATCAATGATACAG
* *
7603770 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACATAGCAACCCCTTA
7603795 CATTTAAAGA
Statistics
Matches: 188, Mismatches: 37, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
40 8 0.04
41 86 0.46
42 54 0.29
43 36 0.19
44 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTATAATCAATGATACAG
Found at i:7605974 original size:15 final size:16
Alignment explanation
Indices: 7605954--7605983 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7605944 ACCAATGGTG
7605954 TATCAAATAT-TATTC
1 TATCAAATATATATTC
7605969 TATCAAATATATATT
1 TATCAAATATATATT
7605984 ATATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (16 bp):
TATCAAATATATATTC
Found at i:7607362 original size:17 final size:18
Alignment explanation
Indices: 7607342--7607397 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
7607332 TATAAACAGA
7607342 AATATA-ATAATAATAAT
1 AATATACATAATAATAAT
*
7607359 AATAGTACA-AA-ACTAAT
1 AATA-TACATAATAATAAT
7607376 AATATAACATAATAAT-AT
1 AATAT-ACATAATAATAAT
7607394 AATA
1 AATA
7607398 GTAACGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 12 0.38
19 3 0.09
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
AATATACATAATAATAAT
Found at i:7612434 original size:10 final size:9
Alignment explanation
Indices: 7612419--7612457 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
7612409 ATATTTATGT
7612419 TTTATAATTA
1 TTTAT-ATTA
*
7612429 TTTATAATA
1 TTTATATTA
7612438 TTTATATTA
1 TTTATATTA
7612447 TGTTATATTA
1 T-TTATATTA
7612457 T
1 T
7612458 AATTTTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATATTA
Found at i:7612457 original size:24 final size:24
Alignment explanation
Indices: 7612426--7612475 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7612416 TGTTTTATAA
7612426 TTATTTATAATATTT-ATAT-TATG
1 TTATTTATAAT-TTTGATATATATG
7612449 TTATATTATAATTTTGATATATATG
1 TTAT-TTATAATTTTGATATATATG
7612474 TT
1 TT
7612476 TGAGATGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 7 0.29
24 11 0.46
25 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTATTTATAATTTTGATATATATG
Found at i:7623114 original size:50 final size:50
Alignment explanation
Indices: 7623059--7623182 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
7623049 TATTGAGGTT
* *
7623059 ATGAGAGGTCCCATGTAAGACCATG-CTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTC-TGGGACATGGCATGGGCACCGAG
* * *
7623109 ATGAGAGGTCCTC-CGTAAGGCCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
**
7623159 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
7623183 ATCCAAGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 59 0.95
51 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:7623492 original size:16 final size:16
Alignment explanation
Indices: 7623467--7623516 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
7623457 AAAGAAAGTA
*
7623467 AGTAAACAAGTAAGAG
1 AGTAAGCAAGTAAGAG
7623483 AGTAAGCAAGT---A-
1 AGTAAGCAAGTAAGAG
7623495 AGTAAGCAAGTAAGAG
1 AGTAAGCAAGTAAGAG
*
7623511 AATAAG
1 AGTAAG
7623517 TAAAGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 11 0.39
13 1 0.04
15 1 0.04
16 15 0.54
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (16 bp):
AGTAAGCAAGTAAGAG
Found at i:7623504 original size:28 final size:28
Alignment explanation
Indices: 7623462--7623516 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7623452 TTAAGAAAGA
*
7623462 AAGTAAGTAAACAAGTAAGAGAGTAAGC
1 AAGTAAGTAAACAAGTAAGAGAATAAGC
*
7623490 AAGTAAGTAAGCAAGTAAGAGAATAAG
1 AAGTAAGTAAACAAGTAAGAGAATAAG
7623517 TAAAGAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (28 bp):
AAGTAAGTAAACAAGTAAGAGAATAAGC
Found at i:7625309 original size:50 final size:50
Alignment explanation
Indices: 7625185--7625425 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
7625175 GATAATAACA
* * ** * * *
7625185 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATAT-CGG
* * * * **
7625234 TACCAATGCCATATCCCAGATATGGTATTACACGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATATCGG
* * ** *
7625284 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATATCGG
* ** * **
7625334 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCAT-A-TC---GG
* *
7625389 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA
7625426 TCTCATTCCC
Statistics
Matches: 152, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 80 0.53
52 1 0.01
55 34 0.22
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATATCGG
Found at i:7628097 original size:58 final size:60
Alignment explanation
Indices: 7628021--7628136 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 60
7628011 ATTTCTTTAA
* *
7628021 TATTAGATTAATATAATACTTA-T-CAAGATAAATATTATAA-TAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTA-AATTAAATTTAATATTAAATC
*
7628079 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
7628137 GATAATAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 20 0.39
60 3 0.06
61 28 0.55
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:7628149 original size:20 final size:20
Alignment explanation
Indices: 7628124--7628180 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7628114 TATTAAATTT
7628124 AATTTAATATTAAGATAATA
1 AATTTAATATTAAGATAATA
7628144 AATTTAATATTAA-ATTAATA
1 AATTTAATATTAAGA-TAATA
* *
7628164 AA-ATACTATTAAGATAA
1 AATTTAATATTAAGATAA
7628181 GTATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
AATTTAATATTAAGATAATA
Found at i:7628151 original size:61 final size:57
Alignment explanation
Indices: 7628027--7628152 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 57
7628017 TTAATATTAG
* *
7628027 ATTAATATAATACTTATCAAGATAAATATTATAATAAATTTAATATTAAATCTATTAA
1 ATTAATAGAATACTTATCAAGATAAATATTATAATAAATTTAATATTAAA-CTAATAA
*
7628085 ATTAATAGAATACTTATCTACAAGATAAATATTA-AATTTAATTTAATATTAAGA-TAATAA
1 ATTAATAGAATACTTA--T-CAAGATAAATATTATAA-TAAATTTAATATTAA-ACTAATAA
7628145 ATTTAATA
1 A-TTAATA
7628153 TTAAATTAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
58 15 0.25
60 9 0.15
61 34 0.58
62 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (57 bp):
ATTAATAGAATACTTATCAAGATAAATATTATAATAAATTTAATATTAAACTAATAA
Found at i:7628168 original size:25 final size:25
Alignment explanation
Indices: 7628117--7628168 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
7628107 AGATAAATAT
*
7628117 TAAATTTAATTTAATATTAAGATAA
1 TAAATTTAATTTAATATTAAGAAAA
*
7628142 TAAATTTAATATTAA-ATTAATAAAA
1 TAAATTTAAT-TTAATATTAAGAAAA
7628167 TA
1 TA
7628169 CTATTAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAATTTAATTTAATATTAAGAAAA
Found at i:7637789 original size:19 final size:21
Alignment explanation
Indices: 7637755--7637793 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
7637745 ATAATAATTG
7637755 ATATATAATTATATTATTATA
1 ATATATAATTATATTATTATA
7637776 ATATAT-ATTA-ATTATTAT
1 ATATATAATTATATTATTAT
7637794 CAACTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATAATTATATTATTATA
Found at i:7654056 original size:34 final size:34
Alignment explanation
Indices: 7654018--7654082 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
7654008 GAACTGTTAT
* * *
7654018 AAGCATAATGATTGCTACTGTATTGTTCTGTCAA
1 AAGCATAATAAATGCTACTGTATTGATCTGTCAA
*
7654052 AAGCATATTAAATGCTACTGTATTGATCTGT
1 AAGCATAATAAATGCTACTGTATTGATCTGT
7654083 TTTGAACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (34 bp):
AAGCATAATAAATGCTACTGTATTGATCTGTCAA
Found at i:7655195 original size:9 final size:9
Alignment explanation
Indices: 7655181--7655209 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
7655171 TAAATTTTAC
7655181 AATTCGAAT
1 AATTCGAAT
7655190 AATTCGAAT
1 AATTCGAAT
7655199 AATTCGAAT
1 AATTCGAAT
7655208 AA
1 AA
7655210 CAAATTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7655313 original size:20 final size:20
Alignment explanation
Indices: 7655280--7655377 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
7655270 TCTCAACAAA
7655280 AATTTTAAAAAAATTCAAAAT
1 AATTTT-AAAAAATTCAAAAT
*
7655301 AATTTTCAAAAATTC--AA-
1 AATTTTAAAAAATTCAAAAT
7655318 AATTTTATAAAAATTCCAAAATTT
1 AATTTTA-AAAAATT-CAAAA--T
* *
7655342 ATATTTTAAAAAATTTAAAAA
1 A-ATTTTAAAAAATTCAAAAT
*
7655363 AATTTAAAAAAATTC
1 AATTTTAAAAAATTC
7655378 TTAAGAGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.10
18 9 0.14
19 1 0.02
20 20 0.32
21 9 0.14
23 4 0.06
24 8 0.13
25 6 0.10
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTTAAAAAATTCAAAAT
Found at i:7655381 original size:12 final size:10
Alignment explanation
Indices: 7655344--7655376 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
7655334 CAAAATTTAT
*
7655344 ATTTTAAAAA
1 ATTTAAAAAA
7655354 ATTTAAAAAA
1 ATTTAAAAAA
7655364 ATTTAAAAAA
1 ATTTAAAAAA
7655374 ATT
1 ATT
7655377 CTTAAGAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTTAAAAAA
Found at i:7665047 original size:25 final size:25
Alignment explanation
Indices: 7665019--7665068 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7665009 GAAAGAAAAT
7665019 AACAAATAGTAATAATAGTAAATGA
1 AACAAATAGTAATAATAGTAAATGA
* *
7665044 AACAAATAGTAATTATCGTAAATGA
1 AACAAATAGTAATAATAGTAAATGA
7665069 TTGGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (25 bp):
AACAAATAGTAATAATAGTAAATGA
Found at i:7666754 original size:3 final size:3
Alignment explanation
Indices: 7666746--7666772 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7666736 ATGTAAGTTT
7666746 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7666773 CGAATTGAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7666949 original size:11 final size:11
Alignment explanation
Indices: 7666942--7666966 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7666932 GATGAAGGAG
7666942 AGGGGAAGGGA
1 AGGGGAAGGGA
7666953 AGGGGAAGGGA
1 AGGGGAAGGGA
7666964 AGG
1 AGG
7666967 AAATATCTGC
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:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (11 bp):
AGGGGAAGGGA
Found at i:7668882 original size:19 final size:20
Alignment explanation
Indices: 7668841--7668882 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
7668831 ATTTCTATGC
* *
7668841 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
7668861 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
7668880 CAT
1 CAT
7668883 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:7680883 original size:44 final size:43
Alignment explanation
Indices: 7680828--7681335 Score: 319
Period size: 44 Copynumber: 11.6 Consensus size: 43
7680818 CCATCTAGTA
*
7680828 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAATC
* * * *
7680872 TTATC-CTCCTGAAGTTACAAT-GAGGCAGACTGAAGATTGCAAACC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAATC
* * *
7680917 TTATCTCCCTAAAGTTGCAGTGGAGCAG-GTTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AATC
* * * * **
7680961 CTATCTCCCTGAGGTTGCAGTGGAGCGGATTAA-AA-CTTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC---AAATC
* * * * * * * *
7681005 TTATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAATC
*
7681045 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAATC
* * *
7681089 TTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGAAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAATC
* *
7681134 TTATCTCCCTGAAGTTGCAGTGGACCAGA-TTAG-AGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AATC
* * * *
7681178 TTATCTCCTTGAAGTTGCAGTGGAGTAGACTAAGTAAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAATC
7681222 TTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATAGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCAAATC
* * * **
7681267 TTATTTCCCTGAAGTTGCAGTGGAGTAGATTAAGCCG-ATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AATC
* * *
7681310 CTATCTCCTTGAAGTTGCAATGGAGC
1 TTATCTCCCTGAAGTTGCAGTGGAGC
7681336 GGATTAAAAC
Statistics
Matches: 359, Mismatches: 68, Indels: 75
0.72 0.14 0.15
Matches are distributed among these distances:
40 20 0.06
41 9 0.03
42 6 0.02
43 50 0.14
44 165 0.46
45 97 0.27
46 10 0.03
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAATC
Found at i:7681154 original size:89 final size:86
Alignment explanation
Indices: 7681043--7681335 Score: 292
Period size: 89 Copynumber: 3.3 Consensus size: 86
7681033 TCGCATCTAG
*
7681043 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCTTAT-CTCCTGAAGTTGCA
*
7681108 GT-GAGGTAGACTGAAGATGGAAAA
65 GTGGA-GTAGACT-AAG-TAGAAAA
* * *
7681132 TCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAGAGC-CG-ATAATCTTATCTCCTTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AATCTTATCTCC-TGAAGTTG
* *
7681195 CAGTGGAGTAGACTAAGTAAGTAAG
63 CAGTGGAGTAGACTAAGT-AGAAAA
*
7681220 TCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAG-ATAGCAAATCTTATTTCCCTGAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGCA-AGCAAATCTTATCT-CCTGAAGT
* ** *
7681282 TGCAGTGGAGTAGATTAAGCCGATAA
61 TGCAGTGGAGTAGACTAAGTAGAAAA
* * *
7681308 TCCTATCTCCTTGAAGTTGCAATGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
7681336 GGATTAAAAC
Statistics
Matches: 170, Mismatches: 20, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
87 4 0.02
88 60 0.35
89 98 0.58
90 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCTTATCTCCTGAAGTTGCAG
TGGAGTAGACTAAGTAGAAAA
Found at i:7681200 original size:133 final size:132
Alignment explanation
Indices: 7681043--7681335 Score: 460
Period size: 133 Copynumber: 2.2 Consensus size: 132
7681033 TCGCATCTAG
*
7681043 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCA
** *
7681108 GTGAGGTAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAGAGCCGA
66 GTGAGACAGACTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTA-AGCCGA
7681173 TAA
130 TAA
* * *
7681176 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * **
7681241 GTGAGACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATTAAGCCGAT
66 GTGAGACAGACTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAGCCGAT
7681306 AA
131 AA
* *
7681308 TCCTATCTCCTTGAAGTTGCAATGGAGC
1 TCTTATCTCCTTGAAGTTGCAGTGGAGC
7681336 GGATTAAAAC
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
132 34 0.23
133 112 0.77
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCA
GTGAGACAGACTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAGCCGAT
AA
Found at i:7681238 original size:217 final size:217
Alignment explanation
Indices: 7680738--7681203 Score: 745
Period size: 217 Copynumber: 2.1 Consensus size: 217
7680728 TCCATGGCCA
7680738 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATTGGATCTTATCTCTCTGAAGT
* *
7680803 TACAGAGAGCAGATTCCATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATTCCATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
* *
7680868 AGTCTTATCCTCCTGAAGTTACAATGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTAAAGTT
131 AGTCTTATCCTCCTGAAGTTACAATGAGGCAGACTGAAGATGGAAAACCTTATCTCCCTAAAGTT
* *
7680933 GCAGTGGAGCAGGTTAAAGCCG
196 GCAGTGGACCAGATTAAAGCCG
* * *
7680955 ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACTTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATTGGATCTTATCTCTCTGAAGT
* *
7681020 TGTAGAGAGCAGA-TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC
66 TGCAGAGAGCAGATTC-CATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC
* * * * *
7681084 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGAAAATCTTATCTCCCTGAAGT
130 AAGTCTTATCCTCCTGAAGTTACAATGAGGCAGACTGAAGATGGAAAACCTTATCTCCCTAAAGT
*
7681149 TGCAGTGGACCAGATTAGAGCCG
195 TGCAGTGGACCAGATTAAAGCCG
* *
7681172 ATAATCTTATCTCCTTGAAGTTGCAGTGGAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGT
7681204 AGACTAAGTA
Statistics
Matches: 227, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 2 0.01
217 225 0.99
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATTGGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATTCCATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
AGTCTTATCCTCCTGAAGTTACAATGAGGCAGACTGAAGATGGAAAACCTTATCTCCCTAAAGTT
GCAGTGGACCAGATTAAAGCCG
Found at i:7682935 original size:13 final size:13
Alignment explanation
Indices: 7682917--7682941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7682907 TTCAATTTAG
7682917 TTATTATTATTAT
1 TTATTATTATTAT
7682930 TTATTATTATTA
1 TTATTATTATTA
7682942 ATTAATTCTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:7685306 original size:6 final size:6
Alignment explanation
Indices: 7685297--7685325 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7685287 CGTCAATGTG
7685297 AATGCT AATGCT AATGCT AATGCT AATGC
1 AATGCT AATGCT AATGCT AATGCT AATGC
7685326 ATGAGCTCTT
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:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
AATGCT
Found at i:7690460 original size:43 final size:43
Alignment explanation
Indices: 7690337--7690467 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
7690327 TAACCGTTAC
* *
7690337 ACGGTGGAATCAGCAGTTA-ACAACCACC-TTATAATCAATAAT
1 ACGGTGGAATCAGCACTTAGA-AACCACCTTTATAATCAATGAT
* * * * *
7690379 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAGTCAATGAT
1 ACGGTGGAATCAGCACTTAGAAACCACCTTT-ATAATCAATGAT
*
7690421 ACGGTGGAATCAGCACTTAGAAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGAAACCACCTTTATAATCAATGAT
7690464 ACGG
1 ACGG
7690468 ATTCACATAG
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.03
41 17 0.24
42 17 0.24
43 31 0.43
44 5 0.07
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGAAACCACCTTTATAATCAATGAT
Found at i:7690567 original size:51 final size:50
Alignment explanation
Indices: 7690475--7690761 Score: 256
Period size: 51 Copynumber: 5.7 Consensus size: 50
7690465 CGGATTCACA
* * *
7690475 TAGTAGCATGCACATAGTACTACACATGTGACCATCA-CTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCTATCTGGTACACG
* * * * *
7690526 TAATAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCTATCTGGTACACG
*** * * *
7690577 TAGTAGCCTGCACATAGTACTACACATACGACCTATC-ATTCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTA-TCTGGTACACG
* * * * * * *
7690627 TATTAGCCTACACATAGTACTACACACTTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCTATCTGGTACACG
*** * *
7690678 TAGTAGCCTGCACATAGTACTACACATAAGACCTATC-ATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTA-TCTGGTACACG
*
7690728 TAGTAGCCTACACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
7690762 TCACTTTCAC
Statistics
Matches: 183, Mismatches: 47, Indels: 13
0.75 0.19 0.05
Matches are distributed among these distances:
49 2 0.01
50 77 0.42
51 101 0.55
52 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTATCTGGTACACG
Found at i:7690649 original size:101 final size:101
Alignment explanation
Indices: 7690473--7690758 Score: 466
Period size: 101 Copynumber: 2.8 Consensus size: 101
7690463 TACGGATTCA
* ** *
7690473 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCTGATACACGTAATAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATAAGACCTATCA-T-TCTGATACACGTAATAGCCTAC
7690537 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
7690575 CATAGTAGCCTGCACATAGTACTACACATACGACCTATCATTCTGATACACGTATTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATAAGACCTATCATTCTGATACACGTAATAGCCTACAC
*
7690640 ATAGTACTACACACTTGATCGAAGCTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
7690676 CATAGTAGCCTGCACATAGTACTACACATAAGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATAAGACCTATCATTCTGATACACGTAATAGCCTACAC
7690741 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
7690759 CCATCACTTT
Statistics
Matches: 173, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
101 136 0.79
102 33 0.19
103 4 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATAAGACCTATCATTCTGATACACGTAATAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:7694267 original size:29 final size:29
Alignment explanation
Indices: 7694225--7694282 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7694215 CAAGCTTTGG
*
7694225 TAGTTTCACAAGTGTCTTACCATAACTGC
1 TAGTTTCACAAGTGTCTCACCATAACTGC
7694254 TAGTTTCACAAGTGTCTCACCATAACTGC
1 TAGTTTCACAAGTGTCTCACCATAACTGC
7694283 GTACTTTGTC
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:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
TAGTTTCACAAGTGTCTCACCATAACTGC
Found at i:7694826 original size:24 final size:24
Alignment explanation
Indices: 7694778--7694826 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7694768 TCGGACTGAG
* *
7694778 CTTTCCTTTCCTGCTTGGACTTAA
1 CTTTCCTTTCCTGCTTGAACGTAA
7694802 CTTTCCTTTCCTGC-TGAACCGTAA
1 CTTTCCTTTCCTGCTTGAA-CGTAA
7694826 C
1 C
7694827 ACTTTCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.14, C:0.33, G:0.12, T:0.41
Consensus pattern (24 bp):
CTTTCCTTTCCTGCTTGAACGTAA
Found at i:7700521 original size:21 final size:21
Alignment explanation
Indices: 7700481--7700539 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
7700471 ATACACCAAA
*
7700481 AGAAGCTTG-AA-AGCTAAAC
1 AGAAGCTTGTAAGAGCTGAAC
7700500 AGAAGCTTGTAAGAGCTGAAC
1 AGAAGCTTGTAAGAGCTGAAC
* *
7700521 AGAAGCTCGTGAGAGCTGA
1 AGAAGCTTGTAAGAGCTGA
7700540 TCCACCCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 24 0.69
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAAGCTTGTAAGAGCTGAAC
Found at i:7705792 original size:21 final size:22
Alignment explanation
Indices: 7705751--7705794 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
7705741 ATTTTAAAAA
*
7705751 TAATAATTTTAAATATCAATAT
1 TAATAATTTTAAATATAAATAT
7705773 TAAT-ATTTT-AATACTAAATAT
1 TAATAATTTTAAATA-TAAATAT
7705794 T
1 T
7705795 TATTACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTTTAAATATAAATAT
Found at i:7706809 original size:16 final size:16
Alignment explanation
Indices: 7706789--7706841 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
7706779 TTGGTTCGTT
*
7706789 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
7706805 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
7706821 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
7706837 GTAAT
1 GTAAT
7706842 AGGTAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:7706905 original size:44 final size:46
Alignment explanation
Indices: 7706823--7706911 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
7706813 ATAGATGCGT
* *
7706823 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGA
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGA
7706869 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATG
7706912 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
45 3 0.07
46 18 0.44
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGA
Found at i:7706912 original size:39 final size:44
Alignment explanation
Indices: 7706823--7706920 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 44
7706813 ATAGATGCGT
* *
7706823 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGA
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTT--ATGA
7706869 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGG-T-TG-
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGA
7706908 AATGGAATAGAGG
1 AATGGAATAGAGG
7706921 TGTAATAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
39 13 0.26
40 2 0.04
43 1 0.02
44 13 0.26
45 3 0.06
46 18 0.36
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGA
Found at i:7707174 original size:25 final size:25
Alignment explanation
Indices: 7707062--7707197 Score: 112
Period size: 25 Copynumber: 5.1 Consensus size: 25
7707052 ACATAATTAT
7707062 TATTAAATATAATTTAATTAAAATATA
1 TATTAAATATAATTTAA-TAAAA-ATA
* * * * *
7707089 TGAATTTACTAAAATCATAATATATAATA
1 T--ATTAAATATAAT-TTAATA-AAAATA
* *
7707118 CTATAAAATATAATTTAA-AATAATTA
1 -TATTAAATATAATTTAATAA-AAATA
7707144 TTATTAAATATAATTTAATAAAAATA
1 -TATTAAATATAATTTAATAAAAATA
*
7707170 TATTAAATATATTTTAATAAAAATA
1 TATTAAATATAATTTAATAAAAATA
7707195 TAT
1 TAT
7707198 AATTTAATAA
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
25 28 0.33
26 24 0.28
27 6 0.07
28 8 0.09
29 14 0.16
30 6 0.07
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
TATTAAATATAATTTAATAAAAATA
Found at i:7707195 original size:16 final size:17
Alignment explanation
Indices: 7707174--7707209 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
7707164 AAAATATATT
7707174 AAATATAT-TTTAATAA
1 AAATATATATTTAATAA
7707190 AAATATATAATTTAATAA
1 AAATATAT-ATTTAATAA
7707208 AA
1 AA
7707210 TTCTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:7707222 original size:15 final size:16
Alignment explanation
Indices: 7707202--7707231 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7707192 ATATATAATT
7707202 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
7707217 TAATAAATATTCTTA
1 TAATAAATATTCTTA
7707232 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:7711460 original size:17 final size:17
Alignment explanation
Indices: 7711438--7711472 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7711428 TTTAATACAC
7711438 ATATGTATAATATTTAA
1 ATATGTATAATATTTAA
* *
7711455 ATATGTTTATTATTTAA
1 ATATGTATAATATTTAA
7711472 A
1 A
7711473 ACTTAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATATGTATAATATTTAA
Found at i:7711645 original size:27 final size:27
Alignment explanation
Indices: 7711607--7711670 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
7711597 GGATTGCTAC
* * * *
7711607 AGGCGACACCAATGGTGCCAGTGGCAG
1 AGGCGGCACCAAAGGTGCCACTGCCAG
*
7711634 AGGCGGCACCAAAGGTGCCACTGCCAT
1 AGGCGGCACCAAAGGTGCCACTGCCAG
7711661 AGGCGGCACC
1 AGGCGGCACC
7711671 CCCCTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.34, T:0.09
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCACTGCCAG
Found at i:7711737 original size:30 final size:28
Alignment explanation
Indices: 7711697--7711764 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
7711687 TACCAATAAA
7711697 AGCCATTTTTTTCAAAATTTACCGAAATG
1 AGCCATTTTTTT-AAAATTTACCGAAATG
** *
7711726 AGCCGATTTTTTTATTATTTACCGGAATG
1 AGCC-ATTTTTTTAAAATTTACCGAAATG
*
7711755 TGCCATTTTT
1 AGCCATTTTT
7711765 CGCGAAATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.18
29 20 0.59
30 8 0.24
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (28 bp):
AGCCATTTTTTTAAAATTTACCGAAATG
Found at i:7712821 original size:49 final size:50
Alignment explanation
Indices: 7712765--7712874 Score: 134
Period size: 49 Copynumber: 2.2 Consensus size: 50
7712755 AAATAGTTTT
* *
7712765 AAAAATAAAATACCAAAAAAATATGTTTA-TGAAA-AAATAAAATACGAA
1 AAAAATAAAAAACCAAAAAAATATATTTACTGAAAGAAATAAAATACGAA
* * * * *
7712813 AAGAAATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATTCGAA
1 AA-AAATAAAAAACCAAAAAAATATATTTACTGAAAGAAATAAAATACGAA
7712864 AAAAATAAAAA
1 AAAAATAAAAA
7712875 TACGAACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.04
49 22 0.42
50 14 0.27
51 14 0.27
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.21
Consensus pattern (50 bp):
AAAAATAAAAAACCAAAAAAATATATTTACTGAAAGAAATAAAATACGAA
Found at i:7712880 original size:17 final size:17
Alignment explanation
Indices: 7712796--7712880 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
7712786 TATGTTTATG
7712796 AAAAAAT-AAAATACGA
1 AAAAAATAAAAATACGA
7712812 AAAGAAATAAAAA-ACGA
1 AAA-AAATAAAAATACGA
* * * **
7712829 AAATAGTATATTTACTGA
1 AAAAAATAAAAATAC-GA
** *
7712847 AAGTAAT-AAAATTCGA
1 AAAAAATAAAAATACGA
7712863 AAAAAATAAAAATACGA
1 AAAAAATAAAAATACGA
7712880 A
1 A
7712881 CAAAGGGCTA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
16 14 0.28
17 25 0.50
18 11 0.22
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAAATACGA
Found at i:7713149 original size:159 final size:158
Alignment explanation
Indices: 7712817--7713426 Score: 935
Period size: 158 Copynumber: 3.8 Consensus size: 158
7712807 TACGAAAAGA
* ** *
7712817 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAAC
* *
7712882 AAAGGGCTAAAATAAGGG-TTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTC
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATTTC
7712946 AAATATTATGTACTAAAATAATATAAAAT
131 AAA-ATTATGTACTAAAATAATATAAAAT
*
7712975 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATTC-AAAAATAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAA-AAGAAAAATACGAA
** * *
7713039 CAAATAGTCAAAATAAGGGTTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATT
65 CAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATT
7713103 TCAAACATTATGTACTAAAATAATATAAAAT
129 TCAAA-ATTATGTACTAAAATAATATAAAAT
*
7713134 AATAAAATACGAAAATAGTATA-TTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAAC
*
7713198 AAAGGGCCAAAATAA-GGTTTTTTACTAAATTTATATAAAAAAAACACACAAAAATAATACATTT
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAAACACACTAAAATAATACATTT
7713262 CAAAATTTATGTACTAAAATAATATAAAAT
130 CAAAA-TTATGTACTAAAATAATATAAAAT
* * *
7713292 AATAAAATACGAAAATAATATATTTTTTGAAAATAATAAAA-TCTGAAAATAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTC-GAAAAAAAGAAAAATACGAA
* *
7713356 CAAAGGGCCAAAGTAAGGGTTTTTTTAACTAAATTTACATAAAAAAACACACTAAAATAATACAT
65 CAAAGGGCCAAAATAAGGG-TTTTTT-ACTAAATTTATATAAAAAAACACACTAAAATAATACAT
7713421 TTCAAA
128 TTCAAA
7713427 GGCGCCAATG
Statistics
Matches: 414, Mismatches: 26, Indels: 21
0.90 0.06 0.05
Matches are distributed among these distances:
156 19 0.05
157 8 0.02
158 189 0.46
159 131 0.32
160 19 0.05
161 36 0.09
162 12 0.03
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.28
Consensus pattern (158 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATTTC
AAAATTATGTACTAAAATAATATAAAAT
Found at i:7713340 original size:16 final size:16
Alignment explanation
Indices: 7713287--7713348 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
7713277 AAAATAATAT
7713287 AAAATAATAAAATAC-G
1 AAAATAATAAAAT-CTG
** *
7713303 AAAATAATATATTTTTTG
1 AAAATAATA-A-AATCTG
7713321 AAAATAATAAAATCTG
1 AAAATAATAAAATCTG
*
7713337 AAAATAAGAAAA
1 AAAATAATAAAA
7713349 ATACGAACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 23 0.64
17 2 0.06
18 11 0.31
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (16 bp):
AAAATAATAAAATCTG
Found at i:7713376 original size:317 final size:319
Alignment explanation
Indices: 7712817--7713426 Score: 996
Period size: 317 Copynumber: 1.9 Consensus size: 319
7712807 TACGAAAAGA
* *
7712817 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAATAAAAATACGAAC
1 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
* *
7712882 AAAGGGCTAAAATAAGGGTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCA
66 AAAGGGCCAAAATAAGGGTTTTCACTAAATTTATATAAAAAAACACACAAAAATAATACATTTCA
* *
7712947 AATATTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAGTATATTTTTTGAAAGTAAT
131 AATATTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTTGAAAATAAT
* * *
7713012 AAAATTCAAAAATAAGAAAAATACGAACAAATAGTCAAAATAAGGGTTTTTTT-ACTAAATTTAT
196 AAAATTCAAAAATAAGAAAAATACGAACAAAGAGCCAAAATAAGGGTTTTTTTAACTAAATTTAC
*
7713076 AT-AAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
261 ATAAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
* *
7713134 AATAAAATACGAAAATAGTATATTT-TTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
1 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
* *
7713198 AAAGGGCCAAAATAAGGTTTTTTACTAAATTTATATAAAAAAAACACACAAAAATAATACATTTC
66 AAAGGGCCAAAATAAGGGTTTTCACTAAATTTATAT-AAAAAAACACACAAAAATAATACATTTC
*
7713263 AAA-ATTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAATA
130 AAATA-TTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTTGAAAATA
* * *
7713327 ATAAAA-TCTGAAAATAAGAAAAATACGAACAAAGGGCCAAAGTAAGGGTTTTTTTAACTAAATT
194 ATAAAATTC-AAAAATAAGAAAAATACGAACAAAGAGCCAAAATAAGGGTTTTTTTAACTAAATT
7713391 TACATAAAAAAACACACTAAAATAATACATTTCAAA
258 TACATAAAAAAACACACTAAAATAATACATTTCAAA
7713427 GGCGCCAATG
Statistics
Matches: 270, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
316 72 0.27
317 157 0.58
318 12 0.04
319 29 0.11
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.28
Consensus pattern (319 bp):
AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTCACTAAATTTATATAAAAAAACACACAAAAATAATACATTTCA
AATATTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTTGAAAATAAT
AAAATTCAAAAATAAGAAAAATACGAACAAAGAGCCAAAATAAGGGTTTTTTTAACTAAATTTAC
ATAAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
Found at i:7713812 original size:10 final size:10
Alignment explanation
Indices: 7713797--7713824 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7713787 GGTGCCGCCT
7713797 ATATAAAATA
1 ATATAAAATA
7713807 ATATAAAATA
1 ATATAAAATA
7713817 ATATAAAA
1 ATATAAAA
7713825 ATTAATACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATATAAAATA
Found at i:7714915 original size:38 final size:38
Alignment explanation
Indices: 7714864--7714939 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
7714854 AATCCGATTG
*
7714864 ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
1 ATGGTGTTTTGAGTGGTTTCTTCTTTAATGGAGTTATT
7714902 ATGGTGTTTTGAGTGGTTTCTTCTTTAATGGAGTTATT
1 ATGGTGTTTTGAGTGGTTTCTTCTTTAATGGAGTTATT
7714940 GAGGGTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.54
Consensus pattern (38 bp):
ATGGTGTTTTGAGTGGTTTCTTCTTTAATGGAGTTATT
Found at i:7715960 original size:21 final size:21
Alignment explanation
Indices: 7715936--7715976 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7715926 CAAAATTTAT
*
7715936 ATTTAAAAAAAAATTGTAAAG
1 ATTTAAAAAAAAATTCTAAAG
*
7715957 ATTTCAAAAAAAATTCTAAA
1 ATTTAAAAAAAAATTCTAAA
7715977 AAATATATAA
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:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
ATTTAAAAAAAAATTCTAAAG
Found at i:7720343 original size:13 final size:13
Alignment explanation
Indices: 7720325--7720350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7720315 AATTTCACAT
7720325 CTTCAATAATTCA
1 CTTCAATAATTCA
7720338 CTTCAATAATTCA
1 CTTCAATAATTCA
7720351 ATTATCCGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
CTTCAATAATTCA
Found at i:7722227 original size:30 final size:28
Alignment explanation
Indices: 7722193--7722248 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
7722183 GTGATTAAAT
7722193 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
7722223 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
7722249 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:7725125 original size:80 final size:80
Alignment explanation
Indices: 7725020--7725205 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
7725010 AGTAACTCAT
* * *
7725020 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
7725083 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
7725099 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
7725164 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
7725180 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
7725206 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:7725165 original size:40 final size:40
Alignment explanation
Indices: 7725022--7725205 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
7725012 TAACTCATAC
* *
7725022 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
7725062 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
7725102 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
7725142 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
7725183 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
7725206 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:7727340 original size:20 final size:19
Alignment explanation
Indices: 7727312--7727361 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
7727302 CCACTCTCAA
7727312 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
7727333 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
7727352 T-TCTTTTTCT
1 TCTCTTTTTCT
7727362 GTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:7727346 original size:18 final size:17
Alignment explanation
Indices: 7727318--7727361 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
7727308 TCAATCTCTT
7727318 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
7727337 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
7727355 TTTTTCT
1 TTTTTCT
7727362 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:7733808 original size:23 final size:21
Alignment explanation
Indices: 7733769--7733815 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
7733759 ATTATATGAA
7733769 TTAGGATGTTTGAAATGGTATGT
1 TTAGGATGTTTGAAAT-G-ATGT
7733792 TTAGGAGTGTTTG-AATGATGT
1 TTAGGA-TGTTTGAAATGATGT
7733813 TTA
1 TTA
7733816 AATCCCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 1 0.04
23 9 0.39
24 6 0.26
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TTAGGATGTTTGAAATGATGT
Found at i:7748218 original size:18 final size:17
Alignment explanation
Indices: 7748181--7748214 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7748171 GACTCAAACC
7748181 TTAGACCTTTTTATAAA
1 TTAGACCTTTTTATAAA
* *
7748198 TTAGTCCTTTTTCTAAA
1 TTAGACCTTTTTATAAA
7748215 ATTATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (17 bp):
TTAGACCTTTTTATAAA
Found at i:7748584 original size:18 final size:17
Alignment explanation
Indices: 7748551--7748584 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7748541 CCACTATCTA
*
7748551 TATTTTATTCATTATGT
1 TATTTTATTCAATATGT
7748568 TATTTTATTTCAATATG
1 TATTTTA-TTCAATATG
7748585 AATTAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTTATTCAATATGT
Found at i:7764802 original size:45 final size:46
Alignment explanation
Indices: 7764735--7764858 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7764725 CATATGACCT
*
7764735 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7764778 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7764824 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7764859 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:7764862 original size:37 final size:37
Alignment explanation
Indices: 7764820--7765033 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
7764810 AGCTGAAGCT
* **
7764820 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
7764857 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7764894 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7764931 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7764968 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7765005 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
7765034 AGTACTCAAA
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:7767608 original size:26 final size:26
Alignment explanation
Indices: 7767559--7767608 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7767549 TAAATCAAAT
* **
7767559 ATATATTATAAAATTTTATAAAAACA
1 ATATATTATAAAAATACATAAAAACA
*
7767585 ATATATTATAAAAATACATGAAAA
1 ATATATTATAAAAATACATAAAAA
7767609 TTTTTAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
ATATATTATAAAAATACATAAAAACA
Found at i:7779549 original size:17 final size:17
Alignment explanation
Indices: 7779529--7779571 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
7779519 TATTAAATAT
7779529 ATATTATTTTTAATCAA
1 ATATTATTTTTAATCAA
7779546 ATA-TACTTTTTAATCAA
1 ATATTA-TTTTTAATCAA
7779563 ATATATATT
1 ATAT-TATT
7779572 AAATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 17 0.74
18 2 0.09
19 2 0.09
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTTTTAATCAA
Found at i:7779569 original size:19 final size:17
Alignment explanation
Indices: 7779535--7779567 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7779525 ATATATATTA
7779535 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
7779552 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
7779568 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:7782235 original size:20 final size:20
Alignment explanation
Indices: 7782206--7782245 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7782196 CAAAAAGGGA
*
7782206 AAAATAGTAATTTTTTCATT
1 AAAATAGTAATTTTATCATT
*
7782226 AAAATGGTAATTTTATCATT
1 AAAATAGTAATTTTATCATT
7782246 TACAAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
AAAATAGTAATTTTATCATT
Found at i:7784760 original size:21 final size:23
Alignment explanation
Indices: 7784720--7784762 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
7784710 ATAGCCATTT
7784720 AATTTACAATTATATCAATTCAA
1 AATTTACAATTATATCAATTCAA
*
7784743 AATTTACCA-TAT-TCAATTCA
1 AATTTACAATTATATCAATTCA
7784763 TCAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTACAATTATATCAATTCAA
Found at i:7788965 original size:78 final size:78
Alignment explanation
Indices: 7788850--7789163 Score: 610
Period size: 78 Copynumber: 4.0 Consensus size: 78
7788840 TTTATGACTT
*
7788850 TGAATTATGATTAAACATAATTTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
1 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
7788915 TGTTGTTTAAGGA
66 TGTTGTTTAAGGA
7788928 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
1 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
7788993 TGTTGTTTAAGGA
66 TGTTGTTTAAGGA
7789006 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
1 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
7789071 TGTTGTTTAAGGA
66 TGTTGTTTAAGGA
7789084 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
1 TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
*
7789149 TGGTGTTTAAGGA
66 TGTTGTTTAAGGA
7789162 TG
1 TG
7789164 TTTTAGAGTG
Statistics
Matches: 234, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 234 1.00
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (78 bp):
TGAATTATGATTAAACATAAATTAGAAATTTTTTAAATGATTTGGAACCATGAGTTATGGTTTAA
TGTTGTTTAAGGA
Found at i:7794234 original size:21 final size:21
Alignment explanation
Indices: 7794194--7794234 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7794184 TTATATGTGT
* * *
7794194 AATTAAGCTTTACTTGATCAA
1 AATTAACCTTTAATTAATCAA
7794215 AATTAACCTTTAATTAATCA
1 AATTAACCTTTAATTAATCA
7794235 TTTCCTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTAACCTTTAATTAATCAA
Found at i:7812343 original size:41 final size:41
Alignment explanation
Indices: 7812261--7812440 Score: 229
Period size: 41 Copynumber: 4.4 Consensus size: 41
7812251 TTCATTGCTA
*
7812261 TCCTTTTCAACCTTTTCA-TTGATATCCTTTTCGGATTACG
1 TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAACG
*
7812301 TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGAATAACG
1 TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAACG
* * **
7812342 TCCTCTTCAACATTTTCATTTGATATCCTTTTCGGAT-ATT
1 TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAACG
* * * * * *
7812382 TCTTTTTCAACCTTTTCATGTGTTATCCCTTTCGGGTAACT
1 TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAACG
*
7812423 TCCTTTTCAACATTTTCA
1 TCCTTTTCAACCTTTTCA
7812441 AGTATTCAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 49 0.40
41 72 0.60
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.48
Consensus pattern (41 bp):
TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAACG
Found at i:7812409 original size:81 final size:81
Alignment explanation
Indices: 7812261--7812440 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
7812251 TTCATTGCTA
* *
7812261 TCCTTTTCAACCTTTTCATTGATATCCTTTTCGGATTACGTCCTTTTCAACCTTTTCATTTGATA
1 TCCTTTTCAACATTTTCATTGATATCCTTTTCGGATTACGTCCTTTTCAACCTTTTCATGTGATA
*
7812326 TCCTTTTCGAATAACG
66 TCCCTTTCGAATAACG
* ** * *
7812342 TCCTCTTCAACATTTTCATTTGATATCCTTTTCGGA-TATTTCTTTTTCAACCTTTTCATGTGTT
1 TCCTTTTCAACATTTTCA-TTGATATCCTTTTCGGATTACGTCCTTTTCAACCTTTTCATGTGAT
** *
7812406 ATCCCTTTCGGGTAACT
65 ATCCCTTTCGAATAACG
7812423 TCCTTTTCAACATTTTCA
1 TCCTTTTCAACATTTTCA
7812441 AGTATTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 69 0.80
82 17 0.20
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.48
Consensus pattern (81 bp):
TCCTTTTCAACATTTTCATTGATATCCTTTTCGGATTACGTCCTTTTCAACCTTTTCATGTGATA
TCCCTTTCGAATAACG
Found at i:7814086 original size:47 final size:47
Alignment explanation
Indices: 7814017--7814114 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
7814007 GTCCAAATAA
7814017 TTAACGTGGTTAATAATTTCATTTAAAATGTTGAGGTGGGTTTTTTC
1 TTAACGTGGTTAATAATTTCATTTAAAATGTTGAGGTGGGTTTTTTC
7814064 TTAACGTGGTTAATAATTTCATTTAAAATGTTGAGGTGGGTTTTTTC
1 TTAACGTGGTTAATAATTTCATTTAAAATGTTGAGGTGGGTTTTTTC
7814111 TTAA
1 TTAA
7814115 ACATACTCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (47 bp):
TTAACGTGGTTAATAATTTCATTTAAAATGTTGAGGTGGGTTTTTTC
Found at i:7814528 original size:27 final size:27
Alignment explanation
Indices: 7814487--7814553 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
7814477 CTAGTATTAG
*
7814487 ATAATAATAAAAAACTGA-ACACATCAA
1 ATAATAATAATAAACT-ATACACATCAA
7814514 ATAATAATAATAAACTATACACATCAA
1 ATAATAATAATAAACTATACACATCAA
7814541 ATAATAATAATAA
1 ATAATAATAATAA
7814554 CTCCTAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.63, C:0.12, G:0.01, T:0.24
Consensus pattern (27 bp):
ATAATAATAATAAACTATACACATCAA
Found at i:7814706 original size:18 final size:17
Alignment explanation
Indices: 7814683--7814730 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
7814673 TAAAAATTAG
7814683 ATTTAATTTAATTAAAAT
1 ATTTAATTT-ATTAAAAT
*
7814701 ATTTAA-TTATAAAAAT
1 ATTTAATTTATTAAAAT
*
7814717 ATTTTATTTTATTA
1 A-TTTAATTTATTA
7814731 TTTTTAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATTTATTAAAAT
Found at i:7817354 original size:223 final size:223
Alignment explanation
Indices: 7816943--7817387 Score: 773
Period size: 223 Copynumber: 2.0 Consensus size: 223
7816933 TGGTAAATCG
*
7816943 AAATTGGGATCCATGATCCTGTTCACTGAAAGTATTTGATAATTCGAGCGCATGTTGAACATGTC
1 AAATTGGGATCCACGATCCTGTTCACTGAAAGTATTTGATAATTCGAGCGCATGTTGAACATGTC
* *
7817008 AATAAATTGAGAAAGTATTGAATTATGACTATGTATGAGATTATATGACATGTTGCATGTGCATT
66 AATAAATTAAGAAAGTATTGAATTATGACTATGTATGAGATTATATGACATATTGCATGTGCATT
* * *
7817073 GGGGTGGGTTATCATTGTGGTTGACGGAGGAGTTCCGTAGTGTAAGAACAGTATATTAAGTCCAC
131 GGGGTGGGTTATCATTGTGGTTGACGAAGGAGTTCCGTAGAGTAAGAACAGCATATTAAGTCCAC
7817138 ATTTATTTGTAATCAGTGCACTGCACCA
196 ATTTATTTGTAATCAGTGCACTGCACCA
* *
7817166 AAATTGGGATCCACGATCCTGTTCACTGAAAGTATTTGATAATTCGAGGGCATGTTGAACTTGTC
1 AAATTGGGATCCACGATCCTGTTCACTGAAAGTATTTGATAATTCGAGCGCATGTTGAACATGTC
*
7817231 AATAAATTAAGAAAGTATTGAATTATGACTATGTATGAGATTGTATGACATATTGCATGTGCATT
66 AATAAATTAAGAAAGTATTGAATTATGACTATGTATGAGATTATATGACATATTGCATGTGCATT
* * *
7817296 GGGGTGGGTTATCATTGTGGTTGACGAAGGAGTTTCGTGGAGTATGAACAGCATATTAAGTCCAC
131 GGGGTGGGTTATCATTGTGGTTGACGAAGGAGTTCCGTAGAGTAAGAACAGCATATTAAGTCCAC
*
7817361 ATTTATTTGTAATCAGTGCAGTGCACC
196 ATTTATTTGTAATCAGTGCACTGCACC
7817388 TGGAGTACTG
Statistics
Matches: 209, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
223 209 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (223 bp):
AAATTGGGATCCACGATCCTGTTCACTGAAAGTATTTGATAATTCGAGCGCATGTTGAACATGTC
AATAAATTAAGAAAGTATTGAATTATGACTATGTATGAGATTATATGACATATTGCATGTGCATT
GGGGTGGGTTATCATTGTGGTTGACGAAGGAGTTCCGTAGAGTAAGAACAGCATATTAAGTCCAC
ATTTATTTGTAATCAGTGCACTGCACCA
Found at i:7821858 original size:36 final size:36
Alignment explanation
Indices: 7821788--7821861 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
7821778 GGAAGAGCAC
* *
7821788 ATCAGTTAGAATAGATTCAAAAAGGTGTTGAACTGA
1 ATCAGTTAGAATAGATTCAAAAAGGTGCTAAACTGA
*
7821824 ATCAGTTAGAATAGATTC-GAAAGGCTGCTAAACTGA
1 ATCAGTTAGAATAGATTCAAAAAGG-TGCTAAACTGA
7821860 AT
1 AT
7821862 AGAGTTTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (36 bp):
ATCAGTTAGAATAGATTCAAAAAGGTGCTAAACTGA
Found at i:7826122 original size:7 final size:7
Alignment explanation
Indices: 7826110--7826139 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7826100 TTCATTTCCA
7826110 TTTTAAT
1 TTTTAAT
7826117 TTTTAAT
1 TTTTAAT
7826124 TTTTAA-
1 TTTTAAT
7826130 TTTTAAT
1 TTTTAAT
7826137 TTT
1 TTT
7826140 ATGTTCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:7826133 original size:13 final size:14
Alignment explanation
Indices: 7826110--7826139 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7826100 TTCATTTCCA
7826110 TTTTAATTTTTAAT
1 TTTTAATTTTTAAT
7826124 TTTTAA-TTTTAAT
1 TTTTAATTTTTAAT
7826137 TTT
1 TTT
7826140 ATGTTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTAATTTTTAAT
Found at i:7827712 original size:37 final size:37
Alignment explanation
Indices: 7827662--7827740 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
7827652 TTATTACGAA
* *
7827662 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
7827699 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
7827736 GTCTT
1 GTCTT
7827741 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Done.