Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 26 of 333
Found at i:7443361 original size:20 final size:19
Alignment explanation
Indices: 7443277--7443393 Score: 57
Period size: 18 Copynumber: 6.3 Consensus size: 19
7443267 TAATTTTTTT
7443277 ATAATTTATAAT-TTTT-TA
1 ATAATTT-TAATATTTTGTA
* *
7443295 ATAATTTT-ATAATTTATA
1 ATAATTTTAATATTTTGTA
* *
7443313 CTAATTATTAA-ATTTGGTA
1 ATAATT-TTAATATTTTGTA
*** *
7443332 GCCATGTTAATATTTTGTA
1 ATAATTTTAATATTTTGTA
*
7443351 ATAATTATTAATATATT-T-
1 ATAATT-TTAATATTTTGTA
*
7443369 ATAATTTTTATAGTTTTGTA
1 ATAATTTTAATA-TTTTGTA
*
7443389 CTAAT
1 ATAAT
7443394 CAAAATGAAT
Statistics
Matches: 72, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
16 2 0.03
17 9 0.12
18 27 0.38
19 20 0.28
20 14 0.19
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
ATAATTTTAATATTTTGTA
Found at i:7443379 original size:21 final size:20
Alignment explanation
Indices: 7443256--7443373 Score: 56
Period size: 18 Copynumber: 6.2 Consensus size: 20
7443246 ATTTTTAAGA
*
7443256 ATAATAAGTATTAAT-TTTT
1 ATAATAATTATTAATATTTT
*
7443275 -TTATAATT-TATAAT-TTTT
1 ATAATAATTAT-TAATATTTT
*
7443293 -TAATAATT-TT-ATAATTT
1 ATAATAATTATTAATATTTT
* *
7443310 ATACTAATTATTAA-ATTTG
1 ATAATAATTATTAATATTTT
* *** *
7443329 GTAGCCA-TGTTAATATTTT
1 ATAATAATTATTAATATTTT
*
7443348 GTAATAATTATTAATATATTT
1 ATAATAATTATTAATAT-TTT
7443369 ATAAT
1 ATAAT
7443374 TTTTATAGTT
Statistics
Matches: 73, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
16 2 0.03
17 5 0.07
18 34 0.47
19 16 0.22
20 9 0.12
21 7 0.10
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
ATAATAATTATTAATATTTT
Found at i:7448187 original size:8 final size:7
Alignment explanation
Indices: 7448172--7448235 Score: 65
Period size: 7 Copynumber: 8.7 Consensus size: 7
7448162 GTTAAATCTG
7448172 AATTTAA
1 AATTTAA
7448179 AATTTTAA
1 AA-TTTAA
* *
7448187 AAATAAA
1 AATTTAA
*
7448194 AATTCTTA
1 AATT-TAA
*
7448202 AATATAAA
1 AAT-TTAA
7448210 AATTTAA
1 AATTTAA
7448217 AATTTAA
1 AATTTAA
7448224 AATTTAA
1 AATTTAA
7448231 AATTT
1 AATTT
7448236 TTGAAGAGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 30 0.65
8 15 0.33
9 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (7 bp):
AATTTAA
Found at i:7448249 original size:38 final size:38
Alignment explanation
Indices: 7448172--7448248 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 38
7448162 GTTAAATCTG
*
7448172 AATTTAAAATTTTAAAAATAAAAATTCTTAAATATAAA
1 AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
* * * * *
7448210 AATTTAAAA-TTTAAAATTTAAAATTTTTGAAGAGAAA
1 AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
7448247 AA
1 AA
7448249 AACTTATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (38 bp):
AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
Found at i:7449792 original size:13 final size:13
Alignment explanation
Indices: 7449774--7449811 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
7449764 TTAATAAAAA
*
7449774 ATATATTTAATAT
1 ATATATTAAATAT
7449787 ATATATTAAATAT
1 ATATATTAAATAT
*
7449800 ATTTA-TAAATAT
1 ATATATTAAATAT
7449812 CAAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATTAAATAT
Found at i:7451936 original size:31 final size:32
Alignment explanation
Indices: 7451891--7451957 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
7451881 TTTTTGCAAT
*
7451891 TATACATATTAAATTTTGATTTTGATTCAAATG
1 TATACATA-TAAATTTTAATTTTGATTCAAATG
*
7451924 TATACATA-AAATTTTAATTTTGATTTAAATG
1 TATACATATAAATTTTAATTTTGATTCAAATG
7451955 TAT
1 TAT
7451958 GAATTTAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 24 0.75
33 8 0.25
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (32 bp):
TATACATATAAATTTTAATTTTGATTCAAATG
Found at i:7452385 original size:20 final size:20
Alignment explanation
Indices: 7452349--7452398 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7452339 TTTTAATTAT
*
7452349 TATATTTTA-ATACTTAAAA
1 TATAATTTATATACTTAAAA
* *
7452368 TATAATTTATATATTTAAAT
1 TATAATTTATATACTTAAAA
*
7452388 TAAAATTTATA
1 TATAATTTATA
7452399 AATAGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTATATACTTAAAA
Found at i:7457484 original size:23 final size:23
Alignment explanation
Indices: 7457465--7457518 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
7457455 TGTATACACG
7457465 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
7457488 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
7457510 TAC-TAATAA
1 TACATAATAA
7457519 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:7457499 original size:3 final size:3
Alignment explanation
Indices: 7457468--7457538 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
7457458 ATACACGTAC
* * * *
7457468 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
7457515 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7457539 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7458024 original size:11 final size:12
Alignment explanation
Indices: 7458004--7458041 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
7457994 AGAAAAAAAA
7458004 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
7458017 GAAGAGAGAAGG
1 GAAGAGAGAAGG
7458029 G-AGAGAGAAGG
1 GAAGAGAGAAGG
7458040 GA
1 GA
7458042 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:7458153 original size:10 final size:10
Alignment explanation
Indices: 7458140--7458168 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7458130 AAAAAAATAT
7458140 TTTTTTTTTC
1 TTTTTTTTTC
7458150 TTTTTTTTTC
1 TTTTTTTTTC
7458160 TTTTTTTTT
1 TTTTTTTTT
7458169 GCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:7458543 original size:8 final size:8
Alignment explanation
Indices: 7458530--7458554 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7458520 GGTGTTCGGC
7458530 GCAAGTGG
1 GCAAGTGG
7458538 GCAAGTGG
1 GCAAGTGG
7458546 GCAAGTGG
1 GCAAGTGG
7458554 G
1 G
7458555 GGTAGGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:7469593 original size:3 final size:3
Alignment explanation
Indices: 7469562--7469635 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
7469552 ATACACGTAC
* * *
7469562 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7469609 CTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7469636 CAAGGATATT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7470118 original size:13 final size:12
Alignment explanation
Indices: 7470100--7470137 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
7470090 AGAAAAAAAA
7470100 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
7470113 GAAGAGAGAAGG
1 GAAGAGAGAAGG
*
7470125 G-AGAGAAAAGG
1 GAAGAGAGAAGG
7470136 GA
1 GA
7470138 GGGGAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 4 0.17
13 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:7470259 original size:10 final size:9
Alignment explanation
Indices: 7470244--7470269 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7470234 GTAAAAAATA
7470244 TTTTTTTTC
1 TTTTTTTTC
7470253 TTTTTTTTC
1 TTTTTTTTC
7470262 TTTTTTTT
1 TTTTTTTT
7470270 GCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:7470643 original size:8 final size:8
Alignment explanation
Indices: 7470630--7470654 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7470620 GGTGTTCGGC
7470630 GCAAGTGG
1 GCAAGTGG
7470638 GCAAGTGG
1 GCAAGTGG
7470646 GCAAGTGG
1 GCAAGTGG
7470654 G
1 G
7470655 GGTAGGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:7474373 original size:102 final size:100
Alignment explanation
Indices: 7474197--7474384 Score: 252
Period size: 99 Copynumber: 1.9 Consensus size: 100
7474187 TTTCTTTAAT
* * * *
7474197 TTTGGGACACTGATGGCCGGCACCAGTGTCAATTAAAAAAAATTGGGTGTTGGCCAGAAGATGAC
1 TTTGGGACACTGATGGCAGGCACAAATGTCAATTAAAAAAAATTGGGTGCTGGCCAGAAGATGAC
*
7474262 CGGCACCAAGTAC-ATTTTTTGCAATTTTTTTTAC
66 CGACACCAAGTACAATTTTTTGCAATTTTTTTTAC
* *
7474296 TTTGGGACACTGATGGCAGGCAGAAATGTCAATTAAAAAAATATTTTGGGTGCTGGCCAGTAGAT
1 TTTGGGACACTGATGGCAGGCACAAATGTCAATTAAAAAAA-A--TTGGGTGCTGGCCAGAAGAT
***
7474361 GGTTGACACCAAGTACAATTTTTT
63 GACCGACACCAAGTACAATTTTTT
7474385 AGGTTCCAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
99 37 0.49
100 1 0.01
102 30 0.40
103 7 0.09
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (100 bp):
TTTGGGACACTGATGGCAGGCACAAATGTCAATTAAAAAAAATTGGGTGCTGGCCAGAAGATGAC
CGACACCAAGTACAATTTTTTGCAATTTTTTTTAC
Found at i:7474665 original size:12 final size:12
Alignment explanation
Indices: 7474650--7474675 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7474640 TCCATTTGAG
7474650 TTTTTGTTTGCT
1 TTTTTGTTTGCT
7474662 TTTTTGTTTGCT
1 TTTTTGTTTGCT
7474674 TT
1 TT
7474676 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:7477612 original size:44 final size:44
Alignment explanation
Indices: 7477562--7477713 Score: 241
Period size: 44 Copynumber: 3.5 Consensus size: 44
7477552 TTCTTATTCC
* *
7477562 TAATTTAAAACACATTAAATTATAATACAATTTACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* * *
7477606 TAATTTAGAGCACATTAAATTACAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
7477650 TATTTTAAAACACATTAAATTATAATACAACATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
7477694 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
7477714 GAAACAAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 97 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.36
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:7477708 original size:22 final size:22
Alignment explanation
Indices: 7477639--7477708 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
7477629 AATACAATAT
*
7477639 ACATACATATTTATTTTAAAAC
1 ACATACATATTTAATTTAAAAC
** * *
7477661 ACATTA-A-ATTATAATACAACAT
1 ACA-TACATATT-TAATTTAAAAC
7477683 ACATACATATTTAATTTAAAAC
1 ACATACATATTTAATTTAAAAC
7477705 ACAT
1 ACAT
7477709 TAAATGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 5 0.14
22 25 0.71
23 5 0.14
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
ACATACATATTTAATTTAAAAC
Found at i:7477992 original size:6 final size:6
Alignment explanation
Indices: 7477977--7478027 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
7477967 AAGATAATTT
* * * *
7477977 AAAT-G AAATGG AAATGA AAATGA AAATGG AAAT-G AAGTGG AAATAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
7478023 AAATG
1 AAATG
7478028 AAAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
5 8 0.21
6 30 0.79
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:7477996 original size:50 final size:49
Alignment explanation
Indices: 7477746--7477990 Score: 369
Period size: 50 Copynumber: 5.1 Consensus size: 49
7477736 AAATTAATAT
* * *
7477746 GAAAAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
7477796 GAAAAAAAATTAAATTTAAATGGAAAAAAA-ATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
*
7477844 G-AAAAAAATTAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
*
7477892 GAAACAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAA-AAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
7477942 G--AAAAAA--AAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATG-
1 GAAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGA
7477987 GAAA
1 GAAA
7477991 TGAAAATGAA
Statistics
Matches: 182, Mismatches: 7, Indels: 15
0.89 0.03 0.07
Matches are distributed among these distances:
45 13 0.07
46 24 0.13
47 33 0.18
48 39 0.21
49 20 0.11
50 53 0.29
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.22
Consensus pattern (49 bp):
GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
Found at i:7478010 original size:96 final size:95
Alignment explanation
Indices: 7477744--7477990 Score: 376
Period size: 96 Copynumber: 2.6 Consensus size: 95
7477734 AAAAATTAAT
* *
7477744 ATGA-AAAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATTA
1 ATGAGAAAAAAA--TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTA
7477808 AATTTAAATGGAAAAAAAATAATTTAAATGAA
64 AATTTAAATGGAAAAAAAATAATTTAAATGAA
*
7477840 ATGAGAAAAAAATTAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAATTA
1 ATGAGAAAAAAA-TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAA-AAAAATTA
*
7477905 AATTTAAATGGAAAGAAAGATAATTTAAATGAA
64 AATTTAAATGGAAA-AAAAATAATTTAAATGAA
7477938 ATGAG-AAAAAA-AAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATG-GAAA
1 ATGAGAAAAAAATAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGAGAAA
7477991 TGAAAATGAA
Statistics
Matches: 141, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
95 15 0.11
96 69 0.49
97 35 0.25
98 22 0.16
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (95 bp):
ATGAGAAAAAAATAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAA
TTTAAATGGAAAAAAAATAATTTAAATGAA
Found at i:7478208 original size:25 final size:25
Alignment explanation
Indices: 7478174--7478239 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
7478164 TGAAATGAGA
7478174 AAAATTTTGAATTTAAATGAAATTT
1 AAAATTTTGAATTTAAATGAAATTT
* ** *
7478199 AAAATTTTGAAATGGAATGATATTT
1 AAAATTTTGAATTTAAATGAAATTT
*
7478224 -AAA-TTTCAATTTAAAT
1 AAAATTTTGAATTTAAAT
7478240 AAGATATGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
23 9 0.27
24 3 0.09
25 21 0.64
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (25 bp):
AAAATTTTGAATTTAAATGAAATTT
Found at i:7478329 original size:22 final size:20
Alignment explanation
Indices: 7478295--7478353 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
7478285 AATTAATATG
7478295 AAAAAAATATGAAATGAATTGAA
1 AAAAAAAT-TGAAATGAA-T-AA
*
7478318 AAAAAAATTGAATTGAATAA
1 AAAAAAATTGAAATGAATAA
* *
7478338 AGATAAATTGAAATGA
1 AAAAAAATTGAAATGA
7478354 GACTACTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 15 0.47
21 1 0.03
22 8 0.25
23 8 0.25
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAAAAATTGAAATGAATAA
Found at i:7478331 original size:17 final size:20
Alignment explanation
Indices: 7478309--7478349 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
7478299 AAATATGAAA
7478309 TGAATTGAA-AAA-A-AAAT
1 TGAATTGAATAAAGATAAAT
7478326 TGAATTGAATAAAGATAAAT
1 TGAATTGAATAAAGATAAAT
7478346 TGAA
1 TGAA
7478350 ATGAGACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 3 0.14
19 1 0.05
20 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (20 bp):
TGAATTGAATAAAGATAAAT
Found at i:7478429 original size:5 final size:5
Alignment explanation
Indices: 7478419--7478457 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
7478409 AAAAATAATT
7478419 AATGA AATGA AATGA AATGTTA AATGA ATATGA AATGA A
1 AATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA A
7478458 TGATGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (5 bp):
AATGA
Found at i:7478463 original size:18 final size:19
Alignment explanation
Indices: 7478442--7478479 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7478432 GAAATGTTAA
7478442 ATGAATATGAAAT-GAATG
1 ATGAATATGAAATGGAATG
* *
7478460 ATGATTTTGAAATGGAATG
1 ATGAATATGAAATGGAATG
7478479 A
1 A
7478480 AAGTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.32
Consensus pattern (19 bp):
ATGAATATGAAATGGAATG
Found at i:7478541 original size:34 final size:32
Alignment explanation
Indices: 7478503--7478572 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
7478493 AATAAATTAT
* *
7478503 AAATTGAAATGGAAACAAAAACTGAAATGGAATA
1 AAATTGAAAT-GAAA-AAAAAATGAAATGGAAAA
*
7478537 AAATTGAAATGAAAAAAAAATTAAATGGAAAA
1 AAATTGAAATGAAAAAAAAATGAAATGGAAAA
7478569 AAAT
1 AAAT
7478573 AATTTAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 19 0.58
33 4 0.12
34 10 0.30
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (32 bp):
AAATTGAAATGAAAAAAAAATGAAATGGAAAA
Found at i:7478544 original size:16 final size:16
Alignment explanation
Indices: 7478503--7478572 Score: 79
Period size: 16 Copynumber: 4.2 Consensus size: 16
7478493 AATAAATTAT
7478503 AAATTGAAATGGAAACAA
1 AAATTGAAATGG-AA-AA
* *
7478521 AAACTGAAATGGAATA
1 AAATTGAAATGGAAAA
*
7478537 AAATTGAAATGAAAAAA
1 AAATTGAAATG-GAAAA
7478554 AAATT-AAATGGAAAA
1 AAATTGAAATGGAAAA
7478569 AAAT
1 AAAT
7478573 AATTTAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
15 8 0.18
16 16 0.36
17 10 0.22
18 11 0.24
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (16 bp):
AAATTGAAATGGAAAA
Found at i:7478576 original size:18 final size:17
Alignment explanation
Indices: 7478503--7478582 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 17
7478493 AATAAATTAT
7478503 AAATTGAAATGGAAACAAA
1 AAATT-AAATGGAAA-AAA
* * *
7478522 AACTGAAATGG--AATA
1 AAATTAAATGGAAAAAA
7478537 AAATTGAAAT-GAAAAAA
1 AAATT-AAATGGAAAAAA
7478554 AAATTAAATGGAAAAAA
1 AAATTAAATGGAAAAAA
7478571 ATAATTTAAATG
1 A-AA-TTAAATG
7478583 AAATGGAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 6 0.12
16 9 0.18
17 16 0.33
18 8 0.16
19 10 0.20
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (17 bp):
AAATTAAATGGAAAAAA
Found at i:7478579 original size:19 final size:18
Alignment explanation
Indices: 7478503--7478582 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 18
7478493 AATAAATTAT
* *
7478503 AAATTGAAATGGAAACAA
1 AAATTTAAATGGAAAAAA
* * *
7478521 AAACTGAAATGG--AATA
1 AAATTTAAATGGAAAAAA
*
7478537 AAATTGAAAT-GAAAAAA
1 AAATTTAAATGGAAAAAA
7478554 AAA-TTAAATGGAAAAAA
1 AAATTTAAATGGAAAAAA
7478571 ATAATTTAAATG
1 A-AATTTAAATG
7478583 AAATGGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.02
16 16 0.31
17 14 0.27
18 13 0.25
19 7 0.14
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (18 bp):
AAATTTAAATGGAAAAAA
Found at i:7478613 original size:5 final size:6
Alignment explanation
Indices: 7478578--7478610 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7478568 AAAATAATTT
7478578 AAAT-G AAATGG AAATGG AAATGG AAAT-G AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
7478611 AAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:7481357 original size:91 final size:89
Alignment explanation
Indices: 7481175--7481502 Score: 390
Period size: 91 Copynumber: 3.7 Consensus size: 89
7481165 AGTCTAGAAT
* * * * * * **
7481175 ATTAATACACAAAAATATAAAATTCAAAC-AAAAATAATGCACACTAAATTAAA-TTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCC
*
7481238 AACAAACTATAAACAGATAGGTAAA
66 AACAAACTACAAACAGAT-GGTAAA
*
7481263 ATTAATACACGAAAATTTTAAATTCAAACTGCATATAATACGGACTAAATTAAATTTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCC
7481328 AAACAAACTACAAACAGATGGATAAA
66 -AACAAACTACAAACAGATGG-TAAA
* * * * * * * ** * *
7481354 ATTAGTGCACCAAATTTTTAAAATTTAAACTATATATAACATAGACTAAATTGAATTTAAGCACC
1 ATTAATACACGAAAATTTT-AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACC
7481419 CAACAAACTACAAACAGATGGGTAAA
65 CAACAAACTACAAACAGAT-GGTAAA
**
7481445 ATTAATACTTGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTA
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTA
7481503 TAAATACAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
88 26 0.13
89 18 0.09
90 45 0.22
91 71 0.35
92 40 0.20
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (89 bp):
ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATGGTAAA
Found at i:7481840 original size:112 final size:112
Alignment explanation
Indices: 7481659--7481865 Score: 258
Period size: 112 Copynumber: 1.8 Consensus size: 112
7481649 GGTGGTATCA
* * * * * * * *
7481659 GCCATCAGTGTTCCAAAGTAAAAAAAAAATTGCATTTGGAGTCAAAAATGTACTTGGTGCCGGCT
1 GCCATCAGTGTCCCAAAATAAAAAAAAAAGTGCATTGGGAGTCAAAAATGTACCTGATGCCGACC
*
7481724 ATCTACTTGCCAGCA-CC-AATTTTTTTTTAAATGACATTGGTGCCG
66 ATCTACTAGCCAGCACCCAAATTTTTTTTTAAATGACATTGGTGCCG
* **
7481769 GCCATTAGTGTCCCAAAATAATAAAAAAAAGTG-ACTTGGGAGTCGAAATTTGTACCTGATGCCG
1 GCCATCAGTGTCCCAAAATAA-AAAAAAAAGTGCA-TTGGGAGTC-AAAAATGTACCTGATGCCG
7481833 ACCATCTACTAGCCAGCACCCAAATTTTTTTTT
63 ACCATCTACTAGCCAGCACCCAAATTTTTTTTT
7481866 TTAAATGTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
110 19 0.24
111 18 0.22
112 30 0.38
113 2 0.03
114 11 0.14
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (112 bp):
GCCATCAGTGTCCCAAAATAAAAAAAAAAGTGCATTGGGAGTCAAAAATGTACCTGATGCCGACC
ATCTACTAGCCAGCACCCAAATTTTTTTTTAAATGACATTGGTGCCG
Found at i:7491613 original size:23 final size:25
Alignment explanation
Indices: 7491568--7491614 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
7491558 CTTAAACATA
7491568 AAACAAATCAAACTCAAAATGATCT
1 AAACAAATCAAACTCAAAATGATCT
*
7491593 AAACAAAT-AATCT-AAAATGATC
1 AAACAAATCAAACTCAAAATGATC
7491615 CGAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.21
Consensus pattern (25 bp):
AAACAAATCAAACTCAAAATGATCT
Found at i:7493595 original size:24 final size:24
Alignment explanation
Indices: 7493563--7493611 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
7493553 CTTTCAAAGT
7493563 AATAGAATACTTTTGAGAGCATTA
1 AATAGAATACTTTTGAGAGCATTA
*
7493587 AATAGAATACTTTTGAGAGTATTA
1 AATAGAATACTTTTGAGAGCATTA
7493611 A
1 A
7493612 TTTAATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (24 bp):
AATAGAATACTTTTGAGAGCATTA
Found at i:7495380 original size:37 final size:37
Alignment explanation
Indices: 7495330--7495400 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
7495320 AACATTGCAG
*
7495330 GTCAAAGAAAGAGTGCTCTTGTTGATATGAGGGCATC
1 GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGCATC
7495367 GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGC
1 GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGC
7495401 GTCAAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (37 bp):
GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGCATC
Found at i:7496363 original size:21 final size:22
Alignment explanation
Indices: 7496317--7496365 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
7496307 TATTGATAAG
**
7496317 AATTATATTAAATTTAATATTA
1 AATTATATTAAATTTAATAGAA
7496339 AATT-TATTAAA-TTAATAGAA
1 AATTATATTAAATTTAATAGAA
7496359 TAATTAT
1 -AATTAT
7496366 CTACAAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTATATTAAATTTAATAGAA
Found at i:7508613 original size:3 final size:3
Alignment explanation
Indices: 7508607--7508639 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
7508597 TTCATCATTG
*
7508607 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7508640 CCTTCATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:7508644 original size:9 final size:9
Alignment explanation
Indices: 7508596--7508656 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
7508586 TCATCTTCAC
7508596 CTTCATCAT
1 CTTCATCAT
7508605 -TGTCATCAT
1 CT-TCATCAT
*
7508614 CATCATCAT
1 CTTCATCAT
*
7508623 CATCATCAT
1 CTTCATCAT
*
7508632 CTTCATCAC
1 CTTCATCAT
7508641 CTTCATTC-T
1 CTTCA-TCAT
7508650 CTTCATC
1 CTTCATC
7508657 TGTACTCTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
8 3 0.07
9 40 0.89
10 2 0.04
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.41
Consensus pattern (9 bp):
CTTCATCAT
Found at i:7513784 original size:59 final size:60
Alignment explanation
Indices: 7513713--7513827 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
7513703 ATCACTTTAA
* * *
7513713 TATTAAATTAATATAATATTTAT-T-ATGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAT-ATAAATATTAAATTAAATTTAATATTAAATCT
*
7513772 TATTAAAATAATAGAATATTTATCTACAATATAAATATTAAATTTAATTTAATATT
1 TATTAAAATAATAGAATATTTATCT--AATATAAATATTAAATTAAATTTAATATT
7513828 TATCTTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 21 0.44
60 1 0.02
62 24 0.50
63 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAATATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:7513827 original size:17 final size:17
Alignment explanation
Indices: 7513805--7513862 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
7513795 CTACAATATA
7513805 AATATTAAATTTAATTT
1 AATATTAAATTTAATTT
*
7513822 AATATT-TATCTTAA--T
1 AATATTAAAT-TTAATTT
7513837 AATATTAAATTTAATTT
1 AATATTAAATTTAATTT
7513854 AATATTAAA
1 AATATTAAA
7513863 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 11 0.31
16 4 0.11
17 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTAAATTTAATTT
Found at i:7513875 original size:19 final size:18
Alignment explanation
Indices: 7513834--7513879 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
7513824 TATTTATCTT
7513834 AATAATATT-AAATTTAA
1 AATAATATTAAAATTTAA
**
7513851 TTTAATATTAAAATATTAA
1 AATAATATTAAAAT-TTAA
7513870 AATAATATTA
1 AATAATATTA
7513880 TTTTTGGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATATTAAAATTTAA
Found at i:7516079 original size:22 final size:23
Alignment explanation
Indices: 7516032--7516090 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
7516022 AAAGCCTAGC
*
7516032 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
7516057 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
7516079 TATTTAC-ATAAA
1 TATATACAATAAA
7516091 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:7517705 original size:45 final size:44
Alignment explanation
Indices: 7517634--7517751 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 44
7517624 TATCCTCAGT
* * ** * * * *
7517634 CTGCTCCATTGCGACTTCAGAAAGATAAAATTTTTAATTTTGAGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGA-C
* * * *
7517679 CTGCTCCGCTGCATCTTCAGGGAGATAAGACTTATCACTTCGAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGAC
7517723 CTGCTCCACTGCAACTTCAGGGAGATAAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAA
7517752 GTTTGCTATG
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 27 0.47
45 31 0.53
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGAC
Found at i:7518180 original size:133 final size:133
Alignment explanation
Indices: 7517928--7518247 Score: 509
Period size: 133 Copynumber: 2.4 Consensus size: 133
7517918 CTTCATAGCC
* * * * *
7517928 GATAAGACT-ACCATTCCTGATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCTGATACATGGAGATAAGATCTATAATTTTCA
*
7517992 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTTCATAGCCGATACAT
66 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
7518057 AAA
131 AAA
*
7518060 GATAAGACTCGCCATTTCTGATTTGCTCCATAGCTGATACATGGAGATAAGATCTATAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCTGATACATGGAGATAAGATCTATAATTTTCA
* *
7518125 GTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGTCGATACAT
66 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
*
7518190 AGA
131 AAA
* *
7518193 GATAAGACTCGCCATTTCAGATCTGCTCCATAGCCT-ATACATGGAAATAAGATCT
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAG-CTGATACATGGAGATAAGATCT
7518248 GGTATTTAGC
Statistics
Matches: 173, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
132 9 0.05
133 162 0.94
134 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (133 bp):
GATAAGACTCGCCATTTCTGATCTGCTCCATAGCTGATACATGGAGATAAGATCTATAATTTTCA
GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
AAA
Found at i:7518400 original size:133 final size:133
Alignment explanation
Indices: 7518239--7518916 Score: 948
Period size: 133 Copynumber: 5.1 Consensus size: 133
7518229 ATACATGGAA
*
7518239 ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAATGCTGATGATTGGAATCT
1 ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCT
* * * * * * * * *
7518304 GCTCCATCGTCGGTACGTGAAGATAAGATTCTCCAAAGTTCGATTTGCTTCACTCCTGCTCAGTT
66 GCTCCATTGCCGATACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTG
7518369 AAG
131 AAG
* * ** *
7518372 ATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCT
1 ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCT
* *
7518437 ACTCCATTACCGATACATGAAGATAAGACTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCAGT
66 GCTCCATTGCCGATACATGAAGATAAGA-TTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAGT
7518501 GAAG
130 GAAG
*
7518505 ATAATATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
1 ATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * * *
7518570 TTGCTCCATTACCGGTACGTGGAGATAAGATTCTCC-AAATTTCGATCTGCTTCACTCCTGCTCA
64 CTGCTCCATTGCCGATACATGAAGATAAGATTCGCCAAAATTT-GATCTGCTTCACTCCTGCTCA
7518634 GTGAAG
128 GTGAAG
* ** **
7518640 ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTAAAATCT
1 ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCT
*
7518705 GCTCCATTGCTGATACATGAAGATAAGACTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCAGT
66 GCTCCATTGCCGATACATGAAGATAAGA-TTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAGT
7518769 GAAG
130 GAAG
*
7518773 ATAAGATCTGGTATGTTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
1 ATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * *
7518838 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAG
64 CTGCTCCATTGCCGATACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
*
7518903 CGAAG
129 TGAAG
7518908 ATAAGATCT
1 ATAAGATCT
7518917 ACAATTTTAG
Statistics
Matches: 481, Mismatches: 54, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
133 235 0.49
134 20 0.04
135 226 0.47
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (133 bp):
ATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCT
GCTCCATTGCCGATACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTG
AAG
Found at i:7518564 original size:268 final size:268
Alignment explanation
Indices: 7518239--7518917 Score: 1110
Period size: 268 Copynumber: 2.5 Consensus size: 268
7518229 ATACATGGAA
*
7518239 ATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAATGCTGATGATTGGAAT
1 ATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * *
7518302 CTGCTCCATCGTCGGTACGTGAAGATAAGATTCTCCAAAGTTCGATTTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAG
* * * *
7518367 TTAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGGCTGA
131 TGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTAA
7518432 AATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCT
196 AATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCT
7518497 CAGTGAAG
261 CAGTGAAG
*
7518505 ATAATATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
1 ATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * *
7518570 TTGCTCCATTACCGGTACGTGGAGATAAGATTCTCCAAATTTCGATCTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAG
*
7518635 TGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTAA
131 TGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTAA
* * *
7518700 AATCTGCTCCATTGCTGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCT
196 AATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCT
7518765 CAGTGAAG
261 CAGTGAAG
*
7518773 ATAAGATCTGGTATGTTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
1 ATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * * *
7518838 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAG
66 CTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAG
*
7518903 CGAAGATAAGATCTA
131 TGAAGATAAGATCTA
7518918 CAATTTTAGC
Statistics
Matches: 381, Mismatches: 30, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
266 12 0.03
268 369 0.97
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (268 bp):
ATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
CTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAG
TGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTAA
AATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCT
CAGTGAAG
Found at i:7520377 original size:6 final size:6
Alignment explanation
Indices: 7520368--7520408 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
7520358 GCCTCTCCAG
*
7520368 TTTCTT TTTC-T TTTCTT TTT-TT TTTATT TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
7520409 GAAACTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
5 14 0.44
6 18 0.56
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:7520384 original size:11 final size:11
Alignment explanation
Indices: 7520368--7520408 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
7520358 GCCTCTCCAG
7520368 TTTCTTTTTCT
1 TTTCTTTTTCT
*
7520379 TTTCTTTTTTT
1 TTTCTTTTTCT
*
7520390 TTTATTTTTCT
1 TTTCTTTTTCT
7520401 TTT-TTTTT
1 TTTCTTTTT
7520409 GAAACTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 5 0.19
11 22 0.81
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:7520954 original size:27 final size:27
Alignment explanation
Indices: 7520902--7520955 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
7520892 CTTTTTGTTG
* * *
7520902 TTTTTTTTTTGTTTTTTGCCTTCCTTT
1 TTTTTTTTTTCTTTTTGGCCTGCCTTT
7520929 TTTTGTTTTTTCTTTTTGGCC-GCCTTT
1 TTTT-TTTTTTCTTTTTGGCCTGCCTTT
7520956 GCTGTATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.72
Consensus pattern (27 bp):
TTTTTTTTTTCTTTTTGGCCTGCCTTT
Found at i:7524418 original size:22 final size:23
Alignment explanation
Indices: 7524371--7524429 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
7524361 AAAGCCTAGC
*
7524371 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
7524396 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
7524418 TATTTAC-ATAAA
1 TATATACAATAAA
7524430 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:7525289 original size:27 final size:25
Alignment explanation
Indices: 7525259--7525311 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
7525249 TCACGCAAGA
*
7525259 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
7525286 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
7525311 A
1 A
7525312 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:7525656 original size:16 final size:16
Alignment explanation
Indices: 7525629--7525697 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
7525619 TTGGTTCGCT
*
7525629 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
7525645 GTACTGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
7525661 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
7525677 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
7525693 GTAAT
1 GTAAT
7525698 AGGTAATTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:7525734 original size:45 final size:44
Alignment explanation
Indices: 7525677--7525766 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 44
7525667 GAATAGATGC
7525677 GTAATGGAATAGAGGCGTAATAGGTAATTCTT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
7525722 GTAATGGAATAGAGGCGTAATGGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATGGTATTCTTGTGTTTGGTTGAAT
7525766 G
1 G
7525767 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 6 0.14
44 17 0.39
45 21 0.48
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATGGTATTCTTGTGTTTGGTTGAAT
Found at i:7525768 original size:39 final size:43
Alignment explanation
Indices: 7525677--7525782 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 43
7525667 GAATAGATGC
7525677 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTGTTTGGTT--AT
7525722 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTT-TGTTTGGTTAT
*
7525762 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
7525783 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 7 0.12
44 10 0.17
45 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTTGTTTGGTTAT
Found at i:7525935 original size:16 final size:15
Alignment explanation
Indices: 7525925--7526080 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
7525915 CATAATTGTT
7525925 ATAAAATATAATTTA
1 ATAAAATATAATTTA
7525940 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
7525957 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
7525969 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
7525981 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
7525995 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
7526014 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
7526031 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
7526042 ATTAAATATAATTTA
1 ATAAAATATAATTTA
7526057 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
7526074 ATAAAAT
1 ATAAAAT
7526081 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:7525970 original size:17 final size:17
Alignment explanation
Indices: 7525930--7525963 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7525920 TTGTTATAAA
7525930 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7525947 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7525964 TTTTAATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7526087 original size:17 final size:17
Alignment explanation
Indices: 7526047--7526080 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7526037 TTATTATTAA
7526047 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526064 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526081 TGTTAATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7526116 original size:117 final size:117
Alignment explanation
Indices: 7525910--7526398 Score: 811
Period size: 117 Copynumber: 4.3 Consensus size: 117
7525900 TTAATCATAT
* * * *
7525910 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
7525975 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
7526027 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
7526092 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
7526144 TTTAAAATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
7526209 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
7526261 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAA---TT-CT---T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
7526319 ATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
7526370 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
7526399 TAATCTACTT
Statistics
Matches: 360, Mismatches: 10, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
107 21 0.06
108 26 0.07
109 13 0.04
110 19 0.05
113 1 0.00
114 2 0.01
117 278 0.77
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:7526152 original size:20 final size:21
Alignment explanation
Indices: 7526113--7526152 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7526103 AATTTACTAA
*
7526113 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
7526134 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
7526153 ATTGTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:7526179 original size:15 final size:15
Alignment explanation
Indices: 7526159--7526197 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
7526149 AATAATTGTT
7526159 ATAAAATATAATTTA
1 ATAAAATATAATTTA
7526174 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
7526191 ATAAAAT
1 ATAAAAT
7526198 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:7526204 original size:17 final size:17
Alignment explanation
Indices: 7526164--7526197 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7526154 TTGTTATAAA
7526164 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526181 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526198 TGTTAATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7526269 original size:20 final size:21
Alignment explanation
Indices: 7526230--7526269 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7526220 AATTTACTAA
*
7526230 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
7526251 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
7526270 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:7526303 original size:17 final size:17
Alignment explanation
Indices: 7526281--7526314 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7526271 TTATTATTAA
7526281 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526298 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7526315 TCTTATTCTT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7526394 original size:32 final size:32
Alignment explanation
Indices: 7526358--7526421 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
7526348 TATATAATAC
*
7526358 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
7526390 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
7526422 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:7529889 original size:53 final size:54
Alignment explanation
Indices: 7529805--7529911 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
7529795 GCAGTGAATT
7529805 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
7529859 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
7529912 GAATAGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:7533005 original size:67 final size:67
Alignment explanation
Indices: 7532926--7533068 Score: 277
Period size: 67 Copynumber: 2.1 Consensus size: 67
7532916 GTTGAATGAA
*
7532926 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATA
1 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAACTAAATA
7532991 TG
66 TG
7532993 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAACTAAATA
1 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAACTAAATA
7533058 TG
66 TG
7533060 TTGAATCAG
1 TTGAATCAG
7533069 TTTAATTTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 75 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (67 bp):
TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAACTAAATA
TG
Found at i:7536173 original size:53 final size:51
Alignment explanation
Indices: 7536030--7536178 Score: 132
Period size: 48 Copynumber: 2.9 Consensus size: 51
7536020 TATGTCATTG
* * * *
7536030 TATTTTTCTAATTAATTTAAA-TAAAATCAA-GAGATAAATAATAAAAATTTA
1 TATTTTTCTAATTAAATTAAATTAAATTAAATGATATAAATAAT--AAATTTA
** *
7536081 TATTATAACTAATTAAATTAAATT-AATTAAGTG--AT-AATAATAAA-TTA
1 TATT-TTTCTAATTAAATTAAATTAAATTAAATGATATAAATAATAAATTTA
7536128 TTATTTTCTCTAATTAAATTAAATTAAATTAATATGATATAAATAATAAAT
1 -TATTTT-TCTAATTAAATTAAATTAAATTAA-ATGATATAAATAATAAAT
7536179 AAAAGAGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
47 4 0.05
48 23 0.29
49 6 0.08
50 8 0.10
51 6 0.08
52 20 0.26
53 11 0.14
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (51 bp):
TATTTTTCTAATTAAATTAAATTAAATTAAATGATATAAATAATAAATTTA
Found at i:7538850 original size:19 final size:20
Alignment explanation
Indices: 7538826--7538869 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7538816 CCTAATTGAT
7538826 TATTTAA-TTATTTTATAAA
1 TATTTAATTTATTTTATAAA
* *
7538845 TATTTAATTTATTTTTTAAT
1 TATTTAATTTATTTTATAAA
7538865 TATTT
1 TATTT
7538870 TATAAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTAATTTATTTTATAAA
Found at i:7538975 original size:25 final size:25
Alignment explanation
Indices: 7538912--7538994 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
7538902 AATTCTTTTA
*
7538912 AAAAAAT-TTAAAATTCTAATTTTT
1 AAAAAATATTAAAATTCTAATATTT
* *
7538936 AAAAAATATGAAAATTTTAATATTT
1 AAAAAATATTAAAATTCTAATATTT
7538961 -AAAAATATTATAAATTAGCCTAATATTAT
1 AAAAAATATTA-AAATT---CTAATATT-T
7538990 AAAAA
1 AAAAA
7538995 TTACTAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 16 0.34
25 19 0.40
28 7 0.15
29 1 0.02
30 4 0.09
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAAAATATTAAAATTCTAATATTT
Found at i:7547993 original size:40 final size:40
Alignment explanation
Indices: 7547941--7548019 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
7547931 GAAATGAATC
7547941 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
1 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
*
7547981 AATGAATGAATAGAGTTTAATTTGTTTGAATGAAATATT
1 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATT
7548020 ATGGAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (40 bp):
AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
Found at i:7548001 original size:18 final size:18
Alignment explanation
Indices: 7547941--7548001 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 18
7547931 GAAATGAATC
7547941 AATGAATGAATAGAGTTT
1 AATGAATGAATAGAGTTT
* * * *
7547959 AATTTATTTGAATGAAATATTT
1 AA-TGA-ATGAAT-AGA-GTTT
7547981 AATGAATGAATAGAGTTT
1 AATGAATGAATAGAGTTT
7547999 AAT
1 AAT
7548002 TTGTTTGAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
18 8 0.26
19 4 0.13
20 10 0.32
21 4 0.13
22 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
AATGAATGAATAGAGTTT
Found at i:7548334 original size:75 final size:75
Alignment explanation
Indices: 7548179--7548323 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 75
7548169 GTACATCCAG
* *
7548179 CTAGTGCTGGGCACACCATTATATTTGTCGGTTTATCCGACTAGCGTTAGCCGTAACCTTTGGCA
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTATCCGACTAGCGTTAGCCGCAACCTTTGGCA
* *
7548244 GTTTAGAGAA
66 GATTACAGAA
* * *
7548254 CTAGTGTTGGGCACACCATTATATTTGTCGATTTA-CCTGACTAGCGTTGAG-CGCAACTTTTGT
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTATCC-GACTAGCGTT-AGCCGCAACCTTTGG
7548317 CAGATTA
64 CAGATTA
7548324 TCTGCCTAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 2 0.03
75 58 0.94
76 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (75 bp):
CTAGTGCTGGGCACACCATTATATTTGTCGATTTATCCGACTAGCGTTAGCCGCAACCTTTGGCA
GATTACAGAA
Found at i:7563033 original size:17 final size:15
Alignment explanation
Indices: 7563011--7563050 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
7563001 CTTAATATTT
7563011 AAGTAAATATATATATA
1 AAGTAAATATA-ATA-A
7563028 AAGTAAATATAATAA
1 AAGTAAATATAATAA
7563043 AA-TAAATA
1 AAGTAAATA
7563051 AGTAAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 3 0.13
17 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
AAGTAAATATAATAA
Found at i:7563070 original size:4 final size:4
Alignment explanation
Indices: 7563058--7563136 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
7563048 ATAAGTAAAT
* * *
7563058 GAAA TAAA GAAA GAAA GAAA GTAA -AAC GAAA G--A GAAA GGAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA
*
7563104 GAAA -ATAA AAAA GGGAAA GAAA GAAA G-AA GAAA
1 GAAA GA-AA GAAA --GAAA GAAA GAAA GAAA GAAA
7563137 CGCACAACCT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
2 2 0.03
3 5 0.08
4 44 0.75
5 5 0.08
6 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:7563125 original size:26 final size:28
Alignment explanation
Indices: 7563063--7563132 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
7563053 TAAATGAAAT
*
7563063 AAAGAAAGAAAGAAAGTAAAACGAAAGAG
1 AAAGAAAGAAAGAAAATAAAAC-AAAGAG
*
7563092 AAAGGAAAGAAAGAAAAT-AAA-AAAGGG
1 AAA-GAAAGAAAGAAAATAAAACAAAGAG
7563119 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
7563133 GAAACGCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 11 0.29
27 8 0.21
29 6 0.16
30 13 0.34
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.03
Consensus pattern (28 bp):
AAAGAAAGAAAGAAAATAAAACAAAGAG
Found at i:7567394 original size:3 final size:3
Alignment explanation
Indices: 7567386--7567524 Score: 79
Period size: 3 Copynumber: 45.0 Consensus size: 3
7567376 AGGTGTAAAT
* * * * *
7567386 ATA ATA ATA ATA AT- ATA TTG ATA ATAA ACA ATA ATA A-A AGGA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA
* * * * * *
7567431 AAA ATA ATA GTA ATA ATA AGA ATA TTTA ATA ATA GTA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
7567477 ATA AT- ATAA ATA ATA ATA TATA CATGA ATA ATA ATA AT- ATAA ATA
1 ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA AT-A ATA
7567522 ATA
1 ATA
7567525 GAAAAAATAA
Statistics
Matches: 106, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
2 8 0.08
3 80 0.75
4 17 0.16
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:7571532 original size:49 final size:48
Alignment explanation
Indices: 7571458--7571593 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 48
7571448 TATTCGGCCT
* * * *
7571458 AGCAACGCCATTATATGGCCTAACATTTTAGCCTGCACCATTAGGTCT
1 AGCAAGGCCATCATATGGCCCAACATTTTAGCCTGCACCATTAGGTCG
* * * * *
7571506 AGCAGGGTCATCCATATGGCCCAACA-TTCAGGCCTACACCATTTGGTCG
1 AGCAAGGCCAT-CATATGGCCCAACATTTTA-GCCTGCACCATTAGGTCG
* *
7571555 AGCAAGGCCATCATATGGCCCAAAATTTTTGCCTGCACC
1 AGCAAGGCCATCATATGGCCCAACATTTTAGCCTGCACC
7571594 GTTACCCATA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
48 32 0.46
49 38 0.54
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
AGCAAGGCCATCATATGGCCCAACATTTTAGCCTGCACCATTAGGTCG
Found at i:7577495 original size:26 final size:26
Alignment explanation
Indices: 7577447--7577519 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
7577437 TTGTCACCCT
* *
7577447 AATTTTACCTC-AATAAAAATTTGAC
1 AATTTTACCCCTAATAAAATTTTGAC
7577472 AATTTTACCCCTAATAAAATTTTGAC
1 AATTTTACCCCTAATAAAATTTTGAC
* * *
7577498 GATTTTACCCTTGATAAAATTT
1 AATTTTACCCCTAATAAAATTT
7577520 CGAGAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (26 bp):
AATTTTACCCCTAATAAAATTTTGAC
Found at i:7581336 original size:13 final size:14
Alignment explanation
Indices: 7581320--7581348 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7581310 CACCTCTCTA
7581320 TTTTATCTTT-TAT
1 TTTTATCTTTATAT
7581333 TTTTATCTTTATAT
1 TTTTATCTTTATAT
7581347 TT
1 TT
7581349 CCCATGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTATAT
Found at i:7584026 original size:31 final size:31
Alignment explanation
Indices: 7583988--7584065 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
7583978 TTTTTCCTAA
* *
7583988 TTTGATACTTGAGTTTGGCTTCAATATTCAT
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
* *
7584019 TTTGATACTTGAGTTTAGCTTCAATTTTTAC
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
*
7584050 TTTGGTACTTGAGTTT
1 TTTGATACTTGAGTTT
7584066 TTTCAATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.51
Consensus pattern (31 bp):
TTTGATACTTGAGTTTAGCTTCAATATTCAC
Found at i:7587894 original size:28 final size:28
Alignment explanation
Indices: 7587863--7587919 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
7587853 TTAAGACTCA
7587863 ATCAATAATAATAATAATTTA-AATATAT
1 ATCAAT-ATAATAATAATTTATAATATAT
* * *
7587891 ATCAATATTATTATATTTTATAATATAT
1 ATCAATATAATAATAATTTATAATATAT
7587919 A
1 A
7587920 AATTATAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
ATCAATATAATAATAATTTATAATATAT
Found at i:7589389 original size:56 final size:57
Alignment explanation
Indices: 7589309--7589441 Score: 173
Period size: 56 Copynumber: 2.3 Consensus size: 57
7589299 AACTAATAAA
* * *
7589309 TTTAATATAATATATTTTTTAAAAGTTATATAGAATTTTTAAAT-TATTTTTATTAC
1 TTTAATATAATATATTTTTAAAAAGTTATATAAAAATTTTAAATGTATTTTTATTAC
* *
7589365 TTTAATATAGTAT-TTTTTAAAAAAGTTATATAAAAATTTTAAATGTATTTTTATTAT
1 TTTAATATAATATATTTTT-AAAAAGTTATATAAAAATTTTAAATGTATTTTTATTAC
7589422 TTTAAATATTAA-ATATTTTT
1 TTT-AATA-TAATATATTTTT
7589442 TATATTGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
55 5 0.08
56 34 0.52
57 14 0.21
58 6 0.09
59 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (57 bp):
TTTAATATAATATATTTTTAAAAAGTTATATAAAAATTTTAAATGTATTTTTATTAC
Found at i:7589455 original size:27 final size:28
Alignment explanation
Indices: 7589390--7589455 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
7589380 TTTAAAAAAG
* * *
7589390 TTATATAAAAATTTTAAATGTATTTTTA
1 TTATTTAAAAATATTAAATATATTTTTA
*
7589418 TTATTT-TAAATATTAAATAT-TTTTTA
1 TTATTTAAAAATATTAAATATATTTTTA
7589444 -TATTGTAAAAAT
1 TTATT-TAAAAAT
7589456 TAAAATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.13
26 7 0.23
27 15 0.48
28 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTATTTAAAAATATTAAATATATTTTTA
Found at i:7589461 original size:26 final size:26
Alignment explanation
Indices: 7589403--7589459 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
7589393 TATAAAAATT
* * *
7589403 TTAAATGTATTTTTATTATTTTAAATA
1 TTAAATAT-TTTTTATTATTGTAAAAA
7589430 TTAAATATTTTTTA-TATTGTAAAAA
1 TTAAATATTTTTTATTATTGTAAAAA
7589455 TTAAA
1 TTAAA
7589460 ATTAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 14 0.52
26 6 0.22
27 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAAATATTTTTTATTATTGTAAAAA
Found at i:7589520 original size:27 final size:32
Alignment explanation
Indices: 7589463--7589531 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 32
7589453 AATTAAAATT
*
7589463 AATTATATATAAATTAATAAAAATAATTTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
7589495 AATTA-ATTTAAA-TAAT-AAAA-AA-TTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
*
7589522 ATTTATATTT
1 AATTATATTT
7589532 CGTAAAACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 6 0.18
29 4 0.12
30 4 0.12
31 6 0.18
32 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTATATTTAAATTAATAAAAATAATTTTTA
Found at i:7596152 original size:7 final size:7
Alignment explanation
Indices: 7596121--7596145 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7596111 CGTCTCATTC
7596121 CTCTCTT
1 CTCTCTT
7596128 CTCTCTT
1 CTCTCTT
7596135 CTCTCTT
1 CTCTCTT
7596142 CTCT
1 CTCT
7596146 ACTCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTCTT
Found at i:7596900 original size:21 final size:21
Alignment explanation
Indices: 7596859--7596901 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7596849 ACATTATATT
* *
7596859 TTTATTAATATAAAATCTAAA
1 TTTATTAATAAAAAATATAAA
7596880 TTTATT-ATAAAAAGATATAAA
1 TTTATTAATAAAAA-ATATAAA
7596901 T
1 T
7596902 CTTAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTATTAATAAAAAATATAAA
Found at i:7597416 original size:22 final size:22
Alignment explanation
Indices: 7597391--7597448 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
7597381 CATGAAGCAA
7597391 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
7597413 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
7597435 TCCCATACCTCCAC
1 CCCCATACCCCCAC
7597449 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:7601627 original size:38 final size:38
Alignment explanation
Indices: 7601576--7601652 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
7601566 TCTGATCTAA
7601576 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
1 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
7601614 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
1 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
7601652 A
1 A
7601653 GATCATGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (38 bp):
AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
Found at i:7603981 original size:14 final size:15
Alignment explanation
Indices: 7603962--7603994 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7603952 TTTAAAAGAG
*
7603962 AAATCAAA-TACAAA
1 AAATCAAACTAAAAA
7603976 AAATCAAACTAAAAA
1 AAATCAAACTAAAAA
7603991 AAAT
1 AAAT
7603995 GATGATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (15 bp):
AAATCAAACTAAAAA
Found at i:7604820 original size:24 final size:24
Alignment explanation
Indices: 7604793--7604838 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7604783 ATAGCAACCC
*
7604793 TTTATAGATTTTTTATCTTATTTA
1 TTTATAGATTTATTATCTTATTTA
**
7604817 TTTATTTATTTATTATCTTATT
1 TTTATAGATTTATTATCTTATT
7604839 ACCCTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATAGATTTATTATCTTATTTA
Found at i:7604825 original size:12 final size:13
Alignment explanation
Indices: 7604800--7604838 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
7604790 CCCTTTATAG
7604800 ATTT-TTTATCTT
1 ATTTATTTATCTT
7604812 ATTTATTTAT-TT
1 ATTTATTTATCTT
7604824 ATTTA-TTATCTT
1 ATTTATTTATCTT
7604836 ATT
1 ATT
7604839 ACCCTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 16 0.64
13 5 0.20
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTATCTT
Found at i:7604912 original size:3 final size:3
Alignment explanation
Indices: 7604904--7604940 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7604894 TTCTCACCAA
7604904 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7604941 TACTGTGTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7606025 original size:11 final size:11
Alignment explanation
Indices: 7606011--7606051 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
7606001 TATTTTCTCC
7606011 CTATTTTGCTA
1 CTATTTTGCTA
*
7606022 CTATTTTACTA
1 CTATTTTGCTA
* *
7606033 TTATGTTGCTA
1 CTATTTTGCTA
7606044 CTATTTTG
1 CTATTTTG
7606052 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:7606709 original size:30 final size:30
Alignment explanation
Indices: 7606673--7606733 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
7606663 ATTTTATTGT
*
7606673 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
7606703 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
7606733 T
1 T
7606734 TGTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:7606853 original size:19 final size:18
Alignment explanation
Indices: 7606813--7606852 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7606803 GAAATATTTA
*
7606813 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
7606831 TTTTGATGGTTTATA-TAT
1 TTTTGAT-GTTTATAGTAT
7606849 TTTT
1 TTTT
7606853 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:7606875 original size:12 final size:12
Alignment explanation
Indices: 7606854--7606887 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7606844 TATATTTTTT
*
7606854 AAAATTATATAA
1 AAAATAATATAA
7606866 AAAATAATATAA
1 AAAATAATATAA
*
7606878 AAATTAATAT
1 AAAATAATAT
7606888 GGGCGAGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:7612102 original size:78 final size:78
Alignment explanation
Indices: 7611973--7612202 Score: 381
Period size: 78 Copynumber: 2.9 Consensus size: 78
7611963 GGGTCACATC
* * * *
7611973 TCATGTAACTGCAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCACCTTAAGTTACCAT
*
7612038 AATGAATCATATA
66 AGTGAATCATATA
*
7612051 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGCCAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCACCTTAAGTTACCAT
7612116 AGTGAATCATATA
66 AGTGAATCATATA
*
7612129 TCATGTAACTGTAGCGAATCAGGATTACCTTTTC-TGGTCAAATCCTATCCGCCTTAAGTTACCA
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAT-GTCAAATCCTATCCACCTTAAGTTACCA
7612193 TAGTGAATCA
65 TAGTGAATCA
7612203 AGAATAAATC
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
77 1 0.01
78 142 0.99
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCACCTTAAGTTACCAT
AGTGAATCATATA
Found at i:7612231 original size:40 final size:40
Alignment explanation
Indices: 7612167--7612304 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
7612157 CTTTTCTGGT
* * * *
7612167 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
7612207 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** **
7612247 CAAATCCTATCCACTTTGACGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
*
7612287 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
7612305 GATTCTCGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:7618146 original size:46 final size:46
Alignment explanation
Indices: 7618091--7618455 Score: 473
Period size: 46 Copynumber: 8.0 Consensus size: 46
7618081 GCTTTCTGAA
* *
7618091 ATGAAATGTGTAAGACCATGGTTGAAAGACACTATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
7618137 ATAAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
7618183 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
7618229 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
7618275 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
7618320 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** ** *
7618366 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCCGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
7618412 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7618456 TCAAAGATAA
Statistics
Matches: 283, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 37 0.13
46 246 0.87
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:7618395 original size:137 final size:138
Alignment explanation
Indices: 7618102--7618455 Score: 476
Period size: 137 Copynumber: 2.6 Consensus size: 138
7618092 TGAAATGTGT
* * *
7618102 AAGACCATGGTTGAAAGACACTATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACACGATATAAAATGTGTAAGACCATGGTTGAAAGAT
* * ** * *
7618167 ACCGTGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
66 ACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACATG
***
7618232 AAATGTGT
131 AAATGAAC
*
7618240 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACACGATATAAAATGTGTAAGACCATGGTTGAAAGAT
* * **
7618305 ACCATGGCAACATGA-CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG
66 ACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACATG
7618369 AAATGAAC
131 AAATGAAC
* * * * * *
7618377 AAGACCATGGTTGAAAGATACCATGGCAACCCGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACACGATATAAAATGTGTAAGACCATGGTTGAAAGAT
* *
7618442 ACTATGGCATCATG
66 ACCATGGCAACATG
7618456 TCAAAGATAA
Statistics
Matches: 191, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
137 115 0.60
138 76 0.40
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
AAGACCATGGTTGAAAGATACCATGGCAACACGATATAAAATGTGTAAGACCATGGTTGAAAGAT
ACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACATG
AAATGAAC
Found at i:7618757 original size:16 final size:17
Alignment explanation
Indices: 7618736--7618768 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7618726 ATGATGGAGC
7618736 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
7618752 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
7618769 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:7620575 original size:9 final size:9
Alignment explanation
Indices: 7620531--7620574 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
7620521 TTTGAACAAA
7620531 AATTGAGA-
1 AATTGAGAG
7620539 AATTTGAGAG
1 AA-TTGAGAG
7620549 AATTGAGAG
1 AATTGAGAG
7620558 AATTGAGAG
1 AATTGAGAG
7620567 --TTGAGAG
1 AATTGAGAG
7620574 A
1 A
7620575 GAATAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.21
8 2 0.06
9 22 0.67
10 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (9 bp):
AATTGAGAG
Found at i:7621263 original size:6 final size:7
Alignment explanation
Indices: 7621237--7621274 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
7621227 TTAAAATTTC
7621237 AAAAAATT
1 AAAAAA-T
7621245 ACAAAAAT
1 A-AAAAAT
7621253 AAAAAAT
1 AAAAAAT
7621260 AAAAAAT
1 AAAAAAT
7621267 AAAAAAT
1 AAAAAAT
7621274 A
1 A
7621275 TCAATGCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 21 0.72
8 3 0.10
9 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:7623021 original size:2 final size:2
Alignment explanation
Indices: 7623014--7623045 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7623004 TCAGGTCTAT
7623014 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
7623046 AAACATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7630993 original size:84 final size:86
Alignment explanation
Indices: 7630888--7631126 Score: 225
Period size: 88 Copynumber: 2.8 Consensus size: 86
7630878 AATTTTGCCA
* * * * * * *
7630888 AGGTTTTTTCAGCCTTCTCAATTATTTAATCTTACAAGTTAAAT-TCATTTTCT-CAAAAAT-GA
1 AGGTTGTTTCAGCATTTTCAATTATTTAATCTTAAAACTTAAATCTC-TTTTCTAAAAAAATAAA
* *
7630950 GTTGAGTTTCGAGATTTCTGT-G
65 G-AGAGCTTCGAGATTTCTGTCG
* * *
7630972 AGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTTTTTTGAAAAAAATACA
1 AGGTTGTTTCAGCATTTTCAATTATTTAATCTTAAAACTTAAATCTCTTTTCT-AAAAAAATA-A
7631037 AGAGAGCTTCGAGATTTCTGTCG
64 AGAGAGCTTCGAGATTTCTGTCG
* * * * * * * *
7631060 AGGTCGTTTTAGCATTTTTAATTATTTAATTTTAGAACTCAAATCTCTTTTTTGAAAAAATATAA
1 AGGTTGTTTCAGCATTTTCAATTATTTAATCTTAAAACTTAAATCTCTTTTCTAAAAAAATA-AA
7631125 GA
65 GA
7631127 AAGTTTCCTA
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
84 42 0.33
85 2 0.02
86 6 0.05
87 29 0.22
88 50 0.39
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (86 bp):
AGGTTGTTTCAGCATTTTCAATTATTTAATCTTAAAACTTAAATCTCTTTTCTAAAAAAATAAAG
AGAGCTTCGAGATTTCTGTCG
Found at i:7631083 original size:88 final size:87
Alignment explanation
Indices: 7630957--7631119 Score: 263
Period size: 88 Copynumber: 1.9 Consensus size: 87
7630947 TGAGTTGAGT
* **
7630957 TTCGAGATTTCTGTGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTTT
1 TTCGAGATTTCTGTGAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
7631022 TTTGAAAAAAATACAAGAGAGC
66 TTTGAAAAAAATACAAGAGAGC
* * *
7631044 TTCGAGATTTCTGTCGAGGTCGTTTTAGCATTTTTAATTATTTAATTTTAGAACTCAAATCTCTT
1 TTCGAGATTTCTGT-GAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTT
7631109 TTTTGAAAAAA
65 TTTTGAAAAAA
7631120 TATAAGAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 14 0.20
88 55 0.80
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (87 bp):
TTCGAGATTTCTGTGAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
TTTGAAAAAAATACAAGAGAGC
Found at i:7633381 original size:25 final size:23
Alignment explanation
Indices: 7633330--7633382 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
7633320 TTTAAAATGT
* *
7633330 ATATACATGATATATATGAAAAT
1 ATATACATAATATATATGAAAAA
*
7633353 ATATACATAATATAGTTATTAAAAA
1 ATATACATAATATA--TATGAAAAA
7633378 ATATA
1 ATATA
7633383 TATATACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATACATAATATATATGAAAAA
Found at i:7633712 original size:3 final size:3
Alignment explanation
Indices: 7633704--7633737 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7633694 ACATTACTAT
7633704 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7633738 AGAAATGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7636439 original size:16 final size:16
Alignment explanation
Indices: 7636418--7636451 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7636408 ATGGGTTCGT
*
7636418 ATCATTTTAAGTTTAG
1 ATCATTTTAAGTATAG
7636434 ATCATTTTAAGTATAG
1 ATCATTTTAAGTATAG
7636450 AT
1 AT
7636452 GTTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
ATCATTTTAAGTATAG
Found at i:7641102 original size:6 final size:7
Alignment explanation
Indices: 7641082--7641111 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
7641072 AAGGACTTGT
7641082 AAGAAAA
1 AAGAAAA
7641089 AAGAAAA
1 AAGAAAA
7641096 AAGAAAAA
1 AAG-AAAA
7641104 AAGAAAA
1 AAGAAAA
7641111 A
1 A
7641112 TTAAGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:7644632 original size:17 final size:16
Alignment explanation
Indices: 7644591--7644635 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
7644581 ATTTTTTACA
7644591 ATAATTAATAT-AATTT
1 ATAA-TAATATAAATTT
7644607 -TAA-AATATAAATTAT
1 ATAATAATATAAATT-T
7644622 ATAATAATATAAAT
1 ATAATAATATAAAT
7644636 ACAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 4 0.16
16 3 0.12
17 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATAATATAAATTT
Found at i:7648127 original size:7 final size:7
Alignment explanation
Indices: 7648093--7648130 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
7648083 ACCTGAACTC
7648093 TAAACC-
1 TAAACCT
7648099 TAAA-CT
1 TAAACCT
*
7648105 TGAACCT
1 TAAACCT
7648112 TAAACCT
1 TAAACCT
7648119 TAAACCT
1 TAAACCT
7648126 TAAAC
1 TAAAC
7648131 TCTAAAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 1 0.04
6 7 0.25
7 20 0.71
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:7648136 original size:14 final size:14
Alignment explanation
Indices: 7648088--7648136 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
7648078 TTGAAACCTG
7648088 AACTCTAAACC-TA
1 AACTCTAAACCTTA
*
7648101 AACT-TGAACCTTA
1 AACTCTAAACCTTA
7648114 AAC-CTTAAACCTTA
1 AACTC-TAAACCTTA
7648128 AACTCTAAA
1 AACTCTAAA
7648137 ACCAAACCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 5 0.17
13 9 0.30
14 15 0.50
15 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (14 bp):
AACTCTAAACCTTA
Found at i:7648409 original size:39 final size:39
Alignment explanation
Indices: 7648333--7648411 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
7648323 AATAAATATA
* *
7648333 ACTAGATAAATTAAAAATAATAAAAATTTAAACTCTATC
1 ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
**
7648372 ACTAAATAAA-TATAAAATAATAAAAATCTAATTTCTATC
1 ACTAAATAAATTA-AAAATAATAAAAATCTAAACTCTATC
7648411 A
1 A
7648412 ACTCTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (39 bp):
ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
Found at i:7650479 original size:6 final size:6
Alignment explanation
Indices: 7650460--7650504 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
7650450 TTTAAAAAAA
** *
7650460 ATAATT ATTAATT ATAATT ATAATT ATTTTT AAAATT ATAATT AT
1 ATAATT A-TAATT ATAATT ATAATT ATAATT ATAATT ATAATT AT
7650505 TTTTCAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATAATT
Found at i:7650520 original size:24 final size:23
Alignment explanation
Indices: 7650467--7650545 Score: 89
Period size: 24 Copynumber: 3.7 Consensus size: 23
7650457 AAAATAATTA
7650467 TTAAT-TATAATTATAATTA-TT
1 TTAATATATAATTATAATTATTT
7650488 TT--TA-A-AATTATAATTATTT
1 TTAATATATAATTATAATTATTT
*
7650507 TTCAATATGTAATTATAATTATTT
1 TT-AATATATAATTATAATTATTT
*
7650531 TTAATGTATAATTAT
1 TTAATATATAATTAT
7650546 CACAACTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
18 11 0.23
19 6 0.12
21 2 0.04
22 2 0.04
23 11 0.23
24 16 0.33
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
TTAATATATAATTATAATTATTT
Done.