Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 39 of 117
Found at i:6930437 original size:14 final size:15
Alignment explanation
Indices: 6930400--6930439 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6930390 TTATATTTAC
6930400 ATATATTAAATATAAA
1 ATATA-TAAATATAAA
*
6930416 ATAAATAAATAT-AA
1 ATATATAAATATAAA
6930430 ATATATAAAT
1 ATATATAAAT
6930440 TATCCAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 11 0.50
15 7 0.32
16 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATATAAATATAAA
Found at i:6938147 original size:7 final size:7
Alignment explanation
Indices: 6938135--6938163 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6938125 ATGCACTTGT
6938135 CTCCACC
1 CTCCACC
6938142 CTCCACC
1 CTCCACC
6938149 CTCCACC
1 CTCCACC
6938156 CTCCACC
1 CTCCACC
6938163 C
1 C
6938164 CACCAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.72, G:0.00, T:0.14
Consensus pattern (7 bp):
CTCCACC
Found at i:6942411 original size:178 final size:175
Alignment explanation
Indices: 6942108--6942458 Score: 458
Period size: 178 Copynumber: 2.0 Consensus size: 175
6942098 TGCTTGGTTT
*
6942108 GTGTGTGAGAGAGACAAAGAAAAAGGAATACCAAGATGGAAAACACTGCCTAAGTAGGAATAATT
1 GTGTGTGAGAGAGACAAAGAAAAAGGAATACCAAGATGGAAAACACTGCCTAAGTAGGAATAATA
* * *
6942173 CAAGGCTACTGATAAAGAAAAGCAAATTTTAATATATTAAAAGGATAAATACTCAAAAGAACATA
66 CAAGGCTAATGACAAAGAAAAGCAAATTTTAATATACTAAAA-GATAAATACTCAAAAGAACATA
*
6942238 ATACATATATTTGCACACATACACAAATACGTAAGAAAGTGATGGGAA
130 ATACATATATTTGCACACATACAC--ATACATAAGAAAGTGATGGGAA
* * * ***
6942286 GTGTGTGTGAGAGACAAATG-AGAAGGAATACCCAAGATGGTAAGTGCTGCCTAAGTAGGAATAA
1 GTGTGTGAGAGAGACAAA-GAAAAAGGAATA-CCAAGATGGAAAACACTGCCTAAGTAGGAAT--
* * * * *
6942350 CAATACAAGGTTAATGCCAAAGAAAAGCAAATTTTAATATACT-AAA-AT-ATTATTTAAAAGAA
62 -AATACAAGGCTAATGACAAAGAAAAGCAAATTTTAATATACTAAAAGATAAATACTCAAAAGAA
6942412 CATAATACATATATTTGCACACATACACATACATAAGAAAGTGATGG
126 CATAATACATATATTTGCACACATACACATACATAAGAAAGTGATGG
6942459 CAAGAAAGTA
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
176 18 0.12
178 65 0.43
179 30 0.20
181 3 0.02
182 36 0.24
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (175 bp):
GTGTGTGAGAGAGACAAAGAAAAAGGAATACCAAGATGGAAAACACTGCCTAAGTAGGAATAATA
CAAGGCTAATGACAAAGAAAAGCAAATTTTAATATACTAAAAGATAAATACTCAAAAGAACATAA
TACATATATTTGCACACATACACATACATAAGAAAGTGATGGGAA
Found at i:6964601 original size:37 final size:37
Alignment explanation
Indices: 6964560--6964634 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
6964550 ACACAGTTTG
*
6964560 TGAGAATAACAAATAGAAAGGATCCAGATGCAATACA
1 TGAGAATAACAAATAGAAAGGATCCACATGCAATACA
6964597 TGAGAATAACAAATAGAAAGGATCCACATGCAATACA
1 TGAGAATAACAAATAGAAAGGATCCACATGCAATACA
6964634 T
1 T
6964635 AGTGTGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (37 bp):
TGAGAATAACAAATAGAAAGGATCCACATGCAATACA
Found at i:6972653 original size:49 final size:51
Alignment explanation
Indices: 6972563--6972661 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 51
6972553 TCGTACGCTC
* ** * *
6972563 AACTAAATGAATTTTTTTTAAGTTAATGCCAAACTACATTTAATGTTTCTT
1 AACTAAATGAATTTCTTTTAAGTTAACACCAAAATACATTTAATATTTCTT
* *
6972614 AACTAAATG-A-TTCTTTTAAGTTAACATCAAAATATATTTAATATTTCT
1 AACTAAATGAATTTCTTTTAAGTTAACACCAAAATACATTTAATATTTCT
6972662 AATTTTTAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 31 0.76
50 1 0.02
51 9 0.22
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (51 bp):
AACTAAATGAATTTCTTTTAAGTTAACACCAAAATACATTTAATATTTCTT
Found at i:6978745 original size:28 final size:29
Alignment explanation
Indices: 6978695--6978749 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6978685 AAATTATAAT
*
6978695 AAAATATTTAATATAATATTTAAATTTTA
1 AAAATATTTAATATAACATTTAAATTTTA
*
6978724 AAAATATTTAATATGACA-TTAAATTT
1 AAAATATTTAATATAACATTTAAATTT
6978750 ATACACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAAATATTTAATATAACATTTAAATTTTA
Found at i:6980434 original size:72 final size:72
Alignment explanation
Indices: 6980294--6980434 Score: 158
Period size: 72 Copynumber: 2.0 Consensus size: 72
6980284 TTACAGTTAG
* * * * * *
6980294 TTTGTCCATGTTTGTTTGTCACTTAATGTAATCATGATCACACATTCTAAAAGATTTTGTCTATA
1 TTTGTCCATGATTGTATGCCACTTAATGCAATCATGATCACACATTCTAAAAGATTTTATCTAAA
6980359 TAAAGAA
66 TAAAGAA
* * * * * *
6980366 TTTGTCTATGATTGTATGCCACTTAGTGCAATCATGATTATATATTCTAGAATG-TTTTATCTAA
1 TTTGTCCATGATTGTATGCCACTTAATGCAATCATGATCACACATTCTA-AAAGATTTTATCTAA
6980430 ATAAA
65 ATAAA
6980435 ATGGTAACTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
72 53 0.95
73 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (72 bp):
TTTGTCCATGATTGTATGCCACTTAATGCAATCATGATCACACATTCTAAAAGATTTTATCTAAA
TAAAGAA
Found at i:6980627 original size:143 final size:143
Alignment explanation
Indices: 6980366--6980634 Score: 378
Period size: 143 Copynumber: 1.9 Consensus size: 143
6980356 ATATAAAGAA
* * * * * * *
6980366 TTTGTCTATGATTGTATGCCACTTAGTGCAATCATGATTATATATTCTAGAATGTTTTATCTAAA
1 TTTGTCTATAATTATATGCCACTCAGTGCAATCATGATCATACATTCTAAAAGGTTTTATCTAAA
* *
6980431 TAAAATGGTAACTTCACCTTTTATTCTTAAGGAGACCACGGGAGTAATTAAGGAAAAAAAAAGAC
66 TAAAATGGTAACTTCACCTTTTATTCTTAAGGAGACCACGAGAGTAATAAAGGAAAAAAAAAGAC
6980496 AATTTTGAAATAG
131 AATTTTGAAATAG
* * * * *
6980509 TTTGTTTATAATTATATGCCACTCAGTGCAATTATGATCGTACATTCTAAAAGGTTTTGTCTATA
1 TTTGTCTATAATTATATGCCACTCAGTGCAATCATGATCATACATTCTAAAAGGTTTTATCTAAA
* *
6980574 TAAAATGGTAACTTCACCTTTTATTGTTAAGGA-AGCTACGAGAGTAATAAAGGAAAAAAAA
66 TAAAATGGTAACTTCACCTTTTATTCTTAAGGAGA-CCACGAGAGTAATAAAGGAAAAAAAA
6980635 TTTTGAAAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
142 1 0.01
143 108 0.99
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (143 bp):
TTTGTCTATAATTATATGCCACTCAGTGCAATCATGATCATACATTCTAAAAGGTTTTATCTAAA
TAAAATGGTAACTTCACCTTTTATTCTTAAGGAGACCACGAGAGTAATAAAGGAAAAAAAAAGAC
AATTTTGAAATAG
Found at i:6981347 original size:91 final size:90
Alignment explanation
Indices: 6981245--6981431 Score: 295
Period size: 91 Copynumber: 2.1 Consensus size: 90
6981235 TATATATATA
* * * *
6981245 TATATATAATTATGATTAAAACTATTGTATGGAAAATCATATTATAGTAATGTAAAAGAAAAAGA
1 TATATATAATTATGATTAAAACTATTGCATCGAAAATCAGATTATAATAATGTAAAAGAAAAAGA
6981310 TCTAACACCATAACGAAATCA-AGAAT
66 TCTAACACCATAAC-AAAT-AGAGAAT
*
6981336 TATATATAATTATGATTAAAACTATTGCATCGAAAATCAGATTATAATAATGTAAAAGAAAAATA
1 TATATATAATTATGATTAAAACTATTGCATCGAAAATCAGATTATAATAATGTAAAAGAAAAAGA
*
6981401 TCTAACACTATAACAAATAGAGAAT
66 TCTAACACCATAACAAATAGAGAAT
6981426 TATATA
1 TATATA
6981432 ATATTTTACC
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 1 0.01
90 15 0.17
91 73 0.82
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (90 bp):
TATATATAATTATGATTAAAACTATTGCATCGAAAATCAGATTATAATAATGTAAAAGAAAAAGA
TCTAACACCATAACAAATAGAGAAT
Found at i:6985503 original size:11 final size:12
Alignment explanation
Indices: 6985487--6985526 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
6985477 ATGTCTTTTA
6985487 AAAATATAT-AT
1 AAAATATATAAT
*
6985498 AAAATATGTAAT
1 AAAATATATAAT
6985510 AAAA-ATATAAT
1 AAAATATATAAT
6985521 AAAATA
1 AAAATA
6985527 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:6986998 original size:13 final size:13
Alignment explanation
Indices: 6986980--6987005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6986970 TCAAAACAGA
6986980 CCTTGTGGAGATG
1 CCTTGTGGAGATG
6986993 CCTTGTGGAGATG
1 CCTTGTGGAGATG
6987006 TTGATAGTTG
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:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
CCTTGTGGAGATG
Found at i:6987890 original size:46 final size:46
Alignment explanation
Indices: 6987812--6987922 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
6987802 ATTAAACAGT
* * * * *
6987812 TTTTATAGTTTATGAAAATTAATATACTTAAAGTTATAATAAAAAC
1 TTTTATAGTTCATGAAAATCAATAGACCTAAAGTTATAACAAAAAC
* **
6987858 TTTTATAATTCATGAAAATCAATAGACCTAAAGTTATAACAGGAAC
1 TTTTATAGTTCATGAAAATCAATAGACCTAAAGTTATAACAAAAAC
6987904 TTTTATAGTTCATGGAAAA
1 TTTTATAGTTCAT-GAAAA
6987923 CATTGAAGGC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
46 50 0.91
47 5 0.09
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (46 bp):
TTTTATAGTTCATGAAAATCAATAGACCTAAAGTTATAACAAAAAC
Found at i:6988335 original size:2 final size:2
Alignment explanation
Indices: 6988328--6988352 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6988318 CACTTTGAGA
6988328 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6988353 AGAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6991166 original size:12 final size:12
Alignment explanation
Indices: 6991136--6991166 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6991126 GGGGAATCGA
6991136 AAAAAAATTACC
1 AAAAAAATTACC
*
6991148 AAGAAAATTACC
1 AAAAAAATTACC
6991160 AAAAAAA
1 AAAAAAA
6991167 AAAGCATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAATTACC
Found at i:6991495 original size:19 final size:19
Alignment explanation
Indices: 6991471--6991520 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6991461 CGGCATGATA
6991471 GCCGACGATCGACACGACT
1 GCCGACGATCGACACGACT
6991490 GCCGACGA-CTGACACGACT
1 GCCGACGATC-GACACGACT
* *
6991509 TCCGACAATCGA
1 GCCGACGATCGA
6991521 TCGATCGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.28, C:0.36, G:0.24, T:0.12
Consensus pattern (19 bp):
GCCGACGATCGACACGACT
Found at i:6992493 original size:23 final size:22
Alignment explanation
Indices: 6992441--6992493 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
6992431 CTTCAATATA
* *
6992441 ATAAAAATACTTAATAAATATT
1 ATAAAAATAATTAATAAAAATT
*
6992463 AAACAAAATAATTAATAAAAATTT
1 ATA-AAAATAATTAATAAAAA-TT
6992487 ATAAAAA
1 ATAAAAA
6992494 AAGAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 19 0.76
24 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAAATAATTAATAAAAATT
Found at i:7004309 original size:48 final size:49
Alignment explanation
Indices: 7004243--7004441 Score: 172
Period size: 49 Copynumber: 4.0 Consensus size: 49
7004233 TTTCGAGAAC
* * * *
7004243 AGATGAGATTTTTAAAGTTATTGAGCTTGTGCTTAGAGGAAC-TTTTTCA
1 AGATG-GAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTTCA
* * * *
7004292 AGATTGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCA
1 AGATGGAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTTCA
* * *
7004341 AGATGGAATTTTAAAGTTGTTAAGCCTCTGCTGAGA-TAAGCCTTTTTT-A
1 AGATGGAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAA--CTTTTTTCA
* * * * *
7004390 AGATAGATTTTTTTTGAAGTTGTTGAGCCTCTACTGAGAGGAA-TTTTTTCA
1 AGATGGA---ATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTTCA
7004441 A
1 A
7004442 AAAATTGTTG
Statistics
Matches: 124, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
48 30 0.24
49 52 0.42
50 13 0.10
51 2 0.02
52 25 0.20
53 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (49 bp):
AGATGGAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTTCA
Found at i:7004427 original size:52 final size:49
Alignment explanation
Indices: 7004285--7004428 Score: 182
Period size: 49 Copynumber: 2.9 Consensus size: 49
7004275 TTAGAGGAAC
* *
7004285 TTTTTCAAGATTGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCT
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATAAGCT
* *
7004334 TTTTTCAAGATGGAATTTTAAAGTTGTTAAGCCTCTGCTGAGATAAGCCT
1 TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATAAG-CT
* * *
7004384 TTTTT-AAGATAGATTTTTTTTGAAGTTGTTGAGCCTCTACTGAGA
1 TTTTTCAAGATAGA---ATTTTAAAGTTGTTGAGCCTCTGCTGAGA
7004429 GGAATTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
49 51 0.61
50 7 0.08
52 25 0.30
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (49 bp):
TTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATAAGCT
Found at i:7004753 original size:13 final size:13
Alignment explanation
Indices: 7004722--7004761 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
7004712 ATGATTATCA
*
7004722 TTATTATTTTT-T
1 TTATTTTTTTTAT
7004734 TTATTTTTTTTAT
1 TTATTTTTTTTAT
*
7004747 TTCTTTTTTTTAT
1 TTATTTTTTTTAT
7004760 TT
1 TT
7004762 TTCCTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTTAT
Found at i:7004772 original size:22 final size:22
Alignment explanation
Indices: 7004728--7004783 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
7004718 ATCATTATTA
* *
7004728 TTTTTTTTATTTTTTTTATTTC
1 TTTTTTTTATTTTTCTTACTTC
7004750 TTTTTTTTATTTTTCCTT-CTTC
1 TTTTTTTTATTTTT-CTTACTTC
7004772 TTTCTTTCTTAT
1 TTT-TTT-TTAT
7004784 CCGATCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 20 0.69
23 5 0.17
24 4 0.14
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTTATTTTTCTTACTTC
Found at i:7006815 original size:10 final size:10
Alignment explanation
Indices: 7006800--7006832 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
7006790 AAAATTATTT
7006800 TTTTAATAAA
1 TTTTAATAAA
7006810 TTTTAATAAA
1 TTTTAATAAA
7006820 TTTTAATAAA
1 TTTTAATAAA
7006830 TTT
1 TTT
7006833 AAGATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:7007881 original size:23 final size:23
Alignment explanation
Indices: 7007838--7007881 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7007828 TTTGGCCAAA
**
7007838 TTTTTTTTTTTGTGTTGTGGTTT
1 TTTTTTTTTTTGTGTACTGGTTT
*
7007861 TTTTTTTTTTTTTGTACTGGT
1 TTTTTTTTTTTGTGTACTGGT
7007882 GCTAGGTTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTTGTGTACTGGTTT
Found at i:7008677 original size:91 final size:93
Alignment explanation
Indices: 7008532--7008736 Score: 324
Period size: 91 Copynumber: 2.2 Consensus size: 93
7008522 TTTGACCATG
*
7008532 TTTTCTCTTATCTTGCCTTATGTTTGTTTGTTTTTTTTTCTTTTTTTTTGGTACTTTTCAAAATT
1 TTTTCACTTATCTTGCCTTATGTTTGTTTG--TTTTTTTCTTTTTTTTTGGTACTTTTCAAAATT
*
7008597 AAAAAACGAAAGCAACAGTCTTCAATCACA
64 AAAAAAAGAAAGCAACAGTCTTCAATCACA
7008627 TTTTCACTTATCTTGCCTTATGTTTGTTTG-TTTTTT-TTTTTTTTTGGTACTTTTCAAAATTAA
1 TTTTCACTTATCTTGCCTTATGTTTGTTTGTTTTTTTCTTTTTTTTTGGTACTTTTCAAAATTAA
*
7008690 AAAAAGAAAGTAACAGTCTTCAATCACA
66 AAAAAGAAAGCAACAGTCTTCAATCACA
* * *
7008718 TTTTTACTAATCTTCCCTT
1 TTTTCACTTATCTTGCCTT
7008737 TCTTCTTCTA
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
91 69 0.66
92 6 0.06
95 29 0.28
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.51
Consensus pattern (93 bp):
TTTTCACTTATCTTGCCTTATGTTTGTTTGTTTTTTTCTTTTTTTTTGGTACTTTTCAAAATTAA
AAAAAGAAAGCAACAGTCTTCAATCACA
Found at i:7008881 original size:11 final size:11
Alignment explanation
Indices: 7008867--7008903 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
7008857 ATTTTTTTTA
7008867 TTTTTTAAAAT
1 TTTTTTAAAAT
*
7008878 TTTTTTATAAT
1 TTTTTTAAAAT
7008889 TTTTATTAAAAT
1 TTTT-TTAAAAT
7008901 TTT
1 TTT
7008904 AAATCATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:7015576 original size:105 final size:105
Alignment explanation
Indices: 7015389--7015589 Score: 287
Period size: 105 Copynumber: 1.9 Consensus size: 105
7015379 AATTATTGAG
* * *
7015389 AATAATAACTCAAATCTCATAAAAGATTTATTTGTGATTAGTCATATATTACTTGATAGATAAAA
1 AATAATAACTCAAATCCCATAAAAGATGTATTTGTGATTAGTCATATATTACTTGATAGACAAAA
* *
7015454 AAACTTGTAAAAGAAGAATTCTAAGAGAAAAAATTTTTTT
66 AAACTTGCAAAAGAAGAATTATAAGAGAAAAAATTTTTTT
* * * *
7015494 AATAATAACTTAAATCCCATAAGAGATGTGTTTGTGATTAGTCATATATTACTTGATAGACAAGA
1 AATAATAACTCAAATCCCATAAAAGATGTATTTGTGATTAGTCATATATTACTTGATAGACAAAA
**
7015559 ATTCTTGCAGAAA-AAGAATTATAAGAGAAAA
66 AAACTTGCA-AAAGAAGAATTATAAGAGAAAA
7015590 TTGATTCTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 81 0.96
106 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (105 bp):
AATAATAACTCAAATCCCATAAAAGATGTATTTGTGATTAGTCATATATTACTTGATAGACAAAA
AAACTTGCAAAAGAAGAATTATAAGAGAAAAAATTTTTTT
Found at i:7015662 original size:52 final size:52
Alignment explanation
Indices: 7015563--7015663 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
7015553 ACAAGAATTC
* **
7015563 TTGCAGAAAAAGAATTATAAGAGAAAATTGATTCTTAATAAGCAAGTTTGAT
1 TTGCAGAAAAAGAATTATAAAAGAAAAGAGATTCTTAATAAGCAAGTTTGAT
* * *
7015615 TTGCATAAAAAGAATTTTAAAAGGAAAAGAGATTCTTAAT-AGTAAGTTT
1 TTGCAGAAAAAGAATTATAAAA-GAAAAGAGATTCTTAATAAGCAAGTTT
7015664 CTATGGTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 27 0.64
53 15 0.36
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.32
Consensus pattern (52 bp):
TTGCAGAAAAAGAATTATAAAAGAAAAGAGATTCTTAATAAGCAAGTTTGAT
Found at i:7015928 original size:99 final size:99
Alignment explanation
Indices: 7015757--7015952 Score: 311
Period size: 99 Copynumber: 2.0 Consensus size: 99
7015747 CAACTCATAA
* * *
7015757 CACTACTGGAAATTTACATTTTATGAGTGTGCATTCTTGTATGTTTGTAAGTAGATTAAAAGAAA
1 CACTACTGGAAATTTACATTTTATGAGTGTACATTCTTGTATGTTTATAAGTAGACTAAAAGAAA
* *
7015822 CTGAGAGGGTCTACATAGGTATAGTGCATGTGGG
66 CTAAGAGGGTCCACATAGGTATAGTGCATGTGGG
* * *
7015856 CACTATTGGAGATTTACATTTTATGAGTGTATATTCTTGTATGTTTATAAGTAGACTAAAAGAAA
1 CACTACTGGAAATTTACATTTTATGAGTGTACATTCTTGTATGTTTATAAGTAGACTAAAAGAAA
*
7015921 CTAAGAGGGTCCACATAGGTATGGTGCATGTG
66 CTAAGAGGGTCCACATAGGTATAGTGCATGTG
7015953 AGTGGACTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (99 bp):
CACTACTGGAAATTTACATTTTATGAGTGTACATTCTTGTATGTTTATAAGTAGACTAAAAGAAA
CTAAGAGGGTCCACATAGGTATAGTGCATGTGGG
Found at i:7020301 original size:27 final size:28
Alignment explanation
Indices: 7020271--7020325 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7020261 AAATTTCACT
7020271 ATTAATAT-AAAAATTAACTCCACTATG
1 ATTAATATAAAAAATTAACTCCACTATG
7020298 ATTAATATAAAAAATTAACTCCACTATG
1 ATTAATATAAAAAATTAACTCCACTATG
7020326 TTTTAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.33
Consensus pattern (28 bp):
ATTAATATAAAAAATTAACTCCACTATG
Found at i:7025958 original size:26 final size:26
Alignment explanation
Indices: 7025920--7025972 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7025910 TTTTTTAATC
* *
7025920 TTATTTATTGAGTTAAAAAGTTACGA
1 TTATTTATAGAGTTAAAAAATTACGA
7025946 TTATTTATAGAGTTAAAAAATTACGA
1 TTATTTATAGAGTTAAAAAATTACGA
7025972 T
1 T
7025973 ACATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (26 bp):
TTATTTATAGAGTTAAAAAATTACGA
Found at i:7038394 original size:11 final size:10
Alignment explanation
Indices: 7038372--7038401 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
7038362 TAGCAAAATT
7038372 AAAGAAAAAA
1 AAAGAAAAAA
7038382 AAAGAAAAGAA
1 AAAGAAAA-AA
7038393 AAAGAAAAA
1 AAAGAAAAA
7038402 GTCCAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:7039580 original size:19 final size:20
Alignment explanation
Indices: 7039551--7039588 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7039541 AGTAATTTTT
*
7039551 ATTTTTAATTTATGTATATA
1 ATTTTTAATTTATATATATA
7039571 ATTTTT-ATTTATATATAT
1 ATTTTTAATTTATATATAT
7039589 GTGTATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTTTTAATTTATATATATA
Found at i:7039599 original size:26 final size:26
Alignment explanation
Indices: 7039543--7039599 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7039533 TTAAGATAAG
* *
7039543 TAATTTTTATTTTTAATTTATGTATA
1 TAATTTTTATTTATAATATATGTATA
*
7039569 TAATTTTTATTTAT-ATATATGTGTA
1 TAATTTTTATTTATAATATATGTATA
7039594 TGAATT
1 T-AATT
7039600 GAATATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (26 bp):
TAATTTTTATTTATAATATATGTATA
Found at i:7044435 original size:7 final size:7
Alignment explanation
Indices: 7044423--7044449 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7044413 TTTTACTATG
7044423 TTGTTGA
1 TTGTTGA
7044430 TTGTTGA
1 TTGTTGA
7044437 TTGTTGA
1 TTGTTGA
7044444 TTGTTG
1 TTGTTG
7044450 TTTATTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (7 bp):
TTGTTGA
Found at i:7048600 original size:16 final size:17
Alignment explanation
Indices: 7048570--7048634 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
7048560 AAAGATTCGC
*
7048570 AAGACTTTTATATTCAT
1 AAGACTTTTAGATTCAT
*
7048587 AAGA-TTTTAGATTCAC
1 AAGACTTTTAGATTCAT
* * *
7048603 AAGATTTTTAGCTTCGT
1 AAGACTTTTAGATTCAT
*
7048620 AAGAATTTTCAGATT
1 AAGACTTTT-AGATT
7048635 TGCAAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 14 0.36
17 21 0.54
18 4 0.10
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (17 bp):
AAGACTTTTAGATTCAT
Found at i:7048613 original size:17 final size:16
Alignment explanation
Indices: 7048562--7048610 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
7048552 TGCAATTCAA
*
7048562 AGATTCGCAAGACTTTT
1 AGATTCACAAGA-TTTT
* *
7048579 ATATTCATAAGATTTT
1 AGATTCACAAGATTTT
7048595 AGATTCACAAGATTTT
1 AGATTCACAAGATTTT
7048611 TAGCTTCGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
AGATTCACAAGATTTT
Found at i:7048623 original size:33 final size:35
Alignment explanation
Indices: 7048562--7048661 Score: 87
Period size: 35 Copynumber: 2.9 Consensus size: 35
7048552 TGCAATTCAA
* *
7048562 AGATTCGCAAGACTTTTATATTCATAAG-ATTTT-
1 AGATTCACAAGACTTTTAGATTCATAAGAATTTTC
* * *
7048595 AGATTCACAAGATTTTTAGCTTCGTAAGAATTTTC
1 AGATTCACAAGACTTTTAGATTCATAAGAATTTTC
** * * **
7048630 AGATTTGCAAAAATTAAAGATTCATAAGAATT
1 AGATTCACAAGACTTTTAGATTCATAAGAATT
7048662 AAAGATTCTC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 23 0.44
34 5 0.10
35 24 0.46
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (35 bp):
AGATTCACAAGACTTTTAGATTCATAAGAATTTTC
Found at i:7049216 original size:20 final size:22
Alignment explanation
Indices: 7049171--7049265 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 22
7049161 TTCATGATTT
*
7049171 CATTCAAAATTTCAAAGTTTCT
1 CATTCAAAATTTCAAAGTTTCA
7049193 CATTC-AAA-TTCAAA-TATTCA
1 CATTCAAAATTTCAAAGT-TTCA
* * *
7049213 CATTCGATAAATTTTAGAGTTTTA
1 CATTC-A-AAATTTCAAAGTTTCA
* * *
7049237 CA-TCTAAA-TTCAAAGGTTCT
1 CATTCAAAATTTCAAAGTTTCA
7049257 CATTCAAAA
1 CATTCAAAA
7049266 AATTTAGGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
19 1 0.02
20 23 0.42
21 11 0.20
22 5 0.09
23 5 0.09
24 9 0.16
25 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (22 bp):
CATTCAAAATTTCAAAGTTTCA
Found at i:7049261 original size:44 final size:44
Alignment explanation
Indices: 7049198--7049305 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
7049188 TTTCTCATTC
* * * * * *
7049198 AAATTCAAATATTCACATTCGATAAATTTTAGAGTTTTACATCT-
1 AAATTCAAAGATTCTCATTC-AAAAAATTTAGAGGTTCACATCTA
* *
7049242 AAATTCAAAGGTTCTCATTCAAAAAATTTAGGGGTTCACATCTA
1 AAATTCAAAGATTCTCATTCAAAAAATTTAGAGGTTCACATCTA
*
7049286 AAATTTCAAAGCTTCTCATT
1 AAA-TTCAAAGATTCTCATT
7049306 TGAAAACTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
43 18 0.34
44 20 0.38
45 15 0.28
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (44 bp):
AAATTCAAAGATTCTCATTCAAAAAATTTAGAGGTTCACATCTA
Found at i:7049461 original size:47 final size:44
Alignment explanation
Indices: 7049409--7049513 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
7049399 AACTCAAAGA
7049409 CAAAGATTCTCATTCAAATATTCTATCAAAAACTCTAATTTAAAACT
1 CAAAGATTCTCATTCAAATATTCT-T-AAAAA-TCTAATTTAAAACT
* * * * * **
7049456 CAAAGATTCGCATTTAAATTTTCTTAAAGATTTTTTTTAAAACT
1 CAAAGATTCTCATTCAAATATTCTTAAAAATCTAATTTAAAACT
*
7049500 CAAATATTCTCATT
1 CAAAGATTCTCATT
7049514 ATTTTTAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 23 0.47
45 4 0.08
46 1 0.02
47 21 0.43
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (44 bp):
CAAAGATTCTCATTCAAATATTCTTAAAAATCTAATTTAAAACT
Found at i:7050760 original size:9 final size:9
Alignment explanation
Indices: 7050737--7050822 Score: 62
Period size: 8 Copynumber: 10.1 Consensus size: 9
7050727 TCTCCTTTCA
*
7050737 CATTTTTCT
1 CATTTTTTT
7050746 CA-TTTTTT
1 CATTTTTTT
7050754 -ATTTTTTT
1 CATTTTTTT
7050762 CACTTTATTTT
1 CA-TTT-TTTT
*
7050773 CCACTTTTTT
1 -CATTTTTTT
*
7050783 CACTTTTTT
1 CATTTTTTT
7050792 -ATTTTTTT
1 CATTTTTTT
7050800 -A--TTTTT
1 CATTTTTTT
7050806 CA--TTTTT
1 CATTTTTTT
7050813 CATTTTTTT
1 CATTTTTTT
7050822 C
1 C
7050823 CTTCTTATTA
Statistics
Matches: 66, Mismatches: 3, Indels: 16
0.78 0.04 0.19
Matches are distributed among these distances:
6 5 0.08
7 9 0.14
8 19 0.29
9 18 0.27
10 7 0.11
11 6 0.09
12 2 0.03
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (9 bp):
CATTTTTTT
Found at i:7050804 original size:23 final size:22
Alignment explanation
Indices: 7050778--7050821 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7050768 ATTTTCCACT
*
7050778 TTTTTCACTTTTTTATTTTTTTA
1 TTTTTCA-TTTTTCATTTTTTTA
7050801 TTTTTCATTTTTCATTTTTTT
1 TTTTTCATTTTTCATTTTTTT
7050822 CCTTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCATTTTTCATTTTTTTA
Found at i:7053569 original size:51 final size:51
Alignment explanation
Indices: 7053499--7053597 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
7053489 CGAGCTTTGG
7053499 TATCATACTAATGGTGAATAGGTTGAACTGGGTTCTTAAACGGTGGAGCTA
1 TATCATACTAATGGTGAATAGGTTGAACTGGGTTCTTAAACGGTGGAGCTA
*
7053550 TATCATACTAATGGTGAATAGGTTGAACTGGGTTCTTAGACGGTGGAG
1 TATCATACTAATGGTGAATAGGTTGAACTGGGTTCTTAAACGGTGGAG
7053598 TTATCTTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.29, T:0.31
Consensus pattern (51 bp):
TATCATACTAATGGTGAATAGGTTGAACTGGGTTCTTAAACGGTGGAGCTA
Found at i:7053855 original size:29 final size:29
Alignment explanation
Indices: 7053817--7053876 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
7053807 ATGGATGAAT
*
7053817 AATATATTAGTGATGCTAGATTAAAATAC
1 AATATATTAGGGATGCTAGATTAAAATAC
*
7053846 AATATGTTAGGGATGCTAGATTAAAATAC
1 AATATATTAGGGATGCTAGATTAAAATAC
7053875 AA
1 AA
7053877 CACATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.32
Consensus pattern (29 bp):
AATATATTAGGGATGCTAGATTAAAATAC
Found at i:7055643 original size:18 final size:19
Alignment explanation
Indices: 7055580--7055635 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
7055570 AAGACATTTC
* * *
7055580 AAAAATAAATAAATGATCA
1 AAAAATAAATAAATAAACT
7055599 AAATAAGTAAATAAATAAACT
1 AAA-AA-TAAATAAATAAACT
7055620 AAAAATAAAT-AATAAA
1 AAAAATAAATAAATAAA
7055636 TGAAAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 4 0.12
21 14 0.44
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAATAAATAAATAAACT
Found at i:7060312 original size:16 final size:17
Alignment explanation
Indices: 7060283--7060314 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7060273 CAATTGTCTT
7060283 TCTAGTTGTTAATTAGC
1 TCTAGTTGTTAATTAGC
7060300 TCTAGTT-TTAATTAG
1 TCTAGTTGTTAATTAG
7060315 AGTAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (17 bp):
TCTAGTTGTTAATTAGC
Found at i:7064204 original size:2 final size:2
Alignment explanation
Indices: 7064197--7064234 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7064187 TTTGGATAGG
7064197 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
7064235 GTCTAAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7066313 original size:23 final size:24
Alignment explanation
Indices: 7066287--7066331 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7066277 TAATTTTTTT
7066287 ATTTATCTTT-GATTTTATTATTG
1 ATTTATCTTTAGATTTTATTATTG
*
7066310 ATTTATCTTTAGTTTTTATTAT
1 ATTTATCTTTAGATTTTATTAT
7066332 CAAATTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (24 bp):
ATTTATCTTTAGATTTTATTATTG
Found at i:7066359 original size:11 final size:11
Alignment explanation
Indices: 7066343--7066367 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7066333 AAATTAGGTG
7066343 TAAGATAATAA
1 TAAGATAATAA
7066354 TAAGATAATAA
1 TAAGATAATAA
7066365 TAA
1 TAA
7066368 TAATAATGAT
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (11 bp):
TAAGATAATAA
Found at i:7070416 original size:29 final size:28
Alignment explanation
Indices: 7070376--7070451 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
7070366 TTATGTAATA
7070376 TATT-AATT-AATATATTTATAATCCAAG
1 TATTAAATTAAATAT-TTTATAATCCAAG
* **
7070403 TATTAAATTAAATATTTTTAAAATTTAAG
1 TATTAAATTAAATA-TTTTATAATCCAAG
*
7070432 TATTACATTAAATATTTTAT
1 TATTAAATTAAATATTTTAT
7070452 TATAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 4 0.10
28 9 0.22
29 27 0.66
30 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (28 bp):
TATTAAATTAAATATTTTATAATCCAAG
Found at i:7071905 original size:10 final size:10
Alignment explanation
Indices: 7071892--7071944 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
7071882 CATTCTTCCA
7071892 CTTTCTTTTC
1 CTTTCTTTTC
7071902 CTTTC-TTTC
1 CTTTCTTTTC
* *
7071911 CATTCTTTTA
1 CTTTCTTTTC
7071921 CTTTC-TTTC
1 CTTTCTTTTC
*
7071930 CTTTTCTTTTT
1 C-TTTCTTTTC
7071941 CTTT
1 CTTT
7071945 ACTAATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 12 0.34
10 19 0.54
11 4 0.11
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (10 bp):
CTTTCTTTTC
Found at i:7071911 original size:29 final size:29
Alignment explanation
Indices: 7071864--7071938 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
7071854 TTAGAATTCT
7071864 TTTCTTTTCCTCTTC-TTCCATTCTTCCAC
1 TTTCTTTTCCT-TTCTTTCCATTCTTCCAC
**
7071893 TTTCTTTTCCTTTCTTTCCATTCTTTTAC
1 TTTCTTTTCCTTTCTTTCCATTCTTCCAC
7071922 TTTC-TTTCCTTTTCTTT
1 TTTCTTTTCC-TTTCTTT
7071939 TTCTTTACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTCTTTTCCTTTCTTTCCATTCTTCCAC
Found at i:7071918 original size:19 final size:20
Alignment explanation
Indices: 7071894--7071944 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
7071884 TTCTTCCACT
*
7071894 TTCTTTTCCTTTCTTTCC-A
1 TTCTTTTACTTTCTTTCCTA
*
7071913 TTCTTTTACTTTCTTTCCTT
1 TTCTTTTACTTTCTTTCCTA
*
7071933 TTCTTTTTCTTT
1 TTCTTTTACTTT
7071945 ACTAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTTTACTTTCTTTCCTA
Found at i:7076501 original size:42 final size:42
Alignment explanation
Indices: 7076455--7076541 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
7076445 AAGGGCTCAA
* * *
7076455 TGAAAT-TAAATTGGCATCTCCCTTCTCATATGACTGACCCAT
1 TGAAATAT-AATTGCCATCTCCCTTCTCAAAAGACTGACCCAT
* * *
7076497 TGAAATATAATTGCCATCTTCCTTGTCAAAAGGCTGACCCAT
1 TGAAATATAATTGCCATCTCCCTTCTCAAAAGACTGACCCAT
7076539 TGA
1 TGA
7076542 CAAGATATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
TGAAATATAATTGCCATCTCCCTTCTCAAAAGACTGACCCAT
Found at i:7084476 original size:18 final size:17
Alignment explanation
Indices: 7084424--7084483 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
7084414 TTAAATCGTA
7084424 TTAT-TTATATATATATT
1 TTATATTATATA-ATATT
* **
7084441 TTATATCATATTCGTATT
1 TTATATTATA-TAATATT
7084459 TTATCATTATATAATATT
1 TTAT-ATTATATAATATT
7084477 TTATATT
1 TTATATT
7084484 GTCATATCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 7 0.21
18 21 0.62
19 6 0.18
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATATTATATAATATT
Found at i:7086975 original size:18 final size:19
Alignment explanation
Indices: 7086938--7086975 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7086928 ATCATACAAC
*
7086938 TGTTAACTCTAATTTATTT
1 TGTTAACTCAAATTTATTT
*
7086957 TGTTAACT-AAATTTCTTT
1 TGTTAACTCAAATTTATTT
7086975 T
1 T
7086976 AGATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
TGTTAACTCAAATTTATTT
Found at i:7090668 original size:27 final size:27
Alignment explanation
Indices: 7090638--7090689 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
7090628 GAAAATGTAA
7090638 ATTCAATAAATCTAGAATTTAAATTTG
1 ATTCAATAAATCTAGAATTTAAATTTG
*
7090665 ATTCAATAAATCTAGATTTTAAATT
1 ATTCAATAAATCTAGAATTTAAATT
7090690 CGAGTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (27 bp):
ATTCAATAAATCTAGAATTTAAATTTG
Found at i:7091837 original size:28 final size:28
Alignment explanation
Indices: 7091787--7091867 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
7091777 ATAAATAATC
7091787 CTTAAATTATAGTAAAATATTTAATATAGTA
1 CTTAAATTATA--AAAAT-TTTAATATAGTA
* * * *
7091818 TTTAAATTTTAAAAATTTTAATGTCGTA
1 CTTAAATTATAAAAATTTTAATATAGTA
* *
7091846 CTTAAATTATAAATATGTTAAT
1 CTTAAATTATAAAAATTTTAAT
7091868 TAATATAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 28 0.67
29 5 0.12
31 9 0.21
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (28 bp):
CTTAAATTATAAAAATTTTAATATAGTA
Found at i:7094831 original size:21 final size:21
Alignment explanation
Indices: 7094805--7094846 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7094795 AAATTTCAAC
*
7094805 GGATGAAATTGACGAGTGAAT
1 GGATGAAATTAACGAGTGAAT
*
7094826 GGATGAAATTAATGAGTGAAT
1 GGATGAAATTAACGAGTGAAT
7094847 TTTATAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.26
Consensus pattern (21 bp):
GGATGAAATTAACGAGTGAAT
Found at i:7095535 original size:12 final size:12
Alignment explanation
Indices: 7095518--7095544 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7095508 TATATATATA
7095518 TGTGTATGTGTG
1 TGTGTATGTGTG
7095530 TGTGTATGTGTG
1 TGTGTATGTGTG
7095542 TGT
1 TGT
7095545 TGAATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (12 bp):
TGTGTATGTGTG
Found at i:7098593 original size:2 final size:2
Alignment explanation
Indices: 7098581--7098625 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
7098571 ATGGTTGATG
* * * *
7098581 TA TA TA CA TA TA TA CA TA TA TA TA TA TA AA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7098623 TA T
1 TA T
7098626 GTAAGTATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:7100457 original size:21 final size:22
Alignment explanation
Indices: 7100427--7100476 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
7100417 TATATATTTA
7100427 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
7100447 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
7100469 AATATTTT
1 AATATTTT
7100477 GTTAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 18 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:7106571 original size:21 final size:23
Alignment explanation
Indices: 7106541--7106593 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
7106531 AATTGTTTTT
* *
7106541 TATATAAATTTATTTAAAT-ATA
1 TATAAAAATTTATTAAAATAATA
7106563 T-TAAAAATTTATTAAAATAATA
1 TATAAAAATTTATTAAAATAATA
7106585 TATAAAAAT
1 TATAAAAAT
7106594 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 15 0.56
22 5 0.19
23 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAAAAATTTATTAAAATAATA
Found at i:7109151 original size:2 final size:2
Alignment explanation
Indices: 7109144--7109173 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7109134 GTTCAAATAC
7109144 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7109174 AAGAGAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7110565 original size:36 final size:36
Alignment explanation
Indices: 7110525--7110595 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
7110515 TTTCTGTTGC
* *
7110525 TTCTTTACTTGGAGATGCTTCATTTTTTGTAGGAAT
1 TTCTTTACCTGGAGATGCTTCATTTCTTGTAGGAAT
*
7110561 TTCTTTACCTGGAGGTGCTTCATTTCTTGTAGGAA
1 TTCTTTACCTGGAGATGCTTCATTTCTTGTAGGAA
7110596 CATTATTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (36 bp):
TTCTTTACCTGGAGATGCTTCATTTCTTGTAGGAAT
Found at i:7110772 original size:36 final size:36
Alignment explanation
Indices: 7110732--7110802 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
7110722 CATTAGCCGG
* *
7110732 AGGTGCTTCATTTCTTATAGGAATTTCTTTACTTGA
1 AGGTGCTTCATTTCTTATAGGAACTTCATTACTTGA
* *
7110768 AGGTGCTTCATTTGTTGTAGGAACTTCATTACTTG
1 AGGTGCTTCATTTCTTATAGGAACTTCATTACTTG
7110803 TAGCACGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (36 bp):
AGGTGCTTCATTTCTTATAGGAACTTCATTACTTGA
Found at i:7110803 original size:18 final size:18
Alignment explanation
Indices: 7110737--7110805 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
7110727 GCCGGAGGTG
* *
7110737 CTTCATTTCTTATAGGAA
1 CTTCATTACTTGTAGGAA
* * * **
7110755 TTTCTTTACTTGAAGGTG
1 CTTCATTACTTGTAGGAA
**
7110773 CTTCATTTGTTGTAGGAA
1 CTTCATTACTTGTAGGAA
7110791 CTTCATTACTTGTAG
1 CTTCATTACTTGTAG
7110806 CACGAGATCT
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (18 bp):
CTTCATTACTTGTAGGAA
Found at i:7112390 original size:30 final size:30
Alignment explanation
Indices: 7112356--7112424 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
7112346 CTCTTCCTCT
*
7112356 TCTTTGTCTTCTTCT-TTTCAACCTCCTCAC
1 TCTTT-TCTTCTTCTACTTCAACCTCCTCAC
*
7112386 TCTTTTCTTCTTCTACTTCAACCTCCTCTC
1 TCTTTTCTTCTTCTACTTCAACCTCCTCAC
*
7112416 CCTTTTCTT
1 TCTTTTCTT
7112425 GACCTTCCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.09, C:0.38, G:0.01, T:0.52
Consensus pattern (30 bp):
TCTTTTCTTCTTCTACTTCAACCTCCTCAC
Found at i:7117104 original size:2 final size:2
Alignment explanation
Indices: 7117099--7117138 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
7117089 TTTTAAGTAT
7117099 TA TA TA TA -A T- TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7117138 T
1 T
7117139 TACCTTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7120517 original size:26 final size:27
Alignment explanation
Indices: 7120488--7120543 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
7120478 ATAATTAAAA
7120488 TTAATTTAATCAATTTGATTAATT-TT
1 TTAATTTAATCAATTTGATTAATTCTT
7120514 TTAATTTAATCAATTTGATTAATTCTT
1 TTAATTTAATCAATTTGATTAATTCTT
7120541 TTA
1 TTA
7120544 TAAATCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (27 bp):
TTAATTTAATCAATTTGATTAATTCTT
Found at i:7120537 original size:9 final size:9
Alignment explanation
Indices: 7120471--7120537 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 9
7120461 TTTATTTTAA
*
7120471 AATTTAAAT
1 AATTTAATT
*
7120480 AATTAAAATT
1 AATT-TAATT
*
7120490 AATTTAATC
1 AATTTAATT
*
7120499 AATTTGATT
1 AATTTAATT
*
7120508 AATTT-TTT
1 AATTTAATT
*
7120516 AATTTAATC
1 AATTTAATT
*
7120525 AATTTGATT
1 AATTTAATT
7120534 AATT
1 AATT
7120538 CTTTTATAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 7 0.16
9 31 0.69
10 7 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTTAATT
Found at i:7121707 original size:33 final size:33
Alignment explanation
Indices: 7121664--7121727 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
7121654 CATATTTTAG
7121664 CCACCACCAACATTTCCTTTTGAGTCGAATCGA
1 CCACCACCAACATTTCCTTTTGAGTCGAATCGA
* *
7121697 CCACCGCCAACATTTCCTTTTGAGTTGAATC
1 CCACCACCAACATTTCCTTTTGAGTCGAATC
7121728 AATCATGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (33 bp):
CCACCACCAACATTTCCTTTTGAGTCGAATCGA
Found at i:7127571 original size:22 final size:22
Alignment explanation
Indices: 7127545--7127588 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7127535 TGTATATTTA
* *
7127545 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
7127567 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
7127589 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:7127756 original size:23 final size:24
Alignment explanation
Indices: 7127736--7127792 Score: 100
Period size: 23 Copynumber: 2.5 Consensus size: 24
7127726 AAAATTTTCA
7127736 GCCTTCATTGCT-GACTTTTTTAG
1 GCCTTCATTGCTCGACTTTTTTAG
7127759 GCCTTCATTG-TCGACTTTTTTAG
1 GCCTTCATTGCTCGACTTTTTTAG
7127782 GCCTTCATTGC
1 GCCTTCATTGC
7127793 CAAATCCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.46
Consensus pattern (24 bp):
GCCTTCATTGCTCGACTTTTTTAG
Found at i:7135850 original size:2 final size:2
Alignment explanation
Indices: 7135845--7135881 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7135835 TGCTCTATTT
7135845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7135882 TTGGTACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7137611 original size:10 final size:10
Alignment explanation
Indices: 7137596--7137628 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7137586 ACTCATTTCC
7137596 TATATATAAA
1 TATATATAAA
7137606 TATATAT--A
1 TATATATAAA
7137614 TATATATAAA
1 TATATATAAA
7137624 TATAT
1 TATAT
7137629 TTATTACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TATATATAAA
Found at i:7141264 original size:21 final size:21
Alignment explanation
Indices: 7141240--7141336 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
7141230 TTCATATATA
7141240 TATTTTTTATTTATCTATTAT
1 TATTTTTTATTTATCTATTAT
* * *
7141261 TATTGTTAATTTATCTGTTA-
1 TATTTTTTATTTATCTATTAT
*
7141281 -ATTTTTTGGTTTATCTGATTAT
1 TATTTTTT-ATTTATCT-ATTAT
** * * *
7141303 CT-TCATTTAATTATATATTAA
1 -TATTTTTTATTTATCTATTAT
7141324 TATTTTTTATTTA
1 TATTTTTTATTTA
7141337 ATTTTAATTT
Statistics
Matches: 54, Mismatches: 16, Indels: 12
0.66 0.20 0.15
Matches are distributed among these distances:
19 5 0.09
20 8 0.15
21 32 0.59
22 5 0.09
23 4 0.07
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
TATTTTTTATTTATCTATTAT
Found at i:7142228 original size:13 final size:13
Alignment explanation
Indices: 7142169--7142236 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 13
7142159 TGTTTAATAT
7142169 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
7142181 TTTTTATTTATTTTCAA
1 -TTTTATTT-TTTT--A
* * *
7142198 TTTTGCTTTGTCTA
1 TTTT-ATTTTTTTA
7142212 TTTTATTTTTTTA
1 TTTTATTTTTTTA
7142225 TTTTATTTTTTT
1 TTTTATTTTTTT
7142237 TTAAAATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 23 0.52
14 7 0.16
15 4 0.09
16 6 0.14
17 4 0.09
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:7142322 original size:61 final size:61
Alignment explanation
Indices: 7142245--7142583 Score: 387
Period size: 58 Copynumber: 5.7 Consensus size: 61
7142235 TTTTAAAATT
* *
7142245 AAAAAAAAAAAA-TTTTGAGGAAAAGTTGAAAGTATCAACTTTCCTTAAAGATAAATTTTC
1 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
7142305 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC
1 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* * * ** *
7142367 ---TAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA--TT-
1 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
7142422 -AAAAAAAAAAAGATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAAAAAAG-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
7142483 AAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT-
1 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* * * * *
7142544 ---AAAAAAATATTTTTGAAGAAAAGATGAAAGTATCAGTTTT
1 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTT
7142584 TTCTGCATAA
Statistics
Matches: 242, Mismatches: 27, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
56 2 0.01
57 7 0.03
58 79 0.33
59 42 0.17
60 14 0.06
61 75 0.31
62 23 0.10
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (61 bp):
AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:7142587 original size:178 final size:177
Alignment explanation
Indices: 7142240--7142584 Score: 584
Period size: 178 Copynumber: 1.9 Consensus size: 177
7142230 TTTTTTTTTA
* *
7142240 AAATTAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAACTTTCCTTAAAGATAAATTTTC
1 AAATTAAAAAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAATTTTC
* *
7142305 AAAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTCTAA
66 AAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTCAAA
*
7142370 AAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
131 AAAATATTTTTGAAAAAAAGATGAAAGTATCAATTTTTCTTAAAAAT
*
7142417 AAATTAAAAAAAAAAAGATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 AAATTAAAAAAAAAAA-ATTTTGAGAAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAATTTT
* *
7142482 CAAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT-AA
65 CAAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTCAA
* *
7142546 AAAAATATTTTTGAAGAAAAGATGAAAGTATCAGTTTTT
130 AAAAATATTTTTGAAAAAAAGATGAAAGTATCAATTTTT
7142585 TCTGCATAAA
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
177 53 0.34
178 104 0.66
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (177 bp):
AAATTAAAAAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAATTTTC
AAAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTCAAA
AAAATATTTTTGAAAAAAAGATGAAAGTATCAATTTTTCTTAAAAAT
Found at i:7143175 original size:22 final size:22
Alignment explanation
Indices: 7143149--7143190 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7143139 TTGTATATAT
*
7143149 TTTA-TTTATTCATTCATGTCTA
1 TTTATTTTATTAATT-ATGTCTA
7143171 TTTATTTTATTAATTATGTC
1 TTTATTTTATTAATTATGTC
7143191 ATTCATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTATTTTATTAATTATGTCTA
Found at i:7153031 original size:7 final size:7
Alignment explanation
Indices: 7153014--7153066 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
7153004 TGAAATAAAA
7153014 AAAAATG
1 AAAAATG
7153021 -AAAATG
1 AAAAATG
7153027 AAAAATG
1 AAAAATG
7153034 AAAAAT-
1 AAAAATG
7153040 AAAAA--
1 AAAAATG
7153045 AAAAAT-
1 AAAAATG
**
7153051 AAAAAAA
1 AAAAATG
7153058 AAAAATG
1 AAAAATG
7153065 AA
1 AA
7153067 TGAAAAAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.12
6 16 0.40
7 19 0.47
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:7153043 original size:6 final size:6
Alignment explanation
Indices: 7153006--7153060 Score: 55
Period size: 5 Copynumber: 9.5 Consensus size: 6
7152996 ACTATGCTTG
*
7153006 AAAT-A AAA-AA AAATGA AAATGAA AAATGAA AAATAA AAA-AA AAATAA
1 AAATAA AAATAA AAATAA AAAT-AA AAAT-AA AAATAA AAATAA AAATAA
7153053 AAA-AA AAA
1 AAATAA AAA
7153061 AATGAATGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 17 0.39
6 15 0.34
7 12 0.27
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (6 bp):
AAATAA
Found at i:7153043 original size:13 final size:13
Alignment explanation
Indices: 7153014--7153066 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
7153004 TGAAATAAAA
*
7153014 AAAAATGAAAATG
1 AAAAATAAAAATG
7153027 AAAAATGAAAAAT-
1 AAAAAT-AAAAATG
*
7153040 AAAAA-AAAAATA
1 AAAAATAAAAATG
*
7153052 AAAAAAAAAAATG
1 AAAAATAAAAATG
7153065 AA
1 AA
7153067 TGAAAAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 6 0.17
12 5 0.14
13 19 0.54
14 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:7153048 original size:31 final size:30
Alignment explanation
Indices: 7153006--7153066 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
7152996 ACTATGCTTG
* **
7153006 AAATAAAAAAAAATGAAAATGAAAAATGAA
1 AAATAAAAAAAAATAAAAAAAAAAAATGAA
7153036 AAATAAAAAAAAAATAAAAAAAAAAAATGAA
1 AAAT-AAAAAAAAATAAAAAAAAAAAATGAA
7153067 TGAAAAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (30 bp):
AAATAAAAAAAAATAAAAAAAAAAAATGAA
Found at i:7153061 original size:12 final size:11
Alignment explanation
Indices: 7153034--7153060 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7153024 ATGAAAAATG
7153034 AAAAATAAAAA
1 AAAAATAAAAA
7153045 AAAAATAAAAA
1 AAAAATAAAAA
7153056 AAAAA
1 AAAAA
7153061 AATGAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:7154195 original size:43 final size:43
Alignment explanation
Indices: 7154043--7154331 Score: 343
Period size: 42 Copynumber: 6.8 Consensus size: 43
7154033 TCAATTAGCC
* *
7154043 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAACC--
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
* ** * * *
7154084 ATTTATTTTTTAAAAGTTATCGAGCCTCTGATTAGAGGGGTCTT
1 ATTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
*
7154128 ATTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
1 ATTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
* * *
7154172 ATTTATTTTTTAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
* * * * * *
7154215 ATTCA-TTTTCAAAGTCATTGAGCCTTTGATTAAATGAGCCAT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
* *
7154257 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
*
7154300 ATTCA-TTTTCAAAGTCGTTGAGCCTCTGATTA
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTA
7154332 AATGAGCATT
Statistics
Matches: 210, Mismatches: 34, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
41 5 0.02
42 88 0.42
43 73 0.35
44 44 0.21
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (43 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTT
Found at i:7154262 original size:85 final size:84
Alignment explanation
Indices: 7154049--7154338 Score: 368
Period size: 85 Copynumber: 3.4 Consensus size: 84
7154039 AGCCATTTAC
* * ** *
7154049 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAACC-ATTTATTTTTTAAAAGTTATCGAGCCTCT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCCTATTTATTTTTT-AAAGTCGTTGAGCCTCT
* *
7154113 GATTAGAGG-GGTCTTATTTA
65 GATTAGAGGAGCT-TTATTCA
* * *
7154133 TTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTATTTATTTTTTAAAGTCGTTGAGCTT
1 --TTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCC-TATTTATTTTTTAAAGTCGTTGAGCCT
7154198 CTGATTAGAGGAGCTTTATTCA
63 CTGATTAGAGGAGCTTTATTCA
* * * *
7154220 TTTTCAAAGTCATTGAGCCTTTGATTAAATGAGCCATATTTATTTTTCAAAGTCGTTGAGCCTCT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCC-TATTTATTTTTTAAAGTCGTTGAGCCTCT
*
7154285 GATTAGAGAAGCTTTATTCA
65 GATTAGAGGAGCTTTATTCA
*
7154305 TTTTCAAAGTCGTTGAGCCTCTGATTAAATGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGC
7154339 ATTGTTTATT
Statistics
Matches: 182, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
85 108 0.59
86 33 0.18
87 28 0.15
88 13 0.07
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (84 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCCTATTTATTTTTTAAAGTCGTTGAGCCTCTG
ATTAGAGGAGCTTTATTCA
Found at i:7169418 original size:49 final size:50
Alignment explanation
Indices: 7169329--7169429 Score: 159
Period size: 49 Copynumber: 2.0 Consensus size: 50
7169319 ACTTGATAAG
*
7169329 TCAAATTAGGTGAAGTCTAAAAAAAAACATTATCCTTAAGCATAAATTAA
1 TCAAATTAGATGAAGTCTAAAAAAAAACATTATCCTTAAGCATAAATTAA
* * *
7169379 TCAAATTAGATGGAGTCT-TAAAAAAACATTATCCTTAAGCATGAATTAA
1 TCAAATTAGATGAAGTCTAAAAAAAAACATTATCCTTAAGCATAAATTAA
7169428 TC
1 TC
7169430 TTTGGGGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 31 0.66
50 16 0.34
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (50 bp):
TCAAATTAGATGAAGTCTAAAAAAAAACATTATCCTTAAGCATAAATTAA
Found at i:7170720 original size:2 final size:2
Alignment explanation
Indices: 7170713--7170739 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7170703 TTTCTAACAT
7170713 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7170740 TGAATAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7186236 original size:2 final size:2
Alignment explanation
Indices: 7186229--7186257 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7186219 ATGTTTTAGC
7186229 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7186258 CCTTTTGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7188989 original size:18 final size:18
Alignment explanation
Indices: 7188955--7188989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7188945 AGGCGGCTCG
*
7188955 ATCTCTTCCGCCTCCTCC
1 ATCTCTTCCGCCGCCTCC
*
7188973 ATCTCTTCCTCCGCCTC
1 ATCTCTTCCGCCGCCTC
7188990 AACCTGTGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.54, G:0.06, T:0.34
Consensus pattern (18 bp):
ATCTCTTCCGCCGCCTCC
Found at i:7191218 original size:29 final size:31
Alignment explanation
Indices: 7191160--7191235 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 31
7191150 GTTAATGATT
7191160 AAATTAAA-TTCTTAAAAAGTAATACTATAA
1 AAATTAAATTTCTTAAAAAGTAATACTATAA
* *
7191190 AAATTAAATTTCTT-TAAA-TAATATTATAA
1 AAATTAAATTTCTTAAAAAGTAATACTATAA
7191219 AAATTAAA-TTCTTAAAA
1 AAATTAAATTTCTTAAAA
7191236 GTTGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 20 0.49
30 11 0.27
31 5 0.12
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (31 bp):
AAATTAAATTTCTTAAAAAGTAATACTATAA
Found at i:7193082 original size:2 final size:2
Alignment explanation
Indices: 7193075--7193127 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
7193065 AATTCAAAGG
7193075 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7193117 GA GA GA GA GA G
1 GA GA GA GA GA G
7193128 TGCTGATTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7193798 original size:15 final size:15
Alignment explanation
Indices: 7193745--7193803 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
7193735 TTTAATATAA
* *
7193745 TATATATTTTTAATT
1 TATATATATATAATT
*
7193760 TATATATATGTAAATT
1 TATATATATAT-AATT
* *
7193776 AATTTATATATAATT
1 TATATATATATAATT
7193791 TATATATATATAA
1 TATATATATATAA
7193804 AATAAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATATATATATAATT
Found at i:7198847 original size:22 final size:22
Alignment explanation
Indices: 7198820--7198868 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
7198810 ATCAAATATT
7198820 ATTTTTATT-AAATTTATAAACA
1 ATTTTTATTAAAATTT-TAAACA
*
7198842 ATTTTTATTAAAATTTTAAATA
1 ATTTTTATTAAAATTTTAAACA
7198864 ATTTT
1 ATTTT
7198869 GTTTTCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTATTAAAATTTTAAACA
Found at i:7207561 original size:200 final size:201
Alignment explanation
Indices: 7207300--7207737 Score: 498
Period size: 203 Copynumber: 2.2 Consensus size: 201
7207290 GAATCTATAG
* *
7207300 TGACAATAAAATAAAACGTCACTCTATGCTTTTTTTTATGACGTTAGTTTTCGTCAACTATTTAT
1 TGACAATAAAATCAAACGTCACTTTATGCTTTTTTTTATGACGTTAGTTTTCGTCAACTATTTAT
* *
7207365 -GAAGAAAAAGTCATCGAA-GCTATATTCGTCAC-AAA-AAA-GAGAAAATATCAGATATATTAG
66 AGAAGAAAAAGTCATCAAAGGCTATAATCGTCACTAAATAAATGA-AAAA-ATCAGATATATTAG
* *** * *
7207425 TGACGAAAA-GTAAATTGTTGTAGTATTAGTGACAAAATTATCATCATC-AATGATTATAAGATA
129 TGAC-AAAAGGTAAATCGTCACAATATTAGTGACAAAATTATCATCA-CAAATAATTATAAGATA
* *
7207488 ATGTC-TACTA
192 ATATCAAAC-A
* *
7207498 TGACAATAAAATCAAACGTCACTTTATG-TGTTAATTTTTGTGACGTTAGTTTTCGTTAACTATT
1 TGACAATAAAATCAAACGTCACTTTATGCT-TT--TTTTTATGACGTTAGTTTTCGTCAACTATT
** * * * **
7207562 TATAGACTAAAACGTCATTAAAGGCTATAATCGTCACTAAATAAATGATAAAATCTTATATATTA
63 TATAGAAGAAAAAGTCATCAAAGGCTATAATCGTCACTAAATAAATGAAAAAATCAGATATATTA
* *
7207627 GTGACAAAAGGTAAATCGTCACAATATTGGTGACACAATTATCATCACAAATAATTATAAGATAA
128 GTGACAAAAGGTAAATCGTCACAATATTAGTGACAAAATTATCATCACAAATAATTATAAGATAA
*
7207692 TATCAAACG
193 TATCAAACA
* * *
7207701 TGGCAATAAAATCAAATGTCACCTTATGCTTTTTTTT
1 TGACAATAAAATCAAACGTCACTTTATGCTTTTTTTT
7207738 TTTATATGAC
Statistics
Matches: 201, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
197 1 0.00
198 28 0.14
200 31 0.15
201 18 0.09
202 18 0.09
203 94 0.47
204 9 0.04
205 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (201 bp):
TGACAATAAAATCAAACGTCACTTTATGCTTTTTTTTATGACGTTAGTTTTCGTCAACTATTTAT
AGAAGAAAAAGTCATCAAAGGCTATAATCGTCACTAAATAAATGAAAAAATCAGATATATTAGTG
ACAAAAGGTAAATCGTCACAATATTAGTGACAAAATTATCATCACAAATAATTATAAGATAATAT
CAAACA
Found at i:7213927 original size:51 final size:51
Alignment explanation
Indices: 7213869--7213972 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
7213859 AAAATTTTAC
* *
7213869 TTTTTCAATAGTAAATAATTGTTTACTGTAAAGATAATATTCATCAATTAA
1 TTTTTCAATAGTAAACAATTGTTTAATGTAAAGATAATATTCATCAATTAA
*
7213920 TTTTTCAATAGTAAACAATTGTTTAATGTAAAGATAATATTCATTAATTAA
1 TTTTTCAATAGTAAACAATTGTTTAATGTAAAGATAATATTCATCAATTAA
7213971 TT
1 TT
7213973 ATTACAATGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (51 bp):
TTTTTCAATAGTAAACAATTGTTTAATGTAAAGATAATATTCATCAATTAA
Found at i:7217037 original size:70 final size:71
Alignment explanation
Indices: 7216954--7217096 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
7216944 GGTTAATAAT
* * * * *
7216954 TAATTTTATTAGTGTGT-AAGTCAAAACACAATATGCAAAATATTGATTACATTACATAAGTTTA
1 TAATTTCATTAGTGTGTAAAGTCAAAACACAATATACAAAATATTAAATACATTACATAACTTTA
7217018 TGCATA
66 TGCATA
* * *
7217024 TAATTTCATTAGTGTGTAAAGTTAAAACACAATATACAAAATATTAAATATATTTCATAACTTTA
1 TAATTTCATTAGTGTGTAAAGTCAAAACACAATATACAAAATATTAAATACATTACATAACTTTA
7217089 TGCATA
66 TGCATA
7217095 TA
1 TA
7217097 CTGAAATTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 16 0.25
71 48 0.75
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (71 bp):
TAATTTCATTAGTGTGTAAAGTCAAAACACAATATACAAAATATTAAATACATTACATAACTTTA
TGCATA
Found at i:7221732 original size:16 final size:16
Alignment explanation
Indices: 7221692--7221733 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
7221682 TATATCATAT
7221692 TTAATTTATATAAAAAA
1 TTAA-TTATATAAAAAA
7221709 TATAATTATA-AAATAAA
1 T-TAATTATATAAA-AAA
7221726 TTAATTAT
1 TTAATTAT
7221734 TTTTTGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.43
17 10 0.43
18 3 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATTATATAAAAAA
Found at i:7221796 original size:18 final size:17
Alignment explanation
Indices: 7221747--7221797 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
7221737 TTGATGTAAA
7221747 ATAATTTAA-TT-TTTT
1 ATAATTTAATTTATTTT
*
7221762 -TAATTTAATTTAATTT
1 ATAATTTAATTTATTTT
*
7221778 ATAATATTATTTTATTTT
1 ATAAT-TTAATTTATTTT
7221796 AT
1 AT
7221798 CTTATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 8 0.28
15 2 0.07
16 3 0.10
17 4 0.14
18 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATAATTTAATTTATTTT
Found at i:7222084 original size:23 final size:24
Alignment explanation
Indices: 7222058--7222105 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7222048 TAATTTAAAA
* *
7222058 TTATTTTTT-TAATTAATAATTAT
1 TTATTTTTTAAAATTAAAAATTAT
7222081 TTATTTTTTAAAATTAAAAATTAT
1 TTATTTTTTAAAATTAAAAATTAT
7222105 T
1 T
7222106 ATATATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTTTTTAAAATTAAAAATTAT
Found at i:7222107 original size:23 final size:22
Alignment explanation
Indices: 7222057--7222107 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
7222047 GTAATTTAAA
* *
7222057 ATTATTTTTTTAATTAATAATT
1 ATTATTTTTTAAATTAAAAATT
7222079 ATTTATTTTTTAAAATTAAAAATT
1 A-TTATTTTTT-AAATTAAAAATT
7222103 ATTAT
1 ATTAT
7222108 ATATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 13 0.52
24 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTATTTTTTAAATTAAAAATT
Found at i:7226175 original size:2 final size:2
Alignment explanation
Indices: 7226168--7226193 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7226158 TGATATAAGT
7226168 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7226194 CACACTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7226755 original size:2 final size:2
Alignment explanation
Indices: 7226748--7226779 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7226738 GGGACTAATT
*
7226748 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7226780 GGGTTATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7238995 original size:9 final size:9
Alignment explanation
Indices: 7238939--7238987 Score: 91
Period size: 9 Copynumber: 5.6 Consensus size: 9
7238929 TACTATGCTT
7238939 AAAAAAATG
1 AAAAAAATG
7238948 AAAAAAATG
1 AAAAAAATG
7238957 AAAAAAATG
1 AAAAAAATG
7238966 AAAAAAATG
1 AAAAAAATG
7238975 -AAAAAATG
1 AAAAAAATG
7238983 AAAAA
1 AAAAA
7238988 GTGAAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.21
9 31 0.79
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:7238996 original size:8 final size:8
Alignment explanation
Indices: 7238940--7238995 Score: 76
Period size: 9 Copynumber: 6.6 Consensus size: 8
7238930 ACTATGCTTA
7238940 AAAAAATG
1 AAAAAATG
7238948 AAAAAAATG
1 -AAAAAATG
7238957 AAAAAAATG
1 -AAAAAATG
7238966 AAAAAAATG
1 -AAAAAATG
7238975 AAAAAATG
1 AAAAAATG
*
7238983 AAAAAGTG
1 AAAAAATG
7238991 AAAAA
1 AAAAA
7238996 GGAGGACTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 20 0.43
9 26 0.57
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:7240071 original size:42 final size:42
Alignment explanation
Indices: 7239995--7240540 Score: 757
Period size: 42 Copynumber: 13.1 Consensus size: 42
7239985 ATGATTGTCA
*
7239995 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
7240036 AGGAGCAATTTACTTTTCAAAAGTCGTGATGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
7240078 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
7240119 AGGAGCAATTTACTTTCCAAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
7240161 AGGAGCAATTTATTTTTC-AAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
7240202 AGGAGCAATTTACTTTTCAAAAGTCGGGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
7240244 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
7240285 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
7240327 AGGAGCAATTTACTTTCCAAAAGTCGGGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
7240369 AGGAGCAATTTATTTTTC-AAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
7240410 AGGAGCAATTTA-TTTTCCAAAAGTCGTGGTGCCTCTATTTAA
1 AGGAGCAATTTACTTTT-CAAAAGTCGTGGTGCCTCTGTTTAG
* *** *
7240452 AGGAGCAATTTATTTTTTC-AAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * * *
7240494 AGGAGCCATTTACTTTTC-AAAGTCGTTGAGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
7240535 AGGAGC
1 AGGAGC
7240541 TTTGATCAAA
Statistics
Matches: 452, Mismatches: 45, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.01
41 191 0.42
42 252 0.56
43 1 0.00
44 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:7240134 original size:83 final size:83
Alignment explanation
Indices: 7239995--7240540 Score: 765
Period size: 83 Copynumber: 6.6 Consensus size: 83
7239985 ATGATTGTCA
7239995 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
7240060 CGTGATGCCTCTATTTAG
66 CGTGATGCCTCTATTTAG
*
7240078 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
*
7240143 CGTGATGCCTCTGTTTAG
66 CGTGATGCCTCTATTTAG
* * *
7240161 AGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
* * *
7240226 CGGGGTGCCTCTGTTTAG
66 CGTGATGCCTCTATTTAG
* * *
7240244 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
* *
7240309 TGTGGTGCCTCTATTTAG
66 CGTGATGCCTCTATTTAG
* * *
7240327 AGGAGCAATTTACTTTCCAAAAGTCGGGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTC-AAAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAG
* * *
7240391 TCATGGTGCCTCTGTTTAG
65 TCGTGATGCCTCTATTTAG
* * * *
7240410 AGGAGCAATTTATTTTCCAAAAGTCGTGGTGCCTCTATTTAAAGGAGCAATTTATTTTTTC-AAA
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAA
* *
7240474 GTCGTTAAGCCTCTGA-TTAG
64 GTCGTGATGCCTCT-ATTTAG
* * * * *
7240494 AGGAGCCATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGGAGC
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
7240541 TTTGATCAAA
Statistics
Matches: 424, Mismatches: 36, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
83 349 0.82
84 75 0.18
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (83 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
CGTGATGCCTCTATTTAG
Found at i:7240164 original size:125 final size:124
Alignment explanation
Indices: 7239995--7240540 Score: 790
Period size: 125 Copynumber: 4.4 Consensus size: 124
7239985 ATGATTGTCA
*
7239995 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
* *
7240060 CGTGATGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGGGGTGCCTCTGTTTAG
* * *
7240119 AGGAGCAATTTACTTTCCAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAG
* * *
7240183 TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGGGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTATTTAGAGGAGCAATTTAC-TTTCCAAAGTCGGGGTGCCTCTGTTTAG
* *
7240244 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
* *
7240309 TGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTCGGGGTGCCTCTGTTTAA
66 CGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCC-AAAGTCGGGGTGCCTCTGTTTAG
* *
7240369 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAAG
* * * **** *
7240433 TCGTGGTGCCTCTATTTAAAGGAGCAATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAG
65 TCGTGGTGCCTCTATTTAGAGGAGCAATTTA-CTTTCCAAAGTCGGGGTGCCTCTGTTTAG
* * * *
7240494 AGGAGCCATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGGAGC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
7240541 TTTGATCAAA
Statistics
Matches: 381, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
124 96 0.25
125 281 0.74
126 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
CGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGGGGTGCCTCTGTTTAG
Found at i:7240757 original size:6 final size:6
Alignment explanation
Indices: 7240748--7240856 Score: 93
Period size: 6 Copynumber: 18.8 Consensus size: 6
7240738 TTTCTTTTCT
* * *
7240748 TTTTTA -TTTTA TTCTTA TTTTTA TTTTTA TTTTTA -TTGTA TTTTACA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA
* * *
7240795 TTTTTA -TTTTA TTTATA TTTATA TTTATA -TTTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
7240840 TTATTA TATATA TTTTT
1 TTTTTA TTTTTA TTTTT
7240857 TAGGTATTTA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
5 23 0.27
6 56 0.67
7 5 0.06
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:7240768 original size:18 final size:17
Alignment explanation
Indices: 7240732--7240858 Score: 77
Period size: 18 Copynumber: 7.4 Consensus size: 17
7240722 GGGTAAATCC
* *
7240732 TTTTT-TTTTCTTTTCT
1 TTTTTATTTTATTTTAT
7240748 TTTTTATTTTATTCTTA-
1 TTTTTATTTTATT-TTAT
7240765 TTTTTATTTTTATTTT-T
1 TTTTTA-TTTTATTTTAT
* *
7240782 ATTGTATTTTACATTTT-T
1 TTTTTATTTT--ATTTTAT
*
7240800 ATTTTA-TTTATATTTAT
1 TTTTTATTTTAT-TTTAT
*
7240817 ATTTATATTTTATTTTA-
1 -TTTTTATTTTATTTTAT
*
7240834 TTTTTATTATTATATATAT
1 TTTTTATT-TTAT-TTTAT
7240853 TTTTTA
1 TTTTTA
7240859 GGTATTTATG
Statistics
Matches: 89, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.02
16 19 0.21
17 26 0.29
18 31 0.35
19 11 0.12
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTATTTTAT
Found at i:7240836 original size:28 final size:27
Alignment explanation
Indices: 7240749--7240855 Score: 87
Period size: 28 Copynumber: 3.8 Consensus size: 27
7240739 TTCTTTTCTT
7240749 TTTTATTT-TATTCT-TATTTTTATTTTTA
1 TTTTATTTATATT-TATA-TTTTA-TTTTA
*
7240777 TTTTTATTGTAT-TTTACATTTTTATTTTA
1 -TTTTATT-TATATTTATA-TTTTATTTTA
7240806 TTTATATTTATATTTATATTTTATTTTA
1 TTT-TATTTATATTTATATTTTATTTTA
*
7240834 TTTT-TATTATTATATATATTTT
1 TTTTAT-TTA-TATTTATATTTT
7240856 TTAGGTATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
26 1 0.01
27 4 0.06
28 30 0.44
29 22 0.32
30 10 0.15
31 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTATTTATATTTATATTTTATTTTA
Found at i:7240993 original size:21 final size:20
Alignment explanation
Indices: 7240947--7241005 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
7240937 CAGATTATGT
7240947 ATTATCTGTTATTTAATTTTA
1 ATTATCTGTTATTT-ATTTTA
7240968 ATTATCTGTTAATTT-TTTTGA
1 ATTATCTGTT-ATTTATTTT-A
*
7240989 TTTATC--TTATTTATTTT
1 ATTATCTGTTATTTATTTT
7241006 CTTTTGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 4 0.12
21 16 0.47
22 4 0.12
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTATCTGTTATTTATTTTA
Found at i:7241048 original size:10 final size:9
Alignment explanation
Indices: 7240998--7241047 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
7240988 ATTTATCTTA
7240998 TTTATTTTCT
1 TTTATTTT-T
7241008 TTTGATTTTT
1 TTT-ATTTTT
**
7241018 TGCATTTTT
1 TTTATTTTT
7241027 TTTATTTTT
1 TTTATTTTT
7241036 TTTATTTTT
1 TTTATTTTT
7241045 TTT
1 TTT
7241048 TTTGATTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 25 0.71
10 5 0.14
11 5 0.14
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTATTTTT
Found at i:7242295 original size:2 final size:2
Alignment explanation
Indices: 7242288--7242313 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7242278 ACAAATTTAT
7242288 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7242314 GGGTTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7245909 original size:18 final size:18
Alignment explanation
Indices: 7245886--7245920 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7245876 AATGATTGAT
7245886 AATTAAGTTATCATTAAC
1 AATTAAGTTATCATTAAC
7245904 AATTAAGTTATCATTAA
1 AATTAAGTTATCATTAA
7245921 TTTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
AATTAAGTTATCATTAAC
Found at i:7245958 original size:22 final size:22
Alignment explanation
Indices: 7245933--7246169 Score: 169
Period size: 22 Copynumber: 10.8 Consensus size: 22
7245923 TATTATTATG
* *
7245933 TTATTAACGATTTACCACTAAA
1 TTATTAATGATTTACTACTAAA
* * *
7245955 TTATCAATGATATACTTCTAAA
1 TTATTAATGATTTACTACTAAA
* *
7245977 TTATCAACGATTTACTACTAAA
1 TTATTAATGATTTACTACTAAA
* * * *
7245999 TTAGTATTGATTTATTACTAAT
1 TTATTAATGATTTACTACTAAA
* *
7246021 TTATGAATGATTTACTACTAAG
1 TTATTAATGATTTACTACTAAA
*
7246043 TTATAAATGATTTA-TAACTAAA
1 TTATTAATGATTTACT-ACTAAA
* * *
7246065 TTATTGATGAGTTACTACTAAG
1 TTATTAATGATTTACTACTAAA
* * **
7246087 TTACTGATGATTTGTTA-TAAAA
1 TTATTAATGATTTACTACT-AAA
* *
7246109 TTA-TAACTAATTTATTA-TAAA
1 TTATTAA-TGATTTACTACTAAA
*
7246130 TTTATCAATGATTTACTA-TAAAA
1 -TTATTAATGATTTACTACT-AAA
*
7246153 TTATTAATGATTAACTA
1 TTATTAATGATTTACTA
7246170 ATTTACTACT
Statistics
Matches: 170, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
21 7 0.04
22 157 0.92
23 6 0.04
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (22 bp):
TTATTAATGATTTACTACTAAA
Found at i:7246173 original size:52 final size:52
Alignment explanation
Indices: 7246112--7246210 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
7246102 TATAAAATTA
* * *
7246112 TAACTAATTTATTA-TAAATTTATCAATGATTTACTA-TAAAATTATTAATGAT
1 TAACTAATTTACTACTAAA-TTATCAATAATTTACAACT-AAATTATTAATGAT
*
7246164 TAACTAATTTACTACTAAATTATCACTAATTTACAACTAAATTATTA
1 TAACTAATTTACTACTAAATTATCAATAATTTACAACTAAATTATTA
7246211 GTAATTTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 36 0.88
53 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (52 bp):
TAACTAATTTACTACTAAATTATCAATAATTTACAACTAAATTATTAATGAT
Found at i:7246191 original size:22 final size:22
Alignment explanation
Indices: 7246166--7246221 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
7246156 TTAATGATTA
*
7246166 ACTAATTTACTACTAAATTATC
1 ACTAATTTACAACTAAATTATC
*
7246188 ACTAATTTACAACTAAATTATT
1 ACTAATTTACAACTAAATTATC
*
7246210 AGTAATTTACAA
1 ACTAATTTACAA
7246222 TTAAGCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (22 bp):
ACTAATTTACAACTAAATTATC
Found at i:7246304 original size:22 final size:21
Alignment explanation
Indices: 7246254--7246304 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
7246244 TAAATCATCA
7246254 ATGATTTAATATTATATTATT
1 ATGATTTAATATTATATTATT
*
7246275 ATGCATTTACTATTATATTATT
1 ATG-ATTTAATATTATATTATT
7246297 ACTGATTT
1 A-TGATTT
7246305 GATACATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (21 bp):
ATGATTTAATATTATATTATT
Done.