Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 18 of 362
Found at i:5547071 original size:75 final size:74
Alignment explanation
Indices: 5546938--5547096 Score: 264
Period size: 75 Copynumber: 2.1 Consensus size: 74
5546928 TACCCCCAGC
5546938 GGAGTCGCCAAGCTGTCGTAACCATTTTTAAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
1 GGAGTCGCCAAGCTGTCGTAACCATTTTTAAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
*
5547003 AAAAGAATG
66 AAAAGAACG
* * **
5547012 GGAGTCGCCATGTTGTCGTAACCATTTTTTTGAAAAAAAACGGGAATCGACTTGGATTTTGAAAA
1 GGAGTCGCCAAGCTGTCGTAACCA-TTTTTAAAAAAAAAACGGGAATCGACTTGGATTTTGAAAA
5547077 TAAAAGAACG
65 TAAAAGAACG
5547087 GGAGTCGCCA
1 GGAGTCGCCA
5547097 CCGATCCTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 22 0.28
75 57 0.72
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (74 bp):
GGAGTCGCCAAGCTGTCGTAACCATTTTTAAAAAAAAAACGGGAATCGACTTGGATTTTGAAAAT
AAAAGAACG
Found at i:5548125 original size:13 final size:13
Alignment explanation
Indices: 5548107--5548133 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5548097 AATAGAAGTA
5548107 ATAAGAAATATAT
1 ATAAGAAATATAT
5548120 ATAAGAAATATAT
1 ATAAGAAATATAT
5548133 A
1 A
5548134 CATACATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
ATAAGAAATATAT
Found at i:5548663 original size:3 final size:3
Alignment explanation
Indices: 5548655--5548751 Score: 58
Period size: 3 Copynumber: 32.7 Consensus size: 3
5548645 ATGTATATAT
* * * * * *
5548655 ATA ATA ATA ATA ATA ATG GT- GTA GTA AAA ATA ATA ATA AT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
5548701 ATGA AT- ATG ATA ATA ATA ATA ATA ATA ACA GTTA AT- ATA ATA ATAA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A
5548747 ATA AT
1 ATA AT
5548752 GCTACAAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
2 8 0.11
3 60 0.80
4 7 0.09
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:5549734 original size:31 final size:31
Alignment explanation
Indices: 5549696--5549767 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
5549686 AGGAAAAATG
*
5549696 GGTGGTGGAGTAGAGGCCACTTGCAGGCATC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
*
5549727 GGTGGTGGAGCAGAGGCCACTTGCAGGCGTC
1 GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
5549758 GGTGGTGGAG
1 GGTGGTGGAG
5549768 GGGTGGGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.47, T:0.18
Consensus pattern (31 bp):
GGTGGTGGAGCAGAGGCCACTTGCAGGCATC
Found at i:5550445 original size:39 final size:39
Alignment explanation
Indices: 5550402--5550477 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 39
5550392 TTATCTTAAC
* *
5550402 ATTTTTA-ATG-ATATATTATAGTAGTATATAATAAATTTA
1 ATTTTTATATGTATAAATTAT-GTAATATATAA-AAATTTA
5550441 ATTTTTATATGTTATAAATTATGTAATATATAAAAAT
1 ATTTTTATATG-TATAAATTATGTAATATATAAAAAT
5550478 AACGTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 7 0.22
40 7 0.22
41 10 0.31
42 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.49
Consensus pattern (39 bp):
ATTTTTATATGTATAAATTATGTAATATATAAAAATTTA
Found at i:5551623 original size:55 final size:55
Alignment explanation
Indices: 5551519--5551629 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 55
5551509 TATTATTAAC
5551519 TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
1 TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
5551574 TATTGAAAATAAAATATTTGAAAGAAGTTTTATTAGTATAT-TTTTTTTCAAATCG
1 TATTG-AAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
5551629 T
1 T
5551630 CAAAATTAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 20 0.36
56 35 0.64
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (55 bp):
TATTGAAATAAAATATTTGAAAGAAGTTTTATTAGTATATATTTTTTTCAAATCG
Found at i:5555904 original size:31 final size:31
Alignment explanation
Indices: 5555869--5555936 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
5555859 GTTATTTTAG
5555869 TTTATAGTTCAAATATTTTAATTATAAAAAA
1 TTTATAGTTCAAATATTTTAATTATAAAAAA
*
5555900 TTTATAGTTCAAATATTTTAATTATAAAAAG
1 TTTATAGTTCAAATATTTTAATTATAAAAAA
5555931 TTTATA
1 TTTATA
5555937 TAAATTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (31 bp):
TTTATAGTTCAAATATTTTAATTATAAAAAA
Found at i:5559554 original size:19 final size:20
Alignment explanation
Indices: 5559519--5559564 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
5559509 AATAAAAATA
*
5559519 AATAAAATTTATTAAATTTT
1 AATAAAATATATTAAATTTT
5559539 AATAAAATAT-TTAAATTTT
1 AATAAAATATATTAAATTTT
*
5559558 ATTAAAA
1 AATAAAA
5559565 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAAAATATATTAAATTTT
Found at i:5560118 original size:19 final size:19
Alignment explanation
Indices: 5560096--5560196 Score: 77
Period size: 19 Copynumber: 5.4 Consensus size: 19
5560086 TTTTTGATAT
5560096 ATTTTATATATTTTTTACA
1 ATTTTATATATTTTTTACA
*
5560115 ATTTT-TATAATTTTTTACG
1 ATTTTATAT-ATTTTTTACA
* *
5560134 ATTTT-TTTATTTTTTTCTA
1 ATTTTATATATTTTTTAC-A
*
5560153 ATTTTTATATTTTTATTTA-A
1 A-TTTTATATATTT-TTTACA
* *
5560173 ATTTAATA-ATTTTATA-A
1 ATTTTATATATTTTTTACA
5560190 ATTTTAT
1 ATTTTAT
5560197 TGATTTTGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
17 10 0.15
18 14 0.21
19 28 0.42
20 6 0.09
21 5 0.08
22 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTATATATTTTTTACA
Found at i:5560129 original size:29 final size:28
Alignment explanation
Indices: 5560097--5560194 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
5560087 TTTTGATATA
5560097 TTTTATATATTTTTTACAATTTTTATAAT
1 TTTTATATATTTTTTA-AATTTTTATAAT
* ** *
5560126 TTTT-TACGATTTTTTTATTTTTTTCTAAT
1 TTTTATA-TA-TTTTTTAAATTTTTATAAT
* *
5560155 TTTTATATTTTTATTTAAA-TTTAATAA-
1 TTTTATATATTT-TTTAAATTTTTATAAT
*
5560182 TTTTATAAATTTT
1 TTTTATATATTTT
5560195 ATTGATTTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
26 1 0.02
27 10 0.19
28 11 0.21
29 22 0.42
30 9 0.17
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTATATATTTTTTAAATTTTTATAAT
Found at i:5560717 original size:31 final size:29
Alignment explanation
Indices: 5560681--5560749 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
5560671 CTTAGGCTAA
5560681 TATTTTAGTTAAGTTT-T-GTTATTTTTATTAT
1 TATTTTA-TT-AGTTTCTAGTTA-TTTTATT-T
*
5560712 TATTTTATTTGTTTCTAGTTATTTTATTT
1 TATTTTATTAGTTTCTAGTTATTTTATTT
5560741 TATTTTATT
1 TATTTTATT
5560750 TTTCCTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 14 0.40
30 10 0.29
31 11 0.31
ACGTcount: A:0.20, C:0.01, G:0.07, T:0.71
Consensus pattern (29 bp):
TATTTTATTAGTTTCTAGTTATTTTATTT
Found at i:5560722 original size:24 final size:23
Alignment explanation
Indices: 5560695--5560752 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
5560685 TTAGTTAAGT
5560695 TTTGTTATTTTTATTATTATTTTA
1 TTTGTTATTTTTATT-TTATTTTA
*
5560719 TTTGTT-TCTAGTTATTTTATTTTA
1 TTTGTTAT-T-TTTATTTTATTTTA
5560743 -TT-TTATTTTT
1 TTTGTTATTTTT
5560753 CCTCTTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 4 0.14
24 15 0.52
25 5 0.17
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (23 bp):
TTTGTTATTTTTATTTTATTTTA
Found at i:5564600 original size:21 final size:21
Alignment explanation
Indices: 5564576--5564620 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5564566 TACACGCCTA
* *
5564576 TGTGGAGGCCACACACACTCG
1 TGTGAAGGCCACACACACCCG
* *
5564597 TGTGAAGGCCCCACATACCCG
1 TGTGAAGGCCACACACACCCG
5564618 TGT
1 TGT
5564621 AGATGGGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
TGTGAAGGCCACACACACCCG
Found at i:5564653 original size:21 final size:21
Alignment explanation
Indices: 5564595--5564665 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
5564585 CACACACACT
*
5564595 CGTGTGAAGGCCCCACATACC
1 CGTGTGAAGGCCCCACATGCC
* **
5564616 CGTGTAGATGG-GGCACATGCC
1 CGTGT-GAAGGCCCCACATGCC
5564637 CGTGTGAAGGCCCCACATGCC
1 CGTGTGAAGGCCCCACATGCC
*
5564658 CGTATGAA
1 CGTGTGAA
5564666 CAACCTGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.10
21 32 0.80
22 4 0.10
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.17
Consensus pattern (21 bp):
CGTGTGAAGGCCCCACATGCC
Found at i:5565764 original size:27 final size:27
Alignment explanation
Indices: 5565713--5565802 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
5565703 GTGACAGAGT
5565713 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
5565742 CACCAGAAGAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
5565769 CACCAAAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
5565797 CACCAG
1 CACCAG
5565803 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:5565955 original size:28 final size:28
Alignment explanation
Indices: 5565908--5566000 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
5565898 AAATTAACCC
* * *
5565908 TAGGGGTATAAAGGTCATTTTACATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5565936 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5565964 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
5565992 TAGGGGTAT
1 TAGGGGTAT
5566001 TCTAGTACAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:5566263 original size:8 final size:8
Alignment explanation
Indices: 5566246--5566278 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
5566236 GCCTAAAATA
5566246 TCGGCTTT
1 TCGGCTTT
*
5566254 TCGGCATT
1 TCGGCTTT
5566262 TCGGCTTT
1 TCGGCTTT
5566270 TCGGCTTT
1 TCGGCTTT
5566278 T
1 T
5566279 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:5570849 original size:11 final size:12
Alignment explanation
Indices: 5570805--5570849 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
5570795 TATCTCTTTT
5570805 ATAATTATATAA
1 ATAATTATATAA
*
5570817 A-AATTATATTA
1 ATAATTATATAA
5570828 ATAA--ATATAA
1 ATAATTATATAA
5570838 ATAATT-TATAA
1 ATAATTATATAA
5570849 A
1 A
5570850 GAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTATATAA
Found at i:5571235 original size:25 final size:25
Alignment explanation
Indices: 5571207--5571257 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5571197 TAATTTGAAA
*
5571207 AAACTTGCAAGAAGGGTATAGCAAG
1 AAACTTGCAAGAAGGGCATAGCAAG
* * *
5571232 AAACTTGTAGGAAGGGCATAGGAAG
1 AAACTTGCAAGAAGGGCATAGCAAG
5571257 A
1 A
5571258 GGGTTGGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.16
Consensus pattern (25 bp):
AAACTTGCAAGAAGGGCATAGCAAG
Found at i:5573385 original size:20 final size:20
Alignment explanation
Indices: 5573362--5573400 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5573352 TTAATGGTAT
5573362 ATTAATAAAAAATATAATTA
1 ATTAATAAAAAATATAATTA
* *
5573382 ATTAATTAAACATATAATT
1 ATTAATAAAAAATATAATT
5573401 TTCTATCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAATAAAAAATATAATTA
Found at i:5576689 original size:18 final size:19
Alignment explanation
Indices: 5576666--5576704 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5576656 TCAAATTTTT
5576666 TAGTA-TTAAATTAAAAAA
1 TAGTATTTAAATTAAAAAA
* *
5576684 TAGTATTTTAATTAATAAA
1 TAGTATTTAAATTAAAAAA
5576703 TA
1 TA
5576705 CAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TAGTATTTAAATTAAAAAA
Found at i:5581355 original size:20 final size:20
Alignment explanation
Indices: 5581318--5581355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5581308 AGTCTTTAAA
*
5581318 TTTTTAAATGATATAAATAT
1 TTTTTAAATAATATAAATAT
5581338 TTTTTAAATTAATA-AAAT
1 TTTTTAAA-TAATATAAAT
5581356 TATCATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTTAAATAATATAAATAT
Found at i:5592067 original size:27 final size:26
Alignment explanation
Indices: 5592035--5592089 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
5592025 AATAAATTGA
*
5592035 AAATAA-ATTAAAGAAATATGTATACTT
1 AAATAACACTAAAGAAA-ATGTA-ACTT
*
5592062 AAATAACACTAAAGTAAATGTAACTT
1 AAATAACACTAAAGAAAATGTAACTT
5592088 AA
1 AA
5592090 CAAGCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATAACACTAAAGAAAATGTAACTT
Found at i:5605288 original size:29 final size:29
Alignment explanation
Indices: 5605256--5605318 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
5605246 TTTTTTTTTT
* **
5605256 AAATACGGGATTAAGTTAATTTTATAGAA
1 AAATACGGAATTAAGCCAATTTTATAGAA
* *
5605285 AAATTATGGAATTAGGCCAATTTTATAGAA
1 AAA-TACGGAATTAAGCCAATTTTATAGAA
5605315 AAAT
1 AAAT
5605319 TATTGGAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (29 bp):
AAATACGGAATTAAGCCAATTTTATAGAA
Found at i:5605761 original size:18 final size:19
Alignment explanation
Indices: 5605721--5605761 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
5605711 AAACTTACAA
5605721 ATATAAAAATTCATTATAT
1 ATATAAAAATTCATTATAT
*
5605740 -TATAAAAATT-ATTTTAT
1 ATATAAAAATTCATTATAT
5605757 ATATA
1 ATATA
5605762 TTTTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAAAAATTCATTATAT
Found at i:5605808 original size:22 final size:24
Alignment explanation
Indices: 5605756--5605822 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 24
5605746 AATTATTTTA
5605756 TATATATTTTATT-TATCTATATAT
1 TATATATTTT-TTATATCTATATAT
* *
5605780 TAAATATTTTTTATATCT-TA-GT
1 TATATATTTTTTATATCTATATAT
*
5605802 TATATATCTTTTATAT-TATAT
1 TATATATTTTTTATATCTATAT
5605823 TATATGTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 1 0.03
22 17 0.47
23 4 0.11
24 14 0.39
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TATATATTTTTTATATCTATATAT
Found at i:5609337 original size:18 final size:18
Alignment explanation
Indices: 5609299--5609341 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
5609289 GATTAAACGA
5609299 ATTTATAATTTTATTAATT
1 ATTTATAATTTTA-TAATT
5609318 ATTTATAAATTTTA-AATT
1 ATTTAT-AATTTTATAATT
5609336 ATTTAT
1 ATTTAT
5609342 TTGATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTATAATTTTATAATT
Found at i:5609816 original size:15 final size:15
Alignment explanation
Indices: 5609796--5609828 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
5609786 GTTGCTTTTG
5609796 TTTCATTGAAAAC-AT
1 TTTCATT-AAAACGAT
5609811 TTTCATTAAAACGAT
1 TTTCATTAAAACGAT
5609826 TTT
1 TTT
5609829 TAAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTCATTAAAACGAT
Found at i:5611606 original size:28 final size:29
Alignment explanation
Indices: 5611579--5611642 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
5611569 AAATATAATA
* *
5611579 AAAAT-TAATTAT-ATTAAAATTAAAAAT
1 AAAATATAAATATGATTAAAACTAAAAAT
5611606 AAAATATAAATATGATTAAAACTAAAAA-
1 AAAATATAAATATGATTAAAACTAAAAAT
5611634 AAACATATA
1 AAA-ATATA
5611643 TTTAGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.16
28 9 0.28
29 18 0.56
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAATATAAATATGATTAAAACTAAAAAT
Found at i:5611641 original size:23 final size:23
Alignment explanation
Indices: 5611597--5611641 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5611587 TTATATTAAA
*
5611597 ATTAAAAATAAAATATAAATATG
1 ATTAAAAATAAAATAAAAATATG
*
5611620 ATTAAAACTAAAA-AAAACATAT
1 ATTAAAAATAAAATAAAA-ATAT
5611642 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Found at i:5623836 original size:19 final size:17
Alignment explanation
Indices: 5623812--5623856 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
5623802 TAAAAATTAC
5623812 AAAAAATTAAAATAACTTT
1 AAAAAATTAAAAT-A-TTT
*
5623831 AAAAAATCAAAATATTT
1 AAAAAATTAAAATATTT
5623848 ATAAAAATT
1 A-AAAAATT
5623857 TCTAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAATTAAAATATTT
Found at i:5624478 original size:22 final size:22
Alignment explanation
Indices: 5624453--5624501 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
5624443 AATGGACAAT
5624453 TTTTTAATAAAAA-AATAATTTA
1 TTTTT-ATAAAAATAATAATTTA
* *
5624475 TTTTTCTAAAAATTATAATTTA
1 TTTTTATAAAAATAATAATTTA
5624497 TTTTT
1 TTTTT
5624502 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTATAAAAATAATAATTTA
Found at i:5624484 original size:21 final size:22
Alignment explanation
Indices: 5624460--5624501 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5624450 AATTTTTTAA
5624460 TAAAAA-AATAATTTATTTTTC
1 TAAAAATAATAATTTATTTTTC
*
5624481 TAAAAATTATAATTTATTTTT
1 TAAAAATAATAATTTATTTTT
5624502 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAAAATAATAATTTATTTTTC
Found at i:5638963 original size:17 final size:18
Alignment explanation
Indices: 5638942--5638981 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5638932 TGGCAGTTGA
5638942 ATTTATTTTT-ATAATTT
1 ATTTATTTTTAATAATTT
*
5638959 TTTTATTTTTAATAATTT
1 ATTTATTTTTAATAATTT
5638977 ATTTA
1 ATTTA
5638982 CTTTGAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATTTTTAATAATTT
Found at i:5639339 original size:21 final size:22
Alignment explanation
Indices: 5639314--5639372 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
5639304 AATTTGTGTA
*
5639314 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
5639335 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
5639357 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
5639373 GATTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:5639410 original size:26 final size:26
Alignment explanation
Indices: 5639358--5639410 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5639348 TGTTTTTATG
*
5639358 TTTTTAAATATATTTGATTTATTAAA
1 TTTTTAAATATATTTGATTTATGAAA
* *
5639384 TTTTTAAAT-TTTTTTATTTAATGAAA
1 TTTTTAAATATATTTGATTT-ATGAAA
5639410 T
1 T
5639411 AAAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTAAATATATTTGATTTATGAAA
Found at i:5639763 original size:19 final size:19
Alignment explanation
Indices: 5639739--5639789 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
5639729 TGAATTTTGA
5639739 CATTTTTATATTTTAAATT
1 CATTTTTATATTTTAAATT
5639758 CATTTTTAT-TTTT---TT
1 CATTTTTATATTTTAAATT
5639773 CATATTTT-TATTTTAAA
1 CAT-TTTTATATTTTAAA
5639790 AAAATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
18 4 0.15
19 9 0.33
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
CATTTTTATATTTTAAATT
Found at i:5640573 original size:18 final size:18
Alignment explanation
Indices: 5640519--5640608 Score: 55
Period size: 19 Copynumber: 5.0 Consensus size: 18
5640509 TTTTTTCTTT
* *
5640519 ATAATTTTCTAGTATTTT-
1 ATAATTTTTTAAT-TTTTA
*
5640537 ATATATTTTTCTAAATTTTA
1 ATA-ATTTTT-TAATTTTTA
5640557 ATAATTTTTTAATTTTTA
1 ATAATTTTTTAATTTTTA
*
5640575 TGTTAA-TTTTTAA-TTTTA
1 --ATAATTTTTTAATTTTTA
*
5640593 AT--TTTCTTAATTTTTA
1 ATAATTTTTTAATTTTTA
5640609 GAATCATGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
15 6 0.10
16 6 0.10
18 16 0.28
19 22 0.38
20 8 0.14
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
ATAATTTTTTAATTTTTA
Found at i:5640582 original size:12 final size:13
Alignment explanation
Indices: 5640565--5640597 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5640555 TAATAATTTT
5640565 TTAATTTTT-ATG
1 TTAATTTTTAATG
*
5640577 TTAATTTTTAATT
1 TTAATTTTTAATG
5640590 TTAATTTT
1 TTAATTTT
5640598 CTTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTAATTTTTAATG
Found at i:5640666 original size:59 final size:59
Alignment explanation
Indices: 5640591--5640721 Score: 138
Period size: 59 Copynumber: 2.2 Consensus size: 59
5640581 TTTTTAATTT
* * * * * * * *
5640591 TAATTTTCTTAATTTTTAGAATCATGACCAAATTAGA-ATATTGTGTAAATATTAAGGGC
1 TAATTTTCTTATTTTTTAAAATAAAGACCAAATTA-ACAAAATGGGTAAATATTAAGGAC
* * *
5640650 TAATTTTGTTATTTTTTAAAATAAAGATCAAATTAACAAAATGGGTAAATATTGAGGAC
1 TAATTTTCTTATTTTTTAAAATAAAGACCAAATTAACAAAATGGGTAAATATTAAGGAC
*
5640709 TAATTTTTTTATT
1 TAATTTTCTTATT
5640722 ATACTAGGTC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 58 0.98
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (59 bp):
TAATTTTCTTATTTTTTAAAATAAAGACCAAATTAACAAAATGGGTAAATATTAAGGAC
Found at i:5640810 original size:31 final size:30
Alignment explanation
Indices: 5640768--5640825 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
5640758 CCACTTTAAC
* *
5640768 GAGTGACTAAAATTAATAACTTATCTAACGA
1 GAGTAACTAAAATTAACAACTTA-CTAACGA
*
5640799 GAGTAACTAAAATTGACAACTTACTAA
1 GAGTAACTAAAATTAACAACTTACTAA
5640826 ATAGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (30 bp):
GAGTAACTAAAATTAACAACTTACTAACGA
Found at i:5644207 original size:3 final size:3
Alignment explanation
Indices: 5644199--5644239 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5644189 CACCAAATTT
5644199 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5644240 GAAACTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5645832 original size:22 final size:21
Alignment explanation
Indices: 5645770--5645834 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
5645760 ACCTAAGATT
5645770 GATTAGAATTTATAAATATTA
1 GATTAGAATTTATAAATATTA
* * * *
5645791 AATAATAACCTTAATAAATATATA
1 GATTAGAA--TTTATAAATAT-TA
5645815 GATTAGAATTTATAAATATT
1 GATTAGAATTTATAAATATT
5645835 TATTCATAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
21 6 0.18
22 10 0.30
23 10 0.30
24 7 0.21
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (21 bp):
GATTAGAATTTATAAATATTA
Found at i:5652849 original size:27 final size:27
Alignment explanation
Indices: 5652795--5652850 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
5652785 CTAACGGATT
* *
5652795 AAATCTTGCTTAACACAATAACATTTC
1 AAATATTGCTTAACACAATAACAATTC
*
5652822 AAATATTGTTTAACACAATTAA-AATTC
1 AAATATTGCTTAACACAA-TAACAATTC
5652849 AA
1 AA
5652851 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (27 bp):
AAATATTGCTTAACACAATAACAATTC
Found at i:5661926 original size:33 final size:33
Alignment explanation
Indices: 5661887--5661956 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
5661877 ACAAACATAC
* *
5661887 AAAGTAATAATTAAATAATGTATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
5661920 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
5661953 AAAG
1 AAAG
5661957 AGTAATACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.26
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:5662530 original size:18 final size:19
Alignment explanation
Indices: 5662477--5662531 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
5662467 AATAAATGTT
*
5662477 ATATAATAAGATATAATTTAA
1 ATATAAT-AGATATAA-TGAA
*
5662498 ATAT-ATAGGAAATAA-GAA
1 ATATAATA-GATATAATGAA
5662516 ATATAATAGATATAAT
1 ATATAATAGATATAAT
5662532 ATAAAACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 12 0.43
19 4 0.14
20 8 0.29
21 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
ATATAATAGATATAATGAA
Found at i:5664851 original size:5 final size:5
Alignment explanation
Indices: 5664841--5664872 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5664831 TTGTACGTTC
5664841 TTTAT TTTAT TTTAT TTTA- TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5664873 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5664865 original size:9 final size:9
Alignment explanation
Indices: 5664841--5664871 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
5664831 TTGTACGTTC
5664841 TTTATTTTA
1 TTTATTTTA
5664850 TTTTATTTTA
1 -TTTATTTTA
5664860 TTTATTTTA
1 TTTATTTTA
5664869 TTT
1 TTT
5664872 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:5664865 original size:14 final size:15
Alignment explanation
Indices: 5664841--5664872 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
5664831 TTGTACGTTC
5664841 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
5664856 TTTA-TTTATTTTAT
1 TTTATTTTATTTTAT
5664870 TTT
1 TTT
5664873 TCACAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:5669520 original size:51 final size:51
Alignment explanation
Indices: 5669444--5669545 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
5669434 CATTTTGTTA
5669444 CCTCCATTCAAGTATGGGCGAGGTAACATTTAGTTGGAAAGTTAAAAAGTT
1 CCTCCATTCAAGTATGGGCGAGGTAACATTTAGTTGGAAAGTTAAAAAGTT
*
5669495 CCTCCATTCAAGTATGGGCGAGGTAACTTTTAGTTGGAAAGTTAAAAAGTT
1 CCTCCATTCAAGTATGGGCGAGGTAACATTTAGTTGGAAAGTTAAAAAGTT
5669546 TACTTTCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
CCTCCATTCAAGTATGGGCGAGGTAACATTTAGTTGGAAAGTTAAAAAGTT
Found at i:5673794 original size:21 final size:21
Alignment explanation
Indices: 5673756--5673796 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5673746 GCCCATCCAT
*
5673756 ATTATTTTATTTTAATATTTA
1 ATTATTTTATTATAATATTTA
5673777 ATTATTTTA-TATATATATTT
1 ATTATTTTATTATA-ATATTT
5673797 TTTATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTATTTTATTATAATATTTA
Found at i:5674291 original size:8 final size:8
Alignment explanation
Indices: 5674278--5674304 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
5674268 ACTGTTCTGA
5674278 TTTTTTAT
1 TTTTTTAT
5674286 TTTTTTAT
1 TTTTTTAT
5674294 TTTTTTAT
1 TTTTTTAT
5674302 TTT
1 TTT
5674305 GCATTCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:5689081 original size:38 final size:40
Alignment explanation
Indices: 5689013--5689117 Score: 106
Period size: 38 Copynumber: 2.6 Consensus size: 40
5689003 GGGCTTCAAC
* * * * *
5689013 CCCCTAAGCAATAGGGTAACAAGCCAAATTTCCA-A-ATA
1 CCCCTAAGCAGTAGGGTAACAGGTCAAATTTACAGATAAA
**
5689051 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAGGTCAAATTTACAGA--TAAA
*
5689093 CCCCTAAGCAGTAGGGAAACAGGTC
1 CCCCTAAGCAGTAGGGTAACAGGTC
5689118 GAGCTTTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 28 0.52
39 1 0.02
42 25 0.46
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
CCCCTAAGCAGTAGGGTAACAGGTCAAATTTACAGATAAA
Found at i:5689146 original size:76 final size:78
Alignment explanation
Indices: 5689050--5689197 Score: 194
Period size: 76 Copynumber: 1.9 Consensus size: 78
5689040 ATTTCCAAAT
* * *
5689050 ACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTT-ACAGATCTAAAC-CCCTAAGCAGTAGGGAAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTTGA-AGATCTAAACACCCTAAGCAATAGGGAAA
*
5689112 CAGGTCGAGCTTTA
65 CAGATCGAGCTTTA
* * * *
5689126 ACCCTTAAGCAGTAGGGTAACAAGCTGAATTTTGAAGATCTTATCACCCTAAGCAATGGGGAAAC
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTTGAAGATCTAAACACCCTAAGCAATAGGGAAAC
5689191 AGATCGA
66 AGATCGA
5689198 ATGCGATAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
76 26 0.43
77 11 0.18
78 24 0.39
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (78 bp):
ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTTGAAGATCTAAACACCCTAAGCAATAGGGAAAC
AGATCGAGCTTTA
Found at i:5689320 original size:87 final size:88
Alignment explanation
Indices: 5689125--5689354 Score: 245
Period size: 88 Copynumber: 2.6 Consensus size: 88
5689115 GTCGAGCTTT
* * **
5689125 AACCCTTAAGCAGTAGGGTAACA-AGCTGAATTTTGAAGATCTTATCACCCTAAGCAATGGGGAA
1 AACCCCTAAGCAGTAGGGTAACAGAGCAGAA-TTTGAAGATCTTATCACCCTAAGCAACAGGGAA
* * * *
5689189 ACAGATCGAATGCGATAGGTCTTA
65 ACAGATCGAAGGCAAAAGGCCTTA
* * * * *
5689213 AACCCCTAAGCAGTAGGGTAACAGA-CAGAA-TTGCAGATCTTATCTCCCTTAGTAGCAGGGAAA
1 AACCCCTAAGCAGTAGGGTAACAGAGCAGAATTTGAAGATCTTATCACCCTAAGCAACAGGGAAA
*
5689276 CAGATCGAAGGTAAAAGAGCCTTA
66 CAGATCGAAGGCAAAAG-GCCTTA
* * *
5689300 AACCCCTAAGCAGTAGGGTAACAG-GCTGAATTT-ATAGATCTTACCTCCCTAAGCA
1 AACCCCTAAGCAGTAGGGTAACAGAGCAGAATTTGA-AGATCTTATCACCCTAAGCA
5689355 GTAATGGAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
86 39 0.33
87 33 0.28
88 45 0.38
89 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (88 bp):
AACCCCTAAGCAGTAGGGTAACAGAGCAGAATTTGAAGATCTTATCACCCTAAGCAACAGGGAAA
CAGATCGAAGGCAAAAGGCCTTA
Found at i:5691453 original size:2 final size:2
Alignment explanation
Indices: 5691446--5691496 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
5691436 TTAATATCTC
* * *
5691446 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AC AT GT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5691487 AT GT AT AT AT
1 AT AT AT AT AT
5691497 TCCTTTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5693140 original size:14 final size:14
Alignment explanation
Indices: 5693123--5693149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5693113 TATACAATAA
5693123 CAACATAATAGTAG
1 CAACATAATAGTAG
5693137 CAACATAATAGTA
1 CAACATAATAGTA
5693150 AAATTGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:5693748 original size:17 final size:18
Alignment explanation
Indices: 5693726--5693760 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5693716 TTATATATTC
*
5693726 TTATAATTAAAT-TTTTG
1 TTATAAATAAATATTTTG
5693743 TTATAAATAAATATTTTG
1 TTATAAATAAATATTTTG
5693761 GGTACAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTATAAATAAATATTTTG
Found at i:5695045 original size:22 final size:22
Alignment explanation
Indices: 5695001--5695052 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
5694991 AATAATAAAA
5695001 ATAAAT-TTAATTATAAAATAT
1 ATAAATATTAATTATAAAATAT
5695022 ATAAATATTAA-TATAAAATAAT
1 ATAAATATTAATTATAAAAT-AT
*
5695044 ATTAATATT
1 ATAAATATT
5695053 TTGTTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATATTAATTATAAAATAT
Found at i:5719286 original size:43 final size:43
Alignment explanation
Indices: 5719223--5719331 Score: 166
Period size: 43 Copynumber: 2.5 Consensus size: 43
5719213 TTTATTTGAA
*
5719223 AAAAACGCCGCTAAAAGCCATGACCTTTAGCAG-CGCTTTTCCC
1 AAAAACGCCGCTAAAGGCCATGACCTTTAG-AGACGCTTTTCCC
* *
5719266 ACAAACGCCGCTAAAGGCCATGACCTTTAGAGACGCTTTTTCC
1 AAAAACGCCGCTAAAGGCCATGACCTTTAGAGACGCTTTTCCC
*
5719309 AAAAACGCCGCTAAAGGTCATGA
1 AAAAACGCCGCTAAAGGCCATGA
5719332 AATTCAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.03
43 58 0.97
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGCCATGACCTTTAGAGACGCTTTTCCC
Found at i:5719372 original size:28 final size:27
Alignment explanation
Indices: 5719340--5719394 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
5719330 GAAATTCAAA
*
5719340 AAAAATTATAAAATATTATAAAAGTCATG
1 AAAAA-TATAAAAAATT-TAAAAGTCATG
*
5719369 AAAAATATAAAAAATTTAAAATTCAT
1 AAAAATATAAAAAATTTAAAAGTCAT
5719395 TATCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
28 10 0.42
29 5 0.21
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAAATATAAAAAATTTAAAAGTCATG
Found at i:5723096 original size:18 final size:18
Alignment explanation
Indices: 5723073--5723116 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5723063 AGGGATTTTG
* *
5723073 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
5723090 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
5723109 GGGGAAAT
1 GGGGAAAT
5723117 CTTTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:5723460 original size:73 final size:74
Alignment explanation
Indices: 5723246--5723470 Score: 380
Period size: 75 Copynumber: 3.0 Consensus size: 74
5723236 CGTCGTTTTC
* *
5723246 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTT-TAAAAATGCCACTAATCTCTTAATTTTCATATTTATTTTT
5723311 ATTTGTTATA
65 ATTTGTTATA
*
5723321 ATAGTGTTTTTTGTGGCGTTTTTTTAAAAAATGCCACTAATCTTTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTT-AAAAATGCCACTAATCTCTTAATTTTCATATTTATTTTT
5723386 ATTTGTTATA
65 ATTTGTTATA
* *
5723396 ATAGTATTTTTTGTGGCGTTTTTTTTAAAATG-CACTAATCTCTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTTAAAAATGCCACTAATCTCTTAATTTTCATATTTATTTTTA
5723460 TTTGTTATA
66 TTTGTTATA
5723469 AT
1 AT
5723471 TTGGAAGCCA
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
73 42 0.29
74 6 0.04
75 95 0.66
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.55
Consensus pattern (74 bp):
ATAGTGTTTTTTGTGGCGTTTTTTTAAAAATGCCACTAATCTCTTAATTTTCATATTTATTTTTA
TTTGTTATA
Found at i:5723769 original size:22 final size:22
Alignment explanation
Indices: 5723730--5723772 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5723720 ACCCATATCT
*
5723730 CTTAACACTTAAAACCTAAACC
1 CTTAACACATAAAACCTAAACC
**
5723752 CTTAACACATAACCCCTAAAC
1 CTTAACACATAAAACCTAAAC
5723773 TTTAAACCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (22 bp):
CTTAACACATAAAACCTAAACC
Found at i:5723786 original size:28 final size:29
Alignment explanation
Indices: 5723741--5723830 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 29
5723731 TTAACACTTA
*
5723741 AAACC-TAAACCCTTAACACATAACCCCT
1 AAACCTTAAACCCTTAACACATAACCCAT
* *
5723769 AAACTTTAAACCC-TAACACATAATCCAT
1 AAACCTTAAACCCTTAACACATAACCCAT
*** * *
5723797 AAACCTTAAAATATTAACTCATAAACCAT
1 AAACCTTAAACCCTTAACACATAACCCAT
5723826 AAACC
1 AAACC
5723831 CCTAACCCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
AAACCTTAAACCCTTAACACATAACCCAT
Found at i:5723837 original size:7 final size:7
Alignment explanation
Indices: 5723827--5723891 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
5723817 ATAAACCATA
5723827 AACCCCT
1 AACCCCT
5723834 AACCCC-
1 AACCCCT
5723840 AATCCCCTT
1 AA-CCCC-T
*
5723849 AACGCCT
1 AACCCCT
*
5723856 AACCCTT
1 AACCCCT
*
5723863 ATCCCCTT
1 AACCCC-T
*
5723871 AACGCCT
1 AACCCCT
5723878 AACCCCT
1 AACCCCT
*
5723885 ATCCCCT
1 AACCCCT
5723892 TAAAACCTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
6 2 0.04
7 33 0.73
8 8 0.18
9 2 0.04
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:5723900 original size:22 final size:22
Alignment explanation
Indices: 5723831--5723894 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
5723821 ACCATAAACC
*
5723831 CCTAACCCCAATCCCCTTAACG
1 CCTAACCCCTATCCCCTTAACG
*
5723853 CCTAACCCTTATCCCCTTAACG
1 CCTAACCCCTATCCCCTTAACG
5723875 CCTAACCCCTATCCCCTTAA
1 CCTAACCCCTATCCCCTTAA
5723895 AACCTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (22 bp):
CCTAACCCCTATCCCCTTAACG
Found at i:5724180 original size:21 final size:21
Alignment explanation
Indices: 5724156--5724240 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
5724146 ACTCTTAAAC
*
5724156 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACTATATAT
* * *
5724177 CTTAAATCATAGTTAACTCATAAAC
1 CTTAAACCATA---AACT-ATATAT
* *
5724202 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACTATATAT
5724223 CTTAAACCATAAACTATA
1 CTTAAACCATAAACTATA
5724241 AACTATAATG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 4 0.08
25 13 0.27
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.31
Consensus pattern (21 bp):
CTTAAACCATAAACTATATAT
Found at i:5724192 original size:46 final size:46
Alignment explanation
Indices: 5724140--5724233 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
5724130 CTTCAAATAC
* * *
5724140 TAGTTAACTCTTAAACCTTAAACCCTAAACTATATATCTTAAATCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
5724186 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
5724232 TA
1 TA
5724234 AACTATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:5724553 original size:40 final size:42
Alignment explanation
Indices: 5724405--5724571 Score: 166
Period size: 41 Copynumber: 4.1 Consensus size: 42
5724395 GTTATATGAC
* *
5724405 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAATGCTCTGGT
* *
5724446 TTTTAGCGGCG-TTTTGCCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAATGCTCTGGT
* * * *
5724486 TTTTCGCGGCATTTTTTACTAAAA-CGCCGCTATTGCTCTGGT
1 TTTTAGCGGC-GTTTTTGCTAAAAGCGCCGCTAATGCTCTGGT
* * * *
5724528 TTTT-GTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGTGT
1 TTTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAATGCTCTG-GT
5724569 TTT
1 TTT
5724572 ACAATTTTTG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
40 39 0.36
41 55 0.51
42 14 0.13
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAATGCTCTGGT
Found at i:5724959 original size:14 final size:15
Alignment explanation
Indices: 5724932--5724960 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5724922 AATTTTATGA
5724932 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
5724947 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
5724961 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:5725153 original size:50 final size:51
Alignment explanation
Indices: 5725076--5725204 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
5725066 GACCATGGCA
**
5725076 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAAATCAAGGACAAA-TG
*
5725127 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCAAATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAAATCAAGGACAAATG
* * *
5725177 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
5725205 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAAATCAAGGACAAATG
Found at i:5725218 original size:31 final size:31
Alignment explanation
Indices: 5725180--5725357 Score: 252
Period size: 31 Copynumber: 5.8 Consensus size: 31
5725170 ACAAATGACA
*
5725180 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
5725211 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
5725242 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
5725273 AGTGAAAAGTGGTAGCTCCGGCAACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
5725304 TGTGAAAA-TGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
5725334 AGTGAATAGTGGTAGCTTCAGCTA
1 AGTGAAAAGTGGTAGCTTCGGCTA
5725358 TAAGTGACAA
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
30 28 0.21
31 104 0.78
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:5727127 original size:21 final size:22
Alignment explanation
Indices: 5727103--5727151 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
5727093 GTAATACATG
5727103 TATTAGATATTA-AAAA-ATATT
1 TATTA-ATATTATAAAATATATT
*
5727124 TATT-ATTTTATAAAATATATT
1 TATTAATATTATAAAATATATT
5727145 TATTAAT
1 TATTAAT
5727152 TAAATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 13 0.54
22 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAATATTATAAAATATATT
Found at i:5727130 original size:17 final size:18
Alignment explanation
Indices: 5727110--5727165 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 18
5727100 ATGTATTAGA
5727110 TATTAAAAA-ATATTTAT
1 TATTAAAAATATATTTAT
5727127 TATTTTATAAAATATATTTAT
1 TA--TTA-AAAATATATTTAT
5727148 TAATTAAATAATTATATT
1 T-ATTAAA-AA-TATATT
5727166 ATAAGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.06
19 5 0.16
20 9 0.28
21 15 0.47
22 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTAAAAATATATTTAT
Found at i:5729360 original size:46 final size:46
Alignment explanation
Indices: 5729308--5729534 Score: 267
Period size: 46 Copynumber: 4.9 Consensus size: 46
5729298 CTCTGAAATG
* * *
5729308 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * *
5729354 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG-
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
* *
5729400 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-AGA
* * *
5729447 AAATGAATAAAACCATGGTTGAAAGATGCCATGGCAACATGATAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * * ** *
5729493 AAACGAGCAAAACCATAGTTGAAAGATATTATGGCATCATGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
5729535 CGAAGATAAA
Statistics
Matches: 159, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
46 118 0.74
47 41 0.26
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:5729508 original size:93 final size:92
Alignment explanation
Indices: 5729319--5729534 Score: 254
Period size: 93 Copynumber: 2.3 Consensus size: 92
5729309 AATGTGTAAG
* * ** *
5729319 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAAACCATGGTTGAAAGATACC
* * * *
5729384 ATGGCAACGTGACATGAAATGAATAAG
66 ATGGCAACATGACATGAAACGAACAAA
* *
5729411 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAAAATGAATAAAACCATGGTTGAAAGATGC
1 ACCATGGTTGAAAGATACCATGGCAACATGAT-AGAAAATGAATAAAACCATGGTTGAAAGATAC
* *
5729476 CATGGCAACATGATA-GAAAACGAGCAAA
65 CATGGCAACATGACATG-AAACGAACAAA
* ** *
5729504 ACCATAGTTGAAAGATATTATGGCATCATGA
1 ACCATGGTTGAAAGATACCATGGCAACATGA
5729535 CGAAGATAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
92 32 0.30
93 73 0.70
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAAACCATGGTTGAAAGATACC
ATGGCAACATGACATGAAACGAACAAA
Found at i:5732002 original size:53 final size:52
Alignment explanation
Indices: 5731923--5732025 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 52
5731913 GAAGGAAAAG
*
5731923 ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACA
1 ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGATATGGCATCGGTACA
* * *
5731975 ATGTGATAATGTGA-TTTCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 ATGTGAT-ATGT-ACTTCCGTATAAGACCATAGCTAGGATATGGCATCGGTA
5732026 TGATATGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 7 0.16
53 37 0.82
54 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (52 bp):
ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGATATGGCATCGGTACA
Found at i:5732047 original size:46 final size:50
Alignment explanation
Indices: 5731936--5732050 Score: 139
Period size: 53 Copynumber: 2.3 Consensus size: 50
5731926 TGATATGTAC
*
5731936 TTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAATGTGA
1 TTCCGTATAAGACCATAGCTAGGATATGGCATCGGT--AA-GTGATAATGTGA
* * *
5731989 TTTCGTATAAGACCATATCTGGGATATGGCATCGGT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGCTAGGATATGGCATCGGTAAGTGATAATGTGA
5732036 -TCCGTATAAGACCAT
1 TTCCGTATAAGACCAT
5732051 GACAGGGCTA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
46 14 0.25
47 6 0.11
48 4 0.07
50 1 0.02
53 32 0.56
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TTCCGTATAAGACCATAGCTAGGATATGGCATCGGTAAGTGATAATGTGA
Found at i:5732063 original size:46 final size:50
Alignment explanation
Indices: 5731936--5732070 Score: 138
Period size: 53 Copynumber: 2.7 Consensus size: 50
5731926 TGATATGTAC
5731936 TTCCGTATAAGACCATAGCTA-GGCTATGGCATCGGTACAATGTGATAATGTGA
1 TTCCGTATAAGACCATAGC-AGGGCTATGGCATCGGT--AA-GTGATAATGTGA
* * * *
5731989 TTTCGTATAAGACCATATCTGGGATATGGCATCGGT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTAAGTGATAATGTGA
*
5732036 -TCCGTATAAGACCAT-GACAGGGCTATGGCTTCGGT
1 TTCCGTATAAGACCATAG-CAGGGCTATGGCATCGGT
5732071 GTGTGATGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
46 29 0.41
47 6 0.08
48 4 0.06
50 1 0.01
53 31 0.44
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTAAGTGATAATGTGA
Found at i:5733073 original size:30 final size:32
Alignment explanation
Indices: 5733028--5733123 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 32
5733018 ATATAAAGTG
*
5733028 AACATATACAATATATATTAGA-AATACTA-AT
1 AACATATAAAATATATATTA-ATAATACTACAT
5733059 AACATA-AAAATATATATTAATAATACTACAT
1 AACATATAAAATATATATTAATAATACTACAT
* * *
5733090 AA-ATATGTACATATATATTAA-AATAAATACAT
1 AACATAT-AAAATATATATTAATAAT-ACTACAT
5733122 AA
1 AA
5733124 TAATATTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.02
30 22 0.39
31 13 0.23
32 20 0.36
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.32
Consensus pattern (32 bp):
AACATATAAAATATATATTAATAATACTACAT
Found at i:5733145 original size:22 final size:22
Alignment explanation
Indices: 5733097--5733138 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5733087 CATAAATATG
5733097 TACAT-AT-ATATTAAAATAAA
1 TACATAATAATATTAAAATAAA
5733117 TACATAATAATATTAAAATAAA
1 TACATAATAATATTAAAATAAA
5733139 ATAATAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TACATAATAATATTAAAATAAA
Found at i:5733437 original size:26 final size:28
Alignment explanation
Indices: 5733417--5733483 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
5733407 AATAACATTA
*
5733417 AAAATATATATATATATATAAAATATAT
1 AAAATATATACATATATATAAAATATAT
* *
5733445 ACAATATATACATATATTTAGAAATGATA-
1 AAAATATATACATATATATA-AAAT-ATAT
*
5733474 ATAATATATA
1 AAAATATATA
5733484 AAAAAACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 17 0.52
29 13 0.39
30 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATATATACATATATATAAAATATAT
Found at i:5733631 original size:47 final size:45
Alignment explanation
Indices: 5733542--5733674 Score: 164
Period size: 47 Copynumber: 2.9 Consensus size: 45
5733532 ATGGTGTTAG
* *
5733542 AAATATATAATATAATATTAGAA-ATATACAT-ACAATAGTATAAA
1 AAATATATAATATAATATTAAAATATATACATAATAATA-TATAAA
*
5733586 AGATATATAACTAATAATATTAAAATATATACATAATAATATATAAAA
1 AAATATATAA-T-ATAATATTAAAATATATACATAATAATATAT-AAA
*
5733634 AATATATATAATATAATATTAAAATATTTACATAAT-ATATA
1 AA-ATATATAATATAATATTAAAATATATACATAATAATATA
5733675 CATATTAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 16 0.21
47 34 0.44
48 10 0.13
49 8 0.10
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (45 bp):
AAATATATAATATAATATTAAAATATATACATAATAATATATAAA
Found at i:5733644 original size:23 final size:23
Alignment explanation
Indices: 5733544--5733674 Score: 87
Period size: 23 Copynumber: 5.7 Consensus size: 23
5733534 GGTGTTAGAA
* *
5733544 ATATATAAT-ATAATATTAGAAAT
1 ATATATAATAAT-ATATAAAAAAT
* * *
5733567 ATACAT-ACAATAGTATAAAAGAT
1 ATATATAATAATA-TATAAAAAAT
*
5733590 ATATAACTAATAATAT-TAAAATAT
1 ATAT-A-TAATAATATATAAAAAAT
*
5733614 ATACATAATAATATATAAAAAAT
1 ATATATAATAATATATAAAAAAT
*
5733637 ATATATAAT-ATA-ATATTAAAAT
1 ATATATAATAATATATA-AAAAAT
5733659 AT-T-TACATAATATATA
1 ATATATA-ATAATATATA
5733675 CATATTAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.02
21 6 0.07
22 24 0.28
23 36 0.42
24 11 0.13
25 2 0.02
26 5 0.06
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATATAATAATATATAAAAAAT
Found at i:5733676 original size:11 final size:11
Alignment explanation
Indices: 5733609--5733678 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
5733599 ATAATATTAA
5733609 AATATATACAT
1 AATATATACAT
* *
5733620 AATAATATATAA
1 AAT-ATATACAT
* *
5733632 AAAATATATAT
1 AATATATACAT
* *
5733643 AATATAATATTAA
1 AATAT-ATA-CAT
*
5733656 AATATTTACAT
1 AATATATACAT
5733667 AATATATACAT
1 AATATATACAT
5733678 A
1 A
5733679 TTAAAAATAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
11 26 0.57
12 13 0.28
13 7 0.15
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:5735243 original size:23 final size:25
Alignment explanation
Indices: 5735217--5735263 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5735207 TATCATTCAT
*
5735217 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
5735240 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
5735264 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:5735584 original size:46 final size:46
Alignment explanation
Indices: 5735524--5735873 Score: 446
Period size: 46 Copynumber: 8.0 Consensus size: 46
5735514 TTTGACGTAA
* * * * * *
5735524 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
5735570 TGCCATGGTATCTTTCAACCAAGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
5735616 TGCCATGGTATCTCTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5735662 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5735708 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5735746 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5735792 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5735830 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5735874 AGAGCACACT
Statistics
Matches: 270, Mismatches: 17, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
38 66 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 180 0.67
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:5735640 original size:92 final size:88
Alignment explanation
Indices: 5735524--5735873 Score: 455
Period size: 84 Copynumber: 4.0 Consensus size: 88
5735514 TTTGACGTAA
* * * *
5735524 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAAC
* ** * * *
5735589 CAAGGTCTTATTCTTTTCATGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
*
5735616 TGCCATGGTATCTCTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAAC
5735681 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
5735708 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
5735769 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
*
5735792 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
5735853 GTCTTACACATTTCATATCAG
66 GTCTTACACATTTCATATCAG
5735874 AGAGCACACT
Statistics
Matches: 241, Mismatches: 15, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
84 133 0.55
87 1 0.00
90 3 0.01
91 2 0.01
92 102 0.42
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:5735754 original size:38 final size:38
Alignment explanation
Indices: 5735703--5735862 Score: 248
Period size: 38 Copynumber: 4.0 Consensus size: 38
5735693 CATTTCATAT
5735703 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
5735741 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
5735786 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
5735825 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
5735863 TTTCATATCA
Statistics
Matches: 114, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
38 71 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:5738086 original size:31 final size:32
Alignment explanation
Indices: 5738010--5738086 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
5738000 CTAATAAAAT
*
5738010 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
5738042 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
5738072 AATATTAAAATATCT
1 AATAATAAAATATCT
5738087 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:5741427 original size:53 final size:54
Alignment explanation
Indices: 5741355--5741461 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
5741345 AACCTAAATA
5741355 TTGTATAATTTGA-TTTTTTTTTCAGTTTTATTTTATTTGGGACATTAAATTTT
1 TTGTATAATTTGATTTTTTTTTTCAGTTTTATTTTATTTGGGACATTAAATTTT
5741408 TTGTATAATTTGATTTTTTTTTTCAGTTTTATTTTATTTGGGACATTAAATTTT
1 TTGTATAATTTGATTTTTTTTTTCAGTTTTATTTTATTTGGGACATTAAATTTT
5741462 AGTTTTAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 13 0.25
54 40 0.75
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (54 bp):
TTGTATAATTTGATTTTTTTTTTCAGTTTTATTTTATTTGGGACATTAAATTTT
Found at i:5741627 original size:17 final size:17
Alignment explanation
Indices: 5741596--5741629 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5741586 GGAGGGTCAC
*
5741596 AAAAAAAAGTAAAATTA
1 AAAAAAAAATAAAATTA
*
5741613 AAAAAAAAATCAAATTA
1 AAAAAAAAATAAAATTA
5741630 TACAAAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAAAAATAAAATTA
Found at i:5748706 original size:38 final size:39
Alignment explanation
Indices: 5748587--5748753 Score: 228
Period size: 39 Copynumber: 4.3 Consensus size: 39
5748577 CTTTAACCCA
* ** * *
5748587 GATATTTTTCCAGTACGTAGCCTGCAGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * * *
5748626 GATATATTTCTAGCATATAGCCTGCAGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
5748665 GATATTTTTCCAGCATATGGCCT-CGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
5748703 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGGCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
5748742 GATATTTTTCCA
1 GATATTTTTCCA
5748754 ATCTCATATA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 35 0.31
39 78 0.69
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:5759259 original size:43 final size:44
Alignment explanation
Indices: 5759198--5759404 Score: 165
Period size: 45 Copynumber: 4.7 Consensus size: 44
5759188 TATCATAAGC
*
5759198 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATCAGAT
* * * * *
5759241 CTTATCTTCACTGAGCAGGGGTGAAGCA-GATCAAATTTTAGATAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATCAG---AT
* * * * *
5759287 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGGTTCCAATCATCA-A-
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ATCAGAT
*
5759330 CTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATATCAGAT
1 C-TTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAA-ATATCAGAT
* * *
5759376 CTTATCTTTATTGAGCAGGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
5759405 ATCGAATTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 33 0.26
44 26 0.20
45 38 0.30
46 20 0.16
47 6 0.05
48 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATCAGAT
Found at i:5759429 original size:135 final size:134
Alignment explanation
Indices: 5759199--5759527 Score: 507
Period size: 135 Copynumber: 2.4 Consensus size: 134
5759189 ATCATAAGCC
* * *
5759199 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATA-CCAGATCTTATCTTCACTGAGCAGGGGT
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACAGATCTTATCTTCATTGAGCAGGAGT
* * *
5759263 GAAGCAGATCAAATTTTAGATAATCTTATCTCCACGTACCGGCGATGGAGCAGGTTCCAATCATC
66 GAAGCAGATCAAATTTTAGAGAATCTTATCTCCACGTACCGGCGATGGAACAGATTCCAATCATC
5759328 AACT
131 AACT
*
5759332 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATATCAGATCTTATCTTTATTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATA-CAGATCTTATCTTCATTGAGCAGGAG
* *
5759397 TGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAACAGATTCCAATCAT
65 TGAAGCAGATCAAATTTTAGAGAATCTTATCTCCACGTACCGGCGATGGAACAGATTCCAATCAT
* *
5759462 TAGCT
130 CAACT
* * *
5759467 TTATCTTTACTGAGCAGGAGTGGAGTAGGCTAAATATACTAGATCTTATCTTCGTTGAGCA
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAC-AGATCTTATCTTCATTGAGCA
5759528 AGAGCGGATC
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
133 36 0.20
134 1 0.01
135 141 0.79
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (134 bp):
TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACAGATCTTATCTTCATTGAGCAGGAGT
GAAGCAGATCAAATTTTAGAGAATCTTATCTCCACGTACCGGCGATGGAACAGATTCCAATCATC
AACT
Found at i:5761559 original size:14 final size:15
Alignment explanation
Indices: 5761531--5761559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5761521 AATTTTATGA
5761531 ATTTCATATTGTGTT
1 ATTTCATATTGTGTT
5761546 ATTTCATA-TGTGTT
1 ATTTCATATTGTGTT
5761560 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (15 bp):
ATTTCATATTGTGTT
Found at i:5761742 original size:50 final size:51
Alignment explanation
Indices: 5761675--5761797 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
5761665 GACCATGGAA
5761675 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
5761726 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
5761776 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
5761798 AACTACCTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:5761817 original size:31 final size:31
Alignment explanation
Indices: 5761779--5761841 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
5761769 ACAAATGACA
5761779 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
**
5761810 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
5761841 A
1 A
5761842 CCGGCTACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAACTACCTGATC
Found at i:5761897 original size:40 final size:43
Alignment explanation
Indices: 5761800--5761920 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 43
5761790 GTAGCTTCAA
*
5761800 CTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCACCGG
1 CTACCTGATCAGTGAAAAGTGGTAGCTTCCGCTA-C-GA-CACCGG
* *
5761846 CTACCTGATCAGTGAAAAGTGGTAGC-TCCGGTA-G-CTCCGG
1 CTACCTGATCAGTGAAAAGTGGTAGCTTCCGCTACGACACCGG
* * * *
5761886 CTACCTGATCAGTGAATAGTGATAGTTTCGGCTAC
1 CTACCTGATCAGTGAAAAGTGGTAGCTTCCGCTAC
5761921 AAGTGACAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 28 0.43
41 5 0.08
42 1 0.02
45 5 0.08
46 26 0.40
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (43 bp):
CTACCTGATCAGTGAAAAGTGGTAGCTTCCGCTACGACACCGG
Found at i:5761964 original size:17 final size:17
Alignment explanation
Indices: 5761942--5761976 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5761932 GACAAGTGAT
*
5761942 TTCCGTTTAAGACCATA
1 TTCCGTATAAGACCATA
5761959 TTCCGTATAAGACCATA
1 TTCCGTATAAGACCATA
5761976 T
1 T
5761977 CTAGGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (17 bp):
TTCCGTATAAGACCATA
Found at i:5762032 original size:47 final size:46
Alignment explanation
Indices: 5761962--5762085 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
5761952 GACCATATTC
* * *
5761962 CGTATAAGACCATATCTAGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
5762008 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
5762055 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
5762086 ATATATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:5762114 original size:42 final size:43
Alignment explanation
Indices: 5762056--5762170 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
5762046 TATGTGATTC
* *
5762056 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
*
5762098 GTGTAAGACCATAGCTGGACTATGGCATC-ATTATGTGAAAAT
1 GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
* *
5762140 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGACTATGGCATCGA
5762171 AAAAATGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
Found at i:5763715 original size:21 final size:22
Alignment explanation
Indices: 5763673--5763715 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5763663 TAAACGAATT
* *
5763673 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
5763695 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
5763716 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:5763743 original size:21 final size:21
Alignment explanation
Indices: 5763719--5763760 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5763709 TAAATAATTA
5763719 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
5763740 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
5763761 TATGCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
CATGTAAAGAACTATTTTAGG
Found at i:5766673 original size:36 final size:36
Alignment explanation
Indices: 5766633--5766706 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
5766623 AATTAAAGCG
5766633 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
*
5766669 TTCAAAATTAACTCAAAATAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
5766705 TT
1 TT
5766707 ACTTATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (36 bp):
TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
Found at i:5767333 original size:36 final size:36
Alignment explanation
Indices: 5767293--5767365 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
5767283 TGCGCATGAC
* *
5767293 TTAAATGAAACAAAACATTATATATATGCATTAATA
1 TTAAATGAAACAAAACAGTATACATATGCATTAATA
* *
5767329 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAACAAAACAGTATACATATGCATTAATA
5767365 T
1 T
5767366 ATATATGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (36 bp):
TTAAATGAAACAAAACAGTATACATATGCATTAATA
Found at i:5767498 original size:43 final size:42
Alignment explanation
Indices: 5767408--5767540 Score: 118
Period size: 43 Copynumber: 3.3 Consensus size: 42
5767398 CTAATTATGA
** **
5767408 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* *
5767450 AATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACAG
* *
5767493 TATATATATGC-CTTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
*
5767529 TATACATATGCA
1 TATATATATGCA
5767541 TTAATATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
36 26 0.34
37 1 0.01
38 2 0.03
41 5 0.06
42 10 0.13
43 33 0.43
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (42 bp):
TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
Found at i:5767515 original size:36 final size:36
Alignment explanation
Indices: 5767475--5767547 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
5767465 TGCGCATGAC
* * *
5767475 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
5767511 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
5767547 T
1 T
5767548 ATATATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:5767620 original size:184 final size:182
Alignment explanation
Indices: 5767269--5767807 Score: 974
Period size: 184 Copynumber: 3.0 Consensus size: 182
5767259 ATAATGCATT
* *
5767269 AATATATAT--ATATATGCGCATGACTTAAATGAAACAAAACATTATATATATGCATTAATATTA
1 AATATATATGCAT-TATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTA
5767332 AATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCT
65 AATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCT
*
5767397 GCTAATTATGATATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
130 GCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
5767450 AATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAA
1 AATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAA
*
5767515 ATGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAATC
66 ATGAAGCTAAACAGTATACATATGCATT-A-ATATATATATGCTTGGCTTAACTCAAGCTAAACC
5767580 TGCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
129 TGCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
* **
5767634 AATATATATGCATTATGCGCATGACTTAAATAAAGCAAAATTTTATATATATGCCTTAATATTAA
1 AATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAA
5767699 ATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTG
66 ATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTG
5767764 CTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAG
131 CTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAG
5767808 CAAAACATTA
Statistics
Matches: 346, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
181 9 0.03
182 157 0.45
183 4 0.01
184 176 0.51
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (182 bp):
AATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAA
ATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTG
CTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
Found at i:5767682 original size:43 final size:42
Alignment explanation
Indices: 5767588--5767687 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 42
5767578 TCTGCTAATT
* **
5767588 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
1 ATGGTATATATATGCAATTATGCATGACTTAAATAAAGCAAA
*
5767630 ATGGAATATATATGC-ATTATGCGCATGACTTAAATAAAGCAAA
1 ATGGTATATATATGCAATTAT--GCATGACTTAAATAAAGCAAA
**
5767673 ATTTTATATATATGC
1 ATGGTATATATATGC
5767688 CTTAATATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 5 0.10
42 14 0.29
43 30 0.61
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (42 bp):
ATGGTATATATATGCAATTATGCATGACTTAAATAAAGCAAA
Found at i:5767800 original size:139 final size:140
Alignment explanation
Indices: 5767629--5767924 Score: 479
Period size: 139 Copynumber: 2.1 Consensus size: 140
5767619 AATGAAGTTA
* ** *
5767629 AATGGAATATATATGC-ATTATGCGCATGACTTAAATAAAGCAAAATTTTATATATATGCCTTAA
1 AATGGTATATATATGCAATTAT-CGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAA
* *
5767693 TATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTA
65 TATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGACTTAAATCAAGCTA
5767758 AACCTGCTAAT
130 AACCTGCTAAT
* *
5767769 TATGGTATATATATGCAATTAT-GCATGACTTAAATGAAGCAAAACATTATATATATGCATTAAT
1 AATGGTATATATATGCAATTATCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAAT
* *
5767833 ATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGACTTAAATGAAGTTAA
66 ATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGACTTAAATCAAGCTAA
5767898 ACCTGCTAAT
131 ACCTGCTAAT
5767908 AATGGTATATATATGCA
1 AATGGTATATATATGCA
5767925 TGACTTAAAT
Statistics
Matches: 144, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
139 125 0.87
140 14 0.10
141 5 0.03
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (140 bp):
AATGGTATATATATGCAATTATCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAAT
ATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGACTTAAATCAAGCTAA
ACCTGCTAAT
Found at i:5767826 original size:42 final size:37
Alignment explanation
Indices: 5767773--5767870 Score: 110
Period size: 36 Copynumber: 2.6 Consensus size: 37
5767763 GCTAATTATG
5767773 GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
1 GTATATATATGCAATTA---AT-A-TTAAATGAAGCAAAACA
* *
5767815 TTATATATATGC-ATTAATATTAAATGAAGCTAAACA
1 GTATATATATGCAATTAATATTAAATGAAGCAAAACA
*
5767851 GTATACATATGC-ATTAATAT
1 GTATATATATGCAATTAATAT
5767871 ATATATGCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 34 0.65
37 1 0.02
38 2 0.04
41 4 0.08
42 11 0.21
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (37 bp):
GTATATATATGCAATTAATATTAAATGAAGCAAAACA
Found at i:5767840 original size:36 final size:36
Alignment explanation
Indices: 5767798--5767870 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
5767788 TATGCATGAC
* *
5767798 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
5767834 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
5767870 T
1 T
5767871 ATATATGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:5767918 original size:45 final size:45
Alignment explanation
Indices: 5767868--5767958 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
5767858 TATGCATTAA
* **
5767868 TATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
*
5767913 TATATATATGCATGACTTAAATGAAACTAAACCTGTTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
5767958 T
1 T
5767959 TAATTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
Found at i:5767919 original size:182 final size:179
Alignment explanation
Indices: 5767287--5767870 Score: 865
Period size: 184 Copynumber: 3.2 Consensus size: 179
5767277 TATATATGCG
* *
5767287 CATGACTTAAATGAAACAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
* *
5767352 ATATGC-ATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATA
66 ATATGCTAATAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGGTATATATA
5767416 TGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
131 TGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
5767465 TGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGT
1 ----CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGT
*
5767530 ATACATATGCATTAAT-ATATATATATGCTTGGCTTAACTCAAGCTAAATCTGCTAATTATGGTA
62 ATACATATGC--TAATAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGGTA
5767594 TATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
125 TATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
* **
5767649 TGCGCATGACTTAAATAAAGCAAAATTTTATATATATGCCTTAATATTAAATGAAGCTAAACAGT
1 ----CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGT
*
5767714 ATACATATGC-ATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGGTATA
62 ATACATATGCTAATAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGGTATA
** ****
5767778 TATATGCAATTATGCATGACTTAAATGAAGCAAAACATTATATATATGCATTA
127 TATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
* * * *
5767831 -AT-A-TTAAATGAAGCTAAACAGTATACATATGCATTAATAT
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATAT
5767871 ATATATGCTT
Statistics
Matches: 375, Mismatches: 23, Indels: 15
0.91 0.06 0.04
Matches are distributed among these distances:
175 30 0.08
176 1 0.00
177 2 0.01
181 2 0.01
182 165 0.44
184 173 0.46
185 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (179 bp):
CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
ATATGCTAATAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGGTATATATA
TGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTA
Found at i:5768465 original size:21 final size:21
Alignment explanation
Indices: 5768413--5768453 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5768403 ACAACTGACG
5768413 TTGGTTGTGGCTTGTGGAACC
1 TTGGTTGTGGCTTGTGGAACC
*
5768434 TTGTTTGTGGCTTGTGGAAC
1 TTGGTTGTGGCTTGTGGAAC
5768454 TGTGGTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGGTTGTGGCTTGTGGAACC
Found at i:5768615 original size:35 final size:36
Alignment explanation
Indices: 5768569--5768639 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
5768559 TAAAGAAGAA
5768569 AGGAAAAATTGGGGGA-GGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
5768604 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
5768640 GCAGAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 16 0.46
36 19 0.54
ACGTcount: A:0.31, C:0.03, G:0.49, T:0.17
Consensus pattern (36 bp):
AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
Found at i:5771577 original size:41 final size:43
Alignment explanation
Indices: 5771501--5771584 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 43
5771491 TACAATGACT
5771501 AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
1 AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
5771544 AATTTGTCAA-TTTTTTAATAAATGGGGAG-AATGCAATCTAA
1 AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
5771585 CTCCTAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 12 0.29
42 19 0.46
43 10 0.24
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (43 bp):
AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
Found at i:5771672 original size:18 final size:18
Alignment explanation
Indices: 5771645--5771684 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5771635 CCTCCCTAAA
*
5771645 ATTACTTGCA-AAATTAAG
1 ATTACATGCATAAA-TAAG
5771663 ATTACATGCATAAATAAG
1 ATTACATGCATAAATAAG
5771681 ATTA
1 ATTA
5771685 AAAAACTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
ATTACATGCATAAATAAG
Done.