Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 28 of 373
Found at i:7928732 original size:35 final size:35
Alignment explanation
Indices: 7928693--7928762 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
7928683 CTAGGATCGT
7928693 ATATCTTTGAAGATCT-CCTTCCATATTTGCCAAGC
1 ATATCTTTGAAGAT-TACCTTCCATATTTGCCAAGC
*
7928728 ATATCTTTGAAGATTACTTTCCATATTTGCCAAGC
1 ATATCTTTGAAGATTACCTTCCATATTTGCCAAGC
7928763 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (35 bp):
ATATCTTTGAAGATTACCTTCCATATTTGCCAAGC
Found at i:7930581 original size:20 final size:18
Alignment explanation
Indices: 7930533--7930586 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
7930523 AAAAATAAAT
*
7930533 AAAATAAAAATATATTTG
1 AAAATAAAAATAAATTTG
7930551 AAAATACAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
7930573 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
7930587 GAATAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 11 0.35
22 6 0.19
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:7932806 original size:25 final size:25
Alignment explanation
Indices: 7932758--7932808 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7932748 TACAGAAAAA
* ** *
7932758 ACTAAACCCTACAACTATGGAGAAG
1 ACTAAACCCTAAAAAGATGAAGAAG
7932783 ACTAAACCCTAAAAAGATGAAGAAG
1 ACTAAACCCTAAAAAGATGAAGAAG
7932808 A
1 A
7932809 AACTAAGAAA
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:0.51, C:0.20, G:0.16, T:0.14
Consensus pattern (25 bp):
ACTAAACCCTAAAAAGATGAAGAAG
Found at i:7934204 original size:30 final size:30
Alignment explanation
Indices: 7934170--7934240 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
7934160 TATACTAGGC
**
7934170 CGTGTCCTTCACACGGCTAAGACACACGGT
1 CGTGTCCTTCACACGGCTAAGACACACAAT
*
7934200 CGTGTCCTTCACACGGCTGAGACACACAAT
1 CGTGTCCTTCACACGGCTAAGACACACAAT
7934230 CGTGTCTCTTC
1 CGTGTC-CTTC
7934241 CCGTGTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (30 bp):
CGTGTCCTTCACACGGCTAAGACACACAAT
Found at i:7935254 original size:46 final size:47
Alignment explanation
Indices: 7935057--7935323 Score: 253
Period size: 46 Copynumber: 5.6 Consensus size: 47
7935047 GTAAGTTGTC
* *
7935057 GATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCACCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CATC-TCGAGGCT
* * * *
7935106 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACAT-CTCGAGGCT
* *
7935156 GATGTCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCG-AGGCT
* *
7935202 GATG-CATGTCCCAGACAT-GTCTTATACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAGGCT
* * * * *
7935248 GATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTATTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAC-A-TCTCGAGGCT
7935294 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
7935324 AGCTCTCATA
Statistics
Matches: 184, Mismatches: 21, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.07
45 18 0.10
46 59 0.32
47 13 0.07
48 11 0.06
49 30 0.16
50 32 0.17
51 7 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAGGCT
Found at i:7935312 original size:138 final size:143
Alignment explanation
Indices: 7935057--7935323 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 143
7935047 GTAAGTTGTC
*
7935057 GATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCACCGAGGCTGATGCCATGTCCCAGA
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCACCGAGGCTGATGCCATGTCCCAAA
* * *
7935122 CATGGTCTTACACTAGCTCTCACATAATCGTGCCGATGTCATGTCCCAGACATGGTCTTACACTG
66 CATGGTCTTACACTAGCACT--CATAATCATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
7935187 ACACATCTCGTAGCT
129 ACACATCTCGTAGCT
* * * *
7935202 GATG-CATGTCCCAGACAT-GTCTTATACTGGCT-TACGTC-TCGAGGCTGATG-CATGTCCCAA
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTAT-CATCACCGAGGCTGATGCCATGTCCCAA
**
7935262 ACAT-GTCTTACACTAGCACT-ATTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
65 ACATGGTCTTACACTAGCACTCATAATC-ATGCCGATGCCATGTCCCAGACATGGTCTTACACT
7935324 AGCTCTCATA
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
137 4 0.04
138 33 0.30
140 15 0.14
141 13 0.12
142 12 0.11
143 16 0.15
144 13 0.12
145 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
GATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCACCGAGGCTGATGCCATGTCCCAAA
CATGGTCTTACACTAGCACTCATAATCATGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
ACATCTCGTAGCT
Found at i:7935350 original size:94 final size:93
Alignment explanation
Indices: 7935056--7935368 Score: 309
Period size: 94 Copynumber: 3.3 Consensus size: 93
7935046 GGTAAGTTGT
* * * ** *
7935056 CGATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCACCGAGGCTGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGAC-A-CATCTCATA-GCCGATGCCATGTCCCAG
*
7935121 ACATGGTCTTACACTAGCTCTCACATAATCGTGC
61 ACATGGTCTTACACTAGCTCT-ACATAATCGTGG
* *
7935155 CGATGTCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATG-CATGTCCCAGACA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATAGCCGATGCCATGTCCCAGACA
* * * * *
7935219 T-GTCTTATACTGGCT-TACGT-CTCGAGG
64 TGGTCTTACACTAGCTCTACATAATCGTGG
*
7935246 CTGATGCATGTCCCAAACATGTCTTACACT-AGCACTATTCTCA-ATGCCGATGCCATGTCCCAG
1 C-GATGCATGTCCCAGACATGTCTTACACTGA-CAC-A-TCTCATA-GCCGATGCCATGTCCCAG
7935309 ACATGGTCTTACACTAGCTCT-CATAAT-GTGG
61 ACATGGTCTTACACTAGCTCTACATAATCGTGG
7935340 TCGATGCATGTCCCAGACATGTCTTACAC
1 -CGATGCATGTCCCAGACATGTCTTACAC
7935369 CAGTCCACAA
Statistics
Matches: 183, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
89 1 0.01
90 13 0.07
91 20 0.11
92 17 0.09
93 15 0.08
94 55 0.30
95 17 0.09
96 7 0.04
97 6 0.03
98 1 0.01
99 31 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACACATCTCATAGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCTCTACATAATCGTGG
Found at i:7937777 original size:52 final size:52
Alignment explanation
Indices: 7937692--7937796 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
7937682 CTTCAATGCA
* *
7937692 AATACTCTGGAGTAGGGAACTAATTAATGAATTTAGGCCAATAAGAGGTATT
1 AATACTCTGGAGTAGGGAACTAAGTAATAAATTTAGGCCAATAAGAGGTATT
*
7937744 AATACTCTGGCGTAGGGAACTAAGTAATAAATTTAGGCCAATAAGAGGTATT
1 AATACTCTGGAGTAGGGAACTAAGTAATAAATTTAGGCCAATAAGAGGTATT
7937796 A
1 A
7937797 GGAAAGGAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (52 bp):
AATACTCTGGAGTAGGGAACTAAGTAATAAATTTAGGCCAATAAGAGGTATT
Found at i:7940961 original size:22 final size:21
Alignment explanation
Indices: 7940920--7940971 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
7940910 TCTAATAAAA
7940920 TTTATTTTAAATATAAAATAT
1 TTTATTTTAAATATAAAATAT
* * *
7940941 TTTATATTTAAATTTACAATAC
1 TTTAT-TTTAAATATAAAATAT
*
7940963 TATATTTTA
1 TTTATTTTA
7940972 GTATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTATTTTAAATATAAAATAT
Found at i:7942256 original size:18 final size:18
Alignment explanation
Indices: 7942233--7942267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7942223 TAATAAATAA
* *
7942233 ATATTTTAAAATTTTTAT
1 ATATTTAAAAAATTTTAT
7942251 ATATTTAAAAAATTTTA
1 ATATTTAAAAAATTTTA
7942268 CAGCCACTAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTTAAAAAATTTTAT
Found at i:7942481 original size:29 final size:30
Alignment explanation
Indices: 7942448--7942535 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 30
7942438 TAACCTTATA
* *
7942448 AAAATATTCAAATGA-GGATCAAACATTTC-
1 AAAATAGTCAAATGAGGGCT-AAACATTTCT
*
7942477 AAAATGGTCAAATGAGGGCTAAACATTTCT
1 AAAATAGTCAAATGAGGGCTAAACATTTCT
* *
7942507 AAAAGT-GCTCAAATAAGGGTTAAACATTT
1 AAAA-TAG-TCAAATGAGGGCTAAACATTT
7942536 TTTAAAGTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.44
30 8 0.16
31 20 0.40
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAATAGTCAAATGAGGGCTAAACATTTCT
Found at i:7942531 original size:31 final size:31
Alignment explanation
Indices: 7942468--7942553 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
7942458 AATGAGGATC
* *
7942468 AAACATTTC-AAAA-TGGTCAAATGAGGGCT
1 AAACATTTCTAAAAGTGCTCAAATAAGGGCT
*
7942497 AAACATTTCTAAAAGTGCTCAAATAAGGGTT
1 AAACATTTCTAAAAGTGCTCAAATAAGGGCT
* *
7942528 AAACATTTTTTAAAGTGCTCAAATAA
1 AAACATTTCTAAAAGTGCTCAAATAA
7942554 AGACTTCTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
29 9 0.18
30 4 0.08
31 37 0.74
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (31 bp):
AAACATTTCTAAAAGTGCTCAAATAAGGGCT
Found at i:7944236 original size:44 final size:43
Alignment explanation
Indices: 7944169--7944278 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
7944159 ACATTTTCAC
* * *
7944169 TAAGATAAATTAAAACATCTTCACCAAAAGAAAAGAACAGTA-AA
1 TAAGATAATTTTAAACATATTCACCAAAAGAAAA-AACA-TATAA
* * *
7944213 TAAGATAATTTTAAACATTTTCA-C-AAATAAAAAATATATAA
1 TAAGATAATTTTAAACATATTCACCAAAAGAAAAAACATATAA
7944254 -AA-ATAATTTTAAACATATTCACCAA
1 TAAGATAATTTTAAACATATTCACCAA
7944279 TAAATAAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
39 18 0.32
40 5 0.09
41 6 0.11
42 7 0.12
43 1 0.02
44 20 0.35
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (43 bp):
TAAGATAATTTTAAACATATTCACCAAAAGAAAAAACATATAA
Found at i:7945362 original size:16 final size:15
Alignment explanation
Indices: 7945343--7945401 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 15
7945333 TTTATTTTTT
7945343 ATTATTATTCTAATAA
1 ATTATTATT-TAATAA
7945359 ATTATTATTT-A-AA
1 ATTATTATTTAATAA
7945372 ATT-TTATTATAATAA
1 ATTATTATT-TAATAA
7945387 A--ATTATTTAATAA
1 ATTATTATTTAATAA
7945400 AT
1 AT
7945402 AAATATACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.13
13 13 0.34
14 7 0.18
15 4 0.11
16 9 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATTATTTAATAA
Found at i:7945401 original size:28 final size:27
Alignment explanation
Indices: 7945294--7945396 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
7945284 GATATTTTTA
* * *
7945294 TTATTTTAATAAAATGTTATTCAAAATT
1 TTATTATAAT-AAATATTATTTAAAATT
* ***
7945322 TCATTAT-AT-AAT-TTATTTTTTATT
1 TTATTATAATAAATATTATTTAAAATT
*
7945346 ATTATTCTAATAAATTATTATTTAAAATT
1 -TTATTATAATAAA-TATTATTTAAAATT
7945375 TTATTATAATAAA-ATTATTTAA
1 TTATTATAATAAATATTATTTAA
7945397 TAAATAAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
24 8 0.14
25 8 0.14
26 11 0.19
27 4 0.07
28 18 0.31
29 9 0.16
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (27 bp):
TTATTATAATAAATATTATTTAAAATT
Found at i:7946951 original size:21 final size:21
Alignment explanation
Indices: 7946899--7946951 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
7946889 ACGAATTCAA
7946899 TTAAT-TTTAATTATATTTTT
1 TTAATATTTAATTATATTTTT
* * *
7946919 TAAAAATATAATTAT-TTTTAT
1 TTAATATTTAATTATATTTT-T
7946940 TTAATATTTAAT
1 TTAATATTTAAT
7946952 AAAGATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATATTTAATTATATTTTT
Found at i:7948307 original size:31 final size:32
Alignment explanation
Indices: 7948269--7948331 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
7948259 AGAAAAAAAC
7948269 TTAATAATCCAATGACTTAAAT-AAAATTTTT
1 TTAATAATCCAATGACTTAAATGAAAATTTTT
* *
7948300 TTAATAATTCAATGATTTAAATGAAAATTTTT
1 TTAATAATCCAATGACTTAAATGAAAATTTTT
7948332 CAAATAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (32 bp):
TTAATAATCCAATGACTTAAATGAAAATTTTT
Found at i:7948338 original size:32 final size:31
Alignment explanation
Indices: 7948271--7948344 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 31
7948261 AAAAAAACTT
* **
7948271 AATAATCCAATGACTTAAATAAAATTTTTTT
1 AATAATTCAATGACTTAAATAAAATTTTTCA
*
7948302 AATAATTCAATGATTTAAATGAAAATTTTTCA
1 AATAATTCAATGACTTAAAT-AAAATTTTTCA
7948334 AATAATTCAAT
1 AATAATTCAAT
7948345 AATCATTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
31 18 0.47
32 20 0.53
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (31 bp):
AATAATTCAATGACTTAAATAAAATTTTTCA
Found at i:7949025 original size:12 final size:12
Alignment explanation
Indices: 7949008--7949040 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7948998 TGGCCCTCCC
7949008 ATATTAATTTTT
1 ATATTAATTTTT
7949020 ATATT-ATTTTT
1 ATATTAATTTTT
7949031 ATA-TAATTTT
1 ATATTAATTTT
7949041 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:7949063 original size:19 final size:19
Alignment explanation
Indices: 7949041--7949082 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
7949031 ATATAATTTT
7949041 AAAATATA-TATAATACATC
1 AAAATATACTATAA-ACATC
7949060 AAAA-ATACTATAAACATC
1 AAAATATACTATAAACATC
7949078 AAAAT
1 AAAAT
7949083 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATATACTATAAACATC
Found at i:7949180 original size:34 final size:33
Alignment explanation
Indices: 7949139--7949213 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 33
7949129 TAGATGTAAC
7949139 TTAACAAATAAATGCTTCTAAAATAATAACAAAA
1 TTAAC-AATAAATGCTTCTAAAATAATAACAAAA
* * *
7949173 TTAAC---AAATGTTTTTAAGATAATAACAAAA
1 TTAACAATAAATGCTTCTAAAATAATAACAAAA
7949203 TTAACAATAAA
1 TTAACAATAAA
7949214 ATAAGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
30 27 0.77
33 3 0.09
34 5 0.14
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.29
Consensus pattern (33 bp):
TTAACAATAAATGCTTCTAAAATAATAACAAAA
Found at i:7952471 original size:36 final size:36
Alignment explanation
Indices: 7952424--7952496 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7952414 TTTCCATCAG
7952424 TGTAATGATATTTACCAATGTTGAAAAACAGGAAAC
1 TGTAATGATATTTACCAATGTTGAAAAACAGGAAAC
7952460 TGTAATGATATTTACCAATGTTGAAAAACAGGAAAC
1 TGTAATGATATTTACCAATGTTGAAAAACAGGAAAC
7952496 T
1 T
7952497 ATTTTTGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (36 bp):
TGTAATGATATTTACCAATGTTGAAAAACAGGAAAC
Found at i:7956307 original size:42 final size:42
Alignment explanation
Indices: 7956248--7956336 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
7956238 ATATGATTCC
*
7956248 TTTTTTGTTTGAACCTGGATGTTGCTTTCCCAAGTTGCTTCA
1 TTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTGCTTCA
*
7956290 TTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTGCTTCC
1 TTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTGCTTCA
7956332 TTTTT
1 TTTTT
7956337 GGTTTTTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.49
Consensus pattern (42 bp):
TTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTGCTTCA
Found at i:7958034 original size:14 final size:14
Alignment explanation
Indices: 7958015--7958042 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7958005 ATATATAAGA
7958015 AAATTTTTTTATTC
1 AAATTTTTTTATTC
7958029 AAATTTTTTTATTC
1 AAATTTTTTTATTC
7958043 CTTTCCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
AAATTTTTTTATTC
Found at i:7962420 original size:2 final size:2
Alignment explanation
Indices: 7962413--7962437 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7962403 CTCAAACCTA
7962413 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
7962438 AAAGGAGGAA
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:7963312 original size:20 final size:20
Alignment explanation
Indices: 7963276--7963328 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7963266 GTAACATATA
* *
7963276 TAGAGTTTGCATATTTAATC
1 TAGAGTTCGCATATTTAACC
* *
7963296 TAGGGTTCGCATGTTTAACC
1 TAGAGTTCGCATATTTAACC
7963316 TAGAGTTCGCATA
1 TAGAGTTCGCATA
7963329 AAACAAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TAGAGTTCGCATATTTAACC
Found at i:7963696 original size:76 final size:77
Alignment explanation
Indices: 7963605--7963751 Score: 226
Period size: 77 Copynumber: 1.9 Consensus size: 77
7963595 GATAAATTCT
* * *
7963605 ATTAGGATAAAAAGATAAAAATAT-ATGAAATTTTCATTCTATTT-AAATTTTAAAGAAGGATAA
1 ATTAGGATAAAAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAAATTTGAAA-AAGGATAA
7963668 GATATGATTTCAA
65 GATATGATTTCAA
* *
7963681 ATTAGGATAAGAAGATAAAAAGATGATGGAATTTTAATTCTATTTAAAATTTGAAAAAGGATAAG
1 ATTAGGATAAAAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAAATTTGAAAAAGGATAAG
7963746 ATATGA
66 ATATGA
7963752 ATTCTAGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 22 0.34
77 33 0.52
78 9 0.14
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.33
Consensus pattern (77 bp):
ATTAGGATAAAAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAAATTTGAAAAAGGATAAG
ATATGATTTCAA
Found at i:7965964 original size:16 final size:16
Alignment explanation
Indices: 7965917--7965964 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
7965907 CTATTTTTAA
7965917 ATATATTATATTATTTT
1 ATATATT-TATTATTTT
*
7965934 A-ATATTTGATGATTTT
1 ATATATTT-ATTATTTT
*
7965950 ATATATTTTTTATTT
1 ATATATTTATTATTT
7965965 GTTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 18 0.69
17 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATATATTTATTATTTT
Found at i:7966084 original size:16 final size:17
Alignment explanation
Indices: 7966065--7966097 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7966055 TATAAATTAC
7966065 ATAATAT-ATATAAAAA
1 ATAATATAATATAAAAA
7966081 ATAATATAATATAAAAA
1 ATAATATAATATAAAAA
7966098 TTACAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATATAATATAAAAA
Found at i:7977161 original size:13 final size:13
Alignment explanation
Indices: 7977129--7977163 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7977119 GGTTATCAGA
7977129 ATTT-TTTAAAAC
1 ATTTATTTAAAAC
7977141 AGTTTATTTAAAAC
1 A-TTTATTTAAAAC
7977155 ATTTATTTA
1 ATTTATTTA
7977164 GTTTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 11 0.52
14 9 0.43
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (13 bp):
ATTTATTTAAAAC
Found at i:7981203 original size:17 final size:17
Alignment explanation
Indices: 7981181--7981214 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7981171 GCTCACCAAG
7981181 CCTCTGTCTGTTGGTAT
1 CCTCTGTCTGTTGGTAT
7981198 CCTCTGTCTGTTGGTAT
1 CCTCTGTCTGTTGGTAT
7981215 GTTCACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.24, T:0.47
Consensus pattern (17 bp):
CCTCTGTCTGTTGGTAT
Found at i:7984125 original size:40 final size:40
Alignment explanation
Indices: 7984081--7984162 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
7984071 TCACATTGCT
7984081 ACCGTTGTTTTTAACTTCACTAGAAGTATTATATTAATAA
1 ACCGTTGTTTTTAACTTCACTAGAAGTATTATATTAATAA
7984121 ACCGTTGTTTTTAACTTCACTAGAAGTATTATATTAATAA
1 ACCGTTGTTTTTAACTTCACTAGAAGTATTATATTAATAA
7984161 AC
1 AC
7984163 ATATTGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (40 bp):
ACCGTTGTTTTTAACTTCACTAGAAGTATTATATTAATAA
Found at i:7985085 original size:15 final size:16
Alignment explanation
Indices: 7985059--7985088 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7985049 TTTGCCCGGG
7985059 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
7985075 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
7985089 ACCTCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:7985192 original size:22 final size:22
Alignment explanation
Indices: 7985167--7985213 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7985157 CAAATATCTT
* *
7985167 CACTCCAATCACCCCACTCAAC
1 CACTCCAACCACCCCACTAAAC
*
7985189 CACTCCAACCACCCTACTAAAC
1 CACTCCAACCACCCCACTAAAC
7985211 CAC
1 CAC
7985214 CCCACTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.53, G:0.00, T:0.13
Consensus pattern (22 bp):
CACTCCAACCACCCCACTAAAC
Found at i:7985213 original size:13 final size:13
Alignment explanation
Indices: 7985195--7985247 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
7985185 CAACCACTCC
*
7985195 AACCACCCTACTA
1 AACCACCCCACTA
7985208 AACCACCCCACTA
1 AACCACCCCACTA
7985221 AACCA-CCC-C--
1 AACCACCCCACTA
7985230 AACCACCCCACTA
1 AACCACCCCACTA
7985243 AACCA
1 AACCA
7985248 TTCCAACCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 2 0.06
12 3 0.09
13 22 0.63
ACGTcount: A:0.40, C:0.53, G:0.00, T:0.08
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:7985215 original size:35 final size:35
Alignment explanation
Indices: 7985176--7985247 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
7985166 TCACTCCAAT
* * *
7985176 CACCCCACTCAACCACTCCAACCACCCTACTAAAC
1 CACCCCACTAAACCACCCCAACCACCCCACTAAAC
7985211 CACCCCACTAAACCACCCCAACCACCCCACTAAAC
1 CACCCCACTAAACCACCCCAACCACCCCACTAAAC
7985246 CA
1 CA
7985248 TTCCAACCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.56, G:0.00, T:0.08
Consensus pattern (35 bp):
CACCCCACTAAACCACCCCAACCACCCCACTAAAC
Found at i:7985263 original size:22 final size:22
Alignment explanation
Indices: 7985208--7985256 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
7985198 CACCCTACTA
7985208 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACCCC
**
7985230 AACCACCCCACTAAACCATTCC
1 AACCACCCCACTAAACCACCCC
7985252 AACCA
1 AACCA
7985257 TTCCACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.53, G:0.00, T:0.08
Consensus pattern (22 bp):
AACCACCCCACTAAACCACCCC
Found at i:7985761 original size:23 final size:23
Alignment explanation
Indices: 7985677--7985761 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
7985667 CTAATACCAC
* *
7985677 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
7985700 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * *
7985725 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
7985748 TATTATTATATTTT
1 TATTATTATATTTT
7985762 ATTTTTTTTG
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 9 0.20
25 6 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:7987868 original size:22 final size:22
Alignment explanation
Indices: 7987822--7987868 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7987812 TAAGAGAGTG
* ***
7987822 TTAACTATCACTTTTTTTTTTT
1 TTAACTATCACTTATTTTGAAT
7987844 TTAACTATCACTTATTTTGAAT
1 TTAACTATCACTTATTTTGAAT
7987866 TTA
1 TTA
7987869 TATTGTGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAACTATCACTTATTTTGAAT
Found at i:7988073 original size:13 final size:13
Alignment explanation
Indices: 7988055--7988094 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
7988045 AGTTTAGTAA
7988055 TATTTTTAAAAAG
1 TATTTTTAAAAAG
*
7988068 TATTTTTAAAAAA
1 TATTTTTAAAAAG
*
7988081 TATTTTTGAAAAG
1 TATTTTTAAAAAG
7988094 T
1 T
7988095 TTAGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TATTTTTAAAAAG
Found at i:7988944 original size:22 final size:23
Alignment explanation
Indices: 7988909--7988953 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
7988899 TATTTGAAAT
7988909 GTTTTATAATATATATATTTTAA
1 GTTTTATAATATATATATTTTAA
*
7988932 GTTTTA-AATATATATTTTTTAA
1 GTTTTATAATATATATATTTTAA
7988954 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
GTTTTATAATATATATATTTTAA
Found at i:7989170 original size:19 final size:19
Alignment explanation
Indices: 7989146--7989187 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7989136 TATTTAAAAG
*
7989146 TTAAAAAAT-AATATTTTAT
1 TTAAAAAATGAA-ATTTTAA
7989165 TTAAAAAATGAAATTTTAA
1 TTAAAAAATGAAATTTTAA
7989184 TTAA
1 TTAA
7989188 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAAAAATGAAATTTTAA
Found at i:7989239 original size:17 final size:17
Alignment explanation
Indices: 7989205--7989251 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7989195 AATAAAAAAA
**
7989205 TTGTT-AAAAAATTTAT
1 TTGTTAAAAAAATGAAT
7989221 TTGTTAAAAAAATGAAT
1 TTGTTAAAAAAATGAAT
*
7989238 TTATTTAAAAAAAT
1 TT-GTTAAAAAAAT
7989252 ATATATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 5 0.19
17 11 0.42
18 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TTGTTAAAAAAATGAAT
Found at i:7989269 original size:19 final size:20
Alignment explanation
Indices: 7989246--7989298 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
7989236 ATTTATTTAA
7989246 AAAAATATATATTAAAAAAT
1 AAAAATATATATTAAAAAAT
* * *
7989266 -AAAATTTAAATTAAAAATT
1 AAAAATATATATTAAAAAAT
7989285 AAAAATATATATTA
1 AAAAATATATATTA
7989299 TAACTGATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATATATATTAAAAAAT
Found at i:7989765 original size:40 final size:41
Alignment explanation
Indices: 7989721--7989805 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
7989711 GTGTTAGTTA
7989721 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
* *
7989761 TAATTTTTTAATTTTAGTACATATTTATAAATTTATATACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
7989802 TAAT
1 TAAT
7989806 ATATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:7989786 original size:20 final size:20
Alignment explanation
Indices: 7989723--7989786 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
7989713 GTTAGTTATA
*
7989723 ATTTTTTAATTTTAGTACAC
1 ATTTTTTAATTTTAGTACAT
** * *
7989743 ATTCATAAATTTATA-TA-TT
1 ATTTTTTAATTT-TAGTACAT
7989762 AATTTTTTAATTTTAGTACAT
1 -ATTTTTTAATTTTAGTACAT
7989783 ATTT
1 ATTT
7989787 ATAAATTTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTTTAATTTTAGTACAT
Found at i:7989793 original size:20 final size:20
Alignment explanation
Indices: 7989730--7989794 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
7989720 ATAATTTTTT
* *
7989730 AATTTTAGTACACATTCATA
1 AATTTTAGTACATATTTATA
* * *
7989750 AATTTATA-TA-TTAATTTTTT
1 AATTT-TAGTACAT-ATTTATA
7989770 AATTTTAGTACATATTTATA
1 AATTTTAGTACATATTTATA
7989790 AATTT
1 AATTT
7989795 ATATACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (20 bp):
AATTTTAGTACATATTTATA
Found at i:7989816 original size:40 final size:40
Alignment explanation
Indices: 7989729--7989816 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
7989719 TATAATTTTT
* *
7989729 TAATTTTAGTACACATTCATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
* *
7989769 TAATTTTAGTACATATTTATAAATTTATATACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
7989809 TATTTTTA
1 TAATTTTA
7989817 ATAAGTAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:7989937 original size:71 final size:71
Alignment explanation
Indices: 7989856--7990006 Score: 250
Period size: 71 Copynumber: 2.1 Consensus size: 71
7989846 TTAAAAAAAC
* *
7989856 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAGCAATTTTAAAA-TTTATATATATTTAA
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTTA-ATATATTCAA
7989920 TATATTT
65 TATATTT
*
7989927 TTAAAAAATTAAATATATTAAAAATTGTTAAGTATAAACAATTTTAAAATTTTAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTTAATATATTCAAT
7989992 ATATTT
66 ATATTT
*
7989998 TTTAAAAAT
1 TTAAAAAAT
7990007 ATATTTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
71 71 0.95
72 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTTAATATATTCAAT
ATATTT
Found at i:7990088 original size:17 final size:17
Alignment explanation
Indices: 7990066--7990125 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
7990056 AAACAATATT
*
7990066 TTTTAATATATTTAAAA
1 TTTTAAAATATTTAAAA
7990083 TTTTAAGAA-ATTTTAAAA
1 TTTTAA-AATA-TTTAAAA
7990101 TTTTAAAAT-TTTAAATA
1 TTTTAAAATATTTAAA-A
*
7990118 TGTTAAAA
1 TTTTAAAA
7990126 GAAAATGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 6 0.16
17 17 0.46
18 14 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTTAAAATATTTAAAA
Found at i:7990101 original size:8 final size:8
Alignment explanation
Indices: 7990066--7990125 Score: 66
Period size: 8 Copynumber: 7.0 Consensus size: 8
7990056 AAACAATATT
*
7990066 TTTTAATA
1 TTTTAAAA
7990074 TATTTAAAA
1 T-TTTAAAA
7990083 TTTTAAGAAA
1 TTTT-A-AAA
7990093 TTTTAAAA
1 TTTTAAAA
7990101 TTTTAAAA
1 TTTTAAAA
7990109 TTTTAAATA
1 TTTTAAA-A
*
7990118 TGTTAAAA
1 TTTTAAAA
7990126 GAAAATGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 23 0.50
9 16 0.35
10 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (8 bp):
TTTTAAAA
Found at i:7990236 original size:77 final size:79
Alignment explanation
Indices: 7990094--7990239 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 79
7990084 TTTAAGAAAT
* * * * **
7990094 TTTAAAATTTTAAAATTTTAAATATGTTAAAAGAAAATGTTGAGTATAACCAATTTTAATTTTTT
1 TTTAAAATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTTT
7990159 AATAATTGAATATA
66 AATAATTGAATATA
*
7990173 TTTAAATATATTAAAATTTTGAACATATT-AAA-AAAAT-TTAAGTATAACCAATTTTAAAATTT
1 TTTAAA-ATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTT
7990235 TAATA
65 TAATA
7990240 TATTTTTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 27 0.46
78 5 0.08
79 9 0.15
80 18 0.31
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (79 bp):
TTTAAAATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTTT
AATAATTGAATATA
Found at i:7992475 original size:30 final size:30
Alignment explanation
Indices: 7992439--7992540 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
7992429 GCCGCAAAGC
* *
7992439 AGTTCATATCACTCGGACATTAACAGTTCA
1 AGTTCATATCACTCGGACATTAGCGGTTCA
** *
7992469 AGTTCATATCAC-CTGGACATGGGCGGTTCG
1 AGTTCATATCACTC-GGACATTAGCGGTTCA
7992499 AGTTCATATCA-TCCGGACA-TAGGCGGTTCA
1 AGTTCATATCACT-CGGACATTA-GCGGTTCA
*
7992529 AGTTCATTTCAC
1 AGTTCATATCAC
7992541 CCACAGCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.02
30 56 0.97
31 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (30 bp):
AGTTCATATCACTCGGACATTAGCGGTTCA
Found at i:7993274 original size:37 final size:37
Alignment explanation
Indices: 7993224--7993297 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
7993214 TCGAGTGTGT
*
7993224 ACACATCGTCAATATATTATTCAACATTCAAACTGTA
1 ACACATCATCAATATATTATTCAACATTCAAACTGTA
*
7993261 ACACATCATCAATATATTATTCGACATTCAAACTGTA
1 ACACATCATCAATATATTATTCAACATTCAAACTGTA
7993298 GGTAGCACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (37 bp):
ACACATCATCAATATATTATTCAACATTCAAACTGTA
Found at i:7995988 original size:32 final size:33
Alignment explanation
Indices: 7995925--7996000 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
7995915 TTTTAAAAAT
* *
7995925 TTAAATTTAATTTTAAGAAAACGTTTGAATATC
1 TTAAAATTAATTTTAAGAAAAAGTTTGAATATC
7995958 TTAAAATTAATTTTAA-AAAAAGTTTGAATATC
1 TTAAAATTAATTTTAAGAAAAAGTTTGAATATC
7995990 TTAAAATTAAT
1 TTAAAATTAAT
7996001 AATTTATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 26 0.63
33 15 0.37
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (33 bp):
TTAAAATTAATTTTAAGAAAAAGTTTGAATATC
Found at i:7996051 original size:13 final size:13
Alignment explanation
Indices: 7996024--7996058 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7996014 TATATTTAAA
7996024 ATTTAAAA-A-AT
1 ATTTAAAATATAT
7996035 ATTTAAAATATAT
1 ATTTAAAATATAT
7996048 ATTTAAAATAT
1 ATTTAAAATAT
7996059 TATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:7996139 original size:24 final size:25
Alignment explanation
Indices: 7996093--7996140 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7996083 AGGTTATATC
*
7996093 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAATAA
* *
7996118 TTTAAAGATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
7996141 TTATGAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTAAAAATAATATATTTAAAATAA
Found at i:7996172 original size:17 final size:17
Alignment explanation
Indices: 7996150--7996187 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
7996140 ATTATGAAAC
7996150 AAATTAAAAAATATTTA
1 AAATTAAAAAATATTTA
7996167 AAATTAAAAAATATTTA
1 AAATTAAAAAATATTTA
7996184 AAAT
1 AAAT
7996188 ATTATGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTAAAAAATATTTA
Found at i:7996266 original size:21 final size:20
Alignment explanation
Indices: 7996242--7996290 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
7996232 ATTTAAATGT
7996242 TTTATATTATTAAAAAATATA
1 TTTATATT-TTAAAAAATATA
*
7996263 TTTAAAATTTTAAAAAATATA
1 TTT-ATATTTTAAAAAATATA
7996284 TATTATA
1 T-TTATA
7996291 AAACATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATATTTTAAAAAATATA
Found at i:7996266 original size:131 final size:127
Alignment explanation
Indices: 7996026--7996270 Score: 325
Period size: 131 Copynumber: 1.9 Consensus size: 127
7996016 TATTTAAAAT
* *
7996026 TTAAAAAATATTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTTATA
1 TTAAAAAATATTTAAAATAAATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATA
* *
7996091 TCTTTAAAAATAATATATTTTAAATAATTTAAAGATCATAATTTAAAATATTATGAAACAAA
66 TCTTTAAAAATAATATATTTTAAATAATTAAAAAATCATAATTTAAAATATTATGAAACAAA
* *
7996153 TTAAAAAATATTTAAAATTAAAAAATATTTAAAATATTATGAAACTAATAATAAATTTGAAAGGT
1 TTAAAAAATATTTAAAA-T---AAATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGT
* * *
7996218 CATATCTTTAAAATATTTAA-ATGTTTTATATTATTAAAAAAT-AT-ATTTAAAAT
62 CATATCTTTAAAA-A--TAATATATTTTAAATAATTAAAAAATCATAATTTAAAAT
7996271 TTTAAAAAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
127 17 0.17
128 1 0.01
131 61 0.60
132 3 0.03
133 17 0.17
134 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (127 bp):
TTAAAAAATATTTAAAATAAATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATA
TCTTTAAAAATAATATATTTTAAATAATTAAAAAATCATAATTTAAAATATTATGAAACAAA
Found at i:7996409 original size:37 final size:37
Alignment explanation
Indices: 7996337--7996408 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
7996327 TAATAATAAA
* *
7996337 TAAAATAAATAAGAATAAAGACAAAACTTAAAAAAAG
1 TAAAAAAAAAAAGAATAAAGACAAAACTTAAAAAAAG
* *
7996374 TAAAAAAAAAAAGAAT-AGGACAAAAGTTAAAAAAA
1 TAAAAAAAAAAAGAATAAAGACAAAACTTAAAAAAA
7996409 AAAACAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.72, C:0.04, G:0.10, T:0.14
Consensus pattern (37 bp):
TAAAAAAAAAAAGAATAAAGACAAAACTTAAAAAAAG
Found at i:7996419 original size:26 final size:26
Alignment explanation
Indices: 7996369--7996419 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
7996359 AAAACTTAAA
*
7996369 AAAAGTAAAAAAAAAAAGAATAGGAC
1 AAAAGTAAAAAAAAAAACAATAGGAC
7996395 AAAAGTTAAAAAAAAAAACAA-AGGA
1 AAAAG-TAAAAAAAAAAACAATAGGA
7996420 AGTAACAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.08
Consensus pattern (26 bp):
AAAAGTAAAAAAAAAAACAATAGGAC
Found at i:8005374 original size:717 final size:721
Alignment explanation
Indices: 8004334--8006738 Score: 3221
Period size: 749 Copynumber: 3.3 Consensus size: 721
8004324 AACTTTTGGG
*
8004334 TTCTTCTCCATAGCATGCAGTTGTC-AGTTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTAA
1 TTCTTCTCCATAGCATGAAGTTGTCGA-TTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTAA
* *
8004398 TAACATTTTATATTTAGATGCATTTCTCATTTCATCGGTTCATAACTACAAGTTAGTGAAAAATG
65 TAACATTTTATATTTAGATGCATTTCTCATTTAAT-AGTTCATAACTACAAGTTAGTGAAAAATG
* * * *
8004463 CCGATTAATTTTATACAAAAATTGAAATTTGAACTTTCAATATGTTAGTAATCCCAAATTGTGCA
129 CCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACGTTAGTGATCTCAAATTGTGCA
8004528 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAA
194 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAA
*
8004593 GATACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATTCATACTAACACATGTTTT
259 GATACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATGCATACTAACACATGTTTT
* *
8004658 ACTATATTGAAAAAAATTAAATTATATGTATTTATAACAATCTATTCAGTCCTTAGAATGTTAGT
324 ACTATATTG--AAAAA-TAAATTATATGTATTTATAACAATCTCTTCAGTCCTTAGAATGTTAAT
* *
8004723 GTAAGTATATGAATATTTTTTTCTATTTCCATACAAAACAACTTCGTTCAAGTTGACTTGAAAAT
386 GTAAGTATATGAATA-TTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAAT
*
8004788 GTTTATTAATAACATTGTACACACAAATTTTGAGTCGAAAGTTTACTTGAAAGTTTAGAGCCAAA
450 GTTTATTAATAACATTGTACACACAAATTTTGAGTCGAAAGTTCACTTGAAAGTTTAGAGCCAAA
* *
8004853 TTTATTGATAACTTTGAAAAAGAAAGTTACAATCTCTACAAATTTCTTAAATAC-AA-ATATATA
515 TTTATTGATAACTTTG-AAAAGAAAGTTACAATCTCTACAAATTTCTTAAATACAAAGAAAAATA
* * * * * * *
8004916 T-ATAT-A-TC-CT-T-AGA-TT-CTTCTCTCCAATTTGACTTGATCTCAGACAAGCGTGGAATG
579 TCATTTGATTCTCTCTCCGATTTACTTTTATCCAATTTGACTTGATCTTAGACAAGTGTGGAGTG
*
8004973 CTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTGAACCTCATTTCTTCAGTTGAAACGGA
644 CTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTGAACCTCCTTTCTTCAGTTGAAACGGA
8005038 TCAAAAGGTGGCT
709 TCAAAAGGTGGCT
*
8005051 TTCTTACTCCATAGCATGTAGTAT-TCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTA
1 TTCTT-CTCCATAGCATGAAGT-TGTCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTA
* * *
8005115 ATAACATTTTATATTTAGATGCATTTCTTATTTAACTAGTTCATAACTACAAGTTAATGGAAAAT
64 ATAACATTTTATATTTAGATGCATTTCTCATTTAA-TAGTTCATAACTACAAGTTAGTGAAAAAT
* * *
8005180 GCCGATTATTTTTATGCAAAAATTAAAATTTGAACTTTCAAT-CGTTAGTGATCTCAAATTGTAC
128 GCCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACGTTAGTGATCTCAAATTGTGC
8005244 AATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACA
193 AATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACA
* * *
8005309 AGATACACTTTTAAGCCTTGACTTTCTAGCAACAAATACTAAGATATGCATACTAACATATGTTT
258 AGATACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATGCATACTAACACATGTTT
* *
8005374 TACTATATTGAAAAAT-AATAATATGTATTTATAACAATCTCTTTAGTCCTTAGAATGTTAATGT
323 TACTATATTGAAAAATAAATTATATGTATTTATAACAATCTCTTCAGTCCTTAGAATGTTAATGT
8005438 AAGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAATGTT
388 AAGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAATGTT
* * *
8005503 TATTAAAAACATTGTACAAACAAATTTTGAGTCGAAAGTTCACTTGAAAATTTAGAGCCAAATTT
453 TATTAATAACATTGTACACACAAATTTTGAGTCGAAAGTTCACTTGAAAGTTTAGAGCCAAATTT
* *
8005568 ATTGATAACTTTGAAAAGAAAGTTACAATCTATACAAATTTCTTAAATACAAAGAAAAATATCCT
518 ATTGATAACTTTGAAAAGAAAGTTACAATCTCTACAAATTTCTTAAATACAAAGAAAAATATCAT
* *
8005633 TTGATTCTTCTCTCCGATTTAACTTTTATCCAATGGTCGTTTGACTTGATCTTAGACTAGTGCGG
583 TTGATTC-TCTCTCCGATTT-ACTTTTATCCAA------TTTGACTTGATCTTAGACAAGTGTGG
* * * *
8005698 AGTGCTTCAAGTGTCATGTTTACTTGCTTTTGAAACAGGTTTAAACCTCCTGTCTTCATTTGAAA
640 AGTGCTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTGAACCTCCTTTCTTCAGTTGAAA
* * *
8005763 CAGATTGAAAGGCAGTTTTCTTCAGAAAAGACTCTT
705 CGGA-TCAAA---AG-----GT--G----G---C-T
* * * *
8005799 GGGTTCTTCTCCATAGCATGAAGTTGTCGGTTGTTACAAAAATTTGTTCATTCTCAACTTCCATT
1 ---TTCTTCTCCATAGCATGAAGTTGTCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCATT
*
8005864 AATAACATTTT-TATTTAGATGCATTTCTCATTTAATTAGCTCATAACTACAAGTTAGTGAAAAA
63 AATAACATTTTATATTTAGATGCATTTCTCATTTAA-TAGTTCATAACTACAAGTTAGTGAAAAA
* * *
8005928 TGTCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACATTAGTGATTTCAAATTGTG
127 TGCCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACGTTAGTGATCTCAAATTGTG
* *
8005993 CAATCCTTCATTGTCAGGCAAGATAAGAATATAAAGGTTTTGGCAGCCCACAACTCCAATAGAAC
192 CAATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAAC
8006058 AAGATACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATGCATACTAACACATGTT
257 AAGATACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATGCATACTAACACATGTT
*
8006123 TTACTATATTGAAAAA-AAATTATATGTATTTTATAACAATCTCTTCAATCCTTAGAATGTTAAT
322 TTACTATATTGAAAAATAAATTATATGTA-TTTATAACAATCTCTTCAGTCCTTAGAATGTTAAT
* *
8006187 GTAAGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCACGTTGACTTG--AACG
386 GTAAGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAATG
* * * *
8006250 TTTATTAATAACATTGTACACACAAATTTTGAGTTGAAAGTTCACTTGCAAGTTTAAAACCAAAT
451 TTTATTAATAACATTGTACACACAAATTTTGAGTCGAAAGTTCACTTGAAAGTTTAGAGCCAAAT
**
8006315 TTATTGATAACTTTGAAAAGAAAACTACAATCTCTACAAATTTCTTAAATACAAAGAAAAATATC
516 TTATTGATAACTTTGAAAAGAAAGTTACAATCTCTACAAATTTCTTAAATACAAAGAAAAATATC
* *
8006380 ATTTGATTCTTCTCTCCGATTTGACTTTTATCCAAAGGTCATTTGACTAGATCTTAGACGAGTGT
581 ATTTGATTC-TCTCTCCGATTT-ACTTTTATCC--A----ATTTGACTTGATCTTAGACAAGTGT
* * *
8006445 GGAGTGCTTCAAGTGTCATGTTGATTTTCTTTTGAAACAGGTTTGAACGTCCTTTCTTCAGTTGA
638 GGAGTGCTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTGAACCTCCTTTCTTCAGTTGA
*
8006510 AACGGATCGAAAGGCGGCTTTCTCTAGAAACGACTTTT
703 AACGGATC-AAA--AGG-------T-G----G-C---T
* * *
8006548 GGGTTCTTCTCCAT-GACATGAACTTGTCGATTGCTACAAAAATTAGTTTATTCTCAACTTCCAT
1 ---TTCTTCTCCATAG-CATGAAGTTGTCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCAT
* * *
8006612 TAATAACATTTTATATTTAGATGCATTT-TGCATTTGATTAATTCATAACTACAAGTTAGAGAAA
62 TAATAACATTTTATATTTAGATGCATTTCT-CATTT-AATAGTTCATAACTACAAGTTAGTGAAA
* * * * * *
8006676 AATCCCGATCAATTTTATGAAAAAATTGAAATTTGAACTTTCAATATGTTAGTGGTCTTAAAT
125 AATGCCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACGTTAGTGATCTCAAAT
8006739 AGGGGTGAGC
Statistics
Matches: 1499, Mismatches: 121, Indels: 103
0.87 0.07 0.06
Matches are distributed among these distances:
711 36 0.02
712 126 0.08
713 63 0.04
714 3 0.00
715 6 0.00
716 2 0.00
717 159 0.11
718 152 0.10
719 4 0.00
720 2 0.00
721 2 0.00
723 9 0.01
729 84 0.06
730 4 0.00
733 2 0.00
738 1 0.00
740 1 0.00
744 1 0.00
747 2 0.00
748 5 0.00
749 408 0.27
750 328 0.22
751 98 0.07
755 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (721 bp):
TTCTTCTCCATAGCATGAAGTTGTCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTAAT
AACATTTTATATTTAGATGCATTTCTCATTTAATAGTTCATAACTACAAGTTAGTGAAAAATGCC
GATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACGTTAGTGATCTCAAATTGTGCAAT
CCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAAGA
TACACTTTTAAGCCTTGACTTCCTAGCAACAAATACTAAGGTATGCATACTAACACATGTTTTAC
TATATTGAAAAATAAATTATATGTATTTATAACAATCTCTTCAGTCCTTAGAATGTTAATGTAAG
TATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAATGTTTAT
TAATAACATTGTACACACAAATTTTGAGTCGAAAGTTCACTTGAAAGTTTAGAGCCAAATTTATT
GATAACTTTGAAAAGAAAGTTACAATCTCTACAAATTTCTTAAATACAAAGAAAAATATCATTTG
ATTCTCTCTCCGATTTACTTTTATCCAATTTGACTTGATCTTAGACAAGTGTGGAGTGCTTCAAG
TGTCATGTTGACTTGCTTTTGAAACAGGTTTGAACCTCCTTTCTTCAGTTGAAACGGATCAAAAG
GTGGCT
Found at i:8007272 original size:18 final size:18
Alignment explanation
Indices: 8007227--8007282 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
8007217 ACTCCCCCCA
8007227 TTTACTTTCCCTCA-AAC-T
1 TTTA-TTTCCC-CATAACTT
8007245 TTTA-TTCCCCATAACTT
1 TTTATTTCCCCATAACTT
*
8007262 TTTATTTCCCCCTAAACTT
1 TTTATTTCCCCAT-AACTT
8007281 TT
1 TT
8007283 ACTTCTCACC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 5 0.15
18 11 0.33
19 7 0.21
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTATTTCCCCATAACTT
Found at i:8010690 original size:35 final size:34
Alignment explanation
Indices: 8010644--8010809 Score: 183
Period size: 35 Copynumber: 4.8 Consensus size: 34
8010634 TTTCCTCATT
* *
8010644 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACGTTTTACAACTCAGTAT-G
* *
8010679 GAAATGCCATACCTACGTTTCT-TAACTCAGTATG
1 GAAATACCATACCTACGTTT-TACAACTCAGTATG
*
8010713 GATAATACCATACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTTACAACTCAGTATG
* *
8010748 GTTAATACCATACCTACATTTCT-CAACTCAGTATG
1 G-AAATACCATACCTACGTTT-TACAACTCAGTATG
* *
8010783 GATGATACCATACCTACGTTTCACAAC
1 GA-AATACCATACCTACGTTTTACAAC
8010810 CTTGCCATGG
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
34 3 0.03
35 106 0.96
36 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTTACAACTCAGTATG
Found at i:8010727 original size:70 final size:70
Alignment explanation
Indices: 8010646--8010809 Score: 247
Period size: 70 Copynumber: 2.3 Consensus size: 70
8010636 TCCTCATTGA
* * * * * *
8010646 AATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
8010711 TGGAT
66 TGGAT
**
8010716 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTCTCAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
8010781 TGGAT
66 TGGAT
*
8010786 GATACCATACCTACGTTTCACAAC
1 AATACCATACCTACGTTTCACAAC
8010810 CTTGCCATGG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
TGGAT
Found at i:8012466 original size:35 final size:35
Alignment explanation
Indices: 8012404--8012569 Score: 178
Period size: 35 Copynumber: 4.7 Consensus size: 35
8012394 TTTCCTCATT
* * *
8012404 GAAATACCATACCTGCATTT-TACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCT-CAACTCAGTATGG
* *
8012439 GAAATTCCATACCTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCTCAACTCAGTATGG
*
8012473 GATAATACCATACCTACGTTTCACAACTCAGTA-GG
1 GA-AATACCATACCTACGTTTCTCAACTCAGTATGG
*
8012508 GTTAATACCATACCTACGTTTCTCAACTCAGTAT-G
1 G-AAATACCATACCTACGTTTCTCAACTCAGTATGG
* * *
8012543 GATGATACCATACCTACATTTCACAAC
1 GA-AATACCATACCTACGTTTCTCAAC
8012570 CTTGCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 3 0.03
35 107 0.96
36 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCTCAACTCAGTATGG
Found at i:8012519 original size:70 final size:70
Alignment explanation
Indices: 8012406--8012569 Score: 240
Period size: 70 Copynumber: 2.3 Consensus size: 70
8012396 TCCTCATTGA
* * * * *
8012406 AATACCATACCTGCATTTTACAACTCGGTATGGGAAATTCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCTCAACTCAGTA
8012471 TGGAT
66 TGGAT
* *
8012476 AATACCATACCTACGTTTCACAACTCAGTA-GGGTTAATACCATACCTACGTTTCTCAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTATGGG-AAATACCATACCTACGTTTCTCAACTCAGT
8012540 ATGGAT
65 ATGGAT
*
8012546 GATACCATACCTACATTTCACAAC
1 AATACCATACCTACATTTCACAAC
8012570 CTTGCCATGG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
69 3 0.04
70 81 0.96
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCTCAACTCAGTA
TGGAT
Found at i:8014946 original size:120 final size:120
Alignment explanation
Indices: 8014733--8014969 Score: 474
Period size: 120 Copynumber: 2.0 Consensus size: 120
8014723 CAGGTTGGAG
8014733 GAACCATCCCAATTTCTCTTGGGGTGGTCAAAGAAATCAAAGAGCACAACCCTCACTAGGCTTTC
1 GAACCATCCCAATTTCTCTTGGGGTGGTCAAAGAAATCAAAGAGCACAACCCTCACTAGGCTTTC
8014798 AACAACAACCTTACCAGCAAGAGAAAAAACCAAACCTTGAGGAGATGTTGACGAA
66 AACAACAACCTTACCAGCAAGAGAAAAAACCAAACCTTGAGGAGATGTTGACGAA
8014853 GAACCATCCCAATTTCTCTTGGGGTGGTCAAAGAAATCAAAGAGCACAACCCTCACTAGGCTTTC
1 GAACCATCCCAATTTCTCTTGGGGTGGTCAAAGAAATCAAAGAGCACAACCCTCACTAGGCTTTC
8014918 AACAACAACCTTACCAGCAAGAGAAAAAACCAAACCTTGAGGAGATGTTGAC
66 AACAACAACCTTACCAGCAAGAGAAAAAACCAAACCTTGAGGAGATGTTGAC
8014970 AAAGGTTATC
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (120 bp):
GAACCATCCCAATTTCTCTTGGGGTGGTCAAAGAAATCAAAGAGCACAACCCTCACTAGGCTTTC
AACAACAACCTTACCAGCAAGAGAAAAAACCAAACCTTGAGGAGATGTTGACGAA
Found at i:8017711 original size:18 final size:16
Alignment explanation
Indices: 8017646--8017722 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 16
8017636 CCCTATTTCC
* *
8017646 ATTATTTTTACTTCTTT
1 ATTA-TTTTATTTTTTT
8017663 ATTATTTTATCATTTTTT
1 ATTATTTTAT--TTTTTT
*
8017681 ATTTTCTTTATTTTCTTT
1 ATTAT-TTTATTTT-TTT
8017699 ATTATTTTAATTTATTTT
1 ATTATTTT-ATTT-TTTT
8017717 ATTATT
1 ATTATT
8017723 CTGCTTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
16 5 0.10
17 10 0.20
18 29 0.58
19 6 0.12
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTATTTTATTTTTTT
Found at i:8017721 original size:21 final size:21
Alignment explanation
Indices: 8017679--8017722 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8017669 TTATCATTTT
* *
8017679 TTATTTTCTTTATTTTCTTTA
1 TTATTTTATTTATTTTCATTA
8017700 TTATTTTAATTTATTTT-ATTA
1 TTATTTT-ATTTATTTTCATTA
8017721 TT
1 TT
8017723 CTGCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTTATTTATTTTCATTA
Found at i:8022178 original size:17 final size:16
Alignment explanation
Indices: 8022158--8022198 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
8022148 AATTAAAATA
8022158 AAAATAAAAACAAAAGG
1 AAAATAAAAAC-AAAGG
* *
8022175 AAAAGAAAAACAAAGT
1 AAAATAAAAACAAAGG
8022191 AAAATAAA
1 AAAATAAA
8022199 TGGACTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAATAAAAACAAAGG
Found at i:8039194 original size:14 final size:13
Alignment explanation
Indices: 8039176--8039200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8039166 ACAAGATTAA
8039176 AAAAAATAATTTG
1 AAAAAATAATTTG
8039189 AAAAAATAATTT
1 AAAAAATAATTT
8039201 TATTACCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAAAATAATTTG
Found at i:8039584 original size:42 final size:42
Alignment explanation
Indices: 8039525--8039610 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
8039515 CAATTATTGG
8039525 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
1 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
8039567 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
1 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
8039609 TA
1 TA
8039611 GTAATCTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (42 bp):
TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
Found at i:8042745 original size:36 final size:37
Alignment explanation
Indices: 8042651--8042747 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 37
8042641 GTTATACTCT
**
8042651 CTATCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAG
1 CTATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAG
*
8042688 CTTTTGTCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAG
1 C---TATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAG
*
8042728 C-ATCTAGTGTGTTTTGGTTG
1 CTATCTGGTGTGTTTTGGTTG
8042748 ATCTGACGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 17 0.33
37 1 0.02
40 34 0.65
ACGTcount: A:0.12, C:0.13, G:0.29, T:0.45
Consensus pattern (37 bp):
CTATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAG
Found at i:8049796 original size:40 final size:40
Alignment explanation
Indices: 8049739--8049857 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 40
8049729 ATGCTCTCTA
*
8049739 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCTTCTG
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
* * * *
8049779 TTTGGTGTATTTCGGTTGGACTAGCTCGTATGAGCATCTG
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
* * *
8049819 TCTGGTGTGTTTCGATTAGACTAGCTCTTATGAGCATCT
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCT
8049858 AGTGTGTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (40 bp):
TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
Found at i:8052319 original size:44 final size:43
Alignment explanation
Indices: 8052177--8052335 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
8052167 AACTCGTATA
* * *
8052177 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAT-TCG
* * * *
8052220 ATGCC-ACTGTCCCAAACAGGGTCTTACATG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATTCG
*
8052262 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCATAATTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AATTCG
**
8052306 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
8052336 ATAACACATA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 26 0.27
43 40 0.41
44 32 0.33
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATTCG
Found at i:8057866 original size:18 final size:17
Alignment explanation
Indices: 8057807--8057866 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
8057797 AAAGAGTGAG
8057807 AAGTAAAAGTTTAGGGGA
1 AAGTAAAAGTTTA-GGGA
* *
8057825 AAATAAAAAGTTT-TGGA
1 AAGT-AAAAGTTTAGGGA
*
8057842 GAGTAAAAGTTTGAGGGA
1 AAGTAAAAGTTT-AGGGA
8057860 AAGTAAA
1 AAGTAAA
8057867 TAGGGGGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 12 0.36
19 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.23
Consensus pattern (17 bp):
AAGTAAAAGTTTAGGGA
Found at i:8058228 original size:9 final size:9
Alignment explanation
Indices: 8058210--8058246 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8058200 TATAGTTTGA
*
8058210 TATTCAAAT
1 TATTCGAAT
8058219 TATTCGAAT
1 TATTCGAAT
*
8058228 TATTCGAGT
1 TATTCGAAT
8058237 TATTCGAAT
1 TATTCGAAT
8058246 T
1 T
8058247 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8060841 original size:21 final size:21
Alignment explanation
Indices: 8060810--8060859 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
8060800 TATCCCAAAA
8060810 GCACATA-ATTCATATACATTT
1 GCACATATATTCA-ATACATTT
* *
8060831 -CCCATATATTCAATTCATTT
1 GCACATATATTCAATACATTT
8060851 GCACATATA
1 GCACATATA
8060860 GCATACTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (21 bp):
GCACATATATTCAATACATTT
Found at i:8061190 original size:46 final size:42
Alignment explanation
Indices: 8061049--8061207 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
8061039 AACTCGTACA
* * * *
8061049 ATGCCAATGTCCCAAACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATAT-G
8061092 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATG
* * * *
8061134 ATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATCATATAAGTTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCAAAT-A--TG
8061180 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
8061208 CAATAACACA
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 43 0.44
44 2 0.02
46 27 0.28
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATG
Found at i:8065572 original size:16 final size:17
Alignment explanation
Indices: 8065541--8065573 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8065531 TTCATAAGTA
8065541 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
8065558 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
8065574 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:8065919 original size:46 final size:46
Alignment explanation
Indices: 8065859--8066178 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
8065849 TTTGACATGA
* * * * *
8065859 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
8065905 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *** *
8065951 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
8065997 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
8066043 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
8066089 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
8066135 TGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
8066179 AGAGCACACT
Statistics
Matches: 254, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 250 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:8073886 original size:26 final size:26
Alignment explanation
Indices: 8073834--8073898 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
8073824 TGGCTATCTA
*
8073834 GAGCTTCC-GATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAAGCTCTTCGT
*
8073859 GAGCTTCCTGATTAAAAGTTCGTT-GT
1 GAGCTTCCTGATTAAAAGCTC-TTCGT
*
8073885 GAACTTCCTGATTA
1 GAGCTTCCTGATTA
8073899 TATCTCTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.23
26 25 0.71
27 2 0.06
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAAGCTCTTCGT
Found at i:8074003 original size:26 final size:26
Alignment explanation
Indices: 8073948--8074003 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
8073938 TTCTTGAAAG
*
8073948 GCTCTTTGTGAGCTTCCCGATTAATG
1 GCTCTTTGTGAGCTTCCCGATTAATA
* *
8073974 GCTCTTTGTGAGTTTCCTG-TTATATA
1 GCTCTTTGTGAGCTTCCCGATTA-ATA
8074000 GCTC
1 GCTC
8074004 AACAGAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCCGATTAATA
Found at i:8096230 original size:23 final size:25
Alignment explanation
Indices: 8096204--8096260 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
8096194 TACCTTGTTT
*
8096204 AAATTTTAAATTTGATT-AATAA-A
1 AAATTTTAAAGTTGATTAAATAATA
* *
8096227 AAATATTAAAGTTGGTTAAATAATA
1 AAATTTTAAAGTTGATTAAATAATA
8096252 ATAATTTTA
1 A-AATTTTA
8096261 TCTATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 14 0.52
24 5 0.19
25 2 0.07
26 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
AAATTTTAAAGTTGATTAAATAATA
Found at i:8109782 original size:25 final size:23
Alignment explanation
Indices: 8109730--8109784 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
8109720 TATAAATAGT
8109730 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
8109753 TATAGTGTTTGAAGCATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
8109778 AATAGTG
1 AATAGTG
8109785 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:8109904 original size:22 final size:24
Alignment explanation
Indices: 8109846--8110052 Score: 79
Period size: 25 Copynumber: 8.4 Consensus size: 24
8109836 ATAGATATAA
* *
8109846 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
8109870 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
8109894 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
*
8109919 AGAAAAAAAATATATAAATAATATAGTAT-T
1 -----AAAAATATATACATAATATA--ATGT
* *
8109949 AAAGATATATACATAAAAT-A-GT
1 AAAAATATATACATAATATAATGT
* * **
8109971 ATAATATATATACGTAATATAAAAT
1 A-AAAATATATACATAATATAATGT
** * *
8109996 TTAGA-ATATACCTAATAT-AT-T
1 AAAAATATATACATAATATAATGT
* *
8110017 AAAAGAATATATATATAATATAATATT
1 -AAA-AATATATACATAATATAAT-GT
8110044 AAAAATATA
1 AAAAATATA
8110053 ATAATAACAA
Statistics
Matches: 137, Mismatches: 25, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
21 1 0.01
22 21 0.15
23 29 0.21
24 17 0.12
25 45 0.33
26 3 0.02
27 1 0.01
30 2 0.01
31 18 0.13
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:8109924 original size:27 final size:28
Alignment explanation
Indices: 8109894--8109965 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
8109884 TAATATAATT
8109894 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
8109921 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
8109949 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
8109966 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:8109926 original size:78 final size:79
Alignment explanation
Indices: 8109844--8110001 Score: 192
Period size: 78 Copynumber: 2.0 Consensus size: 79
8109834 AAATAGATAT
* * * *
8109844 AAAAAAATATGTACATAATATAGTGTAAAAAATACATACATAATATAAT-TAAAATATATACATA
1 AAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACATA
*
8109908 AGATAACATGTAGA
66 AGATAAAATGTAGA
* * * * * *
8109922 AAAAAAATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATAATATATATACGTA
1 AAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACATA
* *
8109987 ATATAAAATTTAGA
66 AGATAAAATGTAGA
8110001 A
1 A
8110002 TATACCTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
78 41 0.62
79 25 0.38
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (79 bp):
AAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACATA
AGATAAAATGTAGA
Found at i:8109956 original size:25 final size:25
Alignment explanation
Indices: 8109928--8110058 Score: 91
Period size: 23 Copynumber: 5.6 Consensus size: 25
8109918 TAGAAAAAAA
* *
8109928 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAATATTAAAG
* * *
8109953 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAATATTAAAG
* * *
8109976 ATATATACGTAATATAAAATT-TAG
1 ATATATACATAATATAATATTAAAG
* *
8110000 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
8110022 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAATATTAAAG
8110047 A-ATATA-ATAATA
1 ATATATACATAATA
8110059 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
21 1 0.01
22 9 0.11
23 35 0.42
24 16 0.19
25 19 0.23
26 4 0.05
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:8110560 original size:30 final size:30
Alignment explanation
Indices: 8110524--8110591 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
8110514 AGGTACAAGT
*
8110524 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTAGAGTA
*
8110554 GGTGGTGGAGCAAGTGTGGCTAGTAGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTAGAGTA
8110584 GGTGGTGG
1 GGTGGTGG
8110592 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTAGAGTA
Found at i:8114455 original size:23 final size:23
Alignment explanation
Indices: 8114428--8114480 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8114418 ATATAAATTT
8114428 TAAATATTTTAAAAAAATTAATA
1 TAAATATTTTAAAAAAATTAATA
* * *
8114451 TAAATCA-TTTATAAAATTTAATT
1 TAAAT-ATTTTAAAAAAATTAATA
8114474 TAAATAT
1 TAAATAT
8114481 AAAAATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 23 0.92
24 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTTTAAAAAAATTAATA
Found at i:8121446 original size:43 final size:42
Alignment explanation
Indices: 8121310--8121451 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 42
8121300 TATGTGTTAT
* * *
8121310 CGTGTAAGACCATGTCTGGGAC-GTTGGCATTGACT-TCTATTTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCA-TCATTATCGA--TTA
* * *
8121354 CGTGTAAGACCATGTCTGGGATATTGGCATCATTAATCGATTT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCATT-ATCGATTA
* *
8121397 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGT-TTGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATC-AT-TATCGATTA
*
8121440 CATGTAAGACCA
1 CGTGTAAGACCA
8121452 CATCTACATT
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
43 48 0.60
44 28 0.35
45 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCATTATCGATTA
Found at i:8122698 original size:42 final size:43
Alignment explanation
Indices: 8122602--8122698 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
8122592 ACGGCTTAGG
* * * *
8122602 CACA-CGGGCGTGACTAATGCCATGTGAGGCACATGGCCTATT
1 CACATCGGGCGTGTCTAATACCATGTAAGGCACACGGCCTATT
* * *
8122644 CACAT-GGGCGTGTCTAATACCGTGTAAGGCATACGGCCTGTT
1 CACATCGGGCGTGTCTAATACCATGTAAGGCACACGGCCTATT
8122686 CAC-TCGGGCGTGT
1 CACATCGGGCGTGT
8122699 GACACTTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.24
Consensus pattern (43 bp):
CACATCGGGCGTGTCTAATACCATGTAAGGCACACGGCCTATT
Found at i:8132575 original size:7 final size:8
Alignment explanation
Indices: 8132556--8132592 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
8132546 ATAGTTATGG
8132556 GTATTTTT
1 GTATTTTT
8132564 GTATTTTT
1 GTATTTTT
8132572 -TATTTTT
1 GTATTTTT
*
8132579 GAATTTTT
1 GTATTTTT
8132587 -TATTTT
1 GTATTTT
8132593 ATAATGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (8 bp):
GTATTTTT
Found at i:8132577 original size:15 final size:15
Alignment explanation
Indices: 8132557--8132592 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8132547 TAGTTATGGG
*
8132557 TATTTTTGTATTTTT
1 TATTTTTGAATTTTT
8132572 TATTTTTGAATTTTT
1 TATTTTTGAATTTTT
8132587 TATTTT
1 TATTTT
8132593 ATAATGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (15 bp):
TATTTTTGAATTTTT
Found at i:8132602 original size:23 final size:23
Alignment explanation
Indices: 8132558--8132605 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8132548 AGTTATGGGT
* *
8132558 ATTTTTGTATTTTTTATTTTTGA
1 ATTTTTGTATTTTTAATGTTTGA
8132581 ATTTTT-TATTTTATAATGTTTGA
1 ATTTTTGTATTTT-TAATGTTTGA
8132604 AT
1 AT
8132606 ATAGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (23 bp):
ATTTTTGTATTTTTAATGTTTGA
Found at i:8139090 original size:51 final size:52
Alignment explanation
Indices: 8139012--8139230 Score: 365
Period size: 51 Copynumber: 4.3 Consensus size: 52
8139002 ACTTCTGATT
*
8139012 AGTGACAAGTGATAAGTAGTAG-TTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
8139063 AGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
* *
8139114 AGTGATAAGTGATAAGTGGTAGCTTCTA-CTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
* *
8139165 AGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
8139216 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
8139231 ATGTGATCAG
Statistics
Matches: 162, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
51 158 0.98
52 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (52 bp):
AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
Found at i:8145809 original size:51 final size:51
Alignment explanation
Indices: 8145727--8145945 Score: 386
Period size: 51 Copynumber: 4.3 Consensus size: 51
8145717 ACTTCTGATC
* *
8145727 AGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
8145778 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
*
8145829 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCATTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
8145880 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
*
8145931 AGTGACAAGTGATAA
1 AGTGATAAGTGATAA
8145946 ATTTGATCAG
Statistics
Matches: 162, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
51 161 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTCTGCTACACTTATCTGATCAGTGACA
Found at i:8148480 original size:20 final size:20
Alignment explanation
Indices: 8148452--8148492 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8148442 AATTTTTCAC
*
8148452 AGTATAAATAATGTTTCCAG
1 AGTACAAATAATGTTTCCAG
8148472 AGTACAAATAATGTTTCCAG
1 AGTACAAATAATGTTTCCAG
8148492 A
1 A
8148493 TCTTCAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AGTACAAATAATGTTTCCAG
Found at i:8161328 original size:46 final size:46
Alignment explanation
Indices: 8161275--8161367 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
8161265 GAGGGGCACG
8161275 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
1 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
8161321 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
1 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
8161367 T
1 T
8161368 CTCAACAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.11, C:0.30, G:0.26, T:0.33
Consensus pattern (46 bp):
TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
Found at i:8161941 original size:73 final size:73
Alignment explanation
Indices: 8161857--8161993 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 73
8161847 TGTTTGGTTC
*
8161857 ATTTATGTTTACAAACAAACTTGTTTATTTATCTATTCGT-T-TATAAACTCATTTAATT-AAAA
1 ATTTATATTTACAAACAAACTTGTTTATTTATCTA-TC-TATATATAAACTCATTT-ATTCAAAA
8161919 ATATTCAATTT
63 ATATTCAATTT
* *
8161930 ATTTATATTTACGAATAAACTTGTTTATTTATCTATCTATATATAAACTCATTTATTCAAAAAT
1 ATTTATATTTACAAACAAACTTGTTTATTTATCTATCTATATATAAACTCATTTATTCAAAAAT
8161994 GATATTTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
71 1 0.02
72 6 0.10
73 51 0.88
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (73 bp):
ATTTATATTTACAAACAAACTTGTTTATTTATCTATCTATATATAAACTCATTTATTCAAAAATA
TTCAATTT
Found at i:8166477 original size:24 final size:25
Alignment explanation
Indices: 8166450--8166497 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8166440 TAATTTTAAG
*
8166450 ATTA-TCTTCTATTAATTTTAAAAT
1 ATTATTCTTCTATTAATTTAAAAAT
* *
8166474 ATTATTTTTTTATTAATTTAAAAA
1 ATTATTCTTCTATTAATTTAAAAA
8166498 ACGGGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTATTCTTCTATTAATTTAAAAAT
Found at i:8170673 original size:21 final size:21
Alignment explanation
Indices: 8170619--8170678 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
8170609 ATTATCAATT
*
8170619 AATTAGTTTTTAAAATTTAAAA
1 AATTAGTTTTT-ATATTTAAAA
8170641 AATTA-TTTTTATTATTTAAAA
1 AATTAGTTTTTA-TATTTAAAA
8170662 AA-TAGTTTTTATATTTA
1 AATTAGTTTTTATATTTA
8170679 TTTTGAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 9 0.26
21 21 0.60
22 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTAGTTTTTATATTTAAAA
Found at i:8171684 original size:16 final size:17
Alignment explanation
Indices: 8171640--8171672 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8171630 TTTAGCATTT
8171640 CATTTAATTTTTTCATA
1 CATTTAATTTTTTCATA
8171657 CATTTAATTTTTTCAT
1 CATTTAATTTTTTCAT
8171673 CTTTTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
CATTTAATTTTTTCATA
Found at i:8177771 original size:20 final size:21
Alignment explanation
Indices: 8177746--8177785 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8177736 AAATTAAAAA
8177746 TTAATTAAATT-ATATGATAT
1 TTAATTAAATTAATATGATAT
*
8177766 TTAATTAATTTAATATGATA
1 TTAATTAAATTAATATGATA
8177786 ATATATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTAATTAAATTAATATGATAT
Found at i:8177789 original size:24 final size:25
Alignment explanation
Indices: 8177744--8177794 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
8177734 GAAAATTAAA
*
8177744 AATTAATTAAATTATATGATAT-TT
1 AATTAATTAAATTATATAATATATT
*
8177768 AATTAATTTAA-TATGATAATATATT
1 AATTAATTAAATTAT-ATAATATATT
8177793 AA
1 AA
8177795 GTATAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 16 0.70
25 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTAATTAAATTATATAATATATT
Found at i:8177884 original size:31 final size:31
Alignment explanation
Indices: 8177858--8177920 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
8177848 TTTTAACATT
8177858 TTTAATACAATAATAAATTATATTTAAATAA
1 TTTAATACAATAATAAATTATATTTAAATAA
* * *
8177889 TTTAATATAATGATAAATGATATTTAAATAA
1 TTTAATACAATAATAAATTATATTTAAATAA
8177920 T
1 T
8177921 GGGTCAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
TTTAATACAATAATAAATTATATTTAAATAA
Found at i:8177919 original size:15 final size:15
Alignment explanation
Indices: 8177869--8177919 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8177859 TTAATACAAT
8177869 AATAAATTATATTTA
1 AATAAATTATATTTA
* *
8177884 AATAATTTA-ATATA
1 AATAAATTATATTTA
*
8177898 ATGATAAATGATATTTA
1 A--ATAAATTATATTTA
8177915 AATAA
1 AATAA
8177920 TGGGTCAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 6 0.21
17 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (15 bp):
AATAAATTATATTTA
Found at i:8178818 original size:31 final size:31
Alignment explanation
Indices: 8178783--8178851 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
8178773 ACTAAACATC
*
8178783 TTAATGATTTAAATAAAAACTTTTGAATAGT
1 TTAATGATTTAAATAAAAACTTTCGAATAGT
*
8178814 TTAATGATTTAAATGAAAACTTTCGAATAGT
1 TTAATGATTTAAATAAAAACTTTCGAATAGT
*
8178845 TCAATGA
1 TTAATGA
8178852 CCAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (31 bp):
TTAATGATTTAAATAAAAACTTTCGAATAGT
Found at i:8183115 original size:61 final size:61
Alignment explanation
Indices: 8183036--8183152 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
8183026 AGGTTGCTGG
* *
8183036 AATTTATTTTTTTTAAGAGAAAATAAAATATAATTTTAGTTTAATTTT-ATTTGGGGTATT
1 AATTTATTTTTTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGGGTATT
*
8183096 AATTTATTTATTTTTAAGAGAGAACAAAATATAATTTTACTTTAATTTTAATTTGGG
1 AATTTATTT-TTTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGG
8183153 ATTATAACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 9 0.17
61 36 0.69
62 7 0.13
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (61 bp):
AATTTATTTTTTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGGGTATT
Found at i:8184582 original size:106 final size:106
Alignment explanation
Indices: 8184397--8184593 Score: 360
Period size: 106 Copynumber: 1.9 Consensus size: 106
8184387 AGTTAGGAAG
8184397 TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTAATAGAA
1 TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTAATAGAA
8184462 ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
66 ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
* *
8184503 TTAATGAATTTTTATGTGTTGAT-TAAGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATATA
1 TTAATGAATTTTTATGTGTTGATAT-AGTTGAACAAAAAGATGAATTAAGGGCTAAATTAATAGA
8184567 AATTCAAGTTAGAAATGAAATAAGGAT
65 AATTCAAGTTAGAAATGAAATAAGGAT
8184594 AGAAATGAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
105 1 0.01
106 87 0.99
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (106 bp):
TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTAATAGAA
ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
Found at i:8184598 original size:17 final size:17
Alignment explanation
Indices: 8184576--8184610 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8184566 AAATTCAAGT
8184576 TAGAAATGAAATAAGGA
1 TAGAAATGAAATAAGGA
8184593 TAGAAATGAAATAAGGA
1 TAGAAATGAAATAAGGA
8184610 T
1 T
8184611 TGAATTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (17 bp):
TAGAAATGAAATAAGGA
Found at i:8185751 original size:20 final size:21
Alignment explanation
Indices: 8185728--8185776 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
8185718 AATTATATTC
8185728 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
8185748 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
8185768 AATTGAAAA
1 AATTGAAAA
8185777 CTGAAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:8186280 original size:72 final size:72
Alignment explanation
Indices: 8186143--8186334 Score: 185
Period size: 72 Copynumber: 2.7 Consensus size: 72
8186133 AAATGTATAA
* * * * * ** * *
8186143 AATAACTGATTATTACTGAATAATTGA-CTGTTACCGGATAAGTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGCCACTGAATAATAGAC
8186207 TGTTACTG
65 TGTTACTG
*
8186215 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGCCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGCCACTGAAT-AATAGAC
8186279 TGTTACTG
65 TGTTACTG
* * * * *
8186287 AATAACTTAATTGTTACCGAAT-ATCTGAT-TTTACTGAATAATTGACTG
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACTG
8186335 TTACTGGATA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
72 84 0.84
73 16 0.16
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGCCACTGAATAATAGACT
GTTACTG
Found at i:8186405 original size:18 final size:18
Alignment explanation
Indices: 8186143--8186425 Score: 160
Period size: 18 Copynumber: 15.3 Consensus size: 18
8186133 AAATGTATAA
* *
8186143 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
8186161 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
* * *
8186179 GATAAGTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
8186197 GAT-ATTAGACTGTTACTG
1 AATAATT-GATTGTTACTG
* * *
8186215 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
8186233 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* **
8186251 AATAACTGATTGCCACTG
1 AATAATTGATTGTTACTG
*
8186269 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
* *
8186287 AATAACTTAATTGTTACCG
1 AATAA-TTGATTGTTACTG
8186306 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
8186323 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
8186342 ATAACCTATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * *
8186367 AATAATTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
8186385 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* * *
8186403 AATAACTGACTGTTACGG
1 AATAATTGATTGTTACTG
8186421 AATAA
1 AATAA
8186426 ATAATCGTTC
Statistics
Matches: 205, Mismatches: 44, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
17 17 0.08
18 153 0.75
19 19 0.09
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:8195587 original size:4 final size:4
Alignment explanation
Indices: 8195578--8195602 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8195568 CCTAACATGT
8195578 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
8195603 ATGAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8215275 original size:18 final size:18
Alignment explanation
Indices: 8215249--8215289 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
8215239 AAGTCAGTTA
*
8215249 TTTATATAGTTTAATTTT
1 TTTACATAGTTTAATTTT
8215267 TTTACATAGTTTAATTTT
1 TTTACATAGTTTAATTTT
8215285 TTTAC
1 TTTAC
8215290 GTTTGTGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTACATAGTTTAATTTT
Found at i:8220354 original size:18 final size:19
Alignment explanation
Indices: 8220333--8220368 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8220323 TTTTTCTTTT
8220333 AAAAGTA-TTTTTTAAGCC
1 AAAAGTATTTTTTTAAGCC
8220351 AAAAGTATTTTTTTAAGC
1 AAAAGTATTTTTTTAAGC
8220369 AATACTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (19 bp):
AAAAGTATTTTTTTAAGCC
Done.