Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 13 of 91
Found at i:2371146 original size:2 final size:2
Alignment explanation
Indices: 2371139--2371172 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2371129 GCAAATGAGT
2371139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2371173 AAAGGTCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2371771 original size:2 final size:2
Alignment explanation
Indices: 2371764--2371789 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2371754 TGACCGCCAC
2371764 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2371790 TACAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2372196 original size:22 final size:22
Alignment explanation
Indices: 2372165--2372223 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
2372155 ATTATAAGCA
* * *
2372165 ATATTTTTAATTATTTTTTTAC
1 ATATTATTAATTTTTATTTTAC
2372187 ATATTATTAATTTTTATTTTGA-
1 ATATTATTAATTTTTATTTT-AC
2372209 ACTA-TATTAATTTTT
1 A-TATTATTAATTTTT
2372224 TAATTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (22 bp):
ATATTATTAATTTTTATTTTAC
Found at i:2373769 original size:19 final size:21
Alignment explanation
Indices: 2373740--2373780 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
2373730 CAAATTAAAA
2373740 AAAATAAAAAAGCAAA-AGAT
1 AAAATAAAAAAGCAAATAGAT
*
2373760 AAAA-AAAAAATCAAATAGAT
1 AAAATAAAAAAGCAAATAGAT
2373780 A
1 A
2373781 TGACACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAATAAAAAAGCAAATAGAT
Found at i:2375262 original size:13 final size:13
Alignment explanation
Indices: 2375244--2375271 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2375234 AAAATAAAAA
2375244 AATTTTAAAATAT
1 AATTTTAAAATAT
2375257 AATTTTAAAATAT
1 AATTTTAAAATAT
2375270 AA
1 AA
2375272 AAAAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTTAAAATAT
Found at i:2375272 original size:31 final size:29
Alignment explanation
Indices: 2375206--2375304 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 29
2375196 TATGAAACTT
* * **
2375206 AATAAAAAAATTTTAATTTTAATATCAAAA
1 AATAAAAAAATTTTAAATATAAT-TTTAAA
2375236 AATAAAAAAATTTTAAAATATAATTTTAAA
1 AATAAAAAAATTTT-AAATATAATTTTAAA
*
2375266 ATATAAAAAAGAATTTTAAATAT-TTTTTAAA
1 A-AT-AAAAA-AATTTTAAATATAATTTTAAA
2375297 AA-AAAAAA
1 AATAAAAAA
2375305 TATGATTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
30 20 0.33
31 17 0.28
32 11 0.18
33 6 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
AATAAAAAAATTTTAAATATAATTTTAAA
Found at i:2376087 original size:20 final size:20
Alignment explanation
Indices: 2376062--2376111 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
2376052 TGAAATATGG
* *
2376062 ATTTTATTTTTTAATAAATA
1 ATTTTATTGTTTAACAAATA
*
2376082 ATTTTAGTTGTTTACCAAATA
1 ATTTTA-TTGTTTAACAAATA
*
2376103 ACTTTATTG
1 ATTTTATTG
2376112 AACAAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTTTATTGTTTAACAAATA
Found at i:2376279 original size:30 final size:30
Alignment explanation
Indices: 2376238--2376294 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2376228 AAAATTTACA
* * *
2376238 TAAGATATTGAAATTTTAAACAATTTTATG
1 TAAGATATTGAAAATTCAAAAAATTTTATG
*
2376268 TAAGATTTTGAAAATTCAAAAAATTTT
1 TAAGATATTGAAAATTCAAAAAATTTT
2376295 CATCTTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAGATATTGAAAATTCAAAAAATTTTATG
Found at i:2377229 original size:21 final size:22
Alignment explanation
Indices: 2377189--2377229 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2377179 TTGATTTCTC
* *
2377189 TATAATTTTTTCTTTCTATTAT
1 TATAATTTTTACTTTATATTAT
2377211 TATAATTTTTAC-TTATATT
1 TATAATTTTTACTTTATATT
2377230 GTTGTGCACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TATAATTTTTACTTTATATTAT
Found at i:2378829 original size:13 final size:13
Alignment explanation
Indices: 2378811--2378838 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2378801 AAAATAAAAA
2378811 AATTTTAAAATAT
1 AATTTTAAAATAT
2378824 AATTTTAAAATAT
1 AATTTTAAAATAT
2378837 AA
1 AA
2378839 AAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTTAAAATAT
Found at i:2378853 original size:31 final size:30
Alignment explanation
Indices: 2378774--2378854 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
2378764 ATGAAACTTC
* *
2378774 ATAAAAAAATTTTAATTTTAATATCAAAAA
1 ATAAAAAAATTTTAAATATAATATCAAAAA
* * *
2378804 ATAAAAAAATTTTAAAATATAATTTTAAAAT
1 ATAAAAAAATTTT-AAATATAATATCAAAAA
2378835 ATAAAAAATATTTTAAATAT
1 ATAAAAAA-ATTTTAAATAT
2378855 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 13 0.30
31 26 0.59
32 5 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
ATAAAAAAATTTTAAATATAATATCAAAAA
Found at i:2378862 original size:29 final size:30
Alignment explanation
Indices: 2378799--2378877 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
2378789 TTTTAATATC
2378799 AAAAAATAAAAAA-ATTTTAAAATATAATTTT
1 AAAAAATAAAAAATATTTTAAAATAT-A-TTT
*
2378830 AAAATATAAAAAATATTTT-AAATAT-TTT
1 AAAAAATAAAAAATATTTTAAAATATATTT
*
2378858 AAAAAATAAAATATGATTTT
1 AAAAAATAAAAAAT-ATTTT
2378878 GAGACATTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 15 0.35
29 5 0.12
31 18 0.42
32 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAAAATAAAAAATATTTTAAAATATATTT
Found at i:2379309 original size:21 final size:22
Alignment explanation
Indices: 2379269--2379309 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2379259 TTGATTTCTC
* *
2379269 TATAATTTTTTCTTTCTATTAT
1 TATAATTTTTACTTTATATTAT
2379291 TATAATTTTTAC-TTATATT
1 TATAATTTTTACTTTATATT
2379310 GTTGTGCACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TATAATTTTTACTTTATATTAT
Found at i:2380854 original size:11 final size:11
Alignment explanation
Indices: 2380838--2380873 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2380828 CCCATAAGAA
2380838 ATTTGTTTGGG
1 ATTTGTTTGGG
* *
2380849 ATTTGTTAGAG
1 ATTTGTTTGGG
2380860 ATTTGTTTGGG
1 ATTTGTTTGGG
2380871 ATT
1 ATT
2380874 GGCTAGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (11 bp):
ATTTGTTTGGG
Found at i:2380880 original size:22 final size:22
Alignment explanation
Indices: 2380838--2380885 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2380828 CCCATAAGAA
* *
2380838 ATTTGTTTGGGATTTGTTAGAG
1 ATTTGTTTGGGATTGGCTAGAG
*
2380860 ATTTGTTTGGGATTGGCTAGAT
1 ATTTGTTTGGGATTGGCTAGAG
2380882 ATTT
1 ATTT
2380886 CTTAATGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (22 bp):
ATTTGTTTGGGATTGGCTAGAG
Found at i:2380967 original size:52 final size:52
Alignment explanation
Indices: 2380902--2381005 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
2380892 GGACAAGAAA
* * *
2380902 ACTTGTAAAAGAAGAATTCTACGAGAAAGAT-GATTTTTAATAGGTTAGTTTG
1 ACTTGTAAAAGAAGAATTCTAAGAGAAA-ATAGATTCTTAATAGGTAAGTTTG
* *
2380954 ACTTGTGAGAGAAGAATTCTAAGAGAAAATAGATTCTTAATAGGTAAGTTTG
1 ACTTGTAAAAGAAGAATTCTAAGAGAAAATAGATTCTTAATAGGTAAGTTTG
2381006 TATGGTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 44 0.96
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (52 bp):
ACTTGTAAAAGAAGAATTCTAAGAGAAAATAGATTCTTAATAGGTAAGTTTG
Found at i:2381657 original size:27 final size:28
Alignment explanation
Indices: 2381627--2381698 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
2381617 TATATATATA
2381627 ATAAAAATTTTAAATTATTTAAAA-TTT
1 ATAAAAATTTTAAATTATTTAAAATTTT
* *
2381654 AT-AAAATTAATAAATAATTTAAAATTTT
1 ATAAAAATT-TTAAATTATTTAAAATTTT
*
2381682 ATAATAA--TTAAATTATT
1 ATAAAAATTTTAAATTATT
2381699 AAGTAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 14 0.38
27 15 0.41
28 5 0.14
29 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATAAAAATTTTAAATTATTTAAAATTTT
Found at i:2381659 original size:26 final size:27
Alignment explanation
Indices: 2381630--2381698 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
2381620 ATATATAATA
2381630 AAAATTTTAAATTATTTAAAA-TTTAT
1 AAAATTTTAAATTATTTAAAATTTTAT
* *
2381656 AAAATTAATAAATAATTTAAAATTTTAT
1 AAAATT-TTAAATTATTTAAAATTTTAT
2381684 AATAA--TTAAATTATT
1 AA-AATTTTAAATTATT
2381699 AAGTAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 14 0.39
27 13 0.36
28 7 0.19
29 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATTTTAAATTATTTAAAATTTTAT
Found at i:2381676 original size:18 final size:17
Alignment explanation
Indices: 2381625--2381679 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
2381615 TATATATATA
*
2381625 TAATAAAAATTTTAAAT
1 TAATAAAAATTTAAAAT
* *
2381642 TATTTAAAATTTATAAAAT
1 TA-ATAAAAATT-TAAAAT
2381661 TAATAAATAATTTAAAAT
1 TAATAAA-AATTTAAAAT
2381679 T
1 T
2381680 TTATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 2 0.07
18 18 0.60
19 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAAAAATTTAAAAT
Found at i:2381687 original size:18 final size:18
Alignment explanation
Indices: 2381627--2381690 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
2381617 TATATATATA
* *
2381627 ATAAAAATTTTAAATTATT
1 ATAATAATTTAAAATT-TT
* *
2381646 -TAA-AATTTATAAAATTA
1 ATAATAATTTA-AAATTTT
2381663 ATAAATAATTTAAAATTTT
1 AT-AATAATTTAAAATTTT
2381682 ATAATAATT
1 ATAATAATT
2381691 AAATTATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
17 6 0.17
18 15 0.42
19 9 0.25
20 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATAATTTAAAATTTT
Found at i:2382098 original size:16 final size:17
Alignment explanation
Indices: 2382077--2382110 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2382067 TCCATTTTAT
2382077 ATTTTATTAA-ATAATA
1 ATTTTATTAATATAATA
2382093 ATTTTATTAATATAATA
1 ATTTTATTAATATAATA
2382110 A
1 A
2382111 ATATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTATTAATATAATA
Found at i:2385109 original size:2 final size:2
Alignment explanation
Indices: 2385102--2385133 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2385092 CAACAAGGTT
2385102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2385134 ATAGATTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2388876 original size:19 final size:18
Alignment explanation
Indices: 2388835--2388911 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
2388825 AAATTGTATA
*
2388835 AATAATTTTATATCAAGT
1 AATAATTTTATATCAAAT
2388853 AATAATTTTATTAAT-AAAT
1 AATAATTTTA-T-ATCAAAT
*
2388872 AATAA--TGA-ATCAAAT
1 AATAATTTTATATCAAAT
* *
2388887 AATATTTTTTATATTAAATT
1 AATA-ATTTTATATCAAA-T
2388907 AATAA
1 AATAA
2388912 AATTATTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
14 2 0.04
15 8 0.18
17 2 0.04
18 12 0.27
19 14 0.31
20 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATAATTTTATATCAAAT
Found at i:2388884 original size:34 final size:35
Alignment explanation
Indices: 2388846--2388911 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
2388836 ATAATTTTAT
*
2388846 ATCAAGTAATAATTTTATTA-A-TAAA-TAATAATGA
1 ATCAAATAAT-ATTTT-TTATATTAAATTAATAATGA
2388880 ATCAAATAATATTTTTTATATTAAATTAATAA
1 ATCAAATAATATTTTTTATATTAAATTAATAA
2388912 AATTATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 3 0.11
33 6 0.21
34 13 0.46
35 6 0.21
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (35 bp):
ATCAAATAATATTTTTTATATTAAATTAATAATGA
Found at i:2389077 original size:2 final size:2
Alignment explanation
Indices: 2389070--2389099 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2389060 ATTATATCCA
2389070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2389100 TATTTCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2389363 original size:32 final size:31
Alignment explanation
Indices: 2389319--2389378 Score: 111
Period size: 32 Copynumber: 1.9 Consensus size: 31
2389309 ATATTATTTT
2389319 TAAATATAAAATATAAAATTAAATAAATGTA
1 TAAATATAAAATATAAAATTAAATAAATGTA
2389350 TAAATATACAAATATAAAATTAAATAAAT
1 TAAATATA-AAATATAAAATTAAATAAAT
2389379 AATTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
TAAATATAAAATATAAAATTAAATAAATGTA
Found at i:2390790 original size:17 final size:16
Alignment explanation
Indices: 2390764--2390799 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2390754 ATTTTTATTT
2390764 TTTAAATTAATTTTTGA
1 TTTAAATTAATTTTT-A
*
2390781 TTTAATTTAATTTTTA
1 TTTAAATTAATTTTTA
2390797 TTT
1 TTT
2390800 TTTCAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTAAATTAATTTTTA
Found at i:2390832 original size:36 final size:35
Alignment explanation
Indices: 2390753--2390822 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
2390743 CCTAATTGAA
*
2390753 AATTTTTATTTTTTAAATTAATTTTTGATTTAATTT
1 AATTTTTATTTTTTAAATT-ATTTTGGATTTAATTT
* *
2390789 AATTTTTATTTTTTCAATT-TTTTGGGTTTAATTT
1 AATTTTTATTTTTTAAATTATTTTGGATTTAATTT
2390823 TACTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 13 0.42
36 18 0.58
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (35 bp):
AATTTTTATTTTTTAAATTATTTTGGATTTAATTT
Found at i:2391961 original size:21 final size:23
Alignment explanation
Indices: 2391911--2391961 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
2391901 TATTTTTTTC
*
2391911 TTTTATTTAATTTTTACATATTT
1 TTTTATTTAATTTATACATATTT
2391934 TTATTATTT-ATTTAT-C-TATTT
1 TT-TTATTTAATTTATACATATTT
2391955 ATTTTAT
1 -TTTTAT
2391962 GATTATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 7 0.28
24 6 0.24
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTATTTAATTTATACATATTT
Found at i:2391977 original size:3 final size:3
Alignment explanation
Indices: 2391929--2391989 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
2391919 AATTTTTACA
* * *
2391929 TAT TTT TAT TATT TATT TAT CTATT TAT T-T TAT GAT TAT GAT TAT TAT
1 TAT TAT TAT TA-T TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT
2391977 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
2391990 GTCATGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 34 0.71
4 11 0.23
5 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2392079 original size:45 final size:45
Alignment explanation
Indices: 2392030--2392124 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
2392020 CTTGTAATAT
* * *
2392030 TTATTTGCATGATTAAT-TATTCATATTATTACATTATA-ATTCATA
1 TTATTTGCATAATTAATATATT-ATAGTATTACATGATATATT-ATA
*
2392075 TTATTTGTATAATTAATATATTATAGTATTACATGATATATTATA
1 TTATTTGCATAATTAATATATTATAGTATTACATGATATATTATA
2392120 TTATT
1 TTATT
2392125 GTATGATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 37 0.84
46 7 0.16
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (45 bp):
TTATTTGCATAATTAATATATTATAGTATTACATGATATATTATA
Found at i:2392113 original size:20 final size:20
Alignment explanation
Indices: 2392090--2392143 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2392080 TGTATAATTA
*
2392090 ATATATTATAGTATTACATG
1 ATATATTATATTATTACATG
**
2392110 ATATATTATATTATTGTATG
1 ATATATTATATTATTACATG
2392130 ATAT-TTATATTATT
1 ATATATTATATTATT
2392144 TACAAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
ATATATTATATTATTACATG
Found at i:2392152 original size:20 final size:21
Alignment explanation
Indices: 2392090--2392152 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
2392080 TGTATAATTA
*
2392090 ATATATTATAGTA-TTACATG
1 ATATATTATATTATTTACATG
2392110 ATATATTATATTATTGT--ATG
1 ATATATTATATTATT-TACATG
*
2392130 ATAT-TTATATTATTTACAAG
1 ATATATTATATTATTTACATG
2392150 ATA
1 ATA
2392153 AATTTTGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
20 24 0.65
21 1 0.03
22 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (21 bp):
ATATATTATATTATTTACATG
Found at i:2392224 original size:16 final size:16
Alignment explanation
Indices: 2392205--2392242 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2392195 TTTCAAGGTT
* *
2392205 TTTTTTTTAAAATAGA
1 TTTTTTTTAAAAAAAA
2392221 TTTTTTTTAAAAAAAA
1 TTTTTTTTAAAAAAAA
2392237 TTTTTT
1 TTTTTT
2392243 ACGAAGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTTTTTAAAAAAAA
Found at i:2395302 original size:26 final size:24
Alignment explanation
Indices: 2395256--2395306 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
2395246 AGTTTAATTC
2395256 TAAAAATTTATAAAATATTAACATA
1 TAAAAATTTATAAAATATTAA-ATA
* * *
2395281 TAAATAATTTCTAATATTTTAAATA
1 TAAA-AATTTATAAAATATTAAATA
2395306 T
1 T
2395307 TTTTTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATTTATAAAATATTAAATA
Found at i:2395711 original size:26 final size:26
Alignment explanation
Indices: 2395682--2395733 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2395672 AATTTTAAAA
2395682 ATTAAAATTAA-ATAAATATATAAATT
1 ATTAAAA-TAATATAAATATATAAATT
* *
2395708 ATTAATATAATATATATATATAAATT
1 ATTAAAATAATATAAATATATAAATT
2395734 CGATATGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAAATAATATAAATATATAAATT
Found at i:2396114 original size:17 final size:17
Alignment explanation
Indices: 2396063--2396114 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2396053 GCCTCCATCA
* *
2396063 CCCGTC-CTCCTCCTGT
1 CCCGTCGCTCCTCTTCT
2396079 CCCGTCGCTCCTCTTCT
1 CCCGTCGCTCCTCTTCT
2396096 CCCGTCGC-CCTCTTACT
1 CCCGTCGCTCCTCTT-CT
2396113 CC
1 CC
2396115 TCTTTCTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.02, C:0.56, G:0.12, T:0.31
Consensus pattern (17 bp):
CCCGTCGCTCCTCTTCT
Found at i:2399908 original size:33 final size:29
Alignment explanation
Indices: 2399843--2399913 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 29
2399833 TAATTGATTG
* *
2399843 AAATT-AATTTATTGATTATTAATTAATC
1 AAATTAAATTGATTGATTATTAATTAATA
2399871 AAATTAAATTGATTCGATCTATTAATTTAATTA
1 AAATTAAATTGATT-GAT-TATTAA-TTAA-TA
2399904 AAATTAAATT
1 AAATTAAATT
2399914 TCAAACACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 5 0.14
29 7 0.19
30 3 0.08
31 6 0.17
32 4 0.11
33 11 0.31
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
AAATTAAATTGATTGATTATTAATTAATA
Found at i:2402665 original size:41 final size:41
Alignment explanation
Indices: 2402618--2402707 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
2402608 CTTAGATCAG
* *
2402618 TCTGACCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGT
1 TCTGACCCTCACGGTTCACACCCTTGTGAGGTATTGTCCGC
*
2402659 TCTGACCCTCACGGTTCACACCTTTGTGAGGTATTGTCCGC
1 TCTGACCCTCACGGTTCACACCCTTGTGAGGTATTGTCCGC
2402700 TCTGACCC
1 TCTGACCC
2402708 CTTTGATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.31
Consensus pattern (41 bp):
TCTGACCCTCACGGTTCACACCCTTGTGAGGTATTGTCCGC
Found at i:2409407 original size:20 final size:23
Alignment explanation
Indices: 2409377--2409417 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2409367 ATTCAAAAGT
2409377 TTTATAA-TTTTATTT-TATAAA
1 TTTATAATTTTTATTTATATAAA
2409398 TTTA-AATTTTTATTTATATA
1 TTTATAATTTTTATTTATATA
2409418 TTATATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATAATTTTTATTTATATAAA
Found at i:2409583 original size:24 final size:24
Alignment explanation
Indices: 2409554--2409605 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2409544 ATATATATAA
2409554 ATATTAATAAAAT-TAATATTTGAT
1 ATATTAATAAAATATAA-ATTTGAT
* * *
2409578 ATATTATTAATATATAAATTTTAT
1 ATATTAATAAAATATAAATTTGAT
2409602 ATAT
1 ATAT
2409606 AATTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATTAATAAAATATAAATTTGAT
Found at i:2409740 original size:21 final size:23
Alignment explanation
Indices: 2409716--2409769 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
2409706 AAATAGTGAG
*
2409716 ATAATAT-T-ATTTGATTTATTA
1 ATAATATATAATTTGATATATTA
*
2409737 ATAATATATAGATTTTATATATTA
1 ATAATATATA-ATTTGATATATTA
2409761 ATAATATAT
1 ATAATATAT
2409770 CAGATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
24 20 0.71
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATAATATATAATTTGATATATTA
Found at i:2409790 original size:25 final size:24
Alignment explanation
Indices: 2409761--2409818 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
2409751 TTATATATTA
* *
2409761 ATAATATATCAGATATAAATTTAT
1 ATAATATATAAAATATAAATTTAT
* *
2409785 ATTAATATTTAAAATTTAAATTTAT
1 A-TAATATATAAAATATAAATTTAT
*
2409810 AAAATATAT
1 ATAATATAT
2409819 TATCTCTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATAATATATAAAATATAAATTTAT
Found at i:2410707 original size:36 final size:36
Alignment explanation
Indices: 2410631--2410711 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
2410621 ACTTCCGGCA
* * *** *
2410631 CCACCTCCAAATCCTCCACCTGAACCACCTCCAGCG
1 CCACCTCCAAATCCACCACCTCAACCAAAACCACCG
* *
2410667 CCACCTCCAAATCCACCACCTCCACCAAAACCACCT
1 CCACCTCCAAATCCACCACCTCAACCAAAACCACCG
2410703 CCACCTCCA
1 CCACCTCCA
2410712 CCTCCAGCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.56, G:0.04, T:0.12
Consensus pattern (36 bp):
CCACCTCCAAATCCACCACCTCAACCAAAACCACCG
Found at i:2410714 original size:12 final size:12
Alignment explanation
Indices: 2410654--2410729 Score: 62
Period size: 12 Copynumber: 5.8 Consensus size: 12
2410644 CTCCACCTGA
*
2410654 ACCACCTCCAGC
1 ACCACCTCCACC
*
2410666 GCCACCTCCAAATCC
1 ACCACCTCC--A-CC
2410681 ACCACCTCCACC
1 ACCACCTCCACC
2410693 AAAACCACCTCCACC
1 ---ACCACCTCCACC
* *
2410708 TCCACCTCCAGC
1 ACCACCTCCACC
2410720 ACCACCTCCA
1 ACCACCTCCA
2410730 TATCCCCCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
12 29 0.56
13 1 0.02
14 1 0.02
15 21 0.40
ACGTcount: A:0.28, C:0.58, G:0.04, T:0.11
Consensus pattern (12 bp):
ACCACCTCCACC
Found at i:2410745 original size:24 final size:24
Alignment explanation
Indices: 2410696--2410765 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
2410686 CTCCACCAAA
** * *
2410696 ACCACCTCCACCTCCACCTCCAGC
1 ACCACCTCCAAATCCACCACCTGC
* *
2410720 ACCACCTCCATATCCCCCACCTGC
1 ACCACCTCCAAATCCACCACCTGC
*
2410744 ACCGCCTCCAAATCCACCACCT
1 ACCACCTCCAAATCCACCACCT
2410766 TTTCCAATCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.23, C:0.59, G:0.04, T:0.14
Consensus pattern (24 bp):
ACCACCTCCAAATCCACCACCTGC
Found at i:2410784 original size:30 final size:30
Alignment explanation
Indices: 2410748--2410940 Score: 136
Period size: 30 Copynumber: 6.2 Consensus size: 30
2410738 ACCTGCACCG
* *
2410748 CCTCCAAATCCACCACCTTTTCCAATCCCA
1 CCTCCAAATCCACCACCTTTTCCAATTCCT
* ** *
2410778 CCTCC-AATGCCACCACCTTTACCAAAACCG
1 CCTCCAAAT-CCACCACCTTTTCCAATTCCT
* *
2410808 CCTTCGCCACCAATGCCACCACCATTACCAATTCCT
1 CC-T--CCA--AAT-CCACCACCTTTTCCAATTCCT
* * * *
2410844 CCACCAAGTCCTCCACCTTTTCCAGTTCCT
1 CCTCCAAATCCACCACCTTTTCCAATTCCT
* * *
2410874 CCACCCAATCCACCACCTTTTCCTATTCCT
1 CCTCCAAATCCACCACCTTTTCCAATTCCT
* * * * *
2410904 CCACCAAGTCCACCACCCTCTCCAATTCCA
1 CCTCCAAATCCACCACCTTTTCCAATTCCT
2410934 CCTCCAA
1 CCTCCAA
2410941 TGCCTCCGCC
Statistics
Matches: 130, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
29 3 0.02
30 96 0.74
31 3 0.02
33 5 0.04
36 23 0.18
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.23
Consensus pattern (30 bp):
CCTCCAAATCCACCACCTTTTCCAATTCCT
Found at i:2410961 original size:135 final size:135
Alignment explanation
Indices: 2410807--2411085 Score: 531
Period size: 135 Copynumber: 2.1 Consensus size: 135
2410797 TACCAAAACC
*
2410807 GCCTTCGCCACCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTC
1 GCCTCCGCCACCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTC
*
2410872 CTCCACCCAATCCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTCTCCAATTCCACCT
66 CTCCACCCAATCCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTCTCCAATTCCACCG
2410937 CCAAT
131 CCAAT
2410942 GCCTCCGCCACCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTC
1 GCCTCCGCCACCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTC
*
2411007 CTCCACCCAATCCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTTTCCAATTCCACCG
66 CTCCACCCAATCCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTCTCCAATTCCACCG
2411072 CCAAT
131 CCAAT
2411077 GCCTCCGCC
1 GCCTCCGCC
2411086 TTTGCCAATC
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 141 1.00
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.24
Consensus pattern (135 bp):
GCCTCCGCCACCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTC
CTCCACCCAATCCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTCTCCAATTCCACCG
CCAAT
Found at i:2410983 original size:30 final size:30
Alignment explanation
Indices: 2410949--2411094 Score: 145
Period size: 30 Copynumber: 4.9 Consensus size: 30
2410939 AATGCCTCCG
* *
2410949 CCACCAATGCCACCACCATTACCAATTCCT
1 CCACCAATGCCACCACCTTTTCCAATTCCT
* *
2410979 CCACCAA-GTCCTCCACCTTTTCCAGTTCCT
1 CCACCAATG-CCACCACCTTTTCCAATTCCT
*
2411009 CCACCCAAT-CCACCACCTTTTCCTATTCCT
1 CCA-CCAATGCCACCACCTTTTCCAATTCCT
* *
2411039 CCACCAA-GTCCACCACCCTTTCCAATTCCA
1 CCACCAATG-CCACCACCTTTTCCAATTCCT
* * * *
2411069 CCGCCAATGCCTCCGCCTTTGCCAAT
1 CCACCAATGCCACCACCTTTTCCAAT
2411095 CCCACCTCCT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
29 5 0.05
30 85 0.89
31 5 0.05
ACGTcount: A:0.22, C:0.48, G:0.05, T:0.25
Consensus pattern (30 bp):
CCACCAATGCCACCACCTTTTCCAATTCCT
Found at i:2411022 original size:60 final size:61
Alignment explanation
Indices: 2410952--2411067 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 61
2410942 GCCTCCGCCA
* * *
2410952 CCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCTCCACCTTTTCCAGTTCCTCCAC
1 CCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCACCACCCTTTCCAATTCCTCCAC
* * *
2411013 CCAAT-CCACCACCTTTTCCTATTCCTCCACCAAGTCCACCACCCTTTCCAATTCC
1 CCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCACCACCCTTTCCAATTCC
2411068 ACCGCCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
60 44 0.90
61 5 0.10
ACGTcount: A:0.22, C:0.48, G:0.03, T:0.26
Consensus pattern (61 bp):
CCAATGCCACCACCATTACCAATTCCTCCACCAAGTCCACCACCCTTTCCAATTCCTCCAC
Found at i:2411175 original size:60 final size:60
Alignment explanation
Indices: 2411065--2411193 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
2411055 CCTTTCCAAT
* * * ** *
2411065 TCCACCGCCAATGCCTCCGCCTTTGCCAATCCCACCTCCTTTACTGATGCCACCTCCGGA
1 TCCACCACCAATACCTCCGCCTTTGCCAATCCCACCCCCTTTACCAATGCCACCTCCAGA
* * *
2411125 TCCACCACCAATACCTCCTCCTTTGCCAATCCCACCACCCTTT-CCAATGCCACCTTCATA
1 TCCACCACCAATACCTCCGCCTTTGCCAATCCCACC-CCCTTTACCAATGCCACCTCCAGA
2411185 TCCACCACC
1 TCCACCACC
2411194 TTTTCCAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 54 0.92
61 5 0.08
ACGTcount: A:0.20, C:0.49, G:0.08, T:0.23
Consensus pattern (60 bp):
TCCACCACCAATACCTCCGCCTTTGCCAATCCCACCCCCTTTACCAATGCCACCTCCAGA
Found at i:2411190 original size:30 final size:30
Alignment explanation
Indices: 2411156--2411333 Score: 162
Period size: 30 Copynumber: 5.9 Consensus size: 30
2411146 TTTGCCAATC
*
2411156 CCACCACCCTTTCCAATGCCACCTTCATA-T
1 CCACCACCCTTTCCAATGCCACCTCCA-AGT
* * * *
2411186 CCACCACCTTTTCCAATTCCACCACCAAGG
1 CCACCACCCTTTCCAATGCCACCTCCAAGT
* * * *
2411216 CCTCCACCCTTGCCAATTCCTCCTCCAAGT
1 CCACCACCCTTTCCAATGCCACCTCCAAGT
*
2411246 CCACCACCCTTTCCAATGCCACCACCAAGT
1 CCACCACCCTTTCCAATGCCACCTCCAAGT
* * * *
2411276 CCACCACCTTTTCCTATTCCACCACCAACG-
1 CCACCACCCTTTCCAATGCCACCTCCAA-GT
* * * *
2411306 CCTCCACCCTTACCAATCCCACCACCAA
1 CCACCACCCTTTCCAATGCCACCTCCAA
2411334 AACCACCTCC
Statistics
Matches: 122, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
29 1 0.01
30 120 0.98
31 1 0.01
ACGTcount: A:0.24, C:0.50, G:0.04, T:0.21
Consensus pattern (30 bp):
CCACCACCCTTTCCAATGCCACCTCCAAGT
Found at i:2411223 original size:60 final size:60
Alignment explanation
Indices: 2411156--2411333 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 60
2411146 TTTGCCAATC
* * * *
2411156 CCACCACCCTTTCCAATGCCACCTTCATA-TCCACCACCTTTTCCAATTCCACCACCAAGG
1 CCACCACCCTTTCCAATTCCACCTCCA-AGTCCACCACCCTTTCCAATGCCACCACCAAGG
* * * *
2411216 CCTCCACCCTTGCCAATTCCTCCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGT
1 CCACCACCCTTTCCAATTCCACCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGG
* * * * * *
2411276 CCACCACCTTTTCCTATTCCACCACCAACG-CCTCCACCCTTACCAATCCCACCACCAA
1 CCACCACCCTTTCCAATTCCACCTCCAA-GTCCACCACCCTTTCCAATGCCACCACCAA
2411334 AACCACCTCC
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
59 1 0.01
60 97 0.98
61 1 0.01
ACGTcount: A:0.24, C:0.50, G:0.04, T:0.21
Consensus pattern (60 bp):
CCACCACCCTTTCCAATTCCACCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGG
Found at i:2411223 original size:90 final size:88
Alignment explanation
Indices: 2411129--2411313 Score: 223
Period size: 90 Copynumber: 2.1 Consensus size: 88
2411119 TCCGGATCCA
**
2411129 CCACCAATACC-TCCTCCTTTGCCAA-TCCCACCACCCTTTCCAATGCCACCTTCATA-TCCACC
1 CCACCAATACCATCCTCC--T-CCAAGT-CCACCACCCTTTCCAATGCCACCACCA-AGTCCACC
*
2411191 ACCTTTTCCAATTCCACCACCAAGGCCT
61 ACCTTTTCCAATTCCACCACCAACGCCT
** *
2411219 CCACCCTTGCCAATTCCTCCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACC
1 CCACCAATACC-A-TCCTCCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACC
*
2411284 TTTTCCTATTCCACCACCAACGCCT
64 TTTTCCAATTCCACCACCAACGCCT
2411309 CCACC
1 CCACC
2411314 CTTACCAATC
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
89 1 0.01
90 74 0.89
91 2 0.02
93 6 0.07
ACGTcount: A:0.23, C:0.50, G:0.05, T:0.23
Consensus pattern (88 bp):
CCACCAATACCATCCTCCTCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTT
TTCCAATTCCACCACCAACGCCT
Found at i:2411314 original size:90 final size:90
Alignment explanation
Indices: 2411156--2411322 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 90
2411146 TTTGCCAATC
** *
2411156 CCACCACCCTTTCCAATGCCACCTTCATATCCACCACCTTTTCCAATTCCACCACCAAGGCCTCC
1 CCACCACCCTTTCCAATGCCACCACCATATCCACCACCTTTTCCAATTCCACCACCAACGCCTCC
*
2411221 ACCCTTGCCAATTCCTCCTCCAAGT
66 ACCCTTACCAATTCCTCCTCCAAGT
*
2411246 CCACCACCCTTTCCAATGCCACCACCA-AGTCCACCACCTTTTCCTATTCCACCACCAACGCCTC
1 CCACCACCCTTTCCAATGCCACCACCATA-TCCACCACCTTTTCCAATTCCACCACCAACGCCTC
2411310 CACCCTTACCAAT
65 CACCCTTACCAAT
2411323 CCCACCACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
89 1 0.01
90 70 0.99
ACGTcount: A:0.23, C:0.49, G:0.05, T:0.23
Consensus pattern (90 bp):
CCACCACCCTTTCCAATGCCACCACCATATCCACCACCTTTTCCAATTCCACCACCAACGCCTCC
ACCCTTACCAATTCCTCCTCCAAGT
Found at i:2411358 original size:90 final size:90
Alignment explanation
Indices: 2411156--2411348 Score: 264
Period size: 90 Copynumber: 2.2 Consensus size: 90
2411146 TTTGCCAATC
** *
2411156 CCACCACCCTTTCCAATGCCACCTTCATA-TCCACCACCTTTTCCAATTCCACCACCAAGGCCTC
1 CCACCACCCTTTCCAATGCCACCACCA-AGTCCACCACCTTTTCCAATTCCACCACCAACGCCTC
* * * * **
2411220 CACCCTTGCCAATTCCTCCTCCAAGT
65 CACCCTTACCAATCCCACCACCAAAA
*
2411246 CCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTTTCCTATTCCACCACCAACGCCTCC
1 CCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTTTCCAATTCCACCACCAACGCCTCC
2411311 ACCCTTACCAATCCCACCACCAAAA
66 ACCCTTACCAATCCCACCACCAAAA
*
2411336 CCACC-TCCTTTCC
1 CCACCACCCTTTCC
2411349 CAACTCCACC
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 8 0.09
90 83 0.91
ACGTcount: A:0.24, C:0.50, G:0.04, T:0.22
Consensus pattern (90 bp):
CCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTTTCCAATTCCACCACCAACGCCTCC
ACCCTTACCAATCCCACCACCAAAA
Found at i:2411381 original size:15 final size:15
Alignment explanation
Indices: 2411361--2411413 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
2411351 ACTCCACCGG
2411361 CACCACCACCGCCTC
1 CACCACCACCGCCTC
*
2411376 CACCACCAAACCCGCCAC
1 CACCACC--A-CCGCCTC
* *
2411394 CACCACCAGCTCCTC
1 CACCACCACCGCCTC
2411409 CACCA
1 CACCA
2411414 ACTCCTCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 16 0.52
16 1 0.03
17 1 0.03
18 13 0.42
ACGTcount: A:0.26, C:0.62, G:0.06, T:0.06
Consensus pattern (15 bp):
CACCACCACCGCCTC
Found at i:2411477 original size:12 final size:12
Alignment explanation
Indices: 2411462--2411497 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2411452 TCCAACACCT
2411462 CCTCCAGCTCCA
1 CCTCCAGCTCCA
2411474 CCTCCAGCTCCA
1 CCTCCAGCTCCA
* *
2411486 GCTCCACCTCCA
1 CCTCCAGCTCCA
2411498 AAACCACCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.17, C:0.58, G:0.08, T:0.17
Consensus pattern (12 bp):
CCTCCAGCTCCA
Found at i:2411484 original size:18 final size:18
Alignment explanation
Indices: 2411463--2411497 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2411453 CCAACACCTC
2411463 CTCCAGCTCCACCTCCAG
1 CTCCAGCTCCACCTCCAG
2411481 CTCCAGCTCCACCTCCA
1 CTCCAGCTCCACCTCCA
2411498 AAACCACCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.57, G:0.09, T:0.17
Consensus pattern (18 bp):
CTCCAGCTCCACCTCCAG
Found at i:2416222 original size:10 final size:11
Alignment explanation
Indices: 2416202--2416244 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
2416192 TGACCTATTT
2416202 TTTTTCTTTTC
1 TTTTTCTTTTC
2416213 TTTTTC-TTTC
1 TTTTTCTTTTC
*
2416223 TTCTTCTTTTCAC
1 TTTTTCTTTT--C
2416236 TTTTTCTTT
1 TTTTTCTTT
2416245 CTAATAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
13 9 0.33
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:2416233 original size:15 final size:15
Alignment explanation
Indices: 2416199--2416232 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2416189 AACTGACCTA
2416199 TTTTT-TTTCTTTTC
1 TTTTTCTTTCTTTTC
2416213 TTTTTCTTTCTTCTTC
1 TTTTTCTTTCTT-TTC
2416229 TTTT
1 TTTT
2416233 CACTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 6 0.33
16 7 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:2416242 original size:23 final size:21
Alignment explanation
Indices: 2416205--2416246 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
2416195 CCTATTTTTT
2416205 TTCTTTTCTTTTTCTTTCTTC
1 TTCTTTTCTTTTTCTTTCTTC
2416226 TTCTTTTCACTTTTTCTTTCT
1 TTCTTTT--CTTTTTCTTTCT
2416247 AATAGAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTCTTTTTCTTTCTTC
Found at i:2424219 original size:2 final size:2
Alignment explanation
Indices: 2424212--2424242 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2424202 CATCTGACGT
2424212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2424243 GGATAAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2430296 original size:12 final size:12
Alignment explanation
Indices: 2430263--2430298 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
2430253 TACTCTTTAG
2430263 CAAACCATTCAA
1 CAAACCATTCAA
*
2430275 AAACACCATTCAA
1 CAA-ACCATTCAA
2430288 CAAACCATTCA
1 CAAACCATTCA
2430299 GCATTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAACCATTCAA
Found at i:2430350 original size:28 final size:28
Alignment explanation
Indices: 2430310--2430380 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
2430300 CATTCGATTT
* * *
2430310 AGCAAACCAATATCATACAATACTATTC
1 AGCAAAACAATATCACACAATACCATTC
2430338 AGCAAAACAATATCACACAATACCATTC
1 AGCAAAACAATATCACACAATACCATTC
2430366 AGCAAACCACAATAT
1 AGCAAA--ACAATAT
2430381 TTAAAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 31 0.82
30 7 0.18
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (28 bp):
AGCAAAACAATATCACACAATACCATTC
Found at i:2431394 original size:186 final size:187
Alignment explanation
Indices: 2430988--2431509 Score: 712
Period size: 186 Copynumber: 2.8 Consensus size: 187
2430978 ATAAAAATGG
* *
2430988 AAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCATTTACTAACCATTTTAAAATTTGAGTAA
1 AAGGAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCATTTTAAAATTTGAGTAA
*
2431053 TAAAATATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCT-AAAAATT-TTTAAAAAT
66 TGAAATATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAAT-CTAAAAAATTCTTTAAAAA-
* *
2431116 AAATTATTAAAGGTATTTGTTCTCAAAAAATGCCTTCAATAATTATGAACAAAAATTAA
129 AAATTATTAAAGGTGTTTGTTCTCAAAAAATACCTTCAATAATTATGAACAAAAATTAA
* * * *
2431175 AAGGAATTAATGAAGGTATTTTTTTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTAG
1 AAGGAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCATTTTAAAATTTGAGTAA
* *
2431240 TGAAATATTAAAGGCGTTTTTCACTAGAAGACG-TTTTAATAATCTAAAAAATTCTTTAAAAAAA
66 TGAAATATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTAAAAAATTCTTTAAAAAAA
* * * * *
2431304 TTTATTAAAGGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAA
131 ATTATTAAAGGTGTTTGTTCTCAAAAAATACCTTCAATAATTATGAACAAAAATTAA
* * * * * ** * * *
2431361 AAGTAATTAGTGAAAGTGTTTTTCTAAAATAAACACATTCACTAACTGTATTAAAATTTAAGTAT
1 AAGGAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCATTTTAAAATTTGAGTAA
* * * *
2431426 TGAAATATTGAAGGCATTTTTCACCAAAAGATGCCTTTAATAATCTAAAAAA-TCTTTAAAAAAA
66 TGAAATATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTAAAAAATTCTTTAAAAAAA
*
2431490 ATTATTGAAGGTGTTT-TTCT
131 ATTATTAAAGGTGTTTGTTCT
2431510 AGAATAAATG
Statistics
Matches: 294, Mismatches: 38, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
185 6 0.02
186 173 0.59
187 115 0.39
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (187 bp):
AAGGAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCATTTTAAAATTTGAGTAA
TGAAATATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTAAAAAATTCTTTAAAAAAA
ATTATTAAAGGTGTTTGTTCTCAAAAAATACCTTCAATAATTATGAACAAAAATTAA
Found at i:2431539 original size:124 final size:125
Alignment explanation
Indices: 2431365--2431635 Score: 316
Period size: 124 Copynumber: 2.2 Consensus size: 125
2431355 AATTAAAAGT
* * *
2431365 AATTAGTGAAAGTGTTTTTCTAAAATAAACACATTCACTAACTGTATTAAAATTTAAGTA-TTGA
1 AATTATTGAAAGTGTTTTTCTAAAATAAACACATTCACTAACTATATTAAAATTTAAGTACTAG-
* *
2431429 AATATTGAAGGCATTTTTCACCA-AAAGATGCCTTTAATAATCTAAAAAATCTTT-AAAAAA
65 AATATTGAAAGCATTTTTCACCAGAAA-ACGCCTTTAATAATCTAAAAAATCTTTAAAAAAA
* * ** * * *
2431489 AATTATTGAAGGTGTTTTTCTAGAATAAATGCCTTCACTAA-TCATCTTAAAATTTGAGTACTAG
1 AATTATTGAAAGTGTTTTTCTAAAATAAACACATTCACTAACT-ATATTAAAATTTAAGTACTAG
* * * *
2431553 TATATTGAAAGCATTTTTCACTAGAAAACGCCTTTAATAATCTTAAAAATTTTTAAAAAAA
65 AATATTGAAAGCATTTTTCACCAGAAAACGCCTTTAATAATCTAAAAAATCTTTAAAAAAA
* *
2431614 AATTATTAAAAGCGTTTGTTCT
1 AATTATTGAAAGTGTTT-TTCT
2431636 CAAGGAACGC
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
123 1 0.01
124 93 0.76
125 25 0.20
126 4 0.03
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (125 bp):
AATTATTGAAAGTGTTTTTCTAAAATAAACACATTCACTAACTATATTAAAATTTAAGTACTAGA
ATATTGAAAGCATTTTTCACCAGAAAACGCCTTTAATAATCTAAAAAATCTTTAAAAAAA
Found at i:2431870 original size:125 final size:125
Alignment explanation
Indices: 2431669--2431935 Score: 381
Period size: 125 Copynumber: 2.1 Consensus size: 125
2431659 GTACATGAAC
* * * *
2431669 TAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACACCATCACTAACCGTTTTAAAATTTGAG
1 TAAAAAAAATTATTGAAGGTATTTTTCTAGAATAAACACCATCACTAACCGTCTTAAAATTTAAG
* * * * * **
2431734 TATTGGAATATTGAAGGTGTTTTTCACTAGAAAACGCCTTTAATAATCTCAAAAATTTTT
66 TACTAGAATATTGAAGGCGTTTTTCACTAGAAAACACATTTAATAATCTCAAAAAAATTT
* * * *
2431794 TAAAAAAAATTATTGAAGGTATTTTTTTGGAATAAACGCCTTCACTAACCGTCTTAAAATTTAAG
1 TAAAAAAAATTATTGAAGGTATTTTTCTAGAATAAACACCATCACTAACCGTCTTAAAATTTAAG
* *
2431859 TACTAGTATATTGAAGGCGTTTTTCACTAGAAAATACATTTAATAATCTCAAAAAAATTT
66 TACTAGAATATTGAAGGCGTTTTTCACTAGAAAACACATTTAATAATCTCAAAAAAATTT
2431919 TAAAAAAAATTATTGAA
1 TAAAAAAAATTATTGAA
2431936 AGCATTTGTT
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (125 bp):
TAAAAAAAATTATTGAAGGTATTTTTCTAGAATAAACACCATCACTAACCGTCTTAAAATTTAAG
TACTAGAATATTGAAGGCGTTTTTCACTAGAAAACACATTTAATAATCTCAAAAAAATTT
Found at i:2431905 original size:312 final size:310
Alignment explanation
Indices: 2431179--2432217 Score: 1314
Period size: 312 Copynumber: 3.3 Consensus size: 310
2431169 AATTAAAAGG
* * * *
2431179 AATTAATGAAGGTATTTTTTTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTAGT-GA
1 AATTATTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAG-
* * * ** *
2431243 AATATTAAAGGCGTTTTTCACTAGAAGAC-GTTTTAATAATCTAAAAAATTCTTTAAAAAAATTT
65 AATATTGAAGGCATTTTTCACTAGAAAACACATTTAATAATCTAAAAAATT-TTTAAAAAAAATT
* *
2431307 ATTAAAGGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAAAAGTAATTAGT
129 ATTAAAAGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAAAAGAAATTAGT
* * * * *
2431372 GAAAGTGTTTTTCTAAAATAAACA-CATTCACTAACTGTATTAAAATTTAAGTATTGAAATATTG
194 GAAGGTATTTTTCTAGAATAAACACCA-TCACTAACCGTATTAAAATTTGAGTATTGAAATATTG
* *
2431436 AAGGCATTTTTCACCA-AAAGATGCCTTTAATAATCTAAAAAATCTTTAAAAAA
258 AAGGCATTTTTCACTAGAAA-ATGCCTTTAATAATCTAAAAAATTTTTAAAAAA
* * * *
2431489 AATTATTGAAGGTGTTTTTCTAGAATAAATGCCTTCACTAATCATCTTAAAATTTGAGTACTAGT
1 AATTATTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAGA
* * * *
2431554 ATATTGAAAGCATTTTTCACTAGAAAACGCCTTTAATAATCTTAAAAATTTTTAAAAAAAAATTA
66 ATATTGAAGGCATTTTTCACTAGAAAACACATTTAATAATCTAAAAAATTTTT-AAAAAAAATTA
** ** * *
2431619 TTAAAAGCGTTTGTTCTCAAGGAACGCCTTTAATAATTATGTACATGAACTAAAAGAAATTAGTG
130 TTAAAAGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAAAAGAAATTAGTG
* *
2431684 AAGGTATTTTTCTAGAATAAACACCATCACTAACCGTTTTAAAATTTGAGTATTGGAATATTGAA
195 AAGGTATTTTTCTAGAATAAACACCATCACTAACCGTATTAAAATTTGAGTATTGAAATATTGAA
** * *
2431749 GGTGTTTTTCACTAGAAAACGCCTTTAATAATCTCAAAAATTTTTTAAAAAA
260 GGCATTTTTCACTAGAAAATGCCTTTAATAATCT-AAAAAATTTTTAAAAAA
* * * * *
2431801 AATTATTGAAGGTATTTTTTTGGAATAAACGCCTTCACTAACCGTCTTAAAATTTAAGTACTAGT
1 AATTATTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAGA
* * *
2431866 ATATTGAAGGCGTTTTTCACTAGAAAATACATTTAATAATCTCAAAAAAATTTTAAAAAAAATTA
66 ATATTGAAGGCATTTTTCACTAGAAAACACATTTAATAATCT-AAAAAATTTTTAAAAAAAATTA
* * * *
2431931 TTGAAAGCATTTGTTCTCAAAAAATACCTTCAATAATTATGTATATAAATTAAAA-AGAATTAGT
130 TTAAAAGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAAAAGA-AATTAGT
* * * * * * *
2431995 GAAGGCATTTTTTTAGAATAAACGCCTTCATTAACCGTATTAAATTTTGAGTAGTGAAATATTGA
194 GAAGGTATTTTTCTAGAATAAACACCATCACTAACCGTATTAAAATTTGAGTATTGAAATATTGA
* * * *
2432060 AGACATTTTTCACTAGAAGATACTTTTAATAATCTAAAAAAATTTTTAAAAAA
259 AGGCATTTTTCACTAGAAAATGCCTTTAATAATCT-AAAAAATTTTTAAAAAA
* * * * *
2432113 AATTATTGAAGGTGTTTTTCTGGAATAAACGCATTTACTAACCATCTTAAAATTTGAGTAATAGA
1 AATTATTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAGA
* * * * *
2432178 ACATTGAAGGCATGTTTAACTAGAAAACACCTTCAATAAT
66 ATATTGAAGGCATTTTTCACTAGAAAACACATTTAATAAT
2432218 TCTCTTAAAA
Statistics
Matches: 627, Mismatches: 94, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
310 82 0.13
311 168 0.27
312 368 0.59
313 9 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (310 bp):
AATTATTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAGA
ATATTGAAGGCATTTTTCACTAGAAAACACATTTAATAATCTAAAAAATTTTTAAAAAAAATTAT
TAAAAGCGTTTGTTCTCAAAAAATACCTTTAATAATTATGTACATAAATTAAAAGAAATTAGTGA
AGGTATTTTTCTAGAATAAACACCATCACTAACCGTATTAAAATTTGAGTATTGAAATATTGAAG
GCATTTTTCACTAGAAAATGCCTTTAATAATCTAAAAAATTTTTAAAAAA
Found at i:2431935 original size:187 final size:185
Alignment explanation
Indices: 2431742--2432132 Score: 455
Period size: 187 Copynumber: 2.1 Consensus size: 185
2431732 AGTATTGGAA
* * * ***
2431742 TATTGAAGGTGTTTTTCACTAGAAAACGCCTTTAATAATCTCA-AAAATTTTTTAAAAAAAATTA
1 TATTGAAGGTGTTTTTCAC-AAAAAACACCTTCAATAAT-T-AGAAAATAAATTAAAAAAAATTA
* * * * *
2431806 TTGAAGGTATTTTTTTGGAATAAACGCCTTCACTAACCGTCTTAAAATTTAAGTACT-AGTATAT
63 GTGAAGGCATTTTTTTAGAATAAACGCCTTCACTAACCGTATTAAAATTTAAGTACTGA-AATAT
* *
2431870 TGAAGGCGTTTTTCACTAGAAAATACATTTAATAATCTCAAAAAAA-TTTTAAAAAAAAT
127 TGAAGACATTTTTCACTAGAAAATACATTTAATAATCT-AAAAAAATTTTTAAAAAAAAT
* ** * * * * *
2431929 TATTGAAAGCATTTGTTCTCAAAAAATACCTTCAATAATTATGTATATAAATTAAAAAGAATTAG
1 TATTGAAGGTGTTT-TTCACAAAAAACACCTTCAATAATTA-GAAAATAAATTAAAAAAAATTAG
* * * *
2431994 TGAAGGCATTTTTTTAGAATAAACGCCTTCATTAACCGTATTAAATTTTGAGTAGTGAAATATTG
64 TGAAGGCATTTTTTTAGAATAAACGCCTTCACTAACCGTATTAAAATTTAAGTACTGAAATATTG
* *
2432059 AAGACATTTTTCACTAGAAGATACTTTTAATAATCTAAAAAAATTTTTAAAAAAAAT
129 AAGACATTTTTCACTAGAAAATACATTTAATAATCTAAAAAAATTTTTAAAAAAAAT
2432116 TATTGAAGGTGTTTTTC
1 TATTGAAGGTGTTTTTC
2432133 TGGAATAAAC
Statistics
Matches: 169, Mismatches: 30, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
185 1 0.01
186 11 0.07
187 152 0.90
188 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (185 bp):
TATTGAAGGTGTTTTTCACAAAAAACACCTTCAATAATTAGAAAATAAATTAAAAAAAATTAGTG
AAGGCATTTTTTTAGAATAAACGCCTTCACTAACCGTATTAAAATTTAAGTACTGAAATATTGAA
GACATTTTTCACTAGAAAATACATTTAATAATCTAAAAAAATTTTTAAAAAAAAT
Found at i:2432216 original size:125 final size:125
Alignment explanation
Indices: 2431980--2432217 Score: 271
Period size: 125 Copynumber: 1.9 Consensus size: 125
2431970 TGTATATAAA
* * * * * *
2431980 TTAAAAAGAATTAGTGAAGGCATTTTTTTAGAATAAACGCCTTCATTAACCGTATTAAATTTTGA
1 TTAAAAAAAATTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCATATTAAAATTTGA
* * * * * * * *
2432045 GTAGTGAAATATTGAAGACATTTTTCACTAGAAGATACTTTTAATAATCTAAAAAAATTT
66 GTAATGAAACATTGAAGACATGTTTAACTAGAAAACACCTTCAATAATCTAAAAAAATTT
* ** * * *
2432105 TTAAAAAAAATTATTGAAGGTGTTTTTCTGGAATAAACGCATTTACTAACCATCTTAAAATTTGA
1 TTAAAAAAAATTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCATATTAAAATTTGA
*
2432170 GTAAT-AGAACATTGAAGGCATGTTTAACTAGAAAACACCTTCAATAAT
66 GTAATGA-AACATTGAAGACATGTTTAACTAGAAAACACCTTCAATAAT
2432218 TCTCTTAAAA
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
124 1 0.01
125 90 0.99
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (125 bp):
TTAAAAAAAATTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCATATTAAAATTTGA
GTAATGAAACATTGAAGACATGTTTAACTAGAAAACACCTTCAATAATCTAAAAAAATTT
Found at i:2441355 original size:2 final size:2
Alignment explanation
Indices: 2441343--2441374 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2441333 AAAGGCGTCG
*
2441343 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2441375 GAAAAGGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2443843 original size:10 final size:10
Alignment explanation
Indices: 2443828--2443852 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2443818 ACAAAACAAC
2443828 TTGTTAACAG
1 TTGTTAACAG
2443838 TTGTTAACAG
1 TTGTTAACAG
2443848 TTGTT
1 TTGTT
2443853 TATAGTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (10 bp):
TTGTTAACAG
Found at i:2445323 original size:2 final size:2
Alignment explanation
Indices: 2445316--2445340 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2445306 AAAATTCTTT
2445316 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2445341 TAAAAGCTAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2447205 original size:2 final size:2
Alignment explanation
Indices: 2447198--2447235 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
2447188 CATTTGGTGC
2447198 TA TA TA TA TA TA TA TA TA TCA TA TA -A TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T
2447236 TACAATTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 29 0.88
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2449231 original size:19 final size:19
Alignment explanation
Indices: 2449207--2449246 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2449197 TACCAAAGAT
2449207 AAGGAGAAGTTGTTGAACA
1 AAGGAGAAGTTGTTGAACA
2449226 AAGGAGAAGTTGTTGAACA
1 AAGGAGAAGTTGTTGAACA
2449245 AA
1 AA
2449247 TATCAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (19 bp):
AAGGAGAAGTTGTTGAACA
Found at i:2450784 original size:20 final size:21
Alignment explanation
Indices: 2450747--2450785 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2450737 TATCAATCAG
*
2450747 ATAAAAATTAAGTATTATACC
1 ATAAAAATTAACTATTATACC
*
2450768 ATAAAAATTACCT-TTATA
1 ATAAAAATTAACTATTATA
2450786 AGCATGTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (21 bp):
ATAAAAATTAACTATTATACC
Found at i:2451307 original size:3 final size:3
Alignment explanation
Indices: 2451299--2451324 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2451289 GTACCCCAAT
2451299 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2451325 TGTAACTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2451552 original size:16 final size:16
Alignment explanation
Indices: 2451526--2451572 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
2451516 TTTTTTATTT
2451526 ATTTCATATTTATATAA
1 ATTT-ATATTTATATAA
*
2451543 ATTTATATTTATTTAA
1 ATTTATATTTATATAA
* *
2451559 TTTTATAGTTATAT
1 ATTTATATTTATAT
2451573 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTATATTTATATAA
Found at i:2451604 original size:17 final size:18
Alignment explanation
Indices: 2451582--2451619 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
2451572 TTTAAAAATA
2451582 ATATT-AAATAATATTTT
1 ATATTAAAATAATATTTT
2451599 ATATTAAAAATAATATTTT
1 ATATT-AAAATAATATTTT
2451618 AT
1 AT
2451620 TAATTTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAAAATAATATTTT
Found at i:2459600 original size:3 final size:3
Alignment explanation
Indices: 2459592--2459618 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2459582 ATTAAGTACA
2459592 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
2459619 TTTCTACCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:2463249 original size:12 final size:12
Alignment explanation
Indices: 2463220--2463256 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2463210 CAATGTGAAG
*
2463220 ATTAATAATA-T
1 ATTAAAAATATT
2463231 A-TAAAAATATT
1 ATTAAAAATATT
2463242 ATTAAAAATATT
1 ATTAAAAATATT
2463254 ATT
1 ATT
2463257 TATAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 7 0.30
11 3 0.13
12 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAAAATATT
Found at i:2463416 original size:13 final size:14
Alignment explanation
Indices: 2463386--2463419 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
2463376 TGATGAGATT
*
2463386 TTTTAATCTATTAA
1 TTTTAATCTATCAA
2463400 TTTTAATCT-TCAA
1 TTTTAATCTATCAA
2463413 TTTTAAT
1 TTTTAAT
2463420 TTTTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAATCTATCAA
Found at i:2463677 original size:29 final size:27
Alignment explanation
Indices: 2463645--2463712 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
2463635 TAATAAAATA
*
2463645 TTTAATGTAATATTTGAATTTTAAAATTT
1 TTTAAT-TAATATTTGAATTAT-AAATTT
*
2463674 TTTAATATAAAATTTGAATTATAAATTT
1 TTTAAT-TAATATTTGAATTATAAATTT
*
2463702 ATTAATTAATA
1 TTTAATTAATA
2463713 CAATACGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 4 0.12
28 11 0.32
29 19 0.56
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTAATTAATATTTGAATTATAAATTT
Found at i:2464487 original size:8 final size:7
Alignment explanation
Indices: 2464471--2464582 Score: 64
Period size: 8 Copynumber: 14.4 Consensus size: 7
2464461 TAAGTCATTT
2464471 TTTTTTA
1 TTTTTTA
2464478 TTTTTGTA
1 TTTTT-TA
2464486 TTTTTTA
1 TTTTTTA
2464493 -TTTTTA
1 TTTTTTA
2464499 TTTTATTTA
1 -TTT-TTTA
*
2464508 CATTTTTA
1 -TTTTTTA
2464516 TTATTGTTA
1 TT-TT-TTA
*
2464525 TTGTTTTT
1 TT-TTTTA
*
2464533 TTATTTTT
1 TT-TTTTA
2464541 TTCTTTTA
1 TT-TTTTA
2464549 TTTTTTA
1 TTTTTTA
*
2464556 TCTTATGTA
1 T-TT-TTTA
*
2464565 TTTATTA
1 TTTTTTA
2464572 TTTATTTA
1 TTT-TTTA
2464580 TTT
1 TTT
2464583 ATTGCTACTA
Statistics
Matches: 84, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
6 6 0.07
7 19 0.23
8 42 0.50
9 17 0.20
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:2464496 original size:6 final size:6
Alignment explanation
Indices: 2464468--2464553 Score: 52
Period size: 6 Copynumber: 13.7 Consensus size: 6
2464458 GAGTAAGTCA
**
2464468 TTTT-T TTTTATT TTTGTATT TTTTAT TTTTA- TTTTAT TTACAT TTTTATT
1 TTTTAT TTTTA-T TTT-TA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
* *
2464518 ATTGTTAT TGTT-T TTTTAT TTTTTT CTTTTAT TTTT
1 -TT-TTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTT
2464554 TATCTTATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
5 13 0.20
6 25 0.39
7 13 0.20
8 10 0.16
9 3 0.05
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:2464496 original size:20 final size:20
Alignment explanation
Indices: 2464468--2464582 Score: 69
Period size: 20 Copynumber: 5.7 Consensus size: 20
2464458 GAGTAAGTCA
2464468 TTTTT-TTTTATTTTTGTAT
1 TTTTTATTTTATTTTTGTAT
* *
2464487 TTTTTATTTTTATTTTATTTACA
1 TTTTTA-TTTTATTTT-TGTA-T
* *
2464510 TTTTTATTATTGTTATTGT-T
1 TTTTTATT-TTATTTTTGTAT
*
2464530 TTTTTATTTT-TTTCTTTTAT
1 TTTTTATTTTATTT-TTGTAT
* *
2464550 TTTTTATCTTATGTATT-TAT
1 TTTTTATTTTAT-TTTTGTAT
*
2464570 TATTTA-TTTATTT
1 TTTTTATTTTATTT
2464583 ATTGCTACTA
Statistics
Matches: 74, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.04
19 14 0.19
20 26 0.35
21 12 0.16
22 8 0.11
23 11 0.15
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTATTTTTGTAT
Found at i:2464502 original size:26 final size:25
Alignment explanation
Indices: 2464467--2464582 Score: 73
Period size: 26 Copynumber: 4.6 Consensus size: 25
2464457 TGAGTAAGTC
2464467 ATTTTT-TTTTATTTTTGTATTTTTT
1 ATTTTTATTTTATTTTT-TATTTTTT
* *
2464492 ATTTTTATTTTATTTACATT-TTTATT
1 ATTTTTATTTTATTT--TTTATTTTTT
* *
2464518 ATTGTTATTGT-TTTTTTATTTTTT
1 ATTTTTATTTTATTTTTTATTTTTT
* *
2464542 -TCTTTTATTTT-TTATCTTATGTATTT
1 AT-TTTTATTTTATT-TTTTAT-TTTTT
2464568 ATTATTTA-TTTATTT
1 ATT-TTTATTTTATTT
2464583 ATTGCTACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
23 3 0.04
24 14 0.20
25 14 0.20
26 31 0.44
27 8 0.11
28 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTTATTTTTTATTTTTT
Found at i:2464581 original size:15 final size:14
Alignment explanation
Indices: 2464467--2464585 Score: 61
Period size: 15 Copynumber: 8.2 Consensus size: 14
2464457 TGAGTAAGTC
*
2464467 ATTTTTTTTTA-TT
1 ATTTTTATTTATTT
*
2464480 -TTTGTATTT-TTT
1 ATTTTTATTTATTT
2464492 ATTTTTATTTTATTT
1 ATTTTTA-TTTATTT
2464507 ACATTTTTA-TTATTGTT
1 --ATTTTTATTTA-T-TT
*
2464524 ATTGTTTTTTTATTT
1 ATT-TTTATTTATTT
2464539 -TTTTCT-TTTATTT
1 ATTTT-TATTTATTT
* *
2464552 TTTATCTTATGTATTT
1 ATT-T-TTATTTATTT
2464568 ATTATTTATTTATTT
1 ATT-TTTATTTATTT
2464583 ATT
1 ATT
2464586 GCTACTATTT
Statistics
Matches: 84, Mismatches: 7, Indels: 28
0.71 0.06 0.24
Matches are distributed among these distances:
12 9 0.11
13 14 0.17
14 8 0.10
15 25 0.30
16 16 0.19
17 12 0.14
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTTTATTTATTT
Found at i:2464598 original size:4 final size:4
Alignment explanation
Indices: 2464545--2464585 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
2464535 ATTTTTTTCT
*
2464545 TTTA TTT- TTTA TCTTA TGTA TTTA -TTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TT
2464586 GCTACTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.19
4 22 0.69
5 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:2465583 original size:9 final size:9
Alignment explanation
Indices: 2465569--2465594 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2465559 GCTCCAGGTT
2465569 TTTTTTTTC
1 TTTTTTTTC
2465578 TTTTTTTTC
1 TTTTTTTTC
2465587 TTTTTTTT
1 TTTTTTTT
2465595 AATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:2465692 original size:15 final size:14
Alignment explanation
Indices: 2465672--2465752 Score: 85
Period size: 15 Copynumber: 5.6 Consensus size: 14
2465662 TTTTTCTATT
2465672 TTTTATTTATTTTCA
1 TTTTATTTATTTT-A
2465687 TTTTATTTATTTTA
1 TTTTATTTATTTTA
2465701 -TTTATTTATTCTTA
1 TTTTATTTATT-TTA
2465715 TTTTATTCT-TATTTA
1 TTTTATT-TAT-TTTA
* *
2465730 TTTTATTCATTTCA
1 TTTTATTTATTTTA
*
2465744 TTTTCTTTA
1 TTTTATTTA
2465753 AATAAAATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
13 10 0.18
14 14 0.25
15 31 0.54
16 2 0.04
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:2465732 original size:4 final size:4
Alignment explanation
Indices: 2465615--2465710 Score: 51
Period size: 4 Copynumber: 23.5 Consensus size: 4
2465605 ATTATTTTGC
* *
2465615 TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTATA TTAGGA TTGT- TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT--TA TT-TA TTTA
*
2465660 TTT- TTT- TCTA TTT- TTTA TTTA TTTTCA TTTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTT-A -TTTA TTTA -TTTA TTTA
2465705 TTTA TT
1 TTTA TT
2465711 CTTATTTTAT
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
3 14 0.18
4 41 0.54
5 13 0.17
6 8 0.11
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:2465747 original size:74 final size:71
Alignment explanation
Indices: 2465600--2465747 Score: 156
Period size: 74 Copynumber: 2.0 Consensus size: 71
2465590 TTTTTAATTA
* **
2465600 TTTTTATTATTTTGCTTTATTTATTTATTTATTTATTATTATTATATTAGGATTGTTTAATTTTT
1 TTTTTATTATTTTGCTTTATTTATTTATTTATTTATTATTATTATATTAGGATTATTTAATTCAT
2465665 TTCTAT
66 TTCTAT
* * *** *
2465671 TTTTTATTTATTTT-CATTTTATTTATTTTATTTATTTATTCTTATTTTATTCTTATTTATTTTA
1 TTTTTA-TTATTTTGC--TTTATTTA-TTTATTTATTTATTATTATTATATTAGGA-TTATTTAA
2465735 TTCATTTC-AT
61 TTCATTTCTAT
2465745 TTT
1 TTT
2465748 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
71 7 0.11
72 7 0.11
73 8 0.13
74 29 0.46
75 12 0.19
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (71 bp):
TTTTTATTATTTTGCTTTATTTATTTATTTATTTATTATTATTATATTAGGATTATTTAATTCAT
TTCTAT
Found at i:2465941 original size:59 final size:59
Alignment explanation
Indices: 2465775--2466056 Score: 288
Period size: 59 Copynumber: 4.7 Consensus size: 59
2465765 AAAAAAACAA
** *
2465775 AAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAGAATAAATTTTC
1 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAAAATTTC
* * *
2465833 AAAAAAAGGTTTTTTTTTA-GGAAAAGTTGAAAGTATCAATTTTTTTCGAA-ATTAAAAATTTC
1 AAAAAAA----TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAAT-AAAATTTC
*
2465895 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAGAATTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAA-AATTTC
* ** *
2465954 AAAAAAAATATATTTTTTAGGAAAAAGTTGAAAGTATCAATTTTT-TTTAAGAATAAATTTTC
1 --AAAAAA-ATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAAAATTTC
* * *
2466016 AAAAAAAAATTTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTT
2466057 CCCTTGTACA
Statistics
Matches: 192, Mismatches: 17, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
58 22 0.11
59 63 0.33
60 6 0.03
61 28 0.15
62 38 0.20
63 35 0.18
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (59 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAAAATTTC
Found at i:2465994 original size:122 final size:120
Alignment explanation
Indices: 2465775--2466056 Score: 367
Period size: 122 Copynumber: 2.3 Consensus size: 120
2465765 AAAAAAACAA
** *
2465775 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAGAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAAAATTTCAAAAAA
* * *
2465839 AGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTTTCGAA-ATTAAAAATTTC
66 AGATTATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTTT-GAAGAAT-AAAATTTC
*
2465895 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAGAATTTCAAAA
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAA-AATTTCAAAA
* *
2465958 AAA-ATATATTTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTTAAGAATAAATTTTC
64 AAAGAT-TATTTTTTAGG-AAAAGTTGAAAGTATCAATTTTTTTGAAGAATAAAATTTC
* *
2466016 AAAAAAAAATTTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT
2466057 CCCTTGTACA
Statistics
Matches: 143, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
119 1 0.01
120 39 0.27
121 47 0.33
122 55 0.38
123 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (120 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAGAATAAAATTTCAAAAAA
AGATTATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTTTGAAGAATAAAATTTC
Found at i:2471526 original size:16 final size:17
Alignment explanation
Indices: 2471492--2471533 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2471482 AAAATATTAA
2471492 AGAAGGCT--AGAAGAG
1 AGAAGGCTAAAGAAGAG
2471507 AGAAGGCTAAAGAA-AG
1 AGAAGGCTAAAGAAGAG
*
2471523 AGAAGGATAAA
1 AGAAGGCTAAA
2471534 ATAATCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
17 4 0.17
ACGTcount: A:0.55, C:0.05, G:0.33, T:0.07
Consensus pattern (17 bp):
AGAAGGCTAAAGAAGAG
Found at i:2476436 original size:19 final size:19
Alignment explanation
Indices: 2476403--2476446 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
2476393 TACTATGCTT
* *
2476403 AAAAAAATGAAAAAA-TAA
1 AAAAAAAAGAAAAAAGGAA
2476421 AAAAAAAAGAAAAAAAGGAA
1 AAAAAAAAG-AAAAAAGGAA
2476441 AAAAAA
1 AAAAAA
2476447 GTGAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 8 0.36
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAGGAA
Found at i:2477480 original size:41 final size:39
Alignment explanation
Indices: 2477435--2477758 Score: 382
Period size: 41 Copynumber: 7.9 Consensus size: 39
2477425 GTCAAGAAGT
2477435 AATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAGAGGAGC
*
2477476 AATTTACTTTCCAAAGTCGCGTTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTCAAAGT--CGTTGCCTCTGTTTAGAGGAGC
*
2477517 AATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
1 AATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGC
*
2477558 AATTTA-TTTTCCAAAGTAACGTTACCTCTGTTTAGAGGAGC
1 AATTTACTTTT-CAAAGT--CGTTGCCTCTGTTTAGAGGAGC
* *
2477599 AATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAG-GTGAGC
1 AATTTACTTTTCAAAGTC--GTTGCCTCTGTTTAGAG-GAGC
*
2477640 AATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
1 AATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGC
2477681 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGC
* * * *
2477722 CATTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAG
1 AATTTACTTTTCAAAGTCGTT--GCCTCTGTTTAGAG
2477759 AAGCTTTGAT
Statistics
Matches: 251, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
39 6 0.02
40 6 0.02
41 231 0.92
42 5 0.02
43 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (39 bp):
AATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGC
Found at i:2477572 original size:82 final size:82
Alignment explanation
Indices: 2477435--2477738 Score: 445
Period size: 82 Copynumber: 3.7 Consensus size: 82
2477425 GTCAAGAAGT
*
2477435 AATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGT
1 AATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGCGT
*
2477498 TGCCTCTGTTTAGAGGAGC
64 TACCTCTGTTTAGAGGAGC
* **
2477517 AATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAGTAACGTTA
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGCGTTA
2477582 CCTCTGTTTAGAGGAGC
66 CCTCTGTTTAGAGGAGC
* * * *
2477599 AATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAG-GTGAGCAATTTACTTTT-CAAAGTCGTGG
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG-GAGCAATTTA-TTTTCCAAAGTCGCGT
2477662 TACCTCTGTTTAGAGGAGC
64 TACCTCTGTTTAGAGGAGC
* *
2477681 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCCATTTATTTTTCAAAGT
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGT
2477739 TGTTGAGCCT
Statistics
Matches: 201, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
80 3 0.01
81 6 0.03
82 187 0.93
83 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (82 bp):
AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGCGTTA
CCTCTGTTTAGAGGAGC
Found at i:2477625 original size:123 final size:121
Alignment explanation
Indices: 2477435--2477738 Score: 425
Period size: 123 Copynumber: 2.5 Consensus size: 121
2477425 GTCAAGAAGT
** * *
2477435 AATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGTTG
1 AATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCACGGTG
*
2477500 CCTCTGTTTAGAG-GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
64 CCTCTGTTTAG-GTGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAGAGGAGC
* *
2477558 AATTTA-TTTTCCAAAGTAACGTTACCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCATGGT
1 AATTTACTTTT-CAAAGT--CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCACGGT
*
2477622 GCCTCTGTTTAGGTGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
63 GCCTCTGTTTAGGTGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAGAGGAGC
*
2477681 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCCATTTA-TTTTTCAAAGT
1 AATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTT-AAAGT
2477739 TGTTGAGCCT
Statistics
Matches: 163, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
121 3 0.02
122 11 0.07
123 145 0.89
124 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (121 bp):
AATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCACGGTGCC
TCTGTTTAGGTGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAGAGGAGC
Found at i:2477885 original size:46 final size:44
Alignment explanation
Indices: 2477810--2477907 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 44
2477800 TTACCTATGT
* *
2477810 TTAGAAGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAGGAACTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGA
* *
2477854 TTAGAGGAACTTTGTTTATGTTTTTCAAAAGTCGTTGAGCCTCTGC
1 TTAGAGGAACTTTATTTAT-TTTTTC-AAAGTCGTTGAGCCTCTGA
2477900 TTAGAGGA
1 TTAGAGGA
2477908 GTTTTGATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 16 0.33
45 6 0.12
46 26 0.54
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (44 bp):
TTAGAGGAACTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGA
Found at i:2478075 original size:6 final size:6
Alignment explanation
Indices: 2478066--2478192 Score: 57
Period size: 6 Copynumber: 20.5 Consensus size: 6
2478056 CATTTTCTTT
2478066 TTTTTA -TTTTA TTTTTGTA TTTTTCA TTTTTA -TTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA -TTTT-TA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
** * * * * * *
2478114 TTTACA TTTGTA TTATTG TTATTG TTTTTA TATATATA TTTTT- TCTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-T-TTTA TTTTTA T-TTTTA
*
2478164 TTTTTA -TCTTA TGTATTTA TTATTTA TTT
1 TTTTTA TTTTTA T-T-TTTA TT-TTTA TTT
2478193 ATTTATTACT
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
5 20 0.21
6 40 0.42
7 25 0.26
8 10 0.11
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:2478190 original size:15 final size:14
Alignment explanation
Indices: 2478161--2478213 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
2478151 ATTTTTTCTT
2478161 TTATTT-TTATCTTA
1 TTATTTATTAT-TTA
2478175 TGTATTTATTATTTA
1 T-TATTTATTATTTA
*
2478190 TTTATTTATTA-CTA
1 -TTATTTATTATTTA
2478204 TTATTTATTA
1 TTATTTATTA
2478214 ATATATATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 10 0.29
14 3 0.09
15 17 0.49
16 5 0.14
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:2478345 original size:20 final size:20
Alignment explanation
Indices: 2478297--2478345 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2478287 TTTATCTATT
*
2478297 ATTTAATTTTAATTTATCTG
1 ATTTATTTTTAATTTATCTG
* *
2478317 -TTAATTTTTTAGTTTATCTG
1 ATTTA-TTTTTAATTTATCTG
2478337 ATTTATTTT
1 ATTTATTTT
2478346 CATTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTAATTTATCTG
Found at i:2479247 original size:15 final size:14
Alignment explanation
Indices: 2479229--2479334 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
2479219 TTCGTTTTCG
*
2479229 TTTTCTTTTTATTA
1 TTTTTTTTTTATTA
*
2479243 TTTTTATTTTATTTA
1 TTTTTTTTTTA-TTA
*
2479258 TTTATTTATTTATTA
1 TTT-TTTTTTTATTA
2479273 TTATATTAGGGTTGTTTATT-
1 TT-T-TT----TT-TTTATTA
2479293 TTTTTATTTTT-TTA
1 TTTTT-TTTTTATTA
2479307 TTTTTTTTTTATT-
1 TTTTTTTTTTATTA
2479320 TTTTTCTTATTTATT
1 TTTTT-TT-TTTATT
2479335 TCATTTATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
13 12 0.16
14 21 0.28
15 19 0.26
16 10 0.14
18 2 0.03
19 1 0.01
20 3 0.04
21 6 0.08
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTTATTA
Found at i:2479259 original size:4 final size:4
Alignment explanation
Indices: 2479245--2479349 Score: 67
Period size: 4 Copynumber: 25.8 Consensus size: 4
2479235 TTTTATTATT
* *
2479245 TTTA TTTTA TTTA TTTA TTTA TTTA -TTA -TTA TATTA GGGTTG TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA --TTTA TTTA
* * *
2479291 TTTT TTTA TTTT TTTA TTT- TTTT TTTA TTT- TTT- TCTTA TTTA TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTT-A
2479338 TTTA TTTCA TTT
1 TTTA TTT-A TTT
2479350 TCTTTAAATA
Statistics
Matches: 82, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
3 13 0.16
4 51 0.62
5 16 0.20
6 2 0.02
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:2479514 original size:58 final size:58
Alignment explanation
Indices: 2479451--2479901 Score: 352
Period size: 58 Copynumber: 7.6 Consensus size: 58
2479441 ATGTTTTTTT
* * *
2479451 TTTTTTAGCAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAATTTCAAAAAAATA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTC-AAATTAAAAATTTCAAAAAAATA
* ** * *
2479510 TTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATCTTT-AAAAATATT
1 TTTTTGA-GAAAAAGTTGAAAGTATCAATTTT-CTTCAA-ATTAAAAATTTCAAAAAAATA
* * *
2479568 TTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAGAATTTCAAAAAAATATA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTC-AAATTAAAAATTTC-AAAAAA-ATA
* * * * *
2479629 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT-AAATTTTCAAAAAAAGTT
1 T-TTTTGA-GAAAAAGTTGAAAGTATCAATTTT-CTTCAA-ATTAAAAATTTCAAAAAAA-TA
* * * *
2479690 TTTTTGAGGAAAAGTTAAAAGCATCAATTTT-TCTCGAAATT-AAAATTTCTAAAAAATA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT-TC-AAATTAAAAATTTCAAAAAAATA
* *
2479748 TTTTTGGAGAAAAA-TTAAAAGTATCAATTTTCCTT-AAA-GATAAAATTTCAAAAAAAAAAAGG
1 TTTTT-GAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAATTA-AAAATTTC----AAAAAAA--
*
2479810 TT
57 TA
* *
2479812 TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TCTCAAAATT-AAAGTTTCCAAAAAAATA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT-TC-AAATTAAAAATTT-CAAAAAAATA
2479871 -TTTTGAGAAAAAGTTGAAAGTATCAATTTTC
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
2479902 CCTTGTACAA
Statistics
Matches: 316, Mismatches: 41, Indels: 70
0.74 0.10 0.16
Matches are distributed among these distances:
57 6 0.02
58 105 0.33
59 85 0.27
60 16 0.05
61 18 0.06
62 20 0.06
63 32 0.10
64 30 0.09
65 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (58 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAATTAAAAATTTCAAAAAAATA
Found at i:2479655 original size:180 final size:177
Alignment explanation
Indices: 2479451--2479902 Score: 501
Period size: 180 Copynumber: 2.5 Consensus size: 177
2479441 ATGTTTTTTT
*
2479451 TTTTTTA-GCAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAATTTCAAAAAAATATTTTT
1 TTTTTTAGGGAAAAGTTGAAAGTATCAATTTTTTTC-AAATT-AAAATTTCAAAAAAATATTTTT
* *
2479515 AGGAAAAAGTTGAAAGTATCAATTTTCCT-TAAGAAT-AAATCTT-T-AAAAATATTTTTTTGAG
64 AGGAAAAAGTTGAAAGTATCAATTTTCCTCGAA-AATAAAAT-TTCTAAAAAATA-TTTTTGGAG
* * * *
2479576 AAAAAATTGAAAGTATCAATTTTCCTCGAAA-TTAAGAATTTCAAAAAAATATA-
126 -AAAAATTAAAAGTATCAATTTTCCT-GAAAGATAA-AATTTCAAAAAAAAAAAG
* * * *
2479629 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATTTTCAAAAAAAGTTTTT
1 T-TTTTTAGGGAAAAGTTGAAAGTATCAATTTT-TTTCAA-ATTAAAATTTCAAAAAAA-TATTT
* * * *
2479693 TTGAGG-AAAAGTTAAAAGCATCAATTTTTCTCGAAATTAAAATTTCTAAAAAATATTTTTGGAG
62 TT-AGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTTCTAAAAAATATTTTTGGAG
*
2479757 AAAAATTAAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAAAAAAAGG
126 AAAAATTAAAAGTATCAATTTTCCTGAAAGATAAAATTTCAAAAAAAAAAA-G
* * *
2479810 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCCAAAAAAATATTTT
1 TTTTTTAG-GGAAAAGTTGAAAGTATCAATTTTTTTC-AAATTAAAATTT-CAAAAAAATATTTT
*
2479875 GA-GAAAAAGTTGAAAGTATCAATTTTCC
63 TAGGAAAAAGTTGAAAGTATCAATTTTCC
2479903 CTTGTACAAA
Statistics
Matches: 230, Mismatches: 26, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
178 1 0.00
179 41 0.18
180 113 0.49
181 58 0.25
182 17 0.07
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (177 bp):
TTTTTTAGGGAAAAGTTGAAAGTATCAATTTTTTTCAAATTAAAATTTCAAAAAAATATTTTTAG
GAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTTCTAAAAAATATTTTTGGAGAAAAA
TTAAAAGTATCAATTTTCCTGAAAGATAAAATTTCAAAAAAAAAAAG
Found at i:2479806 original size:122 final size:117
Alignment explanation
Indices: 2479377--2479902 Score: 620
Period size: 122 Copynumber: 4.4 Consensus size: 117
2479367 AAAAAAACAA
*
2479377 AAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTAAAAAAA
1 AAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCAAAAAAA
* * *
2479441 ATGTTTTTTTTTTTTTAGCAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAAATTTC
65 A-G-----TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAATTTC
*
2479501 AAAAAAATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATCTT-TAAAAA
1 AAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAAT-TTCAAAAAA
* * * *
2479564 TA-TTTTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAGAATTTC
64 AAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAA-AATTTC
2479618 AAAAAAATATATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-A
1 --AAAAA-A-ATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAA-TTTCAA
* *
2479681 AAAAAAGTTTTTTTGAGGAAAAGTTAAAAGCATCAATTTTTCTCGAAATTAAAATTTC
60 AAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC
* * *
2479739 TAAAAAATATTTTTGGAGAAAAATTAAAAGTATCAATTTTCCTTAA-AGATAAAATTTCAAAAAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGA-AT-AAATTTC---AAA
* *
2479803 AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
61 AAAAA-GTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTT-C
2479862 AAAAAAATA-TTTT-GAGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCC
2479903 CTTGTACAAA
Statistics
Matches: 357, Mismatches: 23, Indels: 46
0.84 0.05 0.11
Matches are distributed among these distances:
116 5 0.01
117 85 0.24
118 4 0.01
119 9 0.03
120 1 0.00
121 70 0.20
122 114 0.32
123 9 0.03
124 56 0.16
125 2 0.01
126 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (117 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCAAAAAAAA
GTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC
Found at i:2480820 original size:18 final size:18
Alignment explanation
Indices: 2480792--2480833 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2480782 AATCGAACTG
*
2480792 AATTATATATTTTTATTA
1 AATTTTATATTTTTATTA
*
2480810 ACTTTTATATTTTTATTA
1 AATTTTATATTTTTATTA
2480828 AATTTT
1 AATTTT
2480834 TATAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTATATTTTTATTA
Found at i:2482589 original size:30 final size:29
Alignment explanation
Indices: 2482544--2482614 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
2482534 ATTCTGTTAT
* *
2482544 TAAAAGTCAACAAAATTAAAAGAATAATGA
1 TAAAATTCAATAAAATTAAAA-AATAATGA
* *
2482574 TAAAATTCAATAAAATTGAAATATAATGA
1 TAAAATTCAATAAAATTAAAAAATAATGA
*
2482603 AAAAATTCAATA
1 TAAAATTCAATA
2482615 TTGATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.62, C:0.06, G:0.07, T:0.25
Consensus pattern (29 bp):
TAAAATTCAATAAAATTAAAAAATAATGA
Found at i:2483018 original size:2 final size:2
Alignment explanation
Indices: 2483008--2483047 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
2482998 AACAAAAGAC
* * *
2483008 TA TA CA TA TA TA TA GA TA TA TA GA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2483048 CTTAGTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:2485313 original size:24 final size:24
Alignment explanation
Indices: 2485278--2485326 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
2485268 ATTATTTTTA
2485278 ATATAAATAT-AAAATTAAATAAAT
1 ATATAAATATAAAAATTAAA-AAAT
2485302 ATATATAA-ATAAAAATTAAAAAAT
1 ATATA-AATATAAAAATTAAAAAAT
2485326 A
1 A
2485327 AATTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAATATAAAAATTAAAAAAT
Found at i:2486907 original size:22 final size:22
Alignment explanation
Indices: 2486882--2486935 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
2486872 TTGAATAGGT
* *
2486882 ATAAGCAAGGCAACTTACATTA
1 ATAAGCAAGACAACTGACATTA
*
2486904 ATAAGCAAGACAACTGACATTG
1 ATAAGCAAGACAACTGACATTA
2486926 ATAAGCAAGA
1 ATAAGCAAGA
2486936 AGTATAAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
ATAAGCAAGACAACTGACATTA
Found at i:2490392 original size:34 final size:34
Alignment explanation
Indices: 2490323--2490438 Score: 108
Period size: 34 Copynumber: 3.4 Consensus size: 34
2490313 GAATTTGTAT
* *
2490323 ATTT-AAAAATTTTAAATAGTTTTTAGATATACAA
1 ATTTGAAAATTTTTAAA-AATTTTTAGATATACAA
* * * *
2490357 ATTTGAAAGTTTTTAAAATTTTTTAAATATGCAA
1 ATTTGAAAATTTTTAAAAATTTTTAGATATACAA
** * * *
2490391 ATTCAAAAACTTTCAAAAATTTTTAGATATATAA
1 ATTTGAAAATTTTTAAAAATTTTTAGATATACAA
*
2490425 ATTTGAAATTTTTT
1 ATTTGAAAATTTTT
2490439 TTTTAAATTT
Statistics
Matches: 62, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
34 52 0.84
35 10 0.16
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (34 bp):
ATTTGAAAATTTTTAAAAATTTTTAGATATACAA
Found at i:2497879 original size:40 final size:41
Alignment explanation
Indices: 2497815--2497894 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
2497805 TAGGGTTTTA
* *
2497815 TTATATGGTACTTTGTAGGCTGTTTATAACCGTTCGATCTT
1 TTATACGGCACTTTGTAGGCTGTTTATAACCGTTCGATCTT
2497856 TTATACGGCACTTT-TAGGCTGTTTATAACCGTTCGATCT
1 TTATACGGCACTTTGTAGGCTGTTTATAACCGTTCGATCT
2497895 ATCCATTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 25 0.68
41 12 0.32
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (41 bp):
TTATACGGCACTTTGTAGGCTGTTTATAACCGTTCGATCTT
Found at i:2504997 original size:17 final size:16
Alignment explanation
Indices: 2504976--2505025 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
2504966 AATATATAAT
2504976 ATTAAATTTTTTTAAA
1 ATTAAATTTTTTTAAA
2504992 ATTTAAATTTTAATTT-AA
1 A-TTAAATTTT--TTTAAA
2505010 ATTAAA-TTTTTTAAA
1 ATTAAATTTTTTTAAA
2505025 A
1 A
2505026 AATTGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 4 0.13
17 14 0.47
18 3 0.10
19 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTAAATTTTTTTAAA
Found at i:2504997 original size:34 final size:34
Alignment explanation
Indices: 2504959--2505026 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
2504949 AATTTAATTT
*
2504959 TTTAAATAAT-ATATAATATTAAATTTTTTTAAAA
1 TTTAAATAATAATATAA-ATTAAATTTTTTAAAAA
** *
2504993 TTTAAATTTTAATTTAAATTAAATTTTTTAAAAA
1 TTTAAATAATAATATAAATTAAATTTTTTAAAAA
2505027 ATTGATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
TTTAAATAATAATATAAATTAAATTTTTTAAAAA
Found at i:2513310 original size:91 final size:92
Alignment explanation
Indices: 2513135--2513320 Score: 270
Period size: 91 Copynumber: 2.0 Consensus size: 92
2513125 GCTCGTGATG
* **
2513135 GTTCCATGTAGATTCACTGATCAAAGCCTATCGATTCAGATTGCAAAAGAAACAAAAAAATTAAA
1 GTTCCATGTAGATTCACTGATCAAAGCCTATCGATTCAGAATGCAAAAGAAACAAAAAAAAAAAA
*
2513200 AGAAAAACAGCGGAGAGAGAG-GATTA
66 AGAAAAACAGCAGAGAGAGAGAGATTA
* *
2513226 GTTCCATGTAGATTCACTTATCAAAGCCTATGGATTCAGAATGCAAAAGAAACAAAAAAAAAAAA
1 GTTCCATGTAGATTCACTGATCAAAGCCTATCGATTCAGAATGCAAAAGAAAC--AAAAAAAAAA
2513291 AAAGAAAAACAG-AGA-AGAGAGAAGATTA
64 AAAGAAAAACAGCAGAGAGAGAG-AGATTA
2513319 GT
1 GT
2513321 GAGAGAGTAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
91 56 0.66
92 2 0.02
93 27 0.32
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (92 bp):
GTTCCATGTAGATTCACTGATCAAAGCCTATCGATTCAGAATGCAAAAGAAACAAAAAAAAAAAA
AGAAAAACAGCAGAGAGAGAGAGATTA
Done.