Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 7 of 214
Found at i:2086682 original size:21 final size:21
Alignment explanation
Indices: 2086642--2086682 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2086632 TCGTGATTTA
*
2086642 AAAAGTTATTCCTTTTAAAAG
1 AAAAGTTATTCCTTTCAAAAG
2086663 AAAAGTTATTACC-TTCAAAA
1 AAAAGTTATT-CCTTTCAAAA
2086683 CCTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAAGTTATTCCTTTCAAAAG
Found at i:2087306 original size:27 final size:27
Alignment explanation
Indices: 2087266--2087319 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2087256 CAGTAACAGA
* *
2087266 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
2087293 ACAGAACAAGGTGGGCCTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
2087320 GCCATATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:2087829 original size:27 final size:27
Alignment explanation
Indices: 2087772--2087930 Score: 121
Period size: 27 Copynumber: 5.9 Consensus size: 27
2087762 ACCTTATAAA
* * * *
2087772 GGTATTTCGGTAATTTTCCAAACTAAA
1 GGTATTTCAGTAATTTTGCAAACTCAG
*
2087799 GGTATTTCAGTAATTTTGCAAATTCAG
1 GGTATTTCAGTAATTTTGCAAACTCAG
** *
2087826 GGTACTTT--GTTAATTTCACAAACTGAG
1 GGTA-TTTCAG-TAATTTTGCAAACTCAG
*
2087853 GGTATTTTAGTAATTTTGCAAA-TCGAG
1 GGTATTTCAGTAATTTTGCAAACTC-AG
* * *
2087880 GGTACTTC-GATAATTTTAC-AAGTCGAG
1 GGTATTTCAG-TAATTTTGCAAACTC-AG
*
2087907 GGTATTTCAGTAATTTTGTAAACT
1 GGTATTTCAGTAATTTTGCAAACT
2087931 AAAGTATTCT
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
26 8 0.08
27 88 0.85
28 8 0.08
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTGCAAACTCAG
Found at i:2087841 original size:54 final size:54
Alignment explanation
Indices: 2087772--2087924 Score: 177
Period size: 54 Copynumber: 2.8 Consensus size: 54
2087762 ACCTTATAAA
* * * *
2087772 GGTATTTCGGTAATTTTCCAAACTAAAGGTATTTCAGTAATTTTGCAAATTC-AG
1 GGTACTTCGATAATTTTCCAAACTGAGGGTATTTCAGTAATTTTGCAAA-TCGAG
* * *
2087826 GGTACTTTGTTAA-TTTCACAAACTGAGGGTATTTTAGTAATTTTGCAAATCGAG
1 GGTACTTCGATAATTTTC-CAAACTGAGGGTATTTCAGTAATTTTGCAAATCGAG
* *
2087880 GGTACTTCGATAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTTG
1 GGTACTTCGATAATTTTCCAAACT-GAGGGTATTTCAGTAATTTTG
2087925 TAAACTAAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 9 0.11
54 72 0.86
55 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTACTTCGATAATTTTCCAAACTGAGGGTATTTCAGTAATTTTGCAAATCGAG
Found at i:2088035 original size:63 final size:63
Alignment explanation
Indices: 2087936--2088062 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
2087926 AAACTAAAGT
* *
2087936 ATTCTAAACAGAGATAACGGTGCCAATTGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
1 ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
* * *
2087999 ATTCTAAACAGAGATAACGATGCGAAATGGCCTAAGGCCCATTCTCGGCCCAAATGGGCCCAC
1 ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
2088062 A
1 A
2088063 CCCTCGTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (63 bp):
ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
Found at i:2091058 original size:181 final size:181
Alignment explanation
Indices: 2090734--2091099 Score: 612
Period size: 181 Copynumber: 2.0 Consensus size: 181
2090724 ATGAGATCGG
2090734 ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
1 ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
*
2090799 ACTATAGGTGGTCAAAGGGTCAAAAGCCCAAATTTTAAAAATTGGTTGGCTATATAAGACCACCC
66 ACTATAGGTGGT--AAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCC
2090864 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTGAAA
129 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCT-AAA
*
2090918 ATTTGAAAATAATTTTGAGATTTG-CTTCAATTGGAAACTAAGGACCAATTTGGA-AAAGGGAGG
1 ATTTGAAAATAATTTTGA-AATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAA-GGAGG
* *
2090981 AAACTATATGTGGT-AGGGTCAAAAGCCCAATTTTTAAAAATTGATTGGCTATATAAGACCACCC
64 AAACTATAGGTGGTAAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCC
* *
2091045 ACAGTCCCTTCCCTCCACACTTTCAACCATTTCAAAACTTTGTTAGATCTAAA
129 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTAAA
2091098 AT
1 AT
2091100 CAAGAGTTTT
Statistics
Matches: 174, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
180 5 0.03
181 96 0.55
183 3 0.02
184 66 0.38
185 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (181 bp):
ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
ACTATAGGTGGTAAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCCAC
AATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTAAA
Found at i:2092405 original size:25 final size:23
Alignment explanation
Indices: 2092360--2092405 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
2092350 TATAGAGATA
* *
2092360 ATGAATAACATTTGTTTATTTCT
1 ATGAATAACATTTGATCATTTCT
2092383 ATGAATAATCAATTTGATCATTT
1 ATGAATAA-C-ATTTGATCATTT
2092406 TAGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (23 bp):
ATGAATAACATTTGATCATTTCT
Found at i:2093029 original size:30 final size:30
Alignment explanation
Indices: 2092978--2093037 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2092968 ATTTAAAATT
* *
2092978 CTTAAAGAAAACAAATTGAACACGAACAAA
1 CTTAAAAAAAACAAATCGAACACGAACAAA
*
2093008 CTTAAAAATAAACAAA-CGAACATGAACAAA
1 CTTAAAAA-AAACAAATCGAACACGAACAAA
2093038 AATACGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.62, C:0.17, G:0.08, T:0.13
Consensus pattern (30 bp):
CTTAAAAAAAACAAATCGAACACGAACAAA
Found at i:2103323 original size:31 final size:30
Alignment explanation
Indices: 2103288--2103347 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2103278 AGAGGTGGGA
*
2103288 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAA-GGAATAAAAATTTTAGGGGAAAAG
* * *
2103319 TGGGAATGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
2103348 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:2119393 original size:21 final size:19
Alignment explanation
Indices: 2119364--2119409 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2119354 GAGGTTCAAG
2119364 GTTT-GGGTTTGAGATTTAA
1 GTTTAGGGTTTGAG-TTTAA
*
2119383 GATTTAGGGTTTGAGTTTGA
1 G-TTTAGGGTTTGAGTTTAA
2119403 GTTTAGG
1 GTTTAGG
2119410 CTTGGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.46
Consensus pattern (19 bp):
GTTTAGGGTTTGAGTTTAA
Found at i:2119629 original size:104 final size:104
Alignment explanation
Indices: 2119449--2119667 Score: 420
Period size: 104 Copynumber: 2.1 Consensus size: 104
2119439 AAGGTTTGAG
2119449 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
2119514 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
2119553 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
*
2119618 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTTGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
*
2119657 GGTTTGGGGTT
1 GGTTTGAGGTT
2119668 TTTTAATTTT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 113 1.00
ACGTcount: A:0.24, C:0.05, G:0.30, T:0.41
Consensus pattern (104 bp):
GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
Found at i:2122527 original size:16 final size:16
Alignment explanation
Indices: 2122483--2122527 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
2122473 TTTTAAATGA
*
2122483 TTTAATATAATGGTA-
1 TTTAATATAATGATAT
*
2122498 -TTAATA-AATAATAT
1 TTTAATATAATGATAT
2122512 TTTAATATAATGATAT
1 TTTAATATAATGATAT
2122528 ATGAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 6 0.25
16 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
TTTAATATAATGATAT
Found at i:2122568 original size:33 final size:33
Alignment explanation
Indices: 2122507--2122569 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
2122497 ATTAATAAAT
* * * **
2122507 AATATTTTAATATAATGATATATGAAATATTTA
1 AATAATTTAATATAATAATACACAAAATATTTA
2122540 AATAATTTAATATAATAATACACAAAATAT
1 AATAATTTAATATAATAATACACAAAATAT
2122570 AAATTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
AATAATTTAATATAATAATACACAAAATATTTA
Found at i:2124211 original size:21 final size:21
Alignment explanation
Indices: 2124185--2124224 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2124175 CATAAGCTTT
2124185 CTCTAGATCCACTTTTAATGA
1 CTCTAGATCCACTTTTAATGA
2124206 CTCTAGATCCACTTTTAAT
1 CTCTAGATCCACTTTTAAT
2124225 AGTCATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
CTCTAGATCCACTTTTAATGA
Found at i:2125226 original size:16 final size:16
Alignment explanation
Indices: 2125192--2125236 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
2125182 TTATGTAAAA
2125192 AAATTAAAT-TATATC
1 AAATTAAATATATATC
*
2125207 AAATTAAATATATATT
1 AAATTAAATATATATC
2125223 AAATCCTAAATATA
1 AAAT--TAAATATA
2125237 AATAGTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
18 8 0.31
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTAAATATATATC
Found at i:2147656 original size:33 final size:33
Alignment explanation
Indices: 2147556--2147673 Score: 95
Period size: 33 Copynumber: 3.7 Consensus size: 33
2147546 TCTTTTAGGC
* * *
2147556 TTAGTAGTTAATCTTCTTCACCATTATTAAGGT
1 TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
** * *
2147589 TTAGTTCTTAG-CTTTTTCTA--GTT-TT-GGTT
1 TTAGTAGTTAGTCTTTTTC-ACCATTATTAGGGT
2147618 GTTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
1 -TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
*
2147652 TTAGTAGTT-GACGTTTTTCACC
1 TTAGTAGTTAGTC-TTTTTCACC
2147674 TCCATTACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
29 2 0.03
30 12 0.18
31 9 0.14
32 10 0.15
33 29 0.45
34 3 0.05
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (33 bp):
TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
Found at i:2148379 original size:27 final size:27
Alignment explanation
Indices: 2148349--2148400 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2148339 GGTTCGATCA
*
2148349 TTGGAATAATCGAGTGTTCCTTTGTCT
1 TTGGAATAATCGAGTGTTCCATTGTCT
* *
2148376 TTGGAATACTCGGGTGTTCCATTGT
1 TTGGAATAATCGAGTGTTCCATTGT
2148401 AACACCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (27 bp):
TTGGAATAATCGAGTGTTCCATTGTCT
Found at i:2149479 original size:26 final size:28
Alignment explanation
Indices: 2149437--2149489 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
2149427 TATGTTCTAA
2149437 TTTTCTCCTTTTCTCTT-CTTT-TTTTG
1 TTTTCTCCTTTTCTCTTCCTTTATTTTG
*
2149463 TTTTCT-CTTCTTTTCTTCCTTTATTTT
1 TTTTCTCCTT-TTCTCTTCCTTTATTTT
2149490 CCTCTCGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 4 0.17
28 4 0.17
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTCTCCTTTTCTCTTCCTTTATTTTG
Found at i:2151944 original size:31 final size:31
Alignment explanation
Indices: 2151887--2151946 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2151877 GGAGGTGGGA
*
2151887 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
2151918 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
2151947 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:2152741 original size:17 final size:19
Alignment explanation
Indices: 2152719--2152753 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2152709 CCAATTCAAA
2152719 ATCAATTT-CA-TATTTTC
1 ATCAATTTACACTATTTTC
2152736 ATCAATTTACACTATTTT
1 ATCAATTTACACTATTTT
2152754 TAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (19 bp):
ATCAATTTACACTATTTTC
Found at i:2153061 original size:17 final size:17
Alignment explanation
Indices: 2153039--2153071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2153029 CAACCAATTG
2153039 TCATTTTATACAATTTT
1 TCATTTTATACAATTTT
*
2153056 TCATTTTATTCAATTT
1 TCATTTTATACAATTT
2153072 AGTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
TCATTTTATACAATTTT
Found at i:2165829 original size:15 final size:15
Alignment explanation
Indices: 2165809--2165863 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
2165799 ATTCAATATT
2165809 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
2165824 AATATTTATTACAATTA
1 AATATTT-TAATAA-TA
* *
2165841 TATATATTAATAATA
1 AATATTTTAATAATA
2165856 AATATTTT
1 AATATTTT
2165864 GTAGTATAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 15 0.50
16 8 0.27
17 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:2169740 original size:45 final size:45
Alignment explanation
Indices: 2169664--2169792 Score: 204
Period size: 45 Copynumber: 2.8 Consensus size: 45
2169654 CTAACACTAC
* *
2169664 GTTTGGTTGGACTGTAATTGAAATAGGGTTGTAATAATAATTCAATT
1 GTTTGGTT-GAATGTAA-TGAAATAGAGTTGTAATAATAATTCAATT
*
2169711 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTTAATT
1 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTCAATT
*
2169756 GTTTGGTTGAATGGAATGAAATAGAGTTGTAATAATA
1 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATA
2169793 TTCTTGTGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 63 0.81
46 7 0.09
47 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.40
Consensus pattern (45 bp):
GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTCAATT
Found at i:2180948 original size:18 final size:18
Alignment explanation
Indices: 2180925--2180960 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2180915 CACAGTCTTG
*
2180925 TTTTTAGGTTTGATTTTA
1 TTTTTAGGTTTAATTTTA
*
2180943 TTTTTAGTTTTAATTTTA
1 TTTTTAGGTTTAATTTTA
2180961 AAAGTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTTAGGTTTAATTTTA
Found at i:2182872 original size:27 final size:27
Alignment explanation
Indices: 2182807--2182878 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
2182797 TAGTGGCTCC
* *
2182807 TATCTCAGAGGCGCCAATGGTGGTGCA
1 TATCTGAGAGGCGCCAATAGTGGTGCA
* *
2182834 TATCTGATAGGCGCCATTAGTGGTGCCA
1 TATCTGAGAGGCGCCAATAGTGGTG-CA
* *
2182862 TGT-TGAGAGGCACCAAT
1 TATCTGAGAGGCGCCAAT
2182879 GATCTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (27 bp):
TATCTGAGAGGCGCCAATAGTGGTGCA
Found at i:2186276 original size:27 final size:27
Alignment explanation
Indices: 2186228--2186307 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
2186218 ATAAGACCAT
* *
2186228 TGGCGCCTCTCA-ACATGACACCACTAA
1 TGGCGCCTCTCAGATA-GGCACCACTAA
* * * *
2186255 TGGCGCTTGTCAGATAGGCACCACCAT
1 TGGCGCCTCTCAGATAGGCACCACTAA
* *
2186282 TGGTGCCTCTGAGATAGGCACCACTA
1 TGGCGCCTCTCAGATAGGCACCACTA
2186308 CTTTGTATTA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (27 bp):
TGGCGCCTCTCAGATAGGCACCACTAA
Found at i:2189422 original size:24 final size:24
Alignment explanation
Indices: 2189395--2189441 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2189385 ATTGAAATGG
2189395 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
2189419 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
2189442 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:2189656 original size:41 final size:39
Alignment explanation
Indices: 2189604--2189709 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 39
2189594 TCAGGTCAAC
*
2189604 GAGACACTGGGTGTCAATTTAGTACTTCGGGTTAATTCGAT
1 GAGACACTGGGTGTCAATTTA-TACTTCGGGTTAA-CCGAT
* * * *
2189645 GAGGCATTGGGTGCCAA-TT-TACTTCGGTTTAACCGAT
1 GAGACACTGGGTGTCAATTTATACTTCGGGTTAACCGAT
2189682 GAGACACTGGGTGTCAATTTATTACTTC
1 GAGACACTGGGTGTCAATTTA-TACTTC
2189710 AAATTATCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 18 0.33
38 14 0.26
40 8 0.15
41 14 0.26
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (39 bp):
GAGACACTGGGTGTCAATTTATACTTCGGGTTAACCGAT
Found at i:2201341 original size:214 final size:214
Alignment explanation
Indices: 2200972--2201405 Score: 868
Period size: 214 Copynumber: 2.0 Consensus size: 214
2200962 TTTTGATGAA
2200972 ATTCTTATCAGTGGGCTCATCTGTCATCATCATTTGCAACGACTTCTGGTATTGAACTGATTCAA
1 ATTCTTATCAGTGGGCTCATCTGTCATCATCATTTGCAACGACTTCTGGTATTGAACTGATTCAA
2201037 GCCTCTTCTTTGAAGAGTTTAGCCTTTAAACAATTATTCTGTTTGACTAAACATGCCCATTCTTG
66 GCCTCTTCTTTGAAGAGTTTAGCCTTTAAACAATTATTCTGTTTGACTAAACATGCCCATTCTTG
2201102 GGTAAGTTATAGTGTTCGGGTGGGAGGATGTACCAAGTCATTAGAAAAAGGGAAATGGTGTAACT
131 GGTAAGTTATAGTGTTCGGGTGGGAGGATGTACCAAGTCATTAGAAAAAGGGAAATGGTGTAACT
2201167 TGCAAAACTACCAGATACC
196 TGCAAAACTACCAGATACC
2201186 ATTCTTATCAGTGGGCTCATCTGTCATCATCATTTGCAACGACTTCTGGTATTGAACTGATTCAA
1 ATTCTTATCAGTGGGCTCATCTGTCATCATCATTTGCAACGACTTCTGGTATTGAACTGATTCAA
2201251 GCCTCTTCTTTGAAGAGTTTAGCCTTTAAACAATTATTCTGTTTGACTAAACATGCCCATTCTTG
66 GCCTCTTCTTTGAAGAGTTTAGCCTTTAAACAATTATTCTGTTTGACTAAACATGCCCATTCTTG
2201316 GGTAAGTTATAGTGTTCGGGTGGGAGGATGTACCAAGTCATTAGAAAAAGGGAAATGGTGTAACT
131 GGTAAGTTATAGTGTTCGGGTGGGAGGATGTACCAAGTCATTAGAAAAAGGGAAATGGTGTAACT
2201381 TGCAAAACTACCAGATACC
196 TGCAAAACTACCAGATACC
2201400 ATTCTT
1 ATTCTT
2201406 TCCGCACGCT
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 220 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (214 bp):
ATTCTTATCAGTGGGCTCATCTGTCATCATCATTTGCAACGACTTCTGGTATTGAACTGATTCAA
GCCTCTTCTTTGAAGAGTTTAGCCTTTAAACAATTATTCTGTTTGACTAAACATGCCCATTCTTG
GGTAAGTTATAGTGTTCGGGTGGGAGGATGTACCAAGTCATTAGAAAAAGGGAAATGGTGTAACT
TGCAAAACTACCAGATACC
Found at i:2206680 original size:17 final size:18
Alignment explanation
Indices: 2206655--2206689 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2206645 ACACGTGCCA
2206655 AATTCTTATATT-TTTAT
1 AATTCTTATATTATTTAT
*
2206672 AATTTTTATATTATTTAT
1 AATTCTTATATTATTTAT
2206690 TAAGCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTCTTATATTATTTAT
Found at i:2209655 original size:18 final size:17
Alignment explanation
Indices: 2209632--2209701 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
2209622 TAAAAATATT
2209632 TTTTATAATTTTTAAAAA
1 TTTTAT-ATTTTTAAAAA
2209650 TTTTAT-TTTTTAAATAAA
1 TTTTATATTTTT-AA-AAA
* **
2209668 TTGTATATTTTTATGAA
1 TTTTATATTTTTAAAAA
* *
2209685 TTTTTTAATTTTAAAAA
1 TTTTATATTTTTAAAAA
2209702 ATTAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 5 0.12
17 16 0.39
18 15 0.37
19 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATATTTTTAAAAA
Found at i:2219655 original size:103 final size:103
Alignment explanation
Indices: 2219528--2219894 Score: 515
Period size: 103 Copynumber: 3.6 Consensus size: 103
2219518 TTGCATATAA
** * *
2219528 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
2219593 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
2219631 AGTGGTTGCTAAGTGCTGATTCCCCTA-CCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
2219695 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCTCCCG
65 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * *
2219734 AGGGGTTGCTAAGTGTTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* * *
2219799 TGAAATGT-GAAGGGGGTTGCAAAGTGCTGATTCCCCCA
65 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * *
2219837 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACC
2219895 AACAACGGTT
Statistics
Matches: 238, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
101 18 0.08
102 8 0.03
103 172 0.72
104 40 0.17
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:2219745 original size:27 final size:26
Alignment explanation
Indices: 2219708--2219760 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
2219698 AATGTGAAAG
2219708 GGGGTTGCTAAGTGCTGATTCTCCCGA
1 GGGGTTGCTAAGTGCTGATTC-CCCGA
*
2219735 GGGGTTGCTAAGTGTTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
2219761 CCCATTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:2224535 original size:29 final size:30
Alignment explanation
Indices: 2224476--2224533 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2224466 TCCGAGCCTT
*
2224476 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2224506 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2224534 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2224763 original size:13 final size:13
Alignment explanation
Indices: 2224745--2224776 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2224735 TTTCCATCAA
2224745 TTATGAATTTATT
1 TTATGAATTTATT
2224758 TTATGAATTTATT
1 TTATGAATTTATT
*
2224771 TGATGA
1 TTATGA
2224777 TGATCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2224984 original size:50 final size:50
Alignment explanation
Indices: 2224871--2225112 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
2224861 ATTTGGGTAA
* * * *
2224871 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2224927 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2224977 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2225027 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2225077 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2225113 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2225059 original size:100 final size:103
Alignment explanation
Indices: 2224871--2225120 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
2224861 ATTTGGGTAA
*
2224871 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2224936 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2224977 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2225039 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2225077 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2225121 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2229758 original size:46 final size:47
Alignment explanation
Indices: 2229675--2229890 Score: 193
Period size: 47 Copynumber: 4.5 Consensus size: 47
2229665 TTGCACATAG
* * **
2229675 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATAC-GAA
1 TCACATATCAC--ACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * *
2229723 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
2229770 GCACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
2229817 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GATGCCATAGCCCAGATATGGTCTTATACGG-AA
* *
2229870 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
2229891 GGTCCAACCA
Statistics
Matches: 139, Mismatches: 22, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
46 27 0.19
47 61 0.44
48 11 0.08
49 1 0.01
50 1 0.01
52 27 0.19
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:2235270 original size:29 final size:30
Alignment explanation
Indices: 2235211--2235268 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2235201 TCCGAGCCTT
*
2235211 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2235241 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2235269 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2235495 original size:13 final size:13
Alignment explanation
Indices: 2235477--2235508 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2235467 TTTCCAGCAA
2235477 TTATGAATTTATT
1 TTATGAATTTATT
2235490 TTATGAATTTATT
1 TTATGAATTTATT
*
2235503 TGATGA
1 TTATGA
2235509 TGATCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2235716 original size:50 final size:50
Alignment explanation
Indices: 2235603--2235844 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2235593 ATTTGGGTAA
* * *
2235603 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2235659 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2235709 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2235759 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2235809 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2235845 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2235792 original size:100 final size:103
Alignment explanation
Indices: 2235603--2235852 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2235593 ATTTGGGTAA
2235603 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2235668 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2235709 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2235771 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2235809 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2235853 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2253279 original size:36 final size:35
Alignment explanation
Indices: 2253224--2253293 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
2253214 AATTAGTTTC
*
2253224 TAATATTACATGTGTAATTACGCATTTAAATTTTTT
1 TAATATTACATGTGCAATTACGCATTT-AATTTTTT
*
2253260 TAATATTACGTGTGCAATTACGCATTTAATTTTT
1 TAATATTACATGTGCAATTACGCATTTAATTTTT
2253294 AAATAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (35 bp):
TAATATTACATGTGCAATTACGCATTTAATTTTTT
Found at i:2278354 original size:16 final size:16
Alignment explanation
Indices: 2278333--2278363 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2278323 TCTCTCTCTC
2278333 TATATATACATATATG
1 TATATATACATATATG
*
2278349 TATATATGCATATAT
1 TATATATACATATAT
2278364 ATATGCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TATATATACATATATG
Found at i:2287826 original size:7 final size:7
Alignment explanation
Indices: 2287816--2287842 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2287806 TTTTTTGCCC
2287816 TTGAATG
1 TTGAATG
2287823 TTGAATG
1 TTGAATG
2287830 TTGAATG
1 TTGAATG
2287837 TTGAAT
1 TTGAAT
2287843 TTAAGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TTGAATG
Found at i:2288338 original size:16 final size:18
Alignment explanation
Indices: 2288319--2288355 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
2288309 TATATTATTT
2288319 TTTTAGTTTT-TTTAA-A
1 TTTTAGTTTTGTTTAACA
*
2288335 TTTTATTTTTGTTTAACA
1 TTTTAGTTTTGTTTAACA
2288353 TTT
1 TTT
2288356 AATAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 5 0.28
18 4 0.22
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTAGTTTTGTTTAACA
Found at i:2293544 original size:25 final size:26
Alignment explanation
Indices: 2293515--2293569 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 26
2293505 CATCCTGTTC
2293515 ATATTATTT-TTTA-AAAATTTTAA-AT
1 ATATT-TTTATTTATAAAA-TTTAATAT
2293540 ATATTTTTATTTATTAAAATTTAATAT
1 ATATTTTTATTTA-TAAAATTTAATAT
2293567 ATA
1 ATA
2293570 GTGGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.12
25 9 0.35
26 5 0.19
27 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTTTTATTTATAAAATTTAATAT
Found at i:2296032 original size:18 final size:17
Alignment explanation
Indices: 2295999--2296032 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2295989 AAGAGACGAA
*
2295999 GAAAGAAAGAAGAAAAG
1 GAAAGAAAGAAAAAAAG
2296016 GAAAGGAAAGAAAAAAA
1 GAAA-GAAAGAAAAAAA
2296033 AAGAAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAAAAAAG
Found at i:2296043 original size:25 final size:26
Alignment explanation
Indices: 2295997--2296046 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
2295987 GAAAGAGACG
*
2295997 AAGAAAGAAAGAAGAAAAGGAAAGGA
1 AAGAAAGAAAAAAGAAAAGGAAAGGA
*
2296023 AAGAAA-AAAAAAGAAATGGAAAGG
1 AAGAAAGAAAAAAGAAAAGGAAAGG
2296047 TAGGGAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (26 bp):
AAGAAAGAAAAAAGAAAAGGAAAGGA
Found at i:2302477 original size:18 final size:18
Alignment explanation
Indices: 2302454--2302489 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2302444 AGTTAAAAAA
*
2302454 TATTTTATTAATTATTTT
1 TATTTTATTAATGATTTT
2302472 TATTTTATTAATGATTTT
1 TATTTTATTAATGATTTT
2302490 ATTAATGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTATTAATGATTTT
Found at i:2304827 original size:41 final size:42
Alignment explanation
Indices: 2304782--2304898 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 42
2304772 ATCTGAGATT
* *
2304782 TTCAGGCCTAATGCCTAGCAGGCTTGATGCCGGTG-AAT-TAA
1 TTCAGGCTTAATGCCTAGCAGGCTTTATGCCGGTGAAATGT-A
* * *
2304823 TTCAGACTTGATGTCTAGCAGGCTTTATGCCGGTGAAATGTA
1 TTCAGGCTTAATGCCTAGCAGGCTTTATGCCGGTGAAATGTA
**
2304865 -TCAGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGGCTTAATGCCTAGCAGGCTTTATGCCGGTG
2304899 TTTTATGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 60 0.92
42 4 0.06
43 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (42 bp):
TTCAGGCTTAATGCCTAGCAGGCTTTATGCCGGTGAAATGTA
Found at i:2307651 original size:21 final size:20
Alignment explanation
Indices: 2307626--2307665 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2307616 TTAGAGATTA
*
2307626 ATAAAACACTATTAAAATAAT
1 ATAAAACAATA-TAAAATAAT
*
2307647 ATAAAATAATATAAAATAA
1 ATAAAACAATATAAAATAA
2307666 AAATTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAACAATATAAAATAAT
Found at i:2307653 original size:10 final size:10
Alignment explanation
Indices: 2307638--2307665 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2307628 AAAACACTAT
2307638 TAAAATAATA
1 TAAAATAATA
2307648 TAAAATAATA
1 TAAAATAATA
2307658 TAAAATAA
1 TAAAATAA
2307666 AAATTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAATAATA
Found at i:2307853 original size:14 final size:14
Alignment explanation
Indices: 2307829--2307861 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2307819 ATTGCGGATT
2307829 TAAAT-ATTAAAAA
1 TAAATAATTAAAAA
2307842 TAAATAATTAAAAA
1 TAAATAATTAAAAA
2307856 TAAATA
1 TAAATA
2307862 GAACACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATAATTAAAAA
Found at i:2313939 original size:78 final size:78
Alignment explanation
Indices: 2313805--2313963 Score: 273
Period size: 78 Copynumber: 2.0 Consensus size: 78
2313795 TTAGGTGTTC
* * *
2313805 AATAATCTTGTGAATGTTGATGTTTTCTGCCTTGTATGTGTTGTGATTTCTTCTTCTTGTAGGTC
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
*
2313870 AATGGTTGCATGA
66 AACGGTTGCATGA
*
2313883 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
2313948 AACGGTTGCATGA
66 AACGGTTGCATGA
2313961 AAT
1 AAT
2313964 GAAACTGAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (78 bp):
AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
AACGGTTGCATGA
Found at i:2315262 original size:2 final size:2
Alignment explanation
Indices: 2315255--2315280 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2315245 ATCAGTCTTT
2315255 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
2315281 TGTATTAATT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2319678 original size:27 final size:28
Alignment explanation
Indices: 2319623--2319676 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2319613 TAGAGATTGT
*
2319623 ATAAAAATTTTAAATAAATTATAAAAAG
1 ATAAAAATATTAAATAAATTATAAAAAG
*
2319651 ATAAAATATATTAAA-AATTTATAAAA
1 ATAAAA-ATATTAAATAAATTATAAAA
2319677 GAAAGCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
ATAAAAATATTAAATAAATTATAAAAAG
Found at i:2320506 original size:15 final size:16
Alignment explanation
Indices: 2320486--2320522 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2320476 TATTCCTCGG
2320486 CCAAAAA-TGATTATT
1 CCAAAAATTGATTATT
2320501 CCAAAAATTGATTATT
1 CCAAAAATTGATTATT
2320517 CCAAAA
1 CCAAAA
2320523 TATAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (16 bp):
CCAAAAATTGATTATT
Found at i:2324770 original size:21 final size:21
Alignment explanation
Indices: 2324746--2324798 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2324736 CATTGTTTCT
*
2324746 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
2324767 AATCTCACCGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
2324788 AATCTCACCGC
1 AATCTCACCGC
2324799 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:2325781 original size:28 final size:28
Alignment explanation
Indices: 2325749--2325803 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2325739 TTAGAGATTG
*
2325749 TATAAAA-ATTTTAAATAAATTATAAAAA
1 TATAAAATATATTAAA-AAATTATAAAAA
*
2325777 TATAAAATATATTAAAAATTTATAAAA
1 TATAAAATATATTAAAAAATTATAAAA
2325804 GAAGCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TATAAAATATATTAAAAAATTATAAAAA
Found at i:2325800 original size:20 final size:20
Alignment explanation
Indices: 2325751--2325803 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2325741 AGAGATTGTA
2325751 TAAAAATTT-T-AAATAAAT
1 TAAAAATTTATAAAATAAAT
* *
2325769 TATAAAA-ATATAAAATATAT
1 TA-AAAATTTATAAAATAAAT
2325789 TAAAAATTTATAAAA
1 TAAAAATTTATAAAA
2325804 GAAGCAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTTATAAAATAAAT
Found at i:2328239 original size:13 final size:13
Alignment explanation
Indices: 2328221--2328245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2328211 ATCAAATCTG
2328221 TTAAAAAAAGAAA
1 TTAAAAAAAGAAA
2328234 TTAAAAAAAGAA
1 TTAAAAAAAGAA
2328246 TAAAAATTTG
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
TTAAAAAAAGAAA
Found at i:2328468 original size:13 final size:12
Alignment explanation
Indices: 2328439--2328480 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2328429 CTCCTTGGCC
2328439 CAAAAAAAAAGG
1 CAAAAAAAAAGG
* *
2328451 GAAAAGAAAAGG
1 CAAAAAAAAAGG
2328463 CAAAAACAAAA-G
1 CAAAAA-AAAAGG
2328475 CAAAAA
1 CAAAAA
2328481 CACGTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.74, C:0.10, G:0.17, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAGG
Found at i:2331019 original size:14 final size:15
Alignment explanation
Indices: 2331000--2331029 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2330990 AAGCGGCATT
2331000 AATATATA-ATATAA
1 AATATATATATATAA
2331014 AATATATATATATAA
1 AATATATATATATAA
2331029 A
1 A
2331030 TAAGAGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATATATATATAA
Found at i:2333345 original size:547 final size:548
Alignment explanation
Indices: 2331767--2333410 Score: 3254
Period size: 548 Copynumber: 3.0 Consensus size: 548
2331757 AAGTCCTAAG
2331767 AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
1 AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
2331832 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
66 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
*
2331897 AAAGAAAACTCAAGAGAAAATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
131 AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
2331962 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
196 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
2332027 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAAACTCCTAATTATTTTAAT
261 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACT-AAAAAAAAACTCCTAATTATTTTAAT
2332092 ATGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATA
325 ATGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATA
2332157 AATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAAC
390 AATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAAC
2332222 TAAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTT
455 TAAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTT
2332287 GGGCTTTTGTGACTCGTATCATTCCCCCC
520 GGGCTTTTGTGACTCGTATCATTCCCCCC
*
2332316 CAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
1 AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
2332381 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
66 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
2332446 AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
131 AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
2332511 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
196 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
2332576 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAACTCCTAATTATTTTAATA
261 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAACTCCTAATTATTTTAATA
2332641 TGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATAA
326 TGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATAA
2332706 ATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACT
391 ATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACT
2332771 AAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTG
456 AAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTG
2332836 GGCTTTTGTGACTCGTATCATTCCCCCC
521 GGCTTTTGTGACTCGTATCATTCCCCCC
2332864 AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
1 AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
2332929 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
66 TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
2332994 AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAA-TTTCACTCAAATCAAATCTGAA
131 AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
2333058 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
196 ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
2333123 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAACTCCTAATTATTTTAATA
261 TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAACTCCTAATTATTTTAATA
2333188 TGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATAA
326 TGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATAA
2333253 ATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACT
391 ATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACT
2333318 AAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTG
456 AAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTG
2333383 GGCTTTTGTGACTCGTATCATTCCCCCC
521 GGCTTTTGTGACTCGTATCATTCCCCCC
2333411 TTCCTCAAAA
Statistics
Matches: 1092, Mismatches: 3, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
547 375 0.34
548 421 0.39
549 296 0.27
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (548 bp):
AAGCCTTGAAATCTTGAAAGATCTCACAACTCCCTTCAAACGGCTTTAATCTCCCCTCCAAAGAA
TATCAATGGCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCT
AAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAA
ATTTTCAATGTAATTGTAATGTAATGTAGGGTGGTTGGCCAAGCCATATAAATAGGCCTTTCAAA
TGTTTTCCTAATTTAATTAGAACACTAAAACTAAAACTAAAAAAAAACTCCTAATTATTTTAATA
TGGAAATTCGGCCAAGGGTCTTTTATTTGGGACTCTTGGATAAACATTTAAACTAAGTAAAATAA
ATAAATAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACT
AAGTATGGGTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTG
GGCTTTTGTGACTCGTATCATTCCCCCC
Found at i:2334670 original size:23 final size:22
Alignment explanation
Indices: 2334619--2334670 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
2334609 CCTCGTCTTT
*
2334619 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
2334641 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
2334664 TTCTTTT
1 TTCTTTT
2334671 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:2345669 original size:21 final size:21
Alignment explanation
Indices: 2345645--2345701 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2345635 GTGTCTCTTA
*
2345645 GTCACATGGCCGTGTCCCTCC
1 GTCACATGACCGTGTCCCTCC
*
2345666 GTCACATGATCGTGTCCCTCC
1 GTCACATGACCGTGTCCCTCC
*
2345687 GTCACACGACCGTGT
1 GTCACATGACCGTGT
2345702 AGCCTGCCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.39, G:0.23, T:0.25
Consensus pattern (21 bp):
GTCACATGACCGTGTCCCTCC
Found at i:2348444 original size:71 final size:71
Alignment explanation
Indices: 2348256--2348423 Score: 214
Period size: 71 Copynumber: 2.4 Consensus size: 71
2348246 TGTTGCCTAT
* * * * * *
2348256 CCAACTTCAAACCAA-AGGGGGAACATATAGCCACCAATGTCACGACAACCACCATCCCATGTCG
1 CCAACTTCAAACCAAGAGAGGGAGCATACAACCAGCAATGTCGCGACAACCACCATCCCATGTCG
2348320 CAACAC
66 CAACAC
* *
2348326 CCAACTTCAAACCTAGAGGGGGAGCATACAACCAGCAATGTCGCGACAACCACCA-CTCCATGTC
1 CCAACTTCAAACCAAGAGAGGGAGCATACAACCAGCAATGTCGCGACAACCACCATC-CCATGTC
* * *
2348390 GCGATAT
65 GCAACAC
2348397 CCAACTTCAAACCAAGAGAGGGAGCAT
1 CCAACTTCAAACCAAGAGAGGGAGCAT
2348424 TCAATGTTCA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
70 15 0.18
71 70 0.82
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.14
Consensus pattern (71 bp):
CCAACTTCAAACCAAGAGAGGGAGCATACAACCAGCAATGTCGCGACAACCACCATCCCATGTCG
CAACAC
Found at i:2375855 original size:29 final size:30
Alignment explanation
Indices: 2375823--2375881 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 30
2375813 TCACGTGTAT
2375823 AATTACACCA-AAAT-AAAGTTCATGTATAC
1 AATTACA-CATAAATCAAAGTTCATGTATAC
* *
2375852 AATTGCACATTAAATCAAAGTTTATGTATA
1 AATTACACA-TAAATCAAAGTTCATGTATA
2375882 ATTTTAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.08
29 6 0.24
30 4 0.16
31 13 0.52
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (30 bp):
AATTACACATAAATCAAAGTTCATGTATAC
Found at i:2376199 original size:29 final size:29
Alignment explanation
Indices: 2376167--2376224 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2376157 TTGTGTCAAT
*
2376167 GTGCAATTCCATACATG-AATTTTGATTTG
1 GTGCAATTACATACATGAAATTTT-ATTTG
*
2376196 GTGCAATTATATACATGAAATTTTATTTG
1 GTGCAATTACATACATGAAATTTTATTTG
2376225 CGATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (29 bp):
GTGCAATTACATACATGAAATTTTATTTG
Found at i:2377607 original size:23 final size:24
Alignment explanation
Indices: 2377563--2377607 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2377553 TAATAAATTA
*
2377563 TATATTCTAAAATATATTTTAACT
1 TATATTCTAAAATATATCTTAACT
2377587 TATATT-T-AAATATTATCTTAA
1 TATATTCTAAAATA-TATCTTAA
2377608 AACTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATTCTAAAATATATCTTAACT
Found at i:2377881 original size:3 final size:3
Alignment explanation
Indices: 2377873--2377914 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2377863 AAATTGAGGT
2377873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2377915 GAAGGACCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2378289 original size:23 final size:22
Alignment explanation
Indices: 2378262--2378311 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
2378252 GAACTTAAAT
2378262 TTTAAA-TTTTAAAAAGTAAAAA
1 TTTAAATTTTTAAAAA-TAAAAA
2378284 TATTAAATTTTTAAAAATAAAAA
1 T-TTAAATTTTTAAAAATAAAAA
2378307 TTTAA
1 TTTAA
2378312 GGACTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 12 0.46
24 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAATTTTTAAAAATAAAAA
Found at i:2382511 original size:16 final size:17
Alignment explanation
Indices: 2382490--2382522 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2382480 ATACCTTGCA
2382490 TAACAAA-ATAAATATT
1 TAACAAATATAAATATT
*
2382506 TAACAAATATAATTATT
1 TAACAAATATAAATATT
2382523 CAATTTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAACAAATATAAATATT
Found at i:2384063 original size:72 final size:70
Alignment explanation
Indices: 2383986--2384159 Score: 158
Period size: 73 Copynumber: 2.4 Consensus size: 70
2383976 TAAATAGTGG
*** *
2383986 TAAATTTATTTTTGGTCCCCAAAGTTTTTAATATTATT-ATTTTATCCTTGTATCATTACTTAAA
1 TAAATTTA-TTTTGGTCCCCAAAGTTTTTAATATT-TTAAACCTATCCTTCTATCATTACTTAAA
*
2384050 AATAATG
64 AATAATA
* *
2384057 TAAAATTTGA-TTTGG-CCCTTCAAATTTTTTTAATATTTTAAACCTATCCTTCTATCATTATTT
1 T-AAATTT-ATTTTGGTCCC--CAAA-GTTTTTAATATTTTAAACCTATCCTTCTATCATTACTT
*
2384120 AAAAGTAATA
61 AAAAATAATA
2384130 TAAA-TTATATTTGGTCCTTCCAAAGTTTTT
1 TAAATTTAT-TTTGGTCC--CCAAAGTTTTT
2384160 CAATTTAATC
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
70 4 0.05
71 8 0.10
72 25 0.30
73 45 0.54
75 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (70 bp):
TAAATTTATTTTGGTCCCCAAAGTTTTTAATATTTTAAACCTATCCTTCTATCATTACTTAAAAA
TAATA
Found at i:2385985 original size:12 final size:12
Alignment explanation
Indices: 2385953--2385987 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2385943 ATTTGAGATG
2385953 ATATATATATGT
1 ATATATATATGT
*
2385965 ATGTATATATGT
1 ATATATATATGT
*
2385977 ATATGTATATG
1 ATATATATATG
2385988 ATGCTGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
ATATATATATGT
Found at i:2386996 original size:60 final size:60
Alignment explanation
Indices: 2386903--2387019 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
2386893 TCATATATAT
*
2386903 TTCCTTATTTATTTATGACATAATGACTTATTTGGTCTTCCAACTTTATAAGAAAAATCA
1 TTCCTTATTTATTTATGACATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAATCA
*
2386963 TTCCTTATTTATTTATGGCATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAA
1 TTCCTTATTTATTTATGACATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAA
2387020 AATCATTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (60 bp):
TTCCTTATTTATTTATGACATAATGACTTATTTGGCCTTCCAACTTTATAAGAAAAATCA
Found at i:2390654 original size:3 final size:3
Alignment explanation
Indices: 2390648--2390694 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
2390638 TTTAGCCACT
*
2390648 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
2390693 TT
1 TT
2390695 TGTTTATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2392263 original size:74 final size:74
Alignment explanation
Indices: 2392174--2392331 Score: 307
Period size: 74 Copynumber: 2.1 Consensus size: 74
2392164 AAAGGATTGG
*
2392174 TGGCGACTCATGTTTCATTTTTTTCAAAACCCAAGTCGACCCCGTTTTTATCCAAAAAAATGGTG
1 TGGCGACTCCTGTTTCATTTTTTTCAAAACCCAAGTCGACCCCGTTTTTATCCAAAAAAATGGTG
2392239 TCAACAGCT
66 TCAACAGCT
2392248 TGGCGACTCCTGTTTCATTTTTTTCAAAACCCAAGTCGACCCCGTTTTTATCCAAAAAAATGGTG
1 TGGCGACTCCTGTTTCATTTTTTTCAAAACCCAAGTCGACCCCGTTTTTATCCAAAAAAATGGTG
2392313 TCAACAGCT
66 TCAACAGCT
2392322 TGGCGACTCC
1 TGGCGACTCC
2392332 ACTGGGGAAA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 83 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (74 bp):
TGGCGACTCCTGTTTCATTTTTTTCAAAACCCAAGTCGACCCCGTTTTTATCCAAAAAAATGGTG
TCAACAGCT
Found at i:2404312 original size:26 final size:26
Alignment explanation
Indices: 2404253--2404312 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
2404243 AAAAGAATTC
* *
2404253 AATATTTTATTTATATATTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
** *
2404279 AACCTTTTATCTAAATTTTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
*
2404305 TATATTTT
1 AATATTTT
2404313 TAAATGAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (26 bp):
AATATTTTATCTAAATATTAATTTAA
Found at i:2409312 original size:20 final size:21
Alignment explanation
Indices: 2409270--2409320 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
2409260 AAAAAGTGTG
*
2409270 AAAATAATTAAAATTTTATAA
1 AAAATAATTAAAATTGTATAA
*
2409291 AAAATGATTAAAATTGTA-AA
1 AAAATAATTAAAATTGTATAA
*
2409311 AAAATTATTA
1 AAAATAATTA
2409321 TAACAAAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATAATTAAAATTGTATAA
Found at i:2409500 original size:19 final size:18
Alignment explanation
Indices: 2409467--2409502 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2409457 ATATTTAATA
*
2409467 TTTTTTTATACTTTTTAT
1 TTTTTTTATAATTTTTAT
2409485 TTTTTTTACTAATTTTTA
1 TTTTTTTA-TAATTTTTA
2409503 AAATTCTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTTATAATTTTTAT
Found at i:2416535 original size:2 final size:2
Alignment explanation
Indices: 2416528--2416554 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2416518 TATCTTTTTC
2416528 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
2416555 ATACTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2424970 original size:19 final size:20
Alignment explanation
Indices: 2424927--2424970 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2424917 CTCTTTCAAC
2424927 AAAAATTTCAAAATAATTTT
1 AAAAATTTCAAAATAATTTT
*
2424947 GAAAA-TTCAAAAT-ATTTAT
1 AAAAATTTCAAAATAATTT-T
2424966 AAAAA
1 AAAAA
2424971 AATCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATTTCAAAATAATTTT
Found at i:2425672 original size:20 final size:22
Alignment explanation
Indices: 2425635--2425674 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2425625 TAGGGTTAAT
2425635 TATTTATAAATATAAATCAATA
1 TATTTATAAATATAAATCAATA
2425657 TATTT-TAAAT-TAAATCAA
1 TATTTATAAATATAAATCAA
2425675 ACTTTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTTATAAATATAAATCAATA
Found at i:2431440 original size:29 final size:28
Alignment explanation
Indices: 2431407--2431476 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
2431397 ATTTCAATAC
2431407 TTTTTA-ATTTAAATATTTTTCTATATATT
1 TTTTTATATTTAAATA-TTTTCTA-ATATT
**
2431436 TTTTTCATATTTTTATATTTTCTAATATT
1 TTTTT-ATATTTAAATATTTTCTAATATT
2431465 TTCTTTATATTT
1 TT-TTTATATTT
2431477 TTATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 18 0.50
30 11 0.31
31 7 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATATTTAAATATTTTCTAATATT
Found at i:2431477 original size:29 final size:30
Alignment explanation
Indices: 2431423--2431481 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
2431413 ATTTAAATAT
2431423 TTTTCTATATATTTTTTTCATATTTTTATA
1 TTTTCTATATATTTTTTTCATATTTTTATA
2431453 TTTTCTA-ATATTTTCTTT-ATATTTTTATA
1 TTTTCTATATATTTT-TTTCATATTTTTATA
2431482 ATAATTGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTCTATATATTTTTTTCATATTTTTATA
Found at i:2431792 original size:17 final size:18
Alignment explanation
Indices: 2431770--2431816 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
2431760 TCAAATAATT
2431770 ATAAATTAAAATT-ATAA
1 ATAAATTAAAATTAATAA
2431787 ATAAATTTAAAATTAATAA
1 ATAAA-TTAAAATTAATAA
*
2431806 A-AAATAAAAAT
1 ATAAATTAAAAT
2431817 ATTCATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 11 0.41
18 11 0.41
19 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATTAAAATTAATAA
Found at i:2431798 original size:18 final size:19
Alignment explanation
Indices: 2431770--2431810 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2431760 TCAAATAATT
2431770 ATAAA-TTAAAATT-ATAA
1 ATAAATTTAAAATTAATAA
2431787 ATAAATTTAAAATTAATAA
1 ATAAATTTAAAATTAATAA
2431806 A-AAAT
1 ATAAAT
2431811 AAAAATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 12 0.55
19 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATTTAAAATTAATAA
Found at i:2436658 original size:25 final size:23
Alignment explanation
Indices: 2436591--2436658 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
2436581 GTTTAATAAT
*
2436591 AATCCAAACAAATTAAACATAGC
1 AATCCAAACAAATTAAACAAAGC
*
2436614 AATCGCACAACAACTTAAACAAAAG-
1 AATC-CA-AACAAATTAAAC-AAAGC
2436639 AATTCCAAACAAATTCAAAC
1 AA-TCCAAACAAATT-AAAC
2436659 TTCCGTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 19 0.51
26 5 0.14
ACGTcount: A:0.56, C:0.24, G:0.04, T:0.16
Consensus pattern (23 bp):
AATCCAAACAAATTAAACAAAGC
Found at i:2439601 original size:4 final size:4
Alignment explanation
Indices: 2439592--2439658 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
2439582 TACAATTCGA
2439592 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2439640 ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATA
2439659 TATCACCCAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2440247 original size:21 final size:21
Alignment explanation
Indices: 2440202--2440257 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2440192 ATATGTCAAT
*
2440202 AGAAGCTC-GAA-AGCTAAAC
1 AGAAGCTCGGAAGAGCGAAAC
*
2440221 AAAAGCTCGGAAGAGCGAAAC
1 AGAAGCTCGGAAGAGCGAAAC
*
2440242 AGAAGCTCGTAAGAGC
1 AGAAGCTCGGAAGAGC
2440258 TAATCCACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.23
20 3 0.10
21 21 0.68
ACGTcount: A:0.45, C:0.20, G:0.27, T:0.09
Consensus pattern (21 bp):
AGAAGCTCGGAAGAGCGAAAC
Found at i:2443472 original size:45 final size:44
Alignment explanation
Indices: 2443423--2443712 Score: 339
Period size: 45 Copynumber: 6.5 Consensus size: 44
2443413 TTGTCATAGT
** * * * *
2443423 GTCTTTCAACCATGGTCTTATTAATTTGATTCGTGATGCCATAGC
1 GTCTTTCAGTCATGGTCTTATTGA-TAGAATCGTGATGCCATAAC
*
2443468 GTCTTTCAG-CTATGGTCTTACTTGATAGAATTGTGATGCCATAAC
1 GTCTTTCAGTC-ATGGTCTTA-TTGATAGAATCGTGATGCCATAAC
* *
2443513 GTCTTTCAGTCATGGTCTTCCTCGATAGAATCGTGATGCCATAAC
1 GTCTTTCAGTCATGGTCTT-ATTGATAGAATCGTGATGCCATAAC
* *
2443558 GTCTTTCAGTCATAGTCTTACTCGATAGAATCGTGATGCCATAAC
1 GTCTTTCAGTCATGGTCTTA-TTGATAGAATCGTGATGCCATAAC
* **
2443603 ATCTTTCAGTCATGGTCTTACTCAATAGAATCGTGATGCCATAAC
1 GTCTTTCAGTCATGGTCTTA-TTGATAGAATCGTGATGCCATAAC
* * *
2443648 GTCTTTCAGTCACGGTCTTACTCATTAGAATCGTGATGCCATAAC
1 GTCTTTCAGTCATGGTCTTATTGA-TAGAATCGTGATGCCATAAC
**
2443693 ACCTTTCAGTCATGGTCTTA
1 GTCTTTCAGTCATGGTCTTA
2443713 CTTGTTTCTA
Statistics
Matches: 217, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 211 0.97
46 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (44 bp):
GTCTTTCAGTCATGGTCTTATTGATAGAATCGTGATGCCATAAC
Found at i:2443713 original size:45 final size:44
Alignment explanation
Indices: 2443453--2443714 Score: 382
Period size: 45 Copynumber: 5.8 Consensus size: 44
2443443 TTAATTTGAT
* *
2443453 TCGTGATGCCATAGCGTCTTTCAG-CTATGGTCTTACTTGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTC-ATGGTCTTAC-TCATAGAA
* *
2443498 TTGTGATGCCATAACGTCTTTCAGTCATGGTCTTCCTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTC-ATAGAA
*
2443543 TCGTGATGCCATAACGTCTTTCAGTCATAGTCTTACTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTC-ATAGAA
*
2443588 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCAATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTC-ATAGAA
*
2443633 TCGTGATGCCATAACGTCTTTCAGTCACGGTCTTACTCATTAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCA-TAGAA
**
2443678 TCGTGATGCCATAACACCTTTCAGTCATGGTCTTACT
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
2443715 TGTTTCTAGT
Statistics
Matches: 199, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
44 2 0.01
45 196 0.98
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (44 bp):
TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCATAGAA
Found at i:2443753 original size:135 final size:135
Alignment explanation
Indices: 2443453--2443757 Score: 386
Period size: 135 Copynumber: 2.3 Consensus size: 135
2443443 TTAATTTGAT
* ** *
2443453 TCGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTTGATAGAATTGTGATGCCATAACGTCTT
1 TCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCTT
* * **
2443518 TCAGTCATGGTCTTCCTCGATAGAATCGTGATGCCATAACGTCTTTCAGTCATAGTCTTACTCGA
66 TCAGTCACGGTCTTACTCGATAGAATCGTGATGCCATAACACCTTTCAGTCATAGTCTTACTCGA
2443583 TAGAA
131 TAGAA
* * *
2443588 TCGTGATGCCATAACATCTTTC-AGTCATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCT
1 TCGTGATGCCATAGCGTCTTTCAACT-ATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCT
* *
2443652 TTCAGTCACGGTCTTACTC-ATTAGAATCGTGATGCCATAACACCTTTCAGTCATGGTCTTACTT
65 TTCAGTCACGGTCTTACTCGA-TAGAATCGTGATGCCATAACACCTTTCAGTCATAGTCTTACTC
* *
2443716 GTTTCTAGTA
129 G---ATAGAA
*
2443726 T-G-G-TGCCATAGTGTCTTTCAACTATGGTCTTA
1 TCGTGATGCCATAGCGTCTTTCAACTATGGTCTTA
2443758 ATCATTTTCC
Statistics
Matches: 145, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
134 2 0.01
135 134 0.92
136 3 0.02
137 1 0.01
138 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (135 bp):
TCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCTT
TCAGTCACGGTCTTACTCGATAGAATCGTGATGCCATAACACCTTTCAGTCATAGTCTTACTCGA
TAGAA
Found at i:2449103 original size:3 final size:3
Alignment explanation
Indices: 2449095--2449120 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2449085 ATAGATTTAA
2449095 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2449121 AACCACTTTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2453086 original size:27 final size:27
Alignment explanation
Indices: 2453048--2453101 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2453038 TTGCTTTGTA
*
2453048 ACACCGTTAAATATACATAGCAGAAAT
1 ACACCGTTAAATATACACAGCAGAAAT
*
2453075 ACACTGTTAAATATACACAGCAGAAAT
1 ACACCGTTAAATATACACAGCAGAAAT
2453102 CGTAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (27 bp):
ACACCGTTAAATATACACAGCAGAAAT
Found at i:2454827 original size:16 final size:16
Alignment explanation
Indices: 2454806--2454874 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
2454796 TTTGGTTCGC
2454806 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2454822 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2454838 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
2454855 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2454871 TGTA
1 TGTA
2454875 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:2454852 original size:33 final size:32
Alignment explanation
Indices: 2454806--2454874 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
2454796 TTTGGTTCGC
2454806 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
2454838 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
2454871 TGTA
1 TGTA
2454875 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:2454939 original size:44 final size:45
Alignment explanation
Indices: 2454855--2454945 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2454845 GGATTAGAGG
* * *
2454855 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
2454900 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
2454944 TG
1 TG
2454946 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:2455131 original size:18 final size:17
Alignment explanation
Indices: 2455110--2455144 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2455100 TTATTATTAA
*
2455110 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2455128 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2455145 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2455191 original size:61 final size:61
Alignment explanation
Indices: 2455125--2455312 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
2455115 TTTTAATTAA
2455125 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
2455186 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
2455245 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
2455306 AATATAT
1 AATATAT
2455313 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:2455258 original size:14 final size:15
Alignment explanation
Indices: 2455209--2455260 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
2455199 ATAAAATATA
2455209 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
2455224 TATTAAATATATTAT
1 AATTAAATATATTAT
2455239 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
2455252 AATTTAATA
1 AATTAAATA
2455261 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:2455306 original size:120 final size:121
Alignment explanation
Indices: 2455093--2455385 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
2455083 ATCATATTTA
2455093 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
2455158 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
2455213 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
2455278 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
2455334 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
2455386 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:2455432 original size:101 final size:93
Alignment explanation
Indices: 2455326--2455608 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
2455316 ACTATAAAAG
* * * *
2455326 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
2455390 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
2455427 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
2455490 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
2455518 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
2455581 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
2455609 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:2455455 original size:26 final size:28
Alignment explanation
Indices: 2455426--2455486 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
2455416 TATGAATTTG
*
2455426 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
2455452 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
2455480 TAAAATT
1 TATAATT
2455487 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:2455484 original size:47 final size:46
Alignment explanation
Indices: 2455433--2455576 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
2455423 TTGTATAATT
2455433 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
2455480 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
2455524 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
2455571 TAAAAT
1 TAAAAT
2455577 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:2455496 original size:91 final size:90
Alignment explanation
Indices: 2455401--2455608 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
2455391 TAATTATAAC
* * * *
2455401 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
2455466 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
2455492 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
2455557 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
2455583 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
2455609 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:2455568 original size:44 final size:43
Alignment explanation
Indices: 2455426--2455568 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
2455416 TATGAATTTG
* *
2455426 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
2455470 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
2455517 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
2455561 TATAATTT
1 TATAATTT
2455569 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:2455583 original size:47 final size:47
Alignment explanation
Indices: 2455451--2455589 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
2455441 TTATTATTAC
* *
2455451 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
2455498 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
2455542 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
2455589 A
1 A
2455590 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:2461637 original size:19 final size:19
Alignment explanation
Indices: 2461613--2461679 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
2461603 AATTGAGCAC
2461613 AATCAAACATACATACACA
1 AATCAAACATACATACACA
*
2461632 AATCAAAACCA-A-TTGAGCAC-
1 AATC-AAA-CATACAT-A-CACA
*
2461652 AATCAAACATTCATACACA
1 AATCAAACATACATACACA
2461671 AATCAAACA
1 AATCAAACA
2461680 CATAAATACC
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
18 5 0.13
19 18 0.47
20 10 0.26
21 5 0.13
ACGTcount: A:0.55, C:0.25, G:0.03, T:0.16
Consensus pattern (19 bp):
AATCAAACATACATACACA
Found at i:2461642 original size:39 final size:39
Alignment explanation
Indices: 2461590--2461677 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
2461580 CACCTTTCAT
* *
2461590 ACAATTCACAACCAATTGAGCACAATCAAACATACATAC
1 ACAAATCAAAACCAATTGAGCACAATCAAACATACATAC
*
2461629 ACAAATCAAAACCAATTGAGCACAATCAAACATTCATAC
1 ACAAATCAAAACCAATTGAGCACAATCAAACATACATAC
2461668 ACAAATCAAA
1 ACAAATCAAA
2461678 CACATAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.52, C:0.26, G:0.05, T:0.17
Consensus pattern (39 bp):
ACAAATCAAAACCAATTGAGCACAATCAAACATACATAC
Found at i:2465227 original size:19 final size:20
Alignment explanation
Indices: 2465177--2465221 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
2465167 ACCTTACTAA
*
2465177 TATTAATAATTTT--AGATT
1 TATTAATACTTTTAAAGATT
2465195 TATTAATACTTTTAAAGATT
1 TATTAATACTTTTAAAGATT
2465215 T-TTAATA
1 TATTAATA
2465222 TATTTATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 6 0.25
20 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TATTAATACTTTTAAAGATT
Found at i:2469985 original size:19 final size:19
Alignment explanation
Indices: 2469961--2470001 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2469951 ACTATCAAGC
2469961 TAACCAAATTCAAGCTTAG
1 TAACCAAATTCAAGCTTAG
2469980 TAACCAAATTCAAGCTTAG
1 TAACCAAATTCAAGCTTAG
2469999 TAA
1 TAA
2470002 TACGTAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (19 bp):
TAACCAAATTCAAGCTTAG
Found at i:2479793 original size:30 final size:30
Alignment explanation
Indices: 2479753--2479854 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
2479743 TTTAAAATAA
* *
2479753 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
2479783 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* * *
2479813 AAATTTCACTTAGACCCCTAAACCTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
2479843 AAATTTCATTTT
1 AAATTTCATTTT
2479855 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:2480461 original size:28 final size:32
Alignment explanation
Indices: 2480393--2480461 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
2480383 AGGTAACTGA
2480393 AAAGAAAAAAGAAGAGAAGAAACAGAAAGATG
1 AAAGAAAAAAGAAGAGAAGAAACAGAAAGATG
* * *
2480425 AAAGGAAAAAG-AGAGAA-AAAGATAAA-AT-
1 AAAGAAAAAAGAAGAGAAGAAACAGAAAGATG
2480453 AAAGAAAAA
1 AAAGAAAAA
2480462 TAAAACCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
30 7 0.21
31 6 0.18
32 10 0.30
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.04
Consensus pattern (32 bp):
AAAGAAAAAAGAAGAGAAGAAACAGAAAGATG
Found at i:2481202 original size:16 final size:16
Alignment explanation
Indices: 2481154--2481202 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
2481144 TTTCTTTCTA
*
2481154 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
2481170 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
2481187 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
2481203 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:2481239 original size:20 final size:20
Alignment explanation
Indices: 2481201--2481237 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
2481191 ATTCGTGTTT
2481201 TCGTGTTTTCAAAAAAAATC
1 TCGTGTTTTCAAAAAAAATC
2481221 TCGTG-TTTCAAAAAAAA
1 TCGTGTTTTCAAAAAAAA
2481238 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAAATC
Found at i:2481245 original size:6 final size:6
Alignment explanation
Indices: 2481230--2481263 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2481220 CTCGTGTTTC
2481230 AAAA-A AAAATA AAAATA AAAATAA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAA
2481264 AAATTCTCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:2481256 original size:13 final size:12
Alignment explanation
Indices: 2481230--2481263 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
2481220 CTCGTGTTTC
2481230 AAAA-AAAAATA
1 AAAATAAAAATA
2481241 AAAATAAAAATAA
1 AAAATAAAAAT-A
2481254 AAAATAAAAA
1 AAAATAAAAA
2481264 AAATTCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 6 0.29
13 11 0.52
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATA
Done.