Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 309 of 325
Found at i:97923314 original size:21 final size:22
Alignment explanation
Indices: 97923273--97923315 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
97923263 CCCATAACCA
97923273 AAAACCCTAAACCCTAAACCTT
1 AAAACCCTAAACCCTAAACCTT
*
97923295 AAAACCC-AAACCTTAAACCTT
1 AAAACCCTAAACCCTAAACCTT
97923316 GGGGTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAACCCTAAACCCTAAACCTT
Found at i:97929808 original size:60 final size:60
Alignment explanation
Indices: 97929705--97929826 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
97929695 TTTTACGAAA
* * * ** *
97929705 TTTATATTTCTTTACATTTTATATATTTTTCTTACGACGTTATAAAATTTTATAATTTTT
1 TTTATATTTCTATACATTTTATAAATTTTTCTTACAACGTTATAAAAAATTACAATTTTT
* **
97929765 TTTATATTTCTATATATTTTATAAATTTTT-TTACAATTTTTATAAAAAATTACAATTTTT
1 TTTATATTTCTATACATTTTATAAATTTTTCTTACAA-CGTTATAAAAAATTACAATTTTT
97929825 TT
1 TT
97929827 ATGTTTTTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 5 0.10
60 47 0.90
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (60 bp):
TTTATATTTCTATACATTTTATAAATTTTTCTTACAACGTTATAAAAAATTACAATTTTT
Found at i:97929874 original size:24 final size:25
Alignment explanation
Indices: 97929830--97929881 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
97929820 TTTTTTTATG
* *
97929830 TTTTTACTATTTATATATATTATAA
1 TTTTTAATATTTATATATATTAAAA
97929855 TTTTTAATATTTGA-AT-TATTAAAA
1 TTTTTAATATTT-ATATATATTAAAA
97929879 TTT
1 TTT
97929882 AATAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 13 0.54
26 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTAATATTTATATATATTAAAA
Found at i:97929925 original size:11 final size:10
Alignment explanation
Indices: 97929906--97929937 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
97929896 CTTTTATTGA
97929906 TTTTAATTTT
1 TTTTAATTTT
97929916 TTTATAATTTT
1 TTT-TAATTTT
97929927 TTTTAATTTT
1 TTTTAATTTT
97929937 T
1 T
97929938 AATAAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:97931326 original size:2 final size:2
Alignment explanation
Indices: 97931321--97931345 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97931311 AATAATAAAC
97931321 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
97931346 GATAAAAAAG
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:97934683 original size:18 final size:19
Alignment explanation
Indices: 97934632--97934687 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
97934622 TACAAAAAAG
*
97934632 AATTCAAAACATTTTTTAAA
1 AATTCAAAACA-TTTATAAA
*
97934652 AATTCAAAATATTTATAAA
1 AATTCAAAACATTTATAAA
*
97934671 AATTC-CAACATTTATAA
1 AATTCAAAACATTTATAA
97934688 TCTTTAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.31
19 12 0.38
20 10 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAACATTTATAAA
Found at i:97942835 original size:30 final size:30
Alignment explanation
Indices: 97942799--97942858 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
97942789 CTTGAAAACT
97942799 GAACTATTAACTTGTTCAAAATCATTTAAC
1 GAACTATTAACTTGTTCAAAATCATTTAAC
97942829 GAACTATTAACTTGTTCAAAATCATTTAAC
1 GAACTATTAACTTGTTCAAAATCATTTAAC
97942859 TCGAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (30 bp):
GAACTATTAACTTGTTCAAAATCATTTAAC
Found at i:97943207 original size:27 final size:27
Alignment explanation
Indices: 97943159--97943213 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
97943149 AATGTATTTT
*
97943159 TGGGTTGGGTTTTTGGAATTTAAGTTA
1 TGGGTTGGGTTTTTGGAATTTAAATTA
*
97943186 TGGGTTGGGTTTTTAGG-GTTTAAATTA
1 TGGGTTGGGTTTTT-GGAATTTAAATTA
97943213 T
1 T
97943214 ATCATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (27 bp):
TGGGTTGGGTTTTTGGAATTTAAATTA
Found at i:97943791 original size:13 final size:12
Alignment explanation
Indices: 97943731--97943788 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
97943721 ATTTACACGT
97943731 TTAA-TTTTTAA
1 TTAATTTTTTAA
*
97943742 TTAATTTTGTAA
1 TTAATTTTTTAA
* *
97943754 ATAATATTTT--
1 TTAATTTTTTAA
*
97943764 TTAATTATTGTAA
1 TTAATT-TTTTAA
97943777 TTAATTTTTTAA
1 TTAATTTTTTAA
97943789 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
10 4 0.11
11 7 0.20
12 18 0.51
13 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TTAATTTTTTAA
Found at i:97952423 original size:22 final size:21
Alignment explanation
Indices: 97952397--97952441 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
97952387 TTTAATAAAT
97952397 AATAT-AAAATTAATTATAAAAA
1 AATATCAAAATTAA--ATAAAAA
97952419 AATATGCAAAATTAAATAAAAA
1 AATAT-CAAAATTAAATAAAAA
97952441 A
1 A
97952442 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 13 0.62
24 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AATATCAAAATTAAATAAAAA
Found at i:97953510 original size:6 final size:6
Alignment explanation
Indices: 97953499--97953538 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
97953489 CCAAAAGGTA
*
97953499 GAGAGG GAGAGG GAGAGA GAGAGG GAGAGG GAGAGG GAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
97953539 TAACAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:97955728 original size:30 final size:30
Alignment explanation
Indices: 97955666--97955728 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
97955656 TGCTGCTTTT
* * * * *
97955666 TTTTTTTGTTTTTTTACTGTTTTGTTGCTA
1 TTTTCTTGTTTTCTCACTATTTTGTTACTA
*
97955696 TTTTCTTGTTTTCTCACTATTTTGTTATTA
1 TTTTCTTGTTTTCTCACTATTTTGTTACTA
97955726 TTT
1 TTT
97955729 CATTATTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (30 bp):
TTTTCTTGTTTTCTCACTATTTTGTTACTA
Found at i:97956700 original size:28 final size:26
Alignment explanation
Indices: 97956669--97956728 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
97956659 TTTTAAAAGA
*
97956669 TTAAATCAAAATTTTATTTTTTAGTAAT
1 TTAAAT-AAAATTTTA-CTTTTAGTAAT
* *
97956697 TTAAAATATAATTTTACTTTTATTAAT
1 TT-AAATAAAATTTTACTTTTAGTAAT
97956724 TTAAA
1 TTAAA
97956729 ATTTTAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 10 0.36
29 4 0.14
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAATAAAATTTTACTTTTAGTAAT
Found at i:97956725 original size:27 final size:28
Alignment explanation
Indices: 97956678--97956730 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
97956668 ATTAAATCAA
*
97956678 AATTTTATTTTTTAGTAATTTAAAATAT
1 AATTTTATCTTTTAGTAATTTAAAATAT
*
97956706 AATTTTA-CTTTTATTAATTTAAAAT
1 AATTTTATCTTTTAGTAATTTAAAAT
97956731 TTTAAAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTATCTTTTAGTAATTTAAAATAT
Found at i:97959063 original size:7 final size:7
Alignment explanation
Indices: 97959053--97959108 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
97959043 GTAATTAACG
97959053 TTTAAAA
1 TTTAAAA
*
97959060 TTTAAAG
1 TTTAAAA
*
97959067 TTTAAGA
1 TTTAAAA
* *
97959074 GTTAAAT
1 TTTAAAA
97959081 TTTAAAA
1 TTTAAAA
97959088 TTTAAAA
1 TTTAAAA
* *
97959095 TTGAAAT
1 TTTAAAA
97959102 TTTAAAA
1 TTTAAAA
97959109 GAAAAATGTT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:97959101 original size:21 final size:21
Alignment explanation
Indices: 97959054--97959108 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
97959044 TAATTAACGT
* * *
97959054 TTAAAATTTAAAGTTTAAGAG
1 TTAAATTTTAAAATTTAAGAA
97959075 TTAAATTTTAAAATTTAA-AA
1 TTAAATTTTAAAATTTAAGAA
97959095 TTGAAATTTTAAAA
1 TT-AAATTTTAAAA
97959109 GAAAAATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TTAAATTTTAAAATTTAAGAA
Found at i:97961005 original size:24 final size:25
Alignment explanation
Indices: 97960967--97961013 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
97960957 TAATTTAATT
*
97960967 TATTAAAAATTATAAAAATATAAAC
1 TATTAAAAATAATAAAAATATAAAC
*
97960992 TATT-AAAATAATAAAATTATAA
1 TATTAAAAATAATAAAAATATAA
97961014 TTTTATTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TATTAAAAATAATAAAAATATAAAC
Found at i:97963681 original size:14 final size:14
Alignment explanation
Indices: 97963662--97963692 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
97963652 GACAATTTTT
97963662 AAATATAAACCATA
1 AAATATAAACCATA
*
97963676 AAATATAAATCATA
1 AAATATAAACCATA
97963690 AAA
1 AAA
97963693 CAGATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATATAAACCATA
Found at i:97975492 original size:15 final size:16
Alignment explanation
Indices: 97975472--97975502 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
97975462 CAAAATTTGA
97975472 ATTTAATAA-TAAATT
1 ATTTAATAAGTAAATT
97975487 ATTTAATAAGTAAATT
1 ATTTAATAAGTAAATT
97975503 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTAATAAGTAAATT
Found at i:97976084 original size:21 final size:21
Alignment explanation
Indices: 97976046--97976086 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97976036 AGCTAATATG
**
97976046 GGATTAAAATTATTTTTTAAA
1 GGATTAAAATTAACTTTTAAA
97976067 GGATTAAAATTAACTTTTAA
1 GGATTAAAATTAACTTTTAA
97976087 TTAAGATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
GGATTAAAATTAACTTTTAAA
Found at i:97976380 original size:74 final size:69
Alignment explanation
Indices: 97976285--97976479 Score: 169
Period size: 69 Copynumber: 2.8 Consensus size: 69
97976275 ATGAGAGTGC
** * *
97976285 TCTCTAGTCAATGTTGGATTAAAATTAACATTTTAATTTAATGAAAATAGTGAAGAAGTTAGCTA
1 TCTCTAGTCAATCATGGATTAAAAGTAA-A--TT--TTTAATGAAAATAGTGAAGAAGTGAGCTA
* *
97976350 TATGAGTAT
61 CAAGAGTAT
*
97976359 TCTCTAGTCAA-CATGGAATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAGGTGAGCTACAAG
1 TCTCTAGTCAATCATGG-ATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAAGTGAGCTACAAG
97976423 AGTAT
65 AGTAT
* * * * * * * **
97976428 TTTTTGGTTAAT-GTGAGATTAAAATTAACTTTTTAACAAAAATAGTGAAGAA
1 TCTCTAGTCAATCATG-GATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAA
97976480 ATTATCACTT
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
69 73 0.72
70 1 0.01
71 2 0.02
73 4 0.04
74 21 0.21
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (69 bp):
TCTCTAGTCAATCATGGATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAAGTGAGCTACAAGA
GTAT
Found at i:97978171 original size:63 final size:63
Alignment explanation
Indices: 97978093--97978220 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
97978083 TATTCTAACA
97978093 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
1 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
97978156 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
1 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
97978219 TA
1 TA
97978221 CGTGTGATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (63 bp):
TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
Found at i:97980741 original size:14 final size:14
Alignment explanation
Indices: 97980705--97980749 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
97980695 AATAAAAATT
*
97980705 AAAAAATCTAAAA-
1 AAAAAACCTAAAAC
97980718 AAAAAACCTAAAAC
1 AAAAAACCTAAAAC
*
97980732 AAAAACCCT-AAAC
1 AAAAAACCTAAAAC
97980745 AAAAA
1 AAAAA
97980750 TCTTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 21 0.72
14 8 0.28
ACGTcount: A:0.73, C:0.18, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAACCTAAAAC
Found at i:97981178 original size:21 final size:23
Alignment explanation
Indices: 97981152--97981196 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
97981142 CATATTATTC
*
97981152 TTTAAATAA-TAAAAT-GAGTCA
1 TTTAAACAAGTAAAATCGAGTCA
*
97981173 TTTAAACAAGTTAAATCGAGTCA
1 TTTAAACAAGTAAAATCGAGTCA
97981196 T
1 T
97981197 GCTATAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TTTAAACAAGTAAAATCGAGTCA
Found at i:97984876 original size:29 final size:30
Alignment explanation
Indices: 97984839--97984903 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
97984829 AAATTTTATG
*
97984839 TATAAAATTACATA-AAATCAAAGTTCATA
1 TATAAAATTACATATAAACCAAAGTTCATA
* *
97984868 TATATAATTACATATTAAACCAAAGTTCATG
1 TATAAAATTACATA-TAAACCAAAGTTCATA
97984899 TATAA
1 TATAA
97984904 TTTTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
31 17 0.57
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.34
Consensus pattern (30 bp):
TATAAAATTACATATAAACCAAAGTTCATA
Found at i:97984904 original size:29 final size:28
Alignment explanation
Indices: 97984839--97984905 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
97984829 AAATTTTATG
* *
97984839 TATAAAATTACATAAAATCAAAGTTCATA
1 TATATAATTACATAAAACCAAAGTTCA-A
97984868 TATATAATTACATATTAAACCAAAGTTC-A
1 TATATAATTACATA--AAACCAAAGTTCAA
*
97984897 TGTATAATT
1 TATATAATT
97984906 TTGGGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.67
31 11 0.33
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (28 bp):
TATATAATTACATAAAACCAAAGTTCAA
Found at i:97988659 original size:132 final size:132
Alignment explanation
Indices: 97988421--97988663 Score: 378
Period size: 132 Copynumber: 1.8 Consensus size: 132
97988411 TTGCCTCGCC
* * * * *
97988421 TTAGAAAACACGAATGAAATTCCAAAGGGATATTCGATTATTTTGCGCAAACGAGAAATTGTAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACAATCGATTATTTTGCGCAAACGAGAAATTGCAAC
* *
97988486 CCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCATTTTAAAAAGT
66 CCAGCACGATAGGGCACGATTCCCAGAATTGCCAAACATCGAACATTTCCTTCATTTTAAAAAGT
97988551 TT
131 TT
* * *
97988553 TTAGAAAACATGAACGAAATTCTAAAGAGACAATCGATTATTTTGGGCAAACGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACAATCGATTATTTTGCGCAAACGAGAAATTGCAAC
* *
97988618 CCAGCACGATAGGGCACGATTCCCAGAATTGCTAAATATCGAACAT
66 CCAGCACGATAGGGCACGATTCCCAGAATTGCCAAACATCGAACAT
97988664 CGTCTCTGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 99 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (132 bp):
TTAGAAAACACGAACGAAATTCCAAAGAGACAATCGATTATTTTGCGCAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCCCAGAATTGCCAAACATCGAACATTTCCTTCATTTTAAAAAGT
TT
Found at i:97992735 original size:14 final size:15
Alignment explanation
Indices: 97992701--97992729 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97992691 AGGGTGTTAC
97992701 AGATACAAAAATATT
1 AGATACAAAAATATT
97992716 AGATACAAAAATAT
1 AGATACAAAAATAT
97992730 CGATACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AGATACAAAAATATT
Found at i:98004419 original size:57 final size:58
Alignment explanation
Indices: 98004317--98004430 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 58
98004307 GTGTAAATCA
*
98004317 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTTATTTTT
1 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTT
* * *
98004375 ATTAATTGGAATATATGT-TTTTTTTTCTCTTGTCCCCTCTTCATGGAAGTAATTTT
1 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTT
98004431 CATATTTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 34 0.65
58 18 0.35
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (58 bp):
ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTT
Found at i:98005409 original size:17 final size:17
Alignment explanation
Indices: 98005387--98005420 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98005377 ATCCACTAAT
*
98005387 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
98005404 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
98005421 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:98010037 original size:17 final size:17
Alignment explanation
Indices: 98010015--98010048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98010005 ATCCACTAAT
*
98010015 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
98010032 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
98010049 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:98011294 original size:30 final size:31
Alignment explanation
Indices: 98011260--98011321 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
98011250 AGGGGAACAG
98011260 AGCAGATAGATGGGTAGTTGGCT-TTTTTAT
1 AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
*
98011290 AGCAGATAGATGGGTAGTTGGGTCTTTTTAT
1 AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
98011321 A
1 A
98011322 AAACTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.24, C:0.06, G:0.31, T:0.39
Consensus pattern (31 bp):
AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
Found at i:98011658 original size:21 final size:21
Alignment explanation
Indices: 98011634--98011679 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
98011624 TTTATCCTTT
* *
98011634 TTTTTGTTCTTTTTAAAAATA
1 TTTTTATTATTTTTAAAAATA
* *
98011655 TTTTTATTATTTTTTATAATA
1 TTTTTATTATTTTTAAAAATA
98011676 TTTT
1 TTTT
98011680 AAATGTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTATTTTTAAAAATA
Found at i:98020802 original size:33 final size:33
Alignment explanation
Indices: 98020694--98020839 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
98020684 ACTTTGTGTA
** *
98020694 TACCACTTGAAAAGGAAAGGTACACTAT-ATGTG
1 TACCACTTGAAAAGGGTATGTACACT-TCATGTG
* * **
98020727 TA-CACTTGAAAAGGTTATGTGCACTTTGTGTG
1 TACCACTTGAAAAGGGTATGTACACTTCATGTG
** *
98020759 TATAAATTGAAAAGGGTATGTACACTTCATGTG
1 TACCACTTGAAAAGGGTATGTACACTTCATGTG
* * *
98020792 TACCACTTGAAATGGG-AGTGTACACCTCAGGTG
1 TACCACTTGAAAAGGGTA-TGTACACTTCATGTG
* *
98020825 TACAACTAGAAAAGG
1 TACCACTTGAAAAGG
98020840 AAAGGTCCAT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
31 1 0.01
32 26 0.29
33 63 0.70
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (33 bp):
TACCACTTGAAAAGGGTATGTACACTTCATGTG
Found at i:98031654 original size:13 final size:13
Alignment explanation
Indices: 98031636--98031661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98031626 GCCTCAATTC
98031636 TACAAGAGTTCGA
1 TACAAGAGTTCGA
98031649 TACAAGAGTTCGA
1 TACAAGAGTTCGA
98031662 ATACCCCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
TACAAGAGTTCGA
Found at i:98043381 original size:21 final size:21
Alignment explanation
Indices: 98043326--98043381 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
98043316 TTAAATTACT
*
98043326 AAAAAAT-TTTATTAAATTCA
1 AAAAAATATTTATTAAAATCA
98043346 AAAATAATA-TT-TTAAAAT-A
1 AAAA-AATATTTATTAAAATCA
98043365 AAAAAATATTTACTTAA
1 AAAAAATATTTA-TTAA
98043382 TAGTCATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.13
19 7 0.23
20 10 0.33
21 9 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATATTTATTAAAATCA
Found at i:98048364 original size:20 final size:19
Alignment explanation
Indices: 98048341--98048389 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
98048331 AATTATATTG
*
98048341 AATTGAAAAAATATATAATT
1 AATTGAAAAAATAT-GAATT
98048361 AATT-AATTAAAATATGAATT
1 AATTGAA--AAAATATGAATT
98048381 AATTGAAAA
1 AATTGAAAA
98048390 CTGAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (19 bp):
AATTGAAAAAATATGAATT
Found at i:98048532 original size:12 final size:12
Alignment explanation
Indices: 98048515--98048539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98048505 GCCGACTACT
98048515 GTTACTGTTACC
1 GTTACTGTTACC
98048527 GTTACTGTTACC
1 GTTACTGTTACC
98048539 G
1 G
98048540 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:98048639 original size:47 final size:47
Alignment explanation
Indices: 98048580--98048671 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
98048570 CTGTTACCGT
** *
98048580 TACTGTTACTGTTTTGGATTTGTTCCGATGAGTTACTCTGTGTACTG
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACTG
98048627 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTAC
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTAC
98048672 CGTATTGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACTG
Found at i:98048639 original size:53 final size:52
Alignment explanation
Indices: 98048568--98048692 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 52
98048558 TGGATATTGT
* * *
98048568 TACTGTTACCGTTACTGTTACTGTTTTGGATTTGTTCCGATGAGTTACTCTGTG
1 TACTG-TACTGTTACTGTTACTG-TTCGGATTTGTTCCGATGAGGTACTCTGTG
98048622 TACTGTACTGTTACTGTT-C----CGGATTTGTTCCGATGAGGTACTCTGTG
1 TACTGTACTGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTG
* * * *
98048669 TACCGTATTGCTACTATTACTGTT
1 TACTGTACTGTTACTGTTACTGTT
98048693 ACTGTTTCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
47 40 0.68
48 1 0.02
52 1 0.02
53 12 0.20
54 5 0.08
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (52 bp):
TACTGTACTGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTG
Found at i:98048897 original size:18 final size:18
Alignment explanation
Indices: 98048814--98048899 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
98048804 AAAGATCGAC
* *
98048814 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
98048833 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
98048851 TATTCCTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
98048869 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
*
98048887 TGTTATTGAATAA
1 TGTTACTGAATAA
98048900 ATAATCGTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 42 0.76
19 13 0.24
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:98048897 original size:36 final size:37
Alignment explanation
Indices: 98048811--98048899 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
98048801 TGGAAAGATC
*
98048811 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
* * * *
98048848 GATTATTCCTGAATAA-TTGATTGTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
*
98048884 GACTGTTATTGAATAA
1 GACTGTTACTGAATAA
98048900 ATAATCGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 30 0.70
37 13 0.30
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:98050149 original size:49 final size:49
Alignment explanation
Indices: 98050088--98050269 Score: 233
Period size: 49 Copynumber: 3.7 Consensus size: 49
98050078 AAAGCTATCT
98050088 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
* * * * * *
98050137 GGTACACGTAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTT-GTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTC
** *
98050187 GGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
*
98050237 GGTA-ACGTAGTAGCCTGCACTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
98050270 CGTGACCTCA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
48 27 0.24
49 41 0.37
50 9 0.08
51 35 0.31
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
Found at i:98050225 original size:100 final size:99
Alignment explanation
Indices: 98050094--98050274 Score: 335
Period size: 100 Copynumber: 1.8 Consensus size: 99
98050084 ATCTGGTACA
* *
98050094 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTATCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA-ACGTAGTAGCCTGCACT
98050159 TAGTACTACACACGTGATCGAAGTTGTCGGGTATG
65 TAGTACTACACACGTGATCGAAGTTGTCGGGTATG
98050194 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAACGTAGTAGCCTGCACTT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAACGTAGTAGCCTGCACTT
98050259 AGTACTACACACGTGA
66 AGTACTACACACGTGA
98050275 CCTCACAATA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
99 33 0.42
100 46 0.58
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTGTCGGGTATG
Found at i:98051378 original size:13 final size:13
Alignment explanation
Indices: 98051360--98051385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98051350 GCCCAAACGT
98051360 CGAAATTTTCAAA
1 CGAAATTTTCAAA
98051373 CGAAATTTTCAAA
1 CGAAATTTTCAAA
98051386 AAATCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:98051673 original size:91 final size:90
Alignment explanation
Indices: 98051510--98051772 Score: 322
Period size: 91 Copynumber: 2.9 Consensus size: 90
98051500 TTAAGGCCTG
* * *
98051510 AACTAGGCAATTGTT-TCTACATTGGGGCTTAGA-ATTTTTTTATCCAAGTTAGTCCTTGAGCTT
1 AACTAGACAATTGTTCTCTACATTGGGGCTTAAACATTTTTTT-TCCAAGTTAGTCCTTGAACTT
* *
98051573 GGCAATTGTTCCCATATTAGGGCCCA
65 GACAATTGTTCCCATATTAGGGCACA
*
98051599 AACTAGACAATTGTTCTC-ACATTGTGGCTTAAACATTTTTTTTGTCCAAGTTAGTCCTTGAACT
1 AACTAGACAATTGTTCTCTACATTGGGGCTTAAACA-TTTTTTT-TCCAAGTTAGTCCTTGAACT
* **
98051663 TGACAATTGTTCCCACATTAGGGCATG
64 TGACAATTGTTCCCATATTAGGGCACA
* * *
98051690 AACTAGACAATTATTC-CTACATTGGGGCTTGAAC-TTTTTTTTCTAAGTTAGTCCTTGAACTTG
1 AACTAGACAATTGTTCTCTACATTGGGGCTTAAACATTTTTTTTCCAAGTTAGTCCTTGAACTT-
* *
98051753 GA-ATTTGTTCTCATATTAGG
65 GACAATTGTTCCCATATTAGG
98051773 TTTAAACTTG
Statistics
Matches: 152, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
88 35 0.23
89 36 0.24
90 4 0.03
91 77 0.51
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (90 bp):
AACTAGACAATTGTTCTCTACATTGGGGCTTAAACATTTTTTTTCCAAGTTAGTCCTTGAACTTG
ACAATTGTTCCCATATTAGGGCACA
Found at i:98051692 original size:31 final size:31
Alignment explanation
Indices: 98051657--98051725 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
98051647 AGTTAGTCCT
*
98051657 TGAACTTGACAATTGTTCCCACATTAGGGCA
1 TGAACTTGACAATTATTCCCACATTAGGGCA
* * * *
98051688 TGAACTAGACAATTATTCCTACATTGGGGCT
1 TGAACTTGACAATTATTCCCACATTAGGGCA
98051719 TGAACTT
1 TGAACTT
98051726 TTTTTTCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (31 bp):
TGAACTTGACAATTATTCCCACATTAGGGCA
Found at i:98058889 original size:25 final size:24
Alignment explanation
Indices: 98058854--98058936 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 24
98058844 ATACATAAAT
*
98058854 ATAATACAAAAGCATGCAAATCACA
1 ATAATAAAAAAGCAT-CAAATCACA
*
98058879 ATAATAAAAAA-AAT-AATATCACA
1 ATAATAAAAAAGCATCAA-ATCACA
*
98058902 ATAATATATACAAATGCATACAAAACACA
1 ATAATA-A-A-AAA-GCAT-CAAATCACA
98058931 ATAATA
1 ATAATA
98058937 TCACTTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
22 2 0.04
23 12 0.26
24 3 0.07
25 11 0.24
26 3 0.07
28 2 0.04
29 11 0.24
30 2 0.04
ACGTcount: A:0.61, C:0.14, G:0.04, T:0.20
Consensus pattern (24 bp):
ATAATAAAAAAGCATCAAATCACA
Found at i:98062601 original size:71 final size:69
Alignment explanation
Indices: 98062487--98062642 Score: 203
Period size: 71 Copynumber: 2.3 Consensus size: 69
98062477 GTTATTTTAA
* * *
98062487 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGA-TCATTGTTTT
98062549 CTAT-
65 CTATG
*
98062553 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATCGTTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATCGTTATGATCATTGTT
98062618 TTCTATG
63 TTCTATG
*
98062625 GTTATATCTGCATGAAAT
1 GTTATATTTGCATGAAAT
98062643 GATGATGCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 6 0.08
67 7 0.09
68 3 0.04
69 1 0.01
70 5 0.06
71 49 0.63
72 7 0.09
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGATCATTGTTTTC
TATG
Found at i:98071095 original size:24 final size:24
Alignment explanation
Indices: 98071062--98071107 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
98071052 TAATAAATAT
98071062 ATATTATTAA-AATATTAATATTGA
1 ATATTATTAATAATA-TAATATTGA
*
98071086 ATATTTTTAATAATATAATATT
1 ATATTATTAATAATATAATATT
98071108 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATTATTAATAATATAATATTGA
Found at i:98071097 original size:16 final size:15
Alignment explanation
Indices: 98071076--98071125 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
98071066 TATTAAAATA
98071076 TTAATATTGAATATTT
1 TTAATATT-AATATTT
98071092 TTAATAATATAATATTAT
1 TTAAT-AT-TAATATT-T
*
98071110 TTAAAATTAATATTT
1 TTAATATTAATATTT
98071125 T
1 T
98071126 AAAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
17 10 0.33
18 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATATTAATATTT
Found at i:98071128 original size:14 final size:16
Alignment explanation
Indices: 98071085--98071131 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
98071075 ATTAATATTG
98071085 AATATTTTTAATAATAT
1 AATATTTTTAA-AATAT
98071102 AATATTATTTAAAAT-T
1 AATATT-TTTAAAATAT
*
98071118 AATATTTTAAAAAT
1 AATATTTTTAAAAT
98071132 TTATTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
17 9 0.32
18 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTTTAAAATAT
Found at i:98082990 original size:32 final size:29
Alignment explanation
Indices: 98082927--98083001 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
98082917 TTCATACTGT
* *
98082927 TTTATGTAAATATTGTTCTTTTAAATGTA
1 TTTATGTATATATTCTTCTTTTAAATGTA
* *
98082956 TTTATATGTATATATATCTTCTTTTGAATTTA
1 -TT-TATGTATATAT-TCTTCTTTTAAATGTA
98082988 TTTATGTATATATT
1 TTTATGTATATATT
98083002 ATTGTCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.33
31 12 0.31
32 13 0.33
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (29 bp):
TTTATGTATATATTCTTCTTTTAAATGTA
Found at i:98083247 original size:13 final size:13
Alignment explanation
Indices: 98083199--98083245 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
98083189 ACATACATTA
98083199 TTCATTTAGAAAT
1 TTCATTTAGAAAT
98083212 TTCATTTAGAAAT
1 TTCATTTAGAAAT
* *
98083225 TTCATTTATACAT
1 TTCATTTAGAAAT
98083238 TTCATTTA
1 TTCATTTA
98083246 TATATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (13 bp):
TTCATTTAGAAAT
Found at i:98084431 original size:3 final size:3
Alignment explanation
Indices: 98084423--98084584 Score: 132
Period size: 3 Copynumber: 52.3 Consensus size: 3
98084413 ATTTTTATCG
* * * *
98084423 TAT TAT TAT TAT TAT CAC TAT TAT TAT TAT T-T TAC TAT TAT AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* ** *
98084468 TAACG TAT TAT TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT CCT CAT
1 T-A-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
98084516 TAT TAC TAT TAT TAT TAT TAT T-T TATT TAT TAGT CTAT T-T TTT TGCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T -TAT TAT TAT T-AT
98084563 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
98084585 CCTTTTTTTT
Statistics
Matches: 131, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
2 6 0.05
3 108 0.82
4 12 0.09
5 5 0.04
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:98085336 original size:22 final size:22
Alignment explanation
Indices: 98085291--98085336 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
98085281 GTTTTTATGT
**
98085291 ATTATTTATTTGAAATTGTCTC
1 ATTATTTATTTGAAAGGGTCTC
* *
98085313 ATTATTTATTTTAAAGGGTTTC
1 ATTATTTATTTGAAAGGGTCTC
98085335 AT
1 AT
98085337 GTTGTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (22 bp):
ATTATTTATTTGAAAGGGTCTC
Found at i:98087697 original size:22 final size:24
Alignment explanation
Indices: 98087669--98087723 Score: 87
Period size: 22 Copynumber: 2.4 Consensus size: 24
98087659 ATATATTATG
*
98087669 AATTTATTAATCTAAA-TTATTAT
1 AATTTATTAATCTAAATTTATAAT
98087692 -ATTTATTAATCTAAATTTATAAT
1 AATTTATTAATCTAAATTTATAAT
98087715 AATTTATTA
1 AATTTATTA
98087724 TATTTATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 15 0.52
23 6 0.21
24 8 0.28
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTAATCTAAATTTATAAT
Found at i:98089545 original size:21 final size:21
Alignment explanation
Indices: 98089519--98089601 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
98089509 TGATCAGTAT
*
98089519 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
98089540 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
98089561 ACGACATACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
98089583 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
98089602 GATCGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:98090015 original size:15 final size:15
Alignment explanation
Indices: 98089985--98090037 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
98089975 TATATTATAT
* *
98089985 AATTAAATCAATATA
1 AATTCAATCAAAATA
*
98090000 AATTCAATTAAAATA
1 AATTCAATCAAAATA
* *
98090015 ATTTCAATCAATATA
1 AATTCAATCAAAATA
98090030 AATTCAAT
1 AATTCAAT
98090038 AAATTCATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTCAATCAAAATA
Found at i:98091145 original size:9 final size:9
Alignment explanation
Indices: 98091131--98091157 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
98091121 CAAAACTTTG
98091131 TTCTAAAAC
1 TTCTAAAAC
98091140 TTCTAAAAC
1 TTCTAAAAC
98091149 TTCTAAAAC
1 TTCTAAAAC
98091158 ATCAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
TTCTAAAAC
Found at i:98091241 original size:22 final size:22
Alignment explanation
Indices: 98091216--98091262 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
98091206 AAGCTTCAAA
98091216 CCTTCAATT-TTCCCTTTTCTCC
1 CCTTC-ATTCTTCCCTTTTCTCC
* *
98091238 CCTTCTTTCTTCCTTTTTCTCC
1 CCTTCATTCTTCCCTTTTCTCC
98091260 CCT
1 CCT
98091263 GCTCTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.04, C:0.43, G:0.00, T:0.53
Consensus pattern (22 bp):
CCTTCATTCTTCCCTTTTCTCC
Found at i:98104011 original size:15 final size:16
Alignment explanation
Indices: 98103991--98104020 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
98103981 ATTGTAATAT
98103991 TTTTTAATA-AAAAAA
1 TTTTTAATACAAAAAA
98104006 TTTTTAATACAAAAA
1 TTTTTAATACAAAAA
98104021 CCTTCGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTTAATACAAAAAA
Found at i:98107033 original size:10 final size:10
Alignment explanation
Indices: 98107017--98107055 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
98107007 AATTTTAGCT
98107017 TTTATCTTTA
1 TTTATCTTTA
*
98107027 ATTATCTTTA
1 TTTATCTTTA
98107037 TTTAT-TTGTA
1 TTTATCTT-TA
98107047 TTTATCTTT
1 TTTATCTTT
98107056 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:98109462 original size:33 final size:33
Alignment explanation
Indices: 98109398--98109470 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
98109388 GCTAATATGT
* ** *
98109398 TTGATTTCCAACAGTAGATACAACGGTAAACAG
1 TTGATTTCCAACAGTAAATACAACGACAAACAC
* *
98109431 TTGATTTCCAACAGTAAATTCTACGACAAACAC
1 TTGATTTCCAACAGTAAATACAACGACAAACAC
98109464 TTGATTT
1 TTGATTT
98109471 TCAAAAGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
TTGATTTCCAACAGTAAATACAACGACAAACAC
Found at i:98110889 original size:24 final size:23
Alignment explanation
Indices: 98110857--98110915 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
98110847 GGCAACCCAA
98110857 TTTTTATTTTTTTATTATTCT-TT
1 TTTTTATTTTTTTATTATT-TATT
*
98110880 CTTTTTATTTTATTATTATTTATT
1 -TTTTTATTTTTTTATTATTTATT
*
98110904 ATTTTATTTTTT
1 TTTTTATTTTTT
98110916 AAAATATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTTTATTATTTATT
Found at i:98112175 original size:95 final size:96
Alignment explanation
Indices: 98112011--98112207 Score: 297
Period size: 95 Copynumber: 2.1 Consensus size: 96
98112001 AATTATTTTT
* *
98112011 AAAAAATTAGGATTGTATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
1 AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
* *
98112076 ATCAAAATGTTCAATATGTTCTTAAG-AAAA
66 ATCAAAAGGTTCAATATATTCTTAAGTAAAA
* * * * * *
98112106 TAAAAATTAGGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCTC
1 AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
98112171 ATCAAAAGGTTCAATATATTCTTAAGTAAAA
66 ATCAAAAGGTTCAATATATTCTTAAGTAAAA
98112202 AAAAAA
1 AAAAAA
98112208 GATGTATTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 81 0.90
96 9 0.10
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (96 bp):
AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
ATCAAAAGGTTCAATATATTCTTAAGTAAAA
Found at i:98112842 original size:10 final size:10
Alignment explanation
Indices: 98112826--98112864 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
98112816 AATTTTAGCT
98112826 TTTATCTTTA
1 TTTATCTTTA
*
98112836 ATTATCTTTA
1 TTTATCTTTA
98112846 TTTAT-TTATA
1 TTTATCTT-TA
98112856 TTTATCTTT
1 TTTATCTTT
98112865 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:98113652 original size:41 final size:38
Alignment explanation
Indices: 98113591--98113671 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 38
98113581 ATTTTTGAAA
*
98113591 TTTCAATCAAAACTTTTAATTTTAATTTTATTTTATTTTT
1 TTTCAATCAAAACTTTTAATTCT-ATTTT-TTTTATTTTT
*
98113631 TTTCAAATCATAACTTTTAATTCTATTTTTTTTATTTTT
1 TTTC-AATCAAAACTTTTAATTCTATTTTTTTTATTTTT
98113670 TT
1 TT
98113672 CCCAGGTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 12 0.32
40 9 0.24
41 17 0.45
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTCAATCAAAACTTTTAATTCTATTTTTTTTATTTTT
Found at i:98114210 original size:25 final size:25
Alignment explanation
Indices: 98114176--98114226 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
98114166 TAAGGTGTTC
98114176 AAAAGTAATTTTTGAAATAAATTCG
1 AAAAGTAATTTTTGAAATAAATTCG
98114201 AAAAGTAATTTTTGAAATAAATTCG
1 AAAAGTAATTTTTGAAATAAATTCG
98114226 A
1 A
98114227 GAGCATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (25 bp):
AAAAGTAATTTTTGAAATAAATTCG
Found at i:98115411 original size:3 final size:3
Alignment explanation
Indices: 98115403--98115437 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
98115393 TATAACCCAT
98115403 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98115438 TTGTTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:98115845 original size:78 final size:78
Alignment explanation
Indices: 98115716--98115873 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
98115706 GTAGGTATTG
* *
98115716 ATACTAAATCAATATCTTTCTGAAAATTGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
1 ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
98115781 GTATCGATAATTA
66 GTATCGATAATTA
* *
98115794 ATACTAAATCAATACCTTTCTGAAAATCGATACTAAAATTTAATTATTTTTTTTGTAAAATAATG
1 ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
98115859 GTATCGATAATTA
66 GTATCGATAATTA
98115872 AT
1 AT
98115874 TTATGGTATC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (78 bp):
ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
GTATCGATAATTA
Found at i:98118122 original size:15 final size:15
Alignment explanation
Indices: 98118102--98118132 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98118092 TTAGGTTTTG
98118102 ATCACTAAATTTTAA
1 ATCACTAAATTTTAA
98118117 ATCACTAAATTTTAA
1 ATCACTAAATTTTAA
98118132 A
1 A
98118133 AAAGTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
ATCACTAAATTTTAA
Found at i:98121645 original size:31 final size:31
Alignment explanation
Indices: 98121610--98121679 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
98121600 AAAAAAAAAA
* *
98121610 TTCATTTTAGGTATTGTCATTAAAAA-CTATT
1 TTCATTTTAGGCATTGCCATTAAAAATC-ATT
98121641 TTCATTTTAGGCATTGCCATTAAAAATCATT
1 TTCATTTTAGGCATTGCCATTAAAAATCATT
98121672 TTCATTTT
1 TTCATTTT
98121680 GGTCACCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (31 bp):
TTCATTTTAGGCATTGCCATTAAAAATCATT
Found at i:98121754 original size:5 final size:5
Alignment explanation
Indices: 98121741--98121788 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
98121731 TTAATTTTTA
* *
98121741 AAAAA AAAAT AAAATT AAAAAT AAAAT TAAA- AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
98121789 TTTTCCCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 3 0.08
5 28 0.76
6 2 0.05
7 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98121759 original size:6 final size:6
Alignment explanation
Indices: 98121739--98121785 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
98121729 AATTAATTTT
* * *
98121739 TAAAAA -AAAAA TAAAAT TAAAAA TAAAAT TAAAAA AATAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAA
98121786 TAATTTTCCC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:98121785 original size:12 final size:12
Alignment explanation
Indices: 98121739--98121785 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
98121729 AATTAATTTT
98121739 TAAAA-AAAAAA
1 TAAAATAAAAAA
*
98121750 TAAAATTAAAAA
1 TAAAATAAAAAA
98121762 TAAAATTAAAAAAA
1 TAAAA-T-AAAAAA
98121776 TAAAATAAAA
1 TAAAATAAAA
98121786 TAATTTTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 5 0.16
12 14 0.45
13 2 0.06
14 10 0.32
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:98122610 original size:10 final size:10
Alignment explanation
Indices: 98122595--98122625 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
98122585 ATATATGAAA
98122595 TCAATCATAT
1 TCAATCATAT
98122605 TCAATCATAT
1 TCAATCATAT
98122615 TCAATCATAT
1 TCAATCATAT
98122625 T
1 T
98122626 GTCCCTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (10 bp):
TCAATCATAT
Found at i:98124076 original size:24 final size:24
Alignment explanation
Indices: 98124049--98124102 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
98124039 CCGTTAGCGG
98124049 GAAGCTCATA-CAAGCCAATATCGA
1 GAAGCTCA-AGCAAGCCAATATCGA
* *
98124073 GAAGTTCAAGCGAGCCAATATCGA
1 GAAGCTCAAGCAAGCCAATATCGA
98124097 GAAGCT
1 GAAGCT
98124103 TCAGAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (24 bp):
GAAGCTCAAGCAAGCCAATATCGA
Found at i:98124152 original size:25 final size:24
Alignment explanation
Indices: 98124122--98124261 Score: 113
Period size: 25 Copynumber: 5.7 Consensus size: 24
98124112 TATTAAGTTA
*
98124122 GGAAGCTCATAAGAGTCAGTTATCG
1 GGAAGCTCATAAGAGCCA-TTATCG
*
98124147 GGAAGCGCCA-AAGAGCCAATTATCG
1 GGAAGC-TCATAAGAGCC-ATTATCG
* *
98124172 GGAAGCTCATAAGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATTATCG
** * * *
98124196 GGAAGCTCGCAATAACCATGTAACG
1 GGAAGCTCATAAGAGCCAT-TATCG
98124221 GGAAGCT-ATAGAGAGCCATATATCG
1 GGAAGCTCATA-AGAGCCAT-TATCG
* *
98124246 GGATGTTCATAAGAGC
1 GGAAGCTCATAAGAGC
98124262 TGCGGTGTGT
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
24 23 0.25
25 62 0.68
26 6 0.07
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATTATCG
Found at i:98128095 original size:10 final size:9
Alignment explanation
Indices: 98128052--98128103 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
98128042 CATTTAGTTA
98128052 AATTTTTAT
1 AATTTTTAT
* *
98128061 AATTTTAAA
1 AATTTTTAT
*
98128070 AATAATTTAT
1 AAT-TTTTAT
98128080 AATTTTTAT
1 AATTTTTAT
*
98128089 GAATTTTTAA
1 -AATTTTTAT
98128099 AATTT
1 AATTT
98128104 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
AATTTTTAT
Found at i:98128097 original size:19 final size:19
Alignment explanation
Indices: 98128051--98128103 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
98128041 ACATTTAGTT
98128051 AAATTTTTATAA-TTTTAA
1 AAATTTTTATAATTTTTAA
* *
98128069 AAATAATTTATAATTTTTAT
1 AAAT-TTTTATAATTTTTAA
* *
98128089 GAATTTTTAAAATTT
1 AAATTTTTATAATTT
98128104 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATTTTTATAATTTTTAA
Found at i:98130556 original size:16 final size:17
Alignment explanation
Indices: 98130537--98130569 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98130527 AAAACCCACT
*
98130537 AAACCC-ACTAAGCCTA
1 AAACCCAACAAAGCCTA
98130553 AAACCCAACAAAGCCTA
1 AAACCCAACAAAGCCTA
98130570 CCCACATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.36, G:0.06, T:0.09
Consensus pattern (17 bp):
AAACCCAACAAAGCCTA
Found at i:98131633 original size:13 final size:13
Alignment explanation
Indices: 98131615--98131641 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98131605 TTCGTTATCA
98131615 TTGTCATTTTATT
1 TTGTCATTTTATT
98131628 TTGTCATTTTATT
1 TTGTCATTTTATT
98131641 T
1 T
98131642 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TTGTCATTTTATT
Found at i:98134928 original size:8 final size:8
Alignment explanation
Indices: 98134915--98134944 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
98134905 GAATTTAGAA
98134915 GAATTGGT
1 GAATTGGT
98134923 GAATTGGT
1 GAATTGGT
98134931 GAATTTGGT
1 GAA-TTGGT
98134940 GAATT
1 GAATT
98134945 AAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:98136188 original size:35 final size:35
Alignment explanation
Indices: 98136149--98136217 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
98136139 ACCATGGTTG
98136149 ATCCATAGAAAAG-TGTGAAACATAGGTATGGTATC
1 ATCCATA-AAAAGTTGTGAAACATAGGTATGGTATC
*** *
98136184 ATCCATACTGAGTTGTGAAACGTAGGTATGGTAT
1 ATCCATAAAAAGTTGTGAAACATAGGTATGGTAT
98136218 TATCAAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 2 0.07
35 27 0.93
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (35 bp):
ATCCATAAAAAGTTGTGAAACATAGGTATGGTATC
Found at i:98137458 original size:39 final size:39
Alignment explanation
Indices: 98137399--98137577 Score: 286
Period size: 39 Copynumber: 4.6 Consensus size: 39
98137389 ATCGTGATCT
* * * *
98137399 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
98137438 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
98137477 GAAGCTCGAAGGTTAATTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
98137516 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
98137555 GAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
98137578 TCATTAGAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:98139718 original size:25 final size:24
Alignment explanation
Indices: 98139689--98139742 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
98139679 ATAATGAAGA
*
98139689 TAATACCTTAATAACAATGATATGG
1 TAATACATTAATAACAAT-ATATGG
* *
98139714 TAATACATTAATAATAATATATGT
1 TAATACATTAATAACAATATATGG
98139738 TAATA
1 TAATA
98139743 ACAATAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (24 bp):
TAATACATTAATAACAATATATGG
Found at i:98140124 original size:3 final size:3
Alignment explanation
Indices: 98139804--98140104 Score: 85
Period size: 3 Copynumber: 102.7 Consensus size: 3
98139794 GATAATATGT
* * * * *
98139804 TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA -AA -AGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
98139848 AAA TAA TAG TAA TAA TGA TAA TAA TAA TAG TAA TAA AACA TAGA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA
* * * * * * *
98139894 AAA AAA GAA -CA TAA CAA TAA -AA GTAA TGA TAA TAA CT-A TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA
* * * *
98139938 TGA TAA CAA T-A TAA -AA TTAA TGA T-A TAA TAA T-G TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** ** * * * *
98139980 TAG GCA -AA TAA GCA TAA AAA GAA -AA T-A TAA TCA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
98140025 TTG TAG TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA CAA TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
98140072 T-A TAA CTAA GTAA TAA TAA TAA TGAA -AA TAA TA
1 TAA TAA -TAA -TAA TAA TAA TAA T-AA TAA TAA TA
98140105 CTGGCGGTAA
Statistics
Matches: 218, Mismatches: 58, Indels: 44
0.68 0.18 0.14
Matches are distributed among these distances:
2 26 0.12
3 175 0.80
4 17 0.08
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:98140404 original size:7 final size:7
Alignment explanation
Indices: 98140387--98140487 Score: 71
Period size: 7 Copynumber: 14.0 Consensus size: 7
98140377 GTTAATAAGG
98140387 ATAAT-A
1 ATAATAA
98140393 ATAATAA
1 ATAATAA
98140400 ATAATAA
1 ATAATAA
98140407 ATAATAA
1 ATAATAA
*
98140414 ACAAT-A
1 ATAATAA
* *
98140420 GTACTAA
1 ATAATAA
*
98140427 ATTAATTA
1 A-TAATAA
98140435 ATAATAA
1 ATAATAA
98140442 AGTAATAA
1 A-TAATAA
98140450 ATAAATAA
1 AT-AATAA
*
98140458 ATGAAAAA
1 AT-AATAA
* *
98140466 AAAAGAA
1 ATAATAA
*
98140473 AAAATATA
1 ATAATA-A
98140481 ATAATAA
1 ATAATAA
98140488 TATGAAATCA
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.11
7 37 0.49
8 30 0.40
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (7 bp):
ATAATAA
Found at i:98140552 original size:3 final size:3
Alignment explanation
Indices: 98140546--98140589 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
98140536 AAAATGGTGG
98140546 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
98140590 GTGTTTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:98150624 original size:18 final size:18
Alignment explanation
Indices: 98150591--98150659 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
98150581 CCCAACTACT
* * *
98150591 GTATACGTGAACAGTACT
1 GTATACGTAAATAGTACC
*
98150609 ATATACGTAAATAGTACC
1 GTATACGTAAATAGTACC
*
98150627 GTATACATAAATAGTACC
1 GTATACGTAAATAGTACC
*
98150645 GTATACGTGAATAGT
1 GTATACGTAAATAGT
98150660 TCCATAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:98152270 original size:14 final size:14
Alignment explanation
Indices: 98152251--98152280 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
98152241 ATAATACTTG
98152251 CAATGTAAAGAATT
1 CAATGTAAAGAATT
98152265 CAATGTAAAGAATT
1 CAATGTAAAGAATT
98152279 CA
1 CA
98152281 TCAATTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (14 bp):
CAATGTAAAGAATT
Found at i:98152693 original size:21 final size:20
Alignment explanation
Indices: 98152669--98152708 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
98152659 TATATATATA
98152669 TATATAATTTTAATATTTTTT
1 TATATAATTTTAAT-TTTTTT
**
98152690 TATATTTTTTTAATTTTTT
1 TATATAATTTTAATTTTTT
98152709 ATAATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATATAATTTTAATTTTTTT
Found at i:98152709 original size:8 final size:10
Alignment explanation
Indices: 98152676--98152708 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
98152666 ATATATATAA
*
98152676 TTTTAATATT
1 TTTTTATATT
98152686 TTTTTATATT
1 TTTTTATATT
98152696 TTTTTA-ATT
1 TTTTTATATT
98152705 TTTT
1 TTTT
98152709 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATATT
Found at i:98152713 original size:10 final size:10
Alignment explanation
Indices: 98152671--98152715 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
98152661 TATATATATA
98152671 TATAA-TTTT
1 TATAATTTTT
* *
98152680 AATATTTTTT
1 TATAATTTTT
98152690 TAT-ATTTTT
1 TATAATTTTT
98152699 T-TAATTTTT
1 TATAATTTTT
98152708 TATAATTT
1 TATAATTT
98152716 AAAAAATTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.03
9 16 0.55
10 12 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATAATTTTT
Found at i:98154036 original size:25 final size:24
Alignment explanation
Indices: 98153997--98154047 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
98153987 AACAAATAAT
98153997 TTAAAATTTATAAAATATTCAAAAAA
1 TTAAAATTTATAAAATA-T-AAAAAA
98154023 TTAAAA-TTATAAAATATAAAAAA
1 TTAAAATTTATAAAATATAAAAAA
98154046 TT
1 TT
98154048 CATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 1 0.04
25 10 0.40
26 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAATTTATAAAATATAAAAAA
Found at i:98154044 original size:16 final size:17
Alignment explanation
Indices: 98154025--98154062 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
98154015 TCAAAAAATT
98154025 AAAATT-ATAAAATATAA
1 AAAATTCATAAAATA-AA
98154042 AAAATTCATAAAATAAA
1 AAAATTCATAAAATAAA
98154059 AAAA
1 AAAA
98154063 ATAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTCATAAAATAAA
Found at i:98154045 original size:17 final size:18
Alignment explanation
Indices: 98154025--98154064 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
98154015 TCAAAAAATT
*
98154025 AAAATT-ATAAAATATAA
1 AAAATTCATAAAATAAAA
98154042 AAAATTCATAAAATAAAA
1 AAAATTCATAAAATAAAA
98154060 AAAAT
1 AAAAT
98154065 AGTATAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTCATAAAATAAAA
Found at i:98154181 original size:31 final size:32
Alignment explanation
Indices: 98154146--98154212 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
98154136 TTAAAAAAAT
* *
98154146 AATTCAACT-TTTTTTGAAAAGTTGATA-GTCA
1 AATTCAACTCTTTGTTAAAAAGTTGA-AGGTCA
*
98154177 AATTCTACTCTTTGTTAAAAAGTTGAAGGTCA
1 AATTCAACTCTTTGTTAAAAAGTTGAAGGTCA
98154209 AATT
1 AATT
98154213 TAGTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (32 bp):
AATTCAACTCTTTGTTAAAAAGTTGAAGGTCA
Found at i:98158111 original size:3 final size:3
Alignment explanation
Indices: 98158103--98158144 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
98158093 TAGTTGCTTT
98158103 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
98158145 TCTATAGCTG
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:98163806 original size:23 final size:23
Alignment explanation
Indices: 98163779--98163827 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
98163769 TTTAATTAAA
98163779 TTATT-TAAAGTAACTAAT-TTTTT
1 TTATTATAAA-TAA-TAATCTTTTT
*
98163802 TTATTATAAATAATCATCTTTTT
1 TTATTATAAATAATAATCTTTTT
98163825 TTA
1 TTA
98163828 CAAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTATAAATAATAATCTTTTT
Found at i:98164470 original size:26 final size:28
Alignment explanation
Indices: 98164427--98164480 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
98164417 ATATTGAAAT
*
98164427 CATTTAAAATTAATTTTTTAGTT-TTTA
1 CATTTAAAATTAATTTTTAAGTTATTTA
* *
98164454 CATTTAAATTTTA-TTTTAAGTTATTTA
1 CATTTAAAATTAATTTTTAAGTTATTTA
98164481 TTTAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
CATTTAAAATTAATTTTTAAGTTATTTA
Found at i:98164579 original size:29 final size:27
Alignment explanation
Indices: 98164529--98164585 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
98164519 AATATTTAAA
* *
98164529 TAAAATATATCAAAATTATAATACTAT
1 TAAAATATATAAAAATTATAATAATAT
*
98164556 TAAAATATATAAAAATAATTTAATAATAT
1 TAAAATATATAAAAAT--TATAATAATAT
98164585 T
1 T
98164586 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
29 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAATATATAAAAATTATAATAATAT
Found at i:98168854 original size:24 final size:24
Alignment explanation
Indices: 98168807--98168855 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
98168797 TACCTTCCCC
* *
98168807 AAGGTGTCGATATTTTAGGTATGT
1 AAGGTATCGATATCTTAGGTATGT
98168831 AAGGTATCGATATCTT-GGTCATGT
1 AAGGTATCGATATCTTAGGT-ATGT
98168855 A
1 A
98168856 TCTGGGTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.39
Consensus pattern (24 bp):
AAGGTATCGATATCTTAGGTATGT
Found at i:98170828 original size:13 final size:12
Alignment explanation
Indices: 98170800--98170827 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
98170790 TCTCTAACAC
98170800 AAAATAGTTAAA
1 AAAATAGTTAAA
98170812 AAAATAGTTAAA
1 AAAATAGTTAAA
98170824 AAAA
1 AAAA
98170828 AAACTGACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (12 bp):
AAAATAGTTAAA
Found at i:98171052 original size:18 final size:19
Alignment explanation
Indices: 98171029--98171066 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
98171019 TCATTTGGGG
*
98171029 AAGAAAGGAGAGAA-AAGA
1 AAGAAAGAAGAGAAGAAGA
98171047 AAGAAAGAAGAGAAGAAGA
1 AAGAAAGAAGAGAAGAAGA
98171066 A
1 A
98171067 GGAGCAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAGAAGAAGA
Found at i:98171147 original size:10 final size:10
Alignment explanation
Indices: 98171132--98171161 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
98171122 AAGAGGGAGG
98171132 GAAGGAAAAA
1 GAAGGAAAAA
98171142 GAAGGAAAAA
1 GAAGGAAAAA
98171152 GAAGGAAAAA
1 GAAGGAAAAA
98171162 TAGGGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAGGAAAAA
Found at i:98171912 original size:19 final size:19
Alignment explanation
Indices: 98171890--98171928 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
98171880 TTGTTTTATA
*
98171890 ATTTTATTTCTTA-TTTAAT
1 ATTTTAATT-TTATTTTAAT
98171909 ATTTTAATTTTATTTTAAT
1 ATTTTAATTTTATTTTAAT
98171928 A
1 A
98171929 ATGCATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTATTTTAAT
Found at i:98172078 original size:216 final size:212
Alignment explanation
Indices: 98171705--98172159 Score: 759
Period size: 216 Copynumber: 2.1 Consensus size: 212
98171695 AAACAAACCA
** *
98171705 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGATTA
* *
98171770 TATATATAGATATTTACGCATGTATCACATTACAAAAATAAAAATTAAAATACTTATACATAATA
66 TATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATAATTATACATAATA
98171835 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
131 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
98171900 TTATTTAATATTTTAAT
196 TTATTTAATATTTTAAT
* * *
98171917 TTTATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGTAGATTCACTTATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGA-T-
* * *
98171982 TATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATAATTATATC-
64 TATATATATAGAT--ATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATAATTATA-CA
98172046 TAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTT
126 TAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTT
98172111 ATTTCTTATTTAATATTTTAAT
191 ATTTCTTATTTAATATTTTAAT
98172133 TTAATTTTAATAATGCATACTTTATCC
1 TTAATTTTAATAATGCATACTTTATCC
98172160 GGTAGCAGTA
Statistics
Matches: 226, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
212 56 0.25
213 1 0.00
214 12 0.05
216 156 0.69
217 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (212 bp):
TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGATTA
TATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATAATTATACATAATA
AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
TTATTTAATATTTTAAT
Found at i:98172643 original size:33 final size:31
Alignment explanation
Indices: 98172587--98172700 Score: 78
Period size: 32 Copynumber: 3.6 Consensus size: 31
98172577 AAATAGTATA
* * *
98172587 AAAAAAGAAAATATGAAACA-AATATATTAATG
1 AAAAAATAAAATACGAAA-AGAA-ATAATAATG
98172619 AAAAAATAAAATACGAAAAGAAATAGA-ATATG
1 AAAAAATAAAATACGAAAAGAAATA-ATA-ATG
*
98172651 AAAAAAATAGAATA--AAATACGAAA-AATAAT-
1 -AAAAAATAAAATACGAAA-A-GAAATAATAATG
98172681 ATAAAAATAAAATACGAAAA
1 A-AAAAATAAAATACGAAAA
98172701 TAGTATATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
29 1 0.01
30 11 0.16
31 12 0.18
32 27 0.40
33 16 0.24
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.18
Consensus pattern (31 bp):
AAAAAATAAAATACGAAAAGAAATAATAATG
Found at i:98172648 original size:17 final size:16
Alignment explanation
Indices: 98172619--98172664 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
98172609 TATATTAATG
*
98172619 AAAAAATAAAATACGA
1 AAAAAATAGAATACGA
*
98172635 AAAGAAATAGAATATGA
1 AAA-AAATAGAATACGA
98172652 AAAAAATAGAATA
1 AAAAAATAGAATA
98172665 AAATACGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (16 bp):
AAAAAATAGAATACGA
Found at i:98172660 original size:16 final size:16
Alignment explanation
Indices: 98172575--98172664 Score: 71
Period size: 16 Copynumber: 5.8 Consensus size: 16
98172565 ACTATTTTAT
98172575 AAAAATAG--TAT-AA
1 AAAAATAGAATATGAA
* *
98172588 AAAAAGAAAATATGAA
1 AAAAATAGAATATGAA
* * *
98172604 ACAAATATATTAATG-A
1 AAAAATAGAAT-ATGAA
* *
98172620 AAAAATAAAATACGAA
1 AAAAATAGAATATGAA
98172636 AAGAAATAGAATATGAA
1 AA-AAATAGAATATGAA
98172653 AAAAATAGAATA
1 AAAAATAGAATA
98172665 AAATACGAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
13 6 0.10
15 5 0.08
16 31 0.53
17 17 0.29
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (16 bp):
AAAAATAGAATATGAA
Found at i:98172669 original size:21 final size:22
Alignment explanation
Indices: 98172623--98172700 Score: 62
Period size: 25 Copynumber: 3.7 Consensus size: 22
98172613 TTAATGAAAA
98172623 AATAAAATACGAAAAGA-AATAG
1 AATAAAATACGAAAA-ATAATAG
98172645 AAT---AT--GAAAAA-AATAG
1 AATAAAATACGAAAAATAATAG
*
98172661 AATAAAATACGAAAAATAATATAAA
1 AATAAAATACGAAAAAT-A-AT-AG
98172686 AATAAAATACGAAAA
1 AATAAAATACGAAAA
98172701 TAGTATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
19 4 0.09
21 6 0.13
22 3 0.07
23 1 0.02
24 2 0.04
25 16 0.35
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
AATAAAATACGAAAAATAATAG
Found at i:98172895 original size:137 final size:136
Alignment explanation
Indices: 98172673--98173012 Score: 538
Period size: 137 Copynumber: 2.5 Consensus size: 136
98172663 TAAAATACGA
* *
98172673 AAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCAAAAATTTTAAAA
1 AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAA
* * *
98172738 ATATAAACAAAGGGACAAAAT-TAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
66 ATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
98172802 TGTACT
131 TGTACT
* *
98172808 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATTAAAATCCGAATATTTTAG
1 AAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAA-TAAAATCCGAAAATTTTAA
*
98172873 AAATACAAACAAAGAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
64 AAATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
98172938 TATGTACT
129 TATGTACT
* * * *
98172946 AAAATAAGATAAAAATAAAATATGAAAATAATATATTTTAAAAAATAGAATCTGAAAATTTTAAA
1 AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATTTTAAA
98173011 AA
65 AA
98173013 ATTTAGAAAT
Statistics
Matches: 187, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
135 9 0.05
136 34 0.18
137 82 0.44
138 62 0.33
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (136 bp):
AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAA
ATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
TGTACT
Found at i:98174046 original size:44 final size:44
Alignment explanation
Indices: 98173983--98174071 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
98173973 TGCCACTGAA
98173983 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
98174027 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
98174071 A
1 A
98174072 GGGGGTGTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
Found at i:98175984 original size:41 final size:41
Alignment explanation
Indices: 98175906--98175984 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
98175896 ATGTTTGTGA
* * *
98175906 TGTTCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGACTT
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
* *
98175947 TGTTCGGGCTTCGTGCCTAGC-AGGCTTACTGCCGGTGA
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTT-CTGCCGGTGA
98175985 ATGAATTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (41 bp):
TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
Found at i:98178512 original size:63 final size:63
Alignment explanation
Indices: 98178444--98178594 Score: 293
Period size: 63 Copynumber: 2.4 Consensus size: 63
98178434 TAGTCTACTA
*
98178444 ATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACTTTGCAATATAATTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
98178507 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
98178570 ATATAAATTAAATACATTACAACAT
1 ATATAAATTAAATACATTACAACAT
98178595 AAGCTCAATT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 87 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (63 bp):
ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
Found at i:98181120 original size:32 final size:32
Alignment explanation
Indices: 98181079--98181142 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
98181069 CTGTCGAAAT
98181079 AGGAAACTTGTAAAAAAGTTTCGAGATCCTTC
1 AGGAAACTTGTAAAAAAGTTTCGAGATCCTTC
98181111 AGGAAACTTGTAAAAAAGTTTCGAGATCCTTC
1 AGGAAACTTGTAAAAAAGTTTCGAGATCCTTC
98181143 TCCCGCAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (32 bp):
AGGAAACTTGTAAAAAAGTTTCGAGATCCTTC
Found at i:98181860 original size:27 final size:27
Alignment explanation
Indices: 98181830--98181885 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
98181820 TCATCAACTG
* * *
98181830 GTGCCGCCTATGGCAGAGGCAAGACCA
1 GTGCCGCCTATGACAAAGGCAAGAACA
*
98181857 GTGCCGCCTCTGACAAAGGCAAGAACA
1 GTGCCGCCTATGACAAAGGCAAGAACA
98181884 GT
1 GT
98181886 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.30, T:0.12
Consensus pattern (27 bp):
GTGCCGCCTATGACAAAGGCAAGAACA
Found at i:98186912 original size:23 final size:24
Alignment explanation
Indices: 98186876--98186921 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
98186866 TATATACTAA
98186876 ATATATATATTTTTATTTTTAATC
1 ATATATATATTTTTATTTTTAATC
*
98186900 ATATTTATA-TTTTATTTTTAAT
1 ATATATATATTTTTATTTTTAAT
98186922 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATATATTTTTATTTTTAATC
Done.