Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 64 of 211
Found at i:17104798 original size:20 final size:19
Alignment explanation
Indices: 17104739--17104799 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
17104729 ATTATACTTT
*
17104739 AAATA-TTTTAA-ATTTT-
1 AAATATTTTTAATTTTTTA
17104755 AAATATTTTTAATTTTTTA
1 AAATATTTTTAATTTTTTA
*
17104774 TAATATTTTTAATTTTTTTA
1 AAATATTTTTAA-TTTTTTA
17104794 AAATAT
1 AAATAT
17104800 ATTATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 5 0.13
17 6 0.16
18 4 0.11
19 11 0.29
20 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATATTTTTAATTTTTTA
Found at i:17104908 original size:29 final size:30
Alignment explanation
Indices: 17104848--17104911 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
17104838 GTTTTATAAT
*** *
17104848 ATTTTAAATATATATTTTAATTTTTTTTTA
1 ATTTTAAATATATATTTTAATAAATTATTA
*
17104878 ATTTTAAATATAT-TTTTTATAAATTATTA
1 ATTTTAAATATATATTTTAATAAATTATTA
17104907 ATTTT
1 ATTTT
17104912 TTAAATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTAAATATATATTTTAATAAATTATTA
Found at i:17104963 original size:21 final size:22
Alignment explanation
Indices: 17104939--17104979 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17104929 ATATTCAGAC
*
17104939 ATTTTTTAAAATTAA-ATTTAA
1 ATTTTTAAAAATTAATATTTAA
17104960 ATTTTTAAAAATTAATATTT
1 ATTTTTAAAAATTAATATTT
17104980 TATTTGGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTTAAAAATTAATATTTAA
Found at i:17107601 original size:24 final size:25
Alignment explanation
Indices: 17107574--17107622 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17107564 TAACAGGTGA
*
17107574 CTCTGAAGAGCTAT-TATCAGGAAG
1 CTCTGAAGAGCCATATATCAGGAAG
* *
17107598 CTCTGGATAGCCATATATCAGGAAG
1 CTCTGAAGAGCCATATATCAGGAAG
17107623 TTCAAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
CTCTGAAGAGCCATATATCAGGAAG
Found at i:17112317 original size:21 final size:22
Alignment explanation
Indices: 17112293--17112353 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
17112283 TTTTATATTA
17112293 TTAAAAAATAATATTTAAAA-T
1 TTAAAAAATAATATTTAAAATT
17112314 TT-AAAAA-AATATTTAAAATTT
1 TTAAAAAATAATATTTAAAA-TT
17112335 TTAAAAAATAAT-TTTAAAA
1 TTAAAAAATAATATTTAAAA
17112354 ATATTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 5 0.14
22 12 0.33
23 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAAAATAATATTTAAAATT
Found at i:17112324 original size:19 final size:20
Alignment explanation
Indices: 17112296--17112389 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 20
17112286 TATATTATTA
17112296 AAAAATAATATTTAAAA-TTT
1 AAAAA-AATATTTAAAATTTT
17112316 AAAAAAATATTTAAAATTTT
1 AAAAAAATATTTAAAATTTT
*
17112336 -TAAAAA-A--T--AATTTT
1 AAAAAAATATTTAAAATTTT
*
17112350 AAAAATATTTATTTAAAATTTT
1 AAAAA-A-ATATTTAAAATTTT
17112372 AAAAAATATATTATAAAA
1 AAAAAA-ATATT-TAAAA
17112390 CCTTTCAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 6 0.10
15 3 0.05
16 2 0.03
18 2 0.03
19 16 0.27
20 9 0.15
21 6 0.10
22 16 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAAATATTTAAAATTTT
Found at i:17112383 original size:21 final size:23
Alignment explanation
Indices: 17112344--17112389 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
17112334 TTTAAAAAAT
*
17112344 AATTTTAAAAATATTTATT-TAA
1 AATTTTAAAAATATATATTATAA
17112366 AATTTTAAAAA-ATATATTATAA
1 AATTTTAAAAATATATATTATAA
17112388 AA
1 AA
17112390 CCTTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAAAAATATATATTATAA
Found at i:17112446 original size:9 final size:8
Alignment explanation
Indices: 17112426--17112515 Score: 53
Period size: 8 Copynumber: 11.2 Consensus size: 8
17112416 TTAAATCAAT
17112426 AATAAAAA
1 AATAAAAA
17112434 AATAAACAA
1 AATAAA-AA
*
17112443 AAT-AAAT
1 AATAAAAA
*
17112450 AAT-GAAA
1 AATAAAAA
17112457 AATAAAAA
1 AATAAAAA
*
17112465 AAGTAAATA
1 AA-TAAAAA
* *
17112474 AGTAAATA
1 AATAAAAA
17112482 AATAAAAA
1 AATAAAAA
**
17112490 CTTTAAAAA
1 -AATAAAAA
17112499 AA-AGAAAA
1 AATA-AAAA
17112507 AA-AAAAA
1 AATAAAAA
17112514 AA
1 AA
17112516 GGACAAATCA
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
7 16 0.25
8 32 0.49
9 17 0.26
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:17112461 original size:23 final size:23
Alignment explanation
Indices: 17112431--17112489 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
17112421 TCAATAATAA
17112431 AAAAATAAACAAAA-TAAATAATG
1 AAAAATAAA-AAAAGTAAATAATG
*
17112454 AAAAATAAAAAAAGTAAATAAGTA
1 AAAAATAAAAAAAGTAAATAA-TG
17112478 AATAAATAAAAA
1 AA-AAATAAAAA
17112490 CTTTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 4 0.12
23 16 0.50
24 3 0.09
25 9 0.28
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (23 bp):
AAAAATAAAAAAAGTAAATAATG
Found at i:17122084 original size:20 final size:21
Alignment explanation
Indices: 17122036--17122095 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
17122026 CACAATACAT
17122036 TATT-TTTTAAATTATTATAAA
1 TATTGTTTTAAA-TATTATAAA
*
17122057 TA-TGTTTTAAAT-TTATCAA
1 TATTGTTTTAAATATTATAAA
17122076 TATTGTTTTAAATATATATA
1 TATTGTTTTAAATAT-TATA
17122096 TAATTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 8 0.24
20 12 0.36
21 10 0.30
22 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTGTTTTAAATATTATAAA
Found at i:17125708 original size:113 final size:111
Alignment explanation
Indices: 17125558--17126058 Score: 818
Period size: 113 Copynumber: 4.5 Consensus size: 111
17125548 CGAAAAAGAA
* * *
17125558 AAAAAACAAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCATCCAGTACACAGTACAAA
1 AAAAAA-ATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
17125623 GAAAAAAAAATTTTATTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
65 G-AAAAAAAA-TTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
*
17125671 AAAAAAATAAAAAAAAATTTTGGGTGATGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
17125736 GAAAAAAAATTTATTCTTTTTCATGTCAGAATCAGATAAAAAAATACG
65 GAAAAAAAATTTATT-TTTTTCGTGTCAGAATCAGATAAAAAAATACG
17125784 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAAT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
17125849 GAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
65 G-AAAAAAAATTTA-TTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
17125898 AAAAAAATGAAAAAAAAATTTGGGTGCTGGCCTGTCAA--G--GGCACCCAGTACACAGTACAAA
1 AAAAAAAT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
17125959 GAAAAAAAATTTAGTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
65 GAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
17126005 -AAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 AAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
17126059 AATTTTAAAA
Statistics
Matches: 369, Mismatches: 9, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
105 29 0.08
106 7 0.02
107 11 0.03
108 22 0.06
109 25 0.07
110 23 0.06
111 6 0.02
112 39 0.11
113 116 0.31
114 89 0.24
115 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (111 bp):
AAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
AAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
Found at i:17125877 original size:114 final size:112
Alignment explanation
Indices: 17125557--17126116 Score: 813
Period size: 113 Copynumber: 5.0 Consensus size: 112
17125547 ACGAAAAAGA
* * *
17125557 AAAAAAACAAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCATCCAGTACACAGTACAA
1 AAAAAAA-TAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
17125622 AGAAAAAAAAATTT-TATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
65 AG-AAAAAAAATTTAT-TTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* *
17125671 AAAAAAATAAAAAAAAATTTTGGGTGATGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
* *
17125736 GAAAAAAAATTTATTCTTTTTCATGTCAGAATCAGATAAAAAAATACG
66 GAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
17125784 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
17125849 GAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
66 G-AAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
*
17125898 AAAAAAATGAAAAAAAAATTTGGGTGCTGGCCTGTCAA--G--GGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
17125959 GAAAAAAAATTTA-GTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 GAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
***
17126005 -AAAAAAT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA-A--A-TTT
1 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
* * **
17126064 TAAAAAAAA-TTATTTTCTTTTCGTGTCAGAGTCAGATATAAATTTACG
66 GAAAAAAAATTTATTTT-TTTTCGTGTCAGAATCAGATA-AAAAATACG
17126112 AAAAA
1 AAAAA
17126117 TATGCGCTAT
Statistics
Matches: 414, Mismatches: 21, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
104 3 0.01
105 39 0.09
106 28 0.07
107 18 0.04
108 27 0.07
109 25 0.06
110 23 0.06
112 33 0.08
113 129 0.31
114 89 0.21
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (112 bp):
AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
GAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:17127690 original size:114 final size:113
Alignment explanation
Indices: 17127321--17128132 Score: 1008
Period size: 113 Copynumber: 7.2 Consensus size: 113
17127311 TATATATGAT
* * * *
17127321 TGTACTGGGTGTCGGCCATTGACAGACCAGCAACCAAAAAAATTTTTTATTTATTTTTCTTCGTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGC-ACC--CAAAA-TTTTT-TTTATTTTTTTTCGTA
******
17127386 TTTTTTTATCTGATTCTGACAC-AAAAAAAT-AATTTTTTTTTCCTTTGTACTG
61 TTTTTTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTT-CTTTGTACTG
*
17127438 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTATTATTATTTTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT-TTTTTATTTTTTTTCGTATTTT
******
17127503 TTTATCTGATTCTGACACGAAAAAAAT-AATTTTTTTTTCTTTGTACTG
65 TTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
*
17127551 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTAATTTTTTTTCGTATTCT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT-ATTTTTTTTCGTATTTT
*
17127616 TTTATTTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
65 TTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
* *
17127665 TGTACTGGGTGCCGGCCATTAACAGGCCAACACCCAAAATTTTTTTT-TTATTTTTTACGTA-TT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTATT-TTTTTT-CGTATTT
* *
17127728 TTTTATCTGATTCTGACATGAAAAAAATAAAAAAAAA-AT-TTTGTACTG
64 TTTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
* *
17127776 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTATTATTA-TTTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT-TTTTTATTTTTTTTCGTATTTT
* * *
17127840 TTTATCTGATTTTGACACG-AAAAAA-AATAAAAAATTT-TTT-T-CTT
65 TTTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
* * * *
17127884 TGTATTGGGTGCCGGCCATTGACAGGGCAGCACCCAAAATTTTTTTTAATTTTTTTCGTATTCTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTATTTTTTTTCGTATTTTT
17127949 TTATCTGATTCTGACACGAAAAAAATAAAAATAAAAAAATTTTCTTTGTACTG
66 TTATCTGATTCTGACACGAAAAAAAT---AA-AAAAAAA-TTTCTTTGTACTG
*
17128002 TGTACTGGGTGCCGGCCATTAACAGGCCAGCACCCAAAAATTTTTTTT-TATTTTTTTCGTATTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTTTAT-TTTTTTTCGTATTT
* *
17128066 TTTTATCTGATTCTAACATGAAAAAAAAATAAAAAAAAA-TT-TTTGTACTG
64 TTTTATCTGATTCTGACACG--AAAAAAATAAAAAAAAATTTCTTTGTACTG
*
17128116 TGTACTGGGTGCTGGCC
1 TGTACTGGGTGCCGGCC
17128133 TGTCAATGGG
Statistics
Matches: 625, Mismatches: 45, Indels: 53
0.86 0.06 0.07
Matches are distributed among these distances:
107 5 0.01
108 73 0.12
109 15 0.02
110 14 0.02
111 74 0.12
112 12 0.02
113 177 0.28
114 120 0.19
115 5 0.01
116 6 0.01
117 37 0.06
118 36 0.06
119 43 0.07
121 8 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (113 bp):
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTATTTTTTTTCGTATTTTT
TTATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTCTTTGTACTG
Found at i:17134230 original size:21 final size:21
Alignment explanation
Indices: 17134205--17134248 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
17134195 TTTTGTTACA
17134205 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
17134226 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
17134247 AT
1 AT
17134249 TCTTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGGCTTCTACAGATTCATCC
Found at i:17139005 original size:23 final size:23
Alignment explanation
Indices: 17138957--17139005 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
17138947 AAGCGGCAGC
* *
17138957 GAAACAACATTAAAAGCAATAGT
1 GAAACAACATTAAAAGCAACAAT
*
17138980 GAAACAACATTACAAA-CGACAAT
1 GAAACAACATTA-AAAGCAACAAT
17139003 GAA
1 GAA
17139006 TCAGCACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.14
Consensus pattern (23 bp):
GAAACAACATTAAAAGCAACAAT
Found at i:17153177 original size:17 final size:17
Alignment explanation
Indices: 17153136--17153180 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
17153126 TAAAACCTCA
*
17153136 ATAAATGAAT-AT-TCG
1 ATAAATTAATAATCTCG
17153151 ATAAATTAATAATCTCG
1 ATAAATTAATAATCTCG
17153168 ATTAAA-TAATAAT
1 A-TAAATTAATAAT
17153181 TTTTTTCGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 2 0.08
17 11 0.42
18 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (17 bp):
ATAAATTAATAATCTCG
Found at i:17155095 original size:43 final size:43
Alignment explanation
Indices: 17155026--17155277 Score: 290
Period size: 43 Copynumber: 5.9 Consensus size: 43
17155016 TTTTAGAAAT
*
17155026 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
17155069 AAACGCCGCTATAGATCAGGATCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
17155112 AAACGCCGCTATAGATCAGGACCTATAGCGGCGCTTCT-ACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* ** * * **
17155154 AAACGCCGCTATAGCTTGGGATCTTTAGAGGCGCTTTTCTAAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * ** *
17155197 AAATGCCGCTATAGCTCAAGACCTTTAGCGGAACTTTTACCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
17155240 AAACGTCGCTATAGATCAAAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATC-AGGACCTTTAGCGGCGCTTT
17155278 GATTACAAAC
Statistics
Matches: 173, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
42 34 0.20
43 122 0.71
44 17 0.10
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:17155190 original size:85 final size:85
Alignment explanation
Indices: 17155026--17155257 Score: 295
Period size: 85 Copynumber: 2.7 Consensus size: 85
17155016 TTTTAGAAAT
* *
17155026 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-ACACAAACGCCGCTATAGATCAGGAT
*
17155091 CTTTAGCAGCGCTTTTCCCAC
65 CTTTAGCAGCGCTTTTCCAAC
* * * * **
17155112 AAACGCCGCTATAGATCAGGACCTATAGCGGCGCTTCTACACAAACGCCGCTATAGCTTGGGATC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGATC
*
17155177 TTTAG-AGGCGCTTTTCTAAC
66 TTTAGCA-GCGCTTTTCCAAC
* * ** *
17155197 AAATGCCGCTATAGCTCAAGACCTTTAGCGGAACTTTTACCACAAACGTCGCTATAGATCA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTA-CACAAACGCCGCTATAGATCA
17155258 AAGACCTTTA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.01
85 71 0.57
86 52 0.42
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGATC
TTTAGCAGCGCTTTTCCAAC
Found at i:17155387 original size:16 final size:16
Alignment explanation
Indices: 17155366--17155399 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17155356 AAATATTAAA
*
17155366 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
17155382 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
17155398 TA
1 TA
17155400 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:17155660 original size:15 final size:15
Alignment explanation
Indices: 17155640--17155669 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17155630 ATCTTCATCT
17155640 TCATCTTCATCTTCA
1 TCATCTTCATCTTCA
*
17155655 TCATCTTCTTCTTCA
1 TCATCTTCATCTTCA
17155670 CTTTCAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATCTTCATCTTCA
Found at i:17155664 original size:18 final size:18
Alignment explanation
Indices: 17155630--17155665 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17155620 GAAATGGATT
*
17155630 ATCTTCATCTTCATCTTC
1 ATCTTCATCATCATCTTC
*
17155648 ATCTTCATCATCTTCTTC
1 ATCTTCATCATCATCTTC
17155666 TTCACTTTCA
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:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCTTCATCATCATCTTC
Found at i:17155668 original size:6 final size:6
Alignment explanation
Indices: 17155630--17155656 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17155620 GAAATGGATT
17155630 ATCTTC ATCTTC ATCTTC ATCTTC ATC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATC
17155657 ATCTTCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
ATCTTC
Found at i:17160034 original size:47 final size:47
Alignment explanation
Indices: 17159982--17160083 Score: 152
Period size: 47 Copynumber: 2.1 Consensus size: 47
17159972 ATGCATAGGT
* *
17159982 TTTTTTAAGTTATATTTATAAAAATTAGATAAAATTAAAAA-TTTAAG
1 TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTT-AG
*
17160029 TTTTTTAAGTAATATTTTTAAAAAATAGATAAAATTAAAAAGTTTAG
1 TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTTAG
17160076 TGTTTTTA
1 T-TTTTTA
17160084 TTTCATTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
47 41 0.82
48 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (47 bp):
TTTTTTAAGTAATATTTATAAAAAATAGATAAAATTAAAAAGTTTAG
Found at i:17160112 original size:15 final size:17
Alignment explanation
Indices: 17160078--17160118 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
17160068 AAGTTTAGTG
17160078 TTTTTATTTCATTTTCA
1 TTTTTATTTCATTTTCA
*
17160095 TTTTT-TTT-ATTTTTA
1 TTTTTATTTCATTTTCA
17160110 -TTTTATTTC
1 TTTTTATTTC
17160119 TTATAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 3 0.14
17 5 0.24
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTCATTTTCA
Found at i:17160602 original size:14 final size:14
Alignment explanation
Indices: 17160583--17160609 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17160573 CTTAATTAAA
17160583 CCATAATCCCTAAT
1 CCATAATCCCTAAT
17160597 CCATAATCCCTAA
1 CCATAATCCCTAA
17160610 ACCCATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:17160866 original size:22 final size:21
Alignment explanation
Indices: 17160818--17160883 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
17160808 AACCCTAAAT
*
17160818 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTAAACCCCTAAC
** *
17160839 ATCTAACTCATAAACCCCTGAC
1 CCCTAACTC-TAAACCCCTAAC
17160861 CCCTAAGC-CTTAAACCCC-AAC
1 CCCTAA-CTC-TAAACCCCTAAC
17160882 CC
1 CC
17160884 TTAATTAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.32, C:0.45, G:0.03, T:0.20
Consensus pattern (21 bp):
CCCTAACTCTAAACCCCTAAC
Found at i:17160913 original size:17 final size:17
Alignment explanation
Indices: 17160887--17160929 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17160877 CCAACCCTTA
*
17160887 ATTAAACCATAATCCCT
1 ATTAATCCATAATCCCT
17160904 ATTAATCCATAATCCCT
1 ATTAATCCATAATCCCT
17160921 A--AATCCATA
1 ATTAATCCATA
17160930 TATACTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.32
17 17 0.68
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAATCCATAATCCCT
Found at i:17160944 original size:19 final size:19
Alignment explanation
Indices: 17160920--17160956 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17160910 CCATAATCCC
*
17160920 TAAATCCATATATACTCCT
1 TAAATCCATAAATACTCCT
17160939 TAAATCCATAAATACTCC
1 TAAATCCATAAATACTCC
17160957 CTAACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATCCATAAATACTCCT
Found at i:17161510 original size:114 final size:114
Alignment explanation
Indices: 17161309--17161846 Score: 889
Period size: 114 Copynumber: 4.7 Consensus size: 114
17161299 ATTAAACACT
* * ** *
17161309 GCTAAATCCCCGAAAGCGCAAAAAAAGGCGTCGTTTTGGCTTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
** * * *
17161374 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCGCTTTCTTAAAAACGCA
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
17161423 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
17161488 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
* * *
17161537 GCTAAATCCCCGAAAGCTCAC-AAACTGCGTCGTTTTGTATTAAGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
* *
17161601 AAAACGCCGCTAAAGCCTTGAGCATTAGCGGCACTTTATTAAAAACGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
17161650 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
* * *
17161715 AAAACGCCGCTAAAGCTTAGAGCATTAGCGGCGCTTTCTTAAAAATGCC
66 AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
*
17161764 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
*
17161829 AAAACGCCGCTAATGCTT
66 AAAACGCCGCTAAAGCTT
17161847 ATTGTTAGCG
Statistics
Matches: 398, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
113 108 0.27
114 290 0.73
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (114 bp):
GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCA
AAAACGCCGCTAAAGCTTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
Found at i:17161731 original size:227 final size:227
Alignment explanation
Indices: 17161309--17161841 Score: 904
Period size: 227 Copynumber: 2.3 Consensus size: 227
17161299 ATTAAACACT
* * ** * *
17161309 GCTAAATCCCCGAAAGCGCAAAAAAAGGCGTCGTTTTGGCTTAGGTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTC-ACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
* *
17161374 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAG
65 AAAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAG
17161439 CTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
130 CTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
*
17161504 TTTGAGCATTAGCGGCGCTTTATTAAAAACGCC
195 TTAGAGCATTAGCGGCGCTTTATTAAAAACGCC
* *
17161537 GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGTATTAAGTTTTTTGTGGCGCTTTCTCAA
1 GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCAA
* * *
17161602 AAACGCCGCTAAAGCCTTGAGCATTAGCGGCACTTTATTAAAAACGCCGCTAAATCCCCGAAAGC
66 AAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAGC
17161667 TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
131 TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
* *
17161732 TAGAGCATTAGCGGCGCTTTCTTAAAAATGCC
196 TAGAGCATTAGCGGCGCTTTATTAAAAACGCC
17161764 GCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
1 GCTAAATCCCCGAAAGCTCAC-AAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCA
17161829 AAAACGCCGCTAA
65 AAAACGCCGCTAA
17161842 TGCTTATTGT
Statistics
Matches: 286, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
227 214 0.75
228 72 0.25
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (227 bp):
GCTAAATCCCCGAAAGCTCACAAACTGCGTCGTTTTGGATTAGGTTTTTTGTGGCGCTTTCTCAA
AAACGCCGCTAAAGCCCTGAGCATTAACGGCACTTTATTAAAAACGCAGCTAAATCCCCGAAAGC
TCACAAAACTGCGTCGTTTTGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCT
TAGAGCATTAGCGGCGCTTTATTAAAAACGCC
Found at i:17162151 original size:38 final size:35
Alignment explanation
Indices: 17162097--17162170 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 35
17162087 TTTTGAAACC
*
17162097 ATTAACTCTTTTTTTTTTTTGGTTACATGAACCAATTA
1 ATTAACTC--TTTCTTTTTT-GTTACATGAACCAATTA
*
17162135 ATTAACTGTTTCTTTTTTGTTACATGAACCAATTA
1 ATTAACTCTTTCTTTTTTGTTACATGAACCAATTA
17162170 A
1 A
17162171 CTCCGATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 18 0.53
36 9 0.26
38 7 0.21
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (35 bp):
ATTAACTCTTTCTTTTTTGTTACATGAACCAATTA
Found at i:17162297 original size:27 final size:27
Alignment explanation
Indices: 17162250--17162313 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
17162240 AAATATTTTC
17162250 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
17162276 TAAATTAATAAAATATTTATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
17162303 TAAACTAATAA
1 TAAATTAATAA
17162314 CCTCGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:17162746 original size:21 final size:22
Alignment explanation
Indices: 17162706--17162746 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17162696 ACTTTTTTAA
17162706 TTATATATTATAAATGATATTT
1 TTATATATTATAAATGATATTT
* *
17162728 TTATAT-TTTTAATTGATAT
1 TTATATATTATAAATGATAT
17162747 AATATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TTATATATTATAAATGATATTT
Found at i:17167567 original size:15 final size:15
Alignment explanation
Indices: 17167547--17167575 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17167537 ATCGTCATCA
17167547 TCATCTTCTTCTTCT
1 TCATCTTCTTCTTCT
17167562 TCATCTTCTTCTTC
1 TCATCTTCTTCTTC
17167576 AATGATTTGT
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:0.07, C:0.34, G:0.00, T:0.59
Consensus pattern (15 bp):
TCATCTTCTTCTTCT
Found at i:17172927 original size:32 final size:31
Alignment explanation
Indices: 17172882--17172977 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
17172872 CTTAGATAAT
17172882 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
17172913 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
17172945 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
17172976 TT
1 TT
17172978 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:17173550 original size:21 final size:21
Alignment explanation
Indices: 17173524--17173603 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
17173514 TTAAATAAAA
17173524 GCAAAAAAAACAGCAAAAAGC
1 GCAAAAAAAACAGCAAAAAGC
* * *
17173545 GCAAAAAAGAGAGTAAAAAGC
1 GCAAAAAAAACAGCAAAAAGC
*
17173566 GCAAAAAAAAAAAGCAAAAA--
1 GC-AAAAAAAACAGCAAAAAGC
*
17173586 GCAAAAAAAGC-GCAAAAA
1 GCAAAAAAAACAGCAAAAA
17173604 AAAAGTTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 7 0.14
19 7 0.14
20 2 0.04
21 20 0.40
22 14 0.28
ACGTcount: A:0.69, C:0.14, G:0.16, T:0.01
Consensus pattern (21 bp):
GCAAAAAAAACAGCAAAAAGC
Found at i:17176679 original size:32 final size:31
Alignment explanation
Indices: 17176634--17176729 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
17176624 CTTAGATAAT
17176634 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
17176665 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
17176697 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
17176728 TT
1 TT
17176730 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:17187054 original size:14 final size:16
Alignment explanation
Indices: 17187031--17187067 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
17187021 AAGAAGAAAG
17187031 AATA-AAATAT-TAAA
1 AATAGAAATATATAAA
17187045 AA-AGAAATATATAAA
1 AATAGAAATATATAAA
17187060 AATAGAAA
1 AATAGAAA
17187068 ACAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 8 0.40
15 6 0.30
16 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AATAGAAATATATAAA
Found at i:17187777 original size:20 final size:19
Alignment explanation
Indices: 17187752--17187794 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
17187742 AAAATTACAA
17187752 AAAATTTAATAAATAAAAAT
1 AAAATTTAA-AAATAAAAAT
* *
17187772 AAAATTCTAAAACTAAAACT
1 AAAATT-TAAAAATAAAAAT
17187792 AAA
1 AAA
17187795 GGCTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTTAAAAATAAAAAT
Found at i:17187899 original size:9 final size:9
Alignment explanation
Indices: 17187887--17187934 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
17187877 AATTCAGTTT
*
17187887 ATTCGGGTG
1 ATTCGGGTA
17187896 ATTCGGGTA
1 ATTCGGGTA
17187905 ATTCGGGTA
1 ATTCGGGTA
* *
17187914 ATTTGAGTA
1 ATTCGGGTA
*
17187923 ATTCGGTTA
1 ATTCGGGTA
17187932 ATT
1 ATT
17187935 AGGTTAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.23, C:0.08, G:0.29, T:0.40
Consensus pattern (9 bp):
ATTCGGGTA
Found at i:17188283 original size:32 final size:32
Alignment explanation
Indices: 17188247--17188310 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
17188237 ATTATGCCAC
17188247 TAAAAAATTTA-GTGATACAATAGTAAGATATA
1 TAAAAAATTTACG-GATACAATAGTAAGATATA
17188279 TAAAAAATTTACGGATACAATAGTAAGATATA
1 TAAAAAATTTACGGATACAATAGTAAGATATA
17188311 ATATACTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (32 bp):
TAAAAAATTTACGGATACAATAGTAAGATATA
Found at i:17189132 original size:19 final size:21
Alignment explanation
Indices: 17189103--17189141 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17189093 ATTTAAATTA
17189103 AAAATAATATT-TTTTATTTT
1 AAAATAATATTATTTTATTTT
17189123 AAAA-AATATTATTTTATTT
1 AAAATAATATTATTTTATTT
17189142 AGTGAAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAATAATATTATTTTATTTT
Found at i:17189167 original size:107 final size:108
Alignment explanation
Indices: 17189009--17189283 Score: 283
Period size: 110 Copynumber: 2.6 Consensus size: 108
17188999 TTTATTTTAA
* * * * *
17189009 TTTT-TTTT-AAAAATGTTATTTTATTTGGCGGACCCATTTTAAATGGCGCCATCAGTGTAA-T-
1 TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAACTA
* * * *
17189070 CTACC-TTTTTTTAAATTTTTTTAATTTA-AATTAAAAATAATATT
66 CCACCATGTTTTT---TTTTTTAAATTTAGAATTAAAAATAAAATT
** * * *
17189114 TTTTATTTTAAAAAATATTATTTTATTTAGTGAAGTCATTTTGAATGGTGCCATTAATGTAACCT
1 TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAA-CT
*
17189179 ACCACCATGTTTTTTTTTTTAAATTTAGAATTAAAATTAAAATT
65 ACCACCATGTTTTTTTTTTTAAATTTAGAATTAAAAATAAAATT
* * * * *
17189223 TTTTAATTTTAAAAAATATTATCTTATTTAGTGGAGCCATTCTAAATGGCGCCACCAATGT
1 TTTT-ATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGT
17189284 TATCATCGTG
Statistics
Matches: 139, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
105 4 0.03
106 4 0.03
107 42 0.30
108 12 0.09
109 19 0.14
110 52 0.37
111 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (108 bp):
TTTTATTTTAAAAAATATTATTTTATTTAGTGAACCCATTTTAAATGGCGCCATCAATGTAACTA
CCACCATGTTTTTTTTTTTAAATTTAGAATTAAAAATAAAATT
Found at i:17189319 original size:110 final size:106
Alignment explanation
Indices: 17189085--17189319 Score: 242
Period size: 110 Copynumber: 2.2 Consensus size: 106
17189075 TTTTTTTAAA
* * *
17189085 TTTTTTT-AATTTA-AATTAAAAATAATATTTTTTATTTTAAAAAATATTATTTTATTTAGTGAA
1 TTTTTTTAAATTAAGAATTAAAAATAAAATTTTTTATTTTAAAAAATATTATCTTATTTAGTGAA
* * * * **
17189148 GTCATTTTGAATGGTGCCATTAATGTAACCTACCACCATGTTTT
66 GCCATTCTAAATGGCGCCACCAATGT-A--TACCACCATGTTTT
* * *
17189192 TTTTTTTAAATTTAGAATTAAAATTAAAATTTTTTAATTTTAAAAAATATTATCTTATTTAGTGG
1 TTTTTTTAAATTAAGAATTAAAAATAAAATTTTTT-ATTTTAAAAAATATTATCTTATTTAGTGA
* * *
17189257 AGCCATTCTAAATGGCGCCACCAATGT-TATCATCGTGTTTT
65 AGCCATTCTAAATGGCGCCACCAATGTATACCACCATGTTTT
17189298 TTTTAAATTTAAAATTAAGAAT
1 TTTT---TTT-AAATTAAGAAT
17189320 GATATTTTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
106 15 0.14
107 7 0.07
108 6 0.06
109 21 0.20
110 58 0.54
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (106 bp):
TTTTTTTAAATTAAGAATTAAAAATAAAATTTTTTATTTTAAAAAATATTATCTTATTTAGTGAA
GCCATTCTAAATGGCGCCACCAATGTATACCACCATGTTTT
Found at i:17191025 original size:42 final size:42
Alignment explanation
Indices: 17190978--17191107 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
17190968 CACAGGAGCA
* * *
17190978 CATAAGTGCTAAACAGAAACCCGTAAGGGTTGAATTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
* **
17191020 CATAAGAGCTGAAGGGAAACCCATAAGGGTTAAATTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
* * * * *
17191062 CAAAAGAGCTGAA-TGAAAACCCA-ATAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACAG-AAACCCATA-AGGGTTAAATTGAAGCT
17191104 CATA
1 CATA
17191108 TGAGTTAACT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 73 0.97
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAATTGAAGCT
Found at i:17191032 original size:21 final size:21
Alignment explanation
Indices: 17191008--17191075 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
17190998 CCGTAAGGGT
17191008 TGAATTGAAGCTCATAAGAGC
1 TGAATTGAAGCTCATAAGAGC
** * * * *
17191029 TGAAGGGAAACCCATAAGGGT
1 TGAATTGAAGCTCATAAGAGC
* *
17191050 TAAATTGAAGCTCAAAAGAGC
1 TGAATTGAAGCTCATAAGAGC
17191071 TGAAT
1 TGAAT
17191076 GAAAACCCAA
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (21 bp):
TGAATTGAAGCTCATAAGAGC
Found at i:17198596 original size:3 final size:3
Alignment explanation
Indices: 17198588--17198687 Score: 121
Period size: 3 Copynumber: 33.3 Consensus size: 3
17198578 TTATAAAAAT
17198588 ATA ATA 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 ATA ATA
* * * * * * *
17198636 ATA GTA ATA GTA ATA GTA ATA GTA ATA ATGA A-G ATA AGA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
17198681 ATA ATA A
1 ATA ATA A
17198688 CAGCGAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
2 1 0.01
3 78 0.96
4 2 0.02
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:17198937 original size:20 final size:19
Alignment explanation
Indices: 17198914--17198951 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17198904 GAAAATAAGT
*
17198914 ATAGGTAAATAAATAAAATA
1 ATAGATAAATAAA-AAAATA
17198934 ATAGATAAATAAAAAAAT
1 ATAGATAAATAAAAAAAT
17198952 GCCTTGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAGATAAATAAAAAAATA
Found at i:17198946 original size:24 final size:25
Alignment explanation
Indices: 17198883--17198952 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
17198873 TTGAAGGAAT
*
17198883 AATAATAAATAAAT-AATAAATGAA
1 AATAATAGATAAATAAATAAATGAA
**
17198907 AAT-A-AGTATAGGTAAATAAAT-AA
1 AATAATAG-ATAAATAAATAAATGAA
*
17198930 AATAATAGATAAATAAAAAAATG
1 AATAATAGATAAATAAATAAATG
17198953 CCTTGGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 22 0.63
25 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (25 bp):
AATAATAGATAAATAAATAAATGAA
Found at i:17199658 original size:5 final size:5
Alignment explanation
Indices: 17199648--17199684 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
17199638 GAAACAAACA
17199648 AAAAT AAAAT -AAAT -AAAT AAAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
17199685 TAAGTAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.27
5 17 0.57
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:17200340 original size:50 final size:49
Alignment explanation
Indices: 17200259--17200588 Score: 221
Period size: 50 Copynumber: 6.7 Consensus size: 49
17200249 TACTACATCT
* * *
17200259 TCAGAGGAAATAAGATTCGCTGTCTTTAGCTTTAATCTATTTTTCTGCAACG
1 TCAGA-GAAGTAAGATTCGCTGT-TGTAGCTTTAATCTA-TTTACTGCAACG
* * *
17200311 TCAGAGAAGTAAAATTTGCTGTTGTAGCTTTAA-CT-TGCTTCACTGCAACA
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTAT--TT-ACTGCAACG
* * * * *
17200361 TCGGGGAAGTAAGATTCGCTGTTATAGC--T--TC-A-AT-CTGTAACG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTACTGCAACG
** * * * *
17200403 TTGGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTTTACTGTAATG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCT-ATTTACTGCAACG
*
17200453 TCAGAGAAGTAAGATTCGCTGTTGTCA-CTTCAATCTCATTTACTGCAACG
1 TCAGAGAAGTAAGATTCGCTGTTGT-AGCTTTAATCT-ATTTACTGCAACG
* * * * * *
17200503 TCAGAGAAGTAAGATCCGTTGTTGTAACTTCAATCTTATTTAACTGTATCG
1 TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATC-TATTT-ACTGCAACG
* * ** *
17200554 TCTGGGAAACAAGATTCGCTGTCTTTAGCTTTAAT
1 TCAGAGAAGTAAGATTCGCTGT-TGTAGCTTTAAT
17200589 TTGTTCCACT
Statistics
Matches: 220, Mismatches: 40, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
42 31 0.14
44 1 0.00
46 2 0.01
47 2 0.01
48 1 0.00
49 6 0.03
50 124 0.56
51 39 0.18
52 14 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (49 bp):
TCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTACTGCAACG
Found at i:17200464 original size:92 final size:92
Alignment explanation
Indices: 17200314--17200488 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
17200304 TGCAACGTCA
* * * *
17200314 GAGAAGTAAAATTTGCTGTTGTAGCTTTAACTTGCTTCACTGCAACATCGGGGAAGTAAGATTCG
1 GAGAAGTAAAATTCGCTGTTGTAGCTTCAACTTGCTTCACTGCAACATCAGAGAAGTAAGATTCG
17200379 CTGTTAT-AGCTTCAATCTGTAACGTTG
66 CTGTTATCA-CTTCAATCTGTAACGTTG
* * * **
17200406 GAGAAGTAAGATTCGCTGTTGTAGCTTCAA-TCTGCTTTACTGTAATGTCAGAGAAGTAAGATTC
1 GAGAAGTAAAATTCGCTGTTGTAGCTTCAACT-TGCTTCACTGCAACATCAGAGAAGTAAGATTC
*
17200470 GCTGTTGTCACTTCAATCT
65 GCTGTTATCACTTCAATCT
17200489 CATTTACTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 1 0.01
92 69 0.97
93 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (92 bp):
GAGAAGTAAAATTCGCTGTTGTAGCTTCAACTTGCTTCACTGCAACATCAGAGAAGTAAGATTCG
CTGTTATCACTTCAATCTGTAACGTTG
Found at i:17200765 original size:46 final size:46
Alignment explanation
Indices: 17200689--17200867 Score: 243
Period size: 46 Copynumber: 3.9 Consensus size: 46
17200679 TTCCACTGCA
* * * *
17200689 ACGCCAAGGAAATGAGATTCGCTACACTCAGCTTTAATCTACCATG
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
* * *
17200735 ACGTCATGGAAATGATATTCGCTGCCCTCAGCTTTAATCTACTACG
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
* *
17200781 ATGCCATGGAAATGAGATTCGCTGA-CCTCAGCTTTAATCTAGTACG
1 ACGCCATGGAAATGAGATTCGCT-ACCCTCAGCTTTAATCTACTACG
* *
17200827 ACGCCATAGAAATGAGATTCGCTACCTTCAGCTTTAATCTA
1 ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTA
17200868 TTCCACTGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
ACGCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACG
Found at i:17200887 original size:92 final size:92
Alignment explanation
Indices: 17200662--17200887 Score: 231
Period size: 92 Copynumber: 2.4 Consensus size: 92
17200652 AAATTCATTG
* *
17200662 CCCTCAGCTTCAATTTATTCCACTGCAACGCCAAGGAAATGAGATTCGCTACACTCAGCTTTAAT
1 CCCTCAGCTTTAATCTATTCCACTGCAACGCC-----AATGAGATTCGCTACACTCAGCTTTAAT
* * * * *
17200727 CTACCATGACGTCATGGAAATGATATTCGCTG
61 CTACCACGACGCCATAGAAATGAGATTCGCTA
* * * * **
17200759 CCCTCAGCTTTAATCTACTACGA-TGCCATGGAAATGAGATTCGCTGAC-CTCAGCTTTAATCTA
1 CCCTCAGCTTTAATCTA-TTCCACTGCAACGCCAATGAGATTCGCT-ACACTCAGCTTTAATCTA
**
17200822 GTACGACGCCATAGAAATGAGATTCGCTA
64 CCACGACGCCATAGAAATGAGATTCGCTA
*
17200851 CCTTCAGCTTTAATCTATTCCACTGCAACGCCAATGA
1 CCCTCAGCTTTAATCTATTCCACTGCAACGCCAATGA
17200888 AATGATATTG
Statistics
Matches: 104, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
91 3 0.03
92 76 0.73
93 2 0.02
97 20 0.19
98 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (92 bp):
CCCTCAGCTTTAATCTATTCCACTGCAACGCCAATGAGATTCGCTACACTCAGCTTTAATCTACC
ACGACGCCATAGAAATGAGATTCGCTA
Found at i:17203455 original size:9 final size:8
Alignment explanation
Indices: 17203441--17203478 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
17203431 ACCGAATGAG
17203441 AAAAAAAT
1 AAAAAAAT
17203449 AAAAAAAT
1 AAAAAAAT
17203457 AAAAAAAT
1 AAAAAAAT
17203465 AAAAAGAAT
1 AAAAA-AAT
17203474 AAAAA
1 AAAAA
17203479 TAAAAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17203484 original size:16 final size:16
Alignment explanation
Indices: 17203439--17203484 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
17203429 GAACCGAATG
17203439 AGAA-AAAAAT-AAAA
1 AGAATAAAAATAAAAA
*
17203453 A-AATAAAAAAATAAAA
1 AGAATAAAAATA-AAAA
17203469 AGAATAAAAATAAAAA
1 AGAATAAAAATAAAAA
17203485 CTCAACAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 6 0.23
16 9 0.35
17 9 0.35
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (16 bp):
AGAATAAAAATAAAAA
Found at i:17204103 original size:18 final size:20
Alignment explanation
Indices: 17204076--17204120 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17204066 GTTTAATGGT
*
17204076 TTGGGCCTGT-ATCT-GTTA
1 TTGGGTCTGTAATCTGGTTA
*
17204094 TTGGGTCTGTAATTTGGTTA
1 TTGGGTCTGTAATCTGGTTA
17204114 TTGGGTC
1 TTGGGTC
17204121 AATTGGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.47
Consensus pattern (20 bp):
TTGGGTCTGTAATCTGGTTA
Found at i:17205089 original size:99 final size:99
Alignment explanation
Indices: 17204833--17205414 Score: 961
Period size: 99 Copynumber: 5.9 Consensus size: 99
17204823 TACAATGTTG
* * * *
17204833 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG-AAGTAAGATCC
*
17204897 GCCTTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
* * * * *
17204933 GGGAAATCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG-AAGTAAGATCC
*
17204997 GCCTTTGTGGCTTCAATCTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* * *
17205032 GGGAAACCAGATCTGCCATTGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
17205097 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
17205131 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
17205196 CCGTTGTGGCTTCAATCTTTTAATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
17205230 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
17205295 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
17205329 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
17205394 CCGTTGTGGCTTCAATCTTTT
66 CCGTTGTGGCTTCAATCTTTT
17205415 TACTTTCAAC
Statistics
Matches: 464, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
99 379 0.82
100 85 0.18
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (99 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
Found at i:17210537 original size:50 final size:50
Alignment explanation
Indices: 17210462--17210557 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
17210452 TTGCTTTATG
17210462 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
1 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
17210512 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATT
1 ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATT
17210558 TCCAGCCCAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (50 bp):
ATTTCCAGCTCAGAAGGGACGACGCGCAAATGCTCCTCTATCGATTGACT
Found at i:17214388 original size:9 final size:8
Alignment explanation
Indices: 17214374--17214417 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
17214364 ACCGAATGAG
17214374 AAAAAAAT
1 AAAAAAAT
17214382 AAAAAAAT
1 AAAAAAAT
17214390 AAAAAAAT
1 AAAAAAAT
17214398 AAAAAAA-
1 AAAAAAAT
*
17214405 ATAAAAAT
1 AAAAAAAT
17214413 AAAAA
1 AAAAA
17214418 CTCAACAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17215035 original size:18 final size:20
Alignment explanation
Indices: 17215008--17215052 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17214998 GTTTAATGGT
*
17215008 TTGGGCCTGT-ATCT-GTTA
1 TTGGGTCTGTAATCTGGTTA
*
17215026 TTGGGTCTGTAATTTGGTTA
1 TTGGGTCTGTAATCTGGTTA
17215046 TTGGGTC
1 TTGGGTC
17215053 AATTGGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.11, C:0.11, G:0.31, T:0.47
Consensus pattern (20 bp):
TTGGGTCTGTAATCTGGTTA
Found at i:17215284 original size:12 final size:12
Alignment explanation
Indices: 17215267--17215291 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17215257 GACAAAAAAA
17215267 ATCTGAAGGGAT
1 ATCTGAAGGGAT
17215279 ATCTGAAGGGAT
1 ATCTGAAGGGAT
17215291 A
1 A
17215292 GTCTCAATTT
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:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:17225459 original size:16 final size:16
Alignment explanation
Indices: 17225438--17225471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17225428 TTTTATGATG
* *
17225438 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
17225454 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
17225470 AA
1 AA
17225472 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:17226977 original size:3 final size:3
Alignment explanation
Indices: 17226958--17227033 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
17226948 TTATAAAAAT
* * * * *
17226958 ATA ATA ACA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
17227006 ATA ATGA A-G ATA AGA ATG ATA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
17227034 CAGCGAATAT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
2 1 0.02
3 52 0.95
4 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17229922 original size:47 final size:47
Alignment explanation
Indices: 17229852--17230392 Score: 434
Period size: 47 Copynumber: 11.5 Consensus size: 47
17229842 ACAACATAGG
* * * *
17229852 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAA
1 TTGGACAGCAT-T-TATACACCAAATTGGACAGCATTTATACACCAAAA
* * *
17229901 TTGGACAGCATATATACACCAAATTGGATAGCATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * *
17229948 TTGGACAGCATATATACACCGAATTAGACAACATTTATACACCAAAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * * * *
17229995 TGGGACAGCATTTATACACCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * *
17230041 TTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* * * * *
17230088 TTAGG-CAGCATTTATACATCAAAATTGAACTGCATTTATATACTAAAA
1 TT-GGACAGCATTTATACA-CCAAATTGGACAGCATTTATACACCAAAA
* * * * * *
17230136 TTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
* * * * *
17230182 TTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* *
17230229 TTAGG-CAGCATTTATACATCAAAATTGGACAGCATTTATACACTAAAA
1 TT-GGACAGCATTTATACA-CCAAATTGGACAGCATTTATACACCAAAA
* * * * * * *
17230277 TTGGACATCATTTATACATCAATTTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
** * ** * *
17230323 TTATACAGCATTTTTACACCAAAATTGGATTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACC-AAATTGGACAGCATTTATACACCAAAA
* *
17230370 TTAGG-CAACATTTATACATCAAA
1 TT-GGACAGCATTTATACACCAAA
17230393 ATTTGACATG
Statistics
Matches: 392, Mismatches: 88, Indels: 27
0.77 0.17 0.05
Matches are distributed among these distances:
46 62 0.16
47 279 0.71
48 41 0.10
49 10 0.03
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATTTATACACCAAATTGGACAGCATTTATACACCAAAA
Found at i:17230029 original size:70 final size:70
Alignment explanation
Indices: 17229852--17230392 Score: 508
Period size: 70 Copynumber: 7.7 Consensus size: 70
17229842 ACAACATAGG
* * * * * * *
17229852 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATA
1 TTGGACAGCAT-T-TATACACCAAATTGGGCAGCATATATACACC-AAATTGGACAGCATTTATA
17229917 CACC-AAA
63 CACCAAAA
* * * * * *
17229924 TTGGATAGCATTTATACATCAAAATTGGACAGCATATATACACCGAATTAGACAACATTTATACA
1 TTGGACAGCATTTATACA-CCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACA
17229989 CCAAAA
65 CCAAAA
* * * * *
17229995 TGGGACAGCATTTATACACCAATTTGGGCAGCATATATATATCAAATTGGACAGCATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
17230060 CAAAA
66 CAAAA
* * * * * * * * *
17230065 TTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGAACTGCATTTATATA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACA-CCAAATTGGACAGCATTTATACA
*
17230130 CTAAAA
65 CCAAAA
* * * * * *
17230136 TTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
17230201 CAAAA
66 CAAAA
* * * * * *
17230206 TTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAGCATTTATACA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACA-CCAAATTGGACAGCATTTATACA
*
17230271 CTAAAA
65 CCAAAA
* * * * * ** *
17230277 TTGGACATCATTTATACATCAATTTGGGCAGCATATATATATCAAATTATACAGCATTTTTACAC
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
17230342 CAAAA
66 CAAAA
** * * * * * *
17230347 TTGGATTGCATATAGACACCAAATTAGGCAACATTTATACATCAAA
1 TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAA
17230393 ATTTGACATG
Statistics
Matches: 373, Mismatches: 92, Indels: 10
0.79 0.19 0.02
Matches are distributed among these distances:
70 212 0.57
71 152 0.41
72 9 0.02
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (70 bp):
TTGGACAGCATTTATACACCAAATTGGGCAGCATATATACACCAAATTGGACAGCATTTATACAC
CAAAA
Found at i:17230151 original size:141 final size:141
Alignment explanation
Indices: 17229898--17230395 Score: 736
Period size: 141 Copynumber: 3.5 Consensus size: 141
17229888 TTTTACACCA
* * * * * *
17229898 AAATTGGACAGCATATATACACC-AAATTGGA-TAGCATTTATACATCAAAATT-GGACAGCATA
1 AAATTGGACAGCATTTTTACACCAAAATTGGACT-GCATATAGACA-CCAAATTAGG-CAGCATT
** * * * *
17229960 TATACA-CCGAATT-AGACAACATTTATACACCAAAATGGGACAGCATTTATACACCAATTTGGG
63 TATACATCAAAATTGA-ACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGG
17230023 CAGCATATATATATC
127 CAGCATATATATATC
17230038 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
* *
17230103 ACATCAAAATTGAACTGCATTTATATACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
66 ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
17230168 ATATATATATC
131 ATATATATATC
*
17230179 AAATTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
* *
17230244 ACATCAAAATTGGACAGCATTTATACACTAAAATTGGACATCATTTATACATCAATTTGGGCAGC
66 ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
17230309 ATATATATATC
131 ATATATATATC
** * *
17230320 AAATTATACAGCATTTTTACACCAAAATTGGATTGCATATAGACACCAAATTAGGCAACATTTAT
1 AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
17230385 ACATCAAAATT
66 ACATCAAAATT
17230396 TGACATGAAC
Statistics
Matches: 329, Mismatches: 24, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
140 39 0.12
141 288 0.88
142 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.29
Consensus pattern (141 bp):
AAATTGGACAGCATTTTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTAT
ACATCAAAATTGAACAGCATTTATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGC
ATATATATATC
Found at i:17231244 original size:43 final size:44
Alignment explanation
Indices: 17231178--17231290 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 44
17231168 TTATCGTACA
**
17231178 ATGCCGAC-GTCCCACAC-GTGGTCTTACAT-GCAATCATGTAA-CG
1 ATGCC-ACTGTCCCACACAG-GGTCTTACATCGCAATCA-CAAATCG
* * * *
17231221 ATGCCATTGTCCCACACAGGGTCTTA-TTCGTAATTACAAATCG
1 ATGCCACTGTCCCACACAGGGTCTTACATCGCAATCACAAATCG
17231264 ATGCCACTGTCCCACACAGGGTCTTAC
1 ATGCCACTGTCCCACACAGGGTCTTAC
17231291 TCGAAAACAC
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
42 4 0.07
43 53 0.91
44 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCACACAGGGTCTTACATCGCAATCACAAATCG
Found at i:17232178 original size:38 final size:38
Alignment explanation
Indices: 17232092--17232168 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
17232082 CTTTTCTATT
17232092 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
1 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
17232130 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
1 TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
17232168 T
1 T
17232169 GGCTTTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (38 bp):
TCTTTGTCTTTGAATTTTGACAATTACAAGAATAACTA
Found at i:17237696 original size:24 final size:24
Alignment explanation
Indices: 17237645--17238197 Score: 447
Period size: 24 Copynumber: 23.3 Consensus size: 24
17237635 ACAACATAGG
* *
17237645 TTGGGCAGCATATATATAAACC-AAA
1 TTGGACAGCAT-T-TATACACCAAAA
* *
17237670 TTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17237694 TTGGACAGCATATATACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17237717 TTGGACAACATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17237741 TTGGACAGCATTTATACATCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17237765 TTGGACAGCATATATACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17237788 TTAGACAACATTTATACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
*
17237812 TTGGACAGCATTTATACACC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * *
17237835 TTGGGCAGCATATATATATATC-AAA
1 TTGGACAGCAT-T-TATACACCAAAA
* * *
17237860 GTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* * *
17237884 TTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
*
17237907 TTAGG-CAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
* *
17237931 TTGAATC-GCATTTATACACTAAAA
1 TTGGA-CAGCATTTATACACCAAAA
* *
17237955 TTGGACAGCATTTATACATC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * * *
17237978 TTGGGCAGCATATATATATC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17238001 TTGGACAACATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* * *
17238025 TTGGACTGCATATAGACACC-AAA
1 TTGGACAGCATTTATACACCAAAA
* *
17238048 TTAGG-TAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
* * *
17238072 TTGGACAACATTTATACATC-AAT
1 TTGGACAGCATTTATACACCAAAA
* * **
17238095 TTGGGCAGCATATATATATA-TTAAA
1 TTGGACAGCAT-T-TATACACCAAAA
*
17238120 TTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACCAAAA
* *
17238144 TTGGACTA-CATATAGACACC-AAA
1 TTGGAC-AGCATTTATACACCAAAA
*
17238167 TTAGG-CAGCATTTATACATCAAAA
1 TT-GGACAGCATTTATACACCAAAA
*
17238191 TTTGACA
1 TTGGACA
17238198 CGAATCGAAT
Statistics
Matches: 418, Mismatches: 86, Indels: 49
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.00
23 164 0.39
24 209 0.50
25 44 0.11
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
TTGGACAGCATTTATACACCAAAA
Found at i:17237715 original size:47 final size:47
Alignment explanation
Indices: 17237656--17238189 Score: 440
Period size: 47 Copynumber: 11.3 Consensus size: 47
17237646 TGGGCAGCAT
* * *
17237656 ATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* *
17237703 ATATATACACCAAATTGGACAACATTTATACATCAAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * *
17237750 ATTTATACATCAAAATTGGACAGCATATATACACC-AAATTAGACAAC
1 ATATATACA-CCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * *
17237797 ATTTATACACCAAAATTGGACAGCATTTATACACC-AATTTGGGCAGC
1 ATATATACACC-AAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * * *
17237844 ATATATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGC
1 --ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * *
17237893 ATATAGACACCAAATTAGG-CAGCATTTATACATCAAAATTGAATC-GC
1 ATATATACACCAAATT-GGACAGCATTTATACACCAAAATTGGA-CAGC
* * * * *
17237940 ATTTATACACTAAAATTGGACAGCATTTATACATC-AATTTGGGCAGC
1 ATATATACAC-CAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * *
17237987 ATATATATATCAAATTGGACAACATTTTTACACCAAAATTGGACTGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * *
17238034 ATATAGACACCAAATTAGG-TAGCATTTATACATCAAAATTGGACAAC
1 ATATATACACCAAATT-GGACAGCATTTATACACCAAAATTGGACAGC
* * * * * **
17238081 ATTTATACATCAATTTGGGCAGCATATATATATA-TTAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCAT-T-TATACACCAAAATTGGACAGC
* * * *
17238129 ATTTTTACACCAAAATTGGACTA-CATATAGACACC-AAATTAGG-CAGC
1 ATATATACACC-AAATTGGAC-AGCATTTATACACCAAAATT-GGACAGC
* *
17238176 ATTTATACATCAAA
1 ATATATACACCAAA
17238190 ATTTGACACG
Statistics
Matches: 391, Mismatches: 77, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
46 27 0.07
47 242 0.62
48 89 0.23
49 32 0.08
50 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (47 bp):
ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
Found at i:17237747 original size:71 final size:69
Alignment explanation
Indices: 17237659--17238189 Score: 487
Period size: 71 Copynumber: 7.5 Consensus size: 69
17237649 GCAGCATATA
* * *
17237659 TATAAACC-AAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGAC
1 TATACACCAAAATTGGACAGCATTTATACACC-AAATTGG-CAGCATATATACACCAAATTGGAC
17237723 AACATT
64 AACATT
* * *
17237729 TATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCATATATACACCAAATTAGAC
1 TATACACCAAAATTGGACAGCATTTATACA-CCAAATTGG-CAGCATATATACACCAAATTGGAC
17237794 AACATT
64 AACATT
* * * *
17237800 TATACACCAAAATTGGACAGCATTTATACACCAATTTGGGCAGCATATATATATATCAAAGTGGA
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGC--ATATATACACCAAATTGGA
17237865 CAACATT
63 CAACATT
* * * * * * *
17237872 TTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGAAT
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACA-CCAAATTGGA-
*
17237937 C-GCATT
63 CAACATT
* * * * *
17237943 TATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACA
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACACCAAATTGGACA
17238008 ACATT
65 ACATT
* * * * * * *
17238013 TTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGTAGCATTTATACATCAAAATTGGAC
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACA-CCAAATTGGAC
17238078 AACATT
64 AACATT
* * * * ** * *
17238084 TATACATC-AATTTGGGCAGCATATATATATATTAAATTGGACAGCATTTTTACACCAAAATTGG
1 TATACACCAAAATTGGACAGCAT-T-TATACACCAAATTGG-CAGCATATATACACC-AAATTGG
* *
17238148 ACTACATA
62 ACAACATT
* *
17238156 TAGACACC-AAATTAGG-CAGCATTTATACATCAAA
1 TATACACCAAAATT-GGACAGCATTTATACACCAAA
17238190 ATTTGACACG
Statistics
Matches: 374, Mismatches: 73, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
69 1 0.00
70 95 0.25
71 165 0.44
72 111 0.30
73 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (69 bp):
TATACACCAAAATTGGACAGCATTTATACACCAAATTGGCAGCATATATACACCAAATTGGACAA
CATT
Found at i:17238038 original size:190 final size:190
Alignment explanation
Indices: 17237645--17238197 Score: 548
Period size: 190 Copynumber: 2.9 Consensus size: 190
17237635 ACAACATAGG
* * *
17237645 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATA
1 TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
*
17237710 CACCAAATTGGACAACATTTATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCA
66 CACCAAATTGGACAACATTTATACATCAAAATTGAACAGCATTTATACATCAAAATTGGACAGCA
* * *
17237775 TATATACACCAAATTAGACAACATTTATACACCAAAATTGGACAGCATTTATACACCAAT
131 TATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACCAAA
* * * *
17237835 TTGGGCAGCATATATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGCATATAGA
1 TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
*
17237900 CACCAAATTAGG-CAGCATTTATACATCAAAATTGAATC-GCATTTATACA-CTAAAATTGGACA
66 CACCAAATT-GGACAACATTTATACATCAAAATTGAA-CAGCATTTATACATC-AAAATTGGACA
* * * * * * * * *
17237962 GCATTTATACATCAATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCAAAA
128 GCATATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACC-AAA
* * * * * * * * * * *
17238025 TTGGACTGC--ATATAGACACCAAATTAGG-TAGCATTTATACATCAAAATTGGACAACATTTAT
1 TTGGACAGCATATATATAAACCAAAGT-GGACAACATTTTTACACCAAAATTGGACAGCATATAG
* * * * * * * * *
17238087 ACATCAATTTGGGCAGCATATATATATAT-TAAATTGGACAGCATTTTTACACCAAAATTGGACT
65 ACACCAAATTGGACAACAT-T-TATACATCAAAATTGAACAGCATTTATACATCAAAATTGGAC-
* * * * * *
17238151 A-CATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTTGACA
127 AGCATATATACACCAAATTAGACAACATATATACACCAAAATTGGACA
17238198 CGAATCGAAT
Statistics
Matches: 304, Mismatches: 47, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
187 2 0.01
188 53 0.17
189 80 0.26
190 166 0.55
191 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (190 bp):
TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
CACCAAATTGGACAACATTTATACATCAAAATTGAACAGCATTTATACATCAAAATTGGACAGCA
TATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACCAAA
Found at i:17238166 original size:119 final size:117
Alignment explanation
Indices: 17237667--17238197 Score: 434
Period size: 119 Copynumber: 4.5 Consensus size: 117
17237657 TATATAAACC
* * ** * *
17237667 AAATTGGACAACATTTTTACACCAAAATT-GGACAGCATATATACA-CCAAATTGGACAACATTT
1 AAATTGGACTACATATAGACACC-AAATTAGG-CAGCATTTATACATCAAAATTGGACAACATTT
* * * * * * *
17237730 ATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCATATATACACC-
64 ATACATC-AATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCA
* * * * * * * *
17237785 AAATTAGACAACATTTATACACCAAAATT-GGACAGCATTTATACA-CCAATTTGGGCAGCATAT
1 AAATTGGACTACATATAGACACC-AAATTAGG-CAGCATTTATACATCAAAATTGGACAACAT-T
* ** * * * * * * ** * **
17237848 ATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACC-
63 -TATACATCAATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCA
* * * ** *
17237904 AAATTAGG-C-AGCATTTATACATCAAAATTGAATC-GCATTTATACA-CTAAAATTGGACAGCA
1 AAATT-GGACTA-CATATAGACA-CCAAATT-AGGCAGCATTTATACATC-AAAATTGGACAACA
17237965 TTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
61 TTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
* *
17238022 AAATTGGACTGCATATAGACACCAAATTAGGTAGCATTTATACATCAAAATTGGACAACATTTAT
1 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAACATTTAT
* *
17238087 ACATCAATTTGGGCAGCATATATATATATTAAATTGGACAGCATTTTTACACCA
66 ACATCAATTTGGGCAGC--ATATATATATCAAATTGGACAACATTTTTACACCA
*
17238141 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTTGACA
1 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACA
17238198 CGAATCGAAT
Statistics
Matches: 351, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
116 1 0.00
117 72 0.21
118 93 0.26
119 163 0.46
120 22 0.06
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (117 bp):
AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAACATTTAT
ACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
Found at i:17239043 original size:43 final size:44
Alignment explanation
Indices: 17238996--17239089 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
17238986 TCCCATACGT
** **
17238996 GGTCTTACAT-GCAATTATGTAA-CGATGCCACTGTCCCATGCAG
1 GGTCTTACATCGCAATTA-CAAATCGATGCCACTGTCCCACACAG
* *
17239039 GGTCTTA-TTCGTAATTACAAATCGATGCCACTGTCCCACACAG
1 GGTCTTACATCGCAATTACAAATCGATGCCACTGTCCCACACAG
17239082 GGTCTTAC
1 GGTCTTAC
17239090 TCGAAAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
42 3 0.07
43 39 0.93
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
GGTCTTACATCGCAATTACAAATCGATGCCACTGTCCCACACAG
Found at i:17242715 original size:55 final size:54
Alignment explanation
Indices: 17242645--17242748 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 54
17242635 GATTAAAATA
* *
17242645 TAAATTTTTATTTTTATTATATTGTATTGAATAATAATTATATTAAAATATGAT
1 TAAATTTTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAATATGAT
* *
17242699 TAAATTATTTATTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TAAATT-TTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAAT
17242749 TTAATAACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 6 0.13
55 39 0.87
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (54 bp):
TAAATTTTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAATATGAT
Found at i:17246182 original size:15 final size:16
Alignment explanation
Indices: 17246156--17246187 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17246146 AAAAAATATG
17246156 GGCCCAAGCCCGGCCC
1 GGCCCAAGCCCGGCCC
17246172 GGCCC-AGCCCGGCCC
1 GGCCCAAGCCCGGCCC
17246187 G
1 G
17246188 TTTTGCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.09, C:0.56, G:0.34, T:0.00
Consensus pattern (16 bp):
GGCCCAAGCCCGGCCC
Found at i:17246788 original size:219 final size:219
Alignment explanation
Indices: 17246409--17246851 Score: 886
Period size: 219 Copynumber: 2.0 Consensus size: 219
17246399 AGACAGAAAT
17246409 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
1 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
17246474 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
66 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
17246539 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
131 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
17246604 TTATAGCATGCTAATTATACCTAA
196 TTATAGCATGCTAATTATACCTAA
17246628 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
1 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
17246693 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
66 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
17246758 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
131 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
17246823 TTATAGCATGCTAATTATACCTAA
196 TTATAGCATGCTAATTATACCTAA
17246847 AAACA
1 AAACA
17246852 TGTTTACAAC
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 224 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (219 bp):
AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
TTATAGCATGCTAATTATACCTAA
Found at i:17255310 original size:11 final size:11
Alignment explanation
Indices: 17255294--17255324 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17255284 ATTGTAGACC
*
17255294 ATAAAAATATT
1 ATAAAAATATA
17255305 ATAAAAATATA
1 ATAAAAATATA
17255316 ATAAAAATA
1 ATAAAAATA
17255325 AAATTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:17259378 original size:50 final size:50
Alignment explanation
Indices: 17259259--17259500 Score: 371
Period size: 50 Copynumber: 4.8 Consensus size: 50
17259249 GATAATAACA
* * **
17259259 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
17259310 TGCTC-ATGCCATGT-CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17259359 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
17259409 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17259459 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17259501 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.01
49 22 0.12
50 141 0.80
51 11 0.06
52 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17259616 original size:13 final size:13
Alignment explanation
Indices: 17259595--17259624 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17259585 GCTTGGACCA
17259595 TCATCAAATAAAT
1 TCATCAAATAAAT
*
17259608 TCATGAAATAAAT
1 TCATCAAATAAAT
17259621 TCAT
1 TCAT
17259625 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:17259873 original size:30 final size:29
Alignment explanation
Indices: 17259838--17259894 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
17259828 CATTGACTCT
*
17259838 AACTTTTTCAAAATTACGATTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ATTTTGCCCCTA
* *
17259868 AACTTTTGCATAATTACATTTTTCCCC
1 AACTTTTGCAAAATTACATTTTGCCCC
17259895 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (29 bp):
AACTTTTGCAAAATTACATTTTGCCCCTA
Found at i:17266792 original size:12 final size:12
Alignment explanation
Indices: 17266775--17266799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17266765 AATTTTCCTG
17266775 AACTATATCCAC
1 AACTATATCCAC
17266787 AACTATATCCAC
1 AACTATATCCAC
17266799 A
1 A
17266800 TATTAGTTCT
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:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (12 bp):
AACTATATCCAC
Found at i:17268459 original size:44 final size:44
Alignment explanation
Indices: 17268396--17268501 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
17268386 AAAAAAATTG
*
17268396 CAACGTGAAAGCAACCATCAAATCAATGATGTGACAAGACAATA
1 CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
* * *
17268440 CAACGTGGAAGCAACCATCAAATCAATGATGGGAGAAGACAATG
1 CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
17268484 CAACGTGAAAGCAACCAT
1 CAACGTGAAAGCAACCAT
17268502 GTTCATGATG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (44 bp):
CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
Found at i:17269338 original size:22 final size:22
Alignment explanation
Indices: 17269293--17269338 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17269283 TAATATAGAC
* *
17269293 TTAATAGATGCAGGAAAATCTT
1 TTAATAGATGAAGGAAAATATT
17269315 TTAATAGATGAAGAGAAAA-ATT
1 TTAATAGATGAAG-GAAAATATT
17269337 TT
1 TT
17269339 GAACTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
TTAATAGATGAAGGAAAATATT
Found at i:17270938 original size:7 final size:7
Alignment explanation
Indices: 17270926--17270993 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
17270916 TATACATTTA
17270926 GAAAAAT
1 GAAAAAT
17270933 GAAAAAT
1 GAAAAAT
17270940 GAAAAAT
1 GAAAAAT
17270947 GAAAAAT
1 GAAAAAT
17270954 GAAAAAT
1 GAAAAAT
*
17270961 AAAAAAT
1 GAAAAAT
17270968 GAAAAAT
1 GAAAAAT
*
17270975 GAAAAGT
1 GAAAAAT
17270982 GAAAAAT
1 GAAAAAT
17270989 GAAAA
1 GAAAA
17270994 TAAATATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:17271039 original size:15 final size:17
Alignment explanation
Indices: 17271008--17271041 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
17270998 TATATAAAAA
17271008 AATCATAAAATATATAT
1 AATCATAAAATATATAT
17271025 AATC-TAAAA-ATATAT
1 AATCATAAAATATATAT
17271040 AA
1 AA
17271042 AAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AATCATAAAATATATAT
Found at i:17271300 original size:21 final size:20
Alignment explanation
Indices: 17271276--17271314 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17271266 TTTATAAAAA
*
17271276 ATATACTTTTTTATATATTAT
1 ATATAATTTTTT-TATATTAT
17271297 ATATAATTTTTTTATATT
1 ATATAATTTTTTTATATT
17271315 TTTAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATAATTTTTTTATATTAT
Found at i:17274931 original size:16 final size:15
Alignment explanation
Indices: 17274905--17274950 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
17274895 TTTTGCATGC
17274905 CTTTCTATTATTATTAA
1 CTTT-TATTATTATT-A
17274922 CTTTTATTATTATTA
1 CTTTTATTATTATTA
*
17274937 CTTTTGTTATTATT
1 CTTTTATTATTATT
17274951 TTAACATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 14 0.50
16 10 0.36
17 4 0.14
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:17280514 original size:24 final size:23
Alignment explanation
Indices: 17280481--17280530 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
17280471 CAATATTTAA
*
17280481 ATTATTTAAATAATTTACATATC
1 ATTATTTAAATAATTTAAATATC
*
17280504 ATTATATTAAATTATTTAAATATC
1 ATTAT-TTAAATAATTTAAATATC
17280528 ATT
1 ATT
17280531 TATCATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTATTTAAATAATTTAAATATC
Found at i:17280514 original size:33 final size:32
Alignment explanation
Indices: 17280468--17280555 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 32
17280458 ATATTTAATG
* *
17280468 TATCAATAT-TTAAATTATTTAAATAATTTACA
1 TATCATTATATTAAATTATTTAAATAA-TCACA
**
17280500 TATCATTATATTAAATTATTTAAAT-ATCATT
1 TATCATTATATTAAATTATTTAAATAATCACA
17280531 TATCATTATATTAAATT-TTTAAATA
1 TATCATTATATTAAATTATTTAAATA
17280556 TAATTTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 7 0.14
31 19 0.38
32 9 0.18
33 15 0.30
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (32 bp):
TATCATTATATTAAATTATTTAAATAATCACA
Found at i:17280554 original size:30 final size:31
Alignment explanation
Indices: 17280477--17280572 Score: 124
Period size: 30 Copynumber: 3.1 Consensus size: 31
17280467 GTATCAATAT
*
17280477 TTAAATTATTTAAATA-ATTTACATATCATTATA
1 TTAAATTATTTAAATATAATT---TATCATTATA
*
17280510 TTAAATTATTTAAATATCATTTATCATTATA
1 TTAAATTATTTAAATATAATTTATCATTATA
*
17280541 TTAAATT-TTTAAATATAATTTATTATTATA
1 TTAAATTATTTAAATATAATTTATCATTATA
17280571 TT
1 TT
17280573 TGTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
30 23 0.40
31 17 0.29
33 16 0.28
34 2 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAAATTATTTAAATATAATTTATCATTATA
Found at i:17280585 original size:30 final size:30
Alignment explanation
Indices: 17280500--17280627 Score: 119
Period size: 30 Copynumber: 4.5 Consensus size: 30
17280490 ATAATTTACA
*
17280500 TATCATTATATTAAATTATTTAAATATCATT
1 TATCATTATATTAAATT-TTTAAATATAATT
17280531 TATCATTATATTAAATTTTTAAATATAATT
1 TATCATTATATTAAATTTTTAAATATAATT
* ** *
17280561 TATTATTATATT-TGTTTTTAAA-ATATTT
1 TATCATTATATTAAATTTTTAAATATAATT
* *
17280589 TAT-A-TATCATT-AA-TTTAAAAAATAATT
1 TATCATTAT-ATTAAATTTTTAAATATAATT
17280616 TAT-ATTA-ATTAA
1 TATCATTATATTAA
17280628 TTAATTAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
26 12 0.14
27 14 0.17
28 10 0.12
29 8 0.10
30 23 0.27
31 17 0.20
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
TATCATTATATTAAATTTTTAAATATAATT
Found at i:17280637 original size:27 final size:29
Alignment explanation
Indices: 17280578--17280637 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
17280568 ATATTTGTTT
* *
17280578 TTAAAATATTTTATATATCATTAATTTAA
1 TTAAAATAATTTATATATAATTAATTTAA
17280607 --AAAATAATTTATAT-TAATTAA-TTAA
1 TTAAAATAATTTATATATAATTAATTTAA
17280632 TTAAAA
1 TTAAAA
17280638 GATATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
25 4 0.15
26 6 0.22
27 17 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAAAATAATTTATATATAATTAATTTAA
Found at i:17282123 original size:94 final size:94
Alignment explanation
Indices: 17281962--17282132 Score: 342
Period size: 94 Copynumber: 1.8 Consensus size: 94
17281952 ACCTTTTCTA
17281962 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
1 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
17282027 GCTCGTATATTGTATTTCTCACGATGATG
66 GCTCGTATATTGTATTTCTCACGATGATG
17282056 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
1 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
17282121 GCTCGTATATTG
66 GCTCGTATATTG
17282133 ATGATGATGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.45
Consensus pattern (94 bp):
GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
GCTCGTATATTGTATTTCTCACGATGATG
Found at i:17282139 original size:3 final size:3
Alignment explanation
Indices: 17282131--17282159 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17282121 GCTCGTATAT
17282131 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
17282160 TTTCTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:17282860 original size:23 final size:22
Alignment explanation
Indices: 17282834--17282908 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
17282824 TCTTTTAAAG
17282834 AAAAAAATAAAAATATATTCTT-
1 AAAAAAATAAAAATATATT-TTA
* *
17282856 TAAAAAATAAAAA-ATATTTAAA
1 AAAAAAATAAAAATATATTT-TA
*
17282878 ATAAAAAATAAAAATAT-TTTTC
1 A-AAAAAATAAAAATATATTTTA
17282900 AAAAAAATA
1 AAAAAAATA
17282909 TTTTAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 13 0.30
23 15 0.34
24 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAAATATATTTTA
Found at i:17282905 original size:22 final size:22
Alignment explanation
Indices: 17282834--17282906 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
17282824 TCTTTTAAAG
*
17282834 AAAAAAATAAAAATATATTCTTTA
1 AAAAAAATAAAAATAT-TT-TTAA
* *
17282858 AAAAATA-AAAAATA-TTTAAA
1 AAAAAAATAAAAATATTTTTAA
*
17282878 ATAAAAAATAAAAATATTTTTCA
1 A-AAAAAATAAAAATATTTTTAA
17282901 AAAAAA
1 AAAAAA
17282907 TATTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.08
21 7 0.17
22 12 0.30
23 12 0.30
24 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAAATATTTTTAA
Found at i:17283110 original size:21 final size:22
Alignment explanation
Indices: 17283075--17283121 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
17283065 GTTGAACCAA
*
17283075 ATTTTATACTTTTTAATATTTT
1 ATTTTATACTTTTTAATAATTT
*
17283097 ATTTTTTA-TTTTTAATAATTT
1 ATTTTATACTTTTTAATAATTT
17283118 ATTT
1 ATTT
17283122 GCTTTGAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTATACTTTTTAATAATTT
Found at i:17283462 original size:22 final size:21
Alignment explanation
Indices: 17283419--17283464 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
17283409 CACCAAAAAA
*
17283419 TTTAAAAAAATAAAAAAGTAT
1 TTTAAAAAAATAAAAAAATAT
17283440 TTTAAAAATAA-AAAATAAATAT
1 TTTAAAAA-AATAAAA-AAATAT
17283462 TTT
1 TTT
17283465 TATTATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TTTAAAAAAATAAAAAAATAT
Found at i:17283818 original size:11 final size:10
Alignment explanation
Indices: 17283792--17283829 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
17283782 TAATTTGAAG
17283792 TGTTTTTATA
1 TGTTTTTATA
17283802 TGTTTTTATAA
1 TGTTTTTAT-A
17283813 T-TTTTT-TA
1 TGTTTTTATA
17283821 TGTTTTTAT
1 TGTTTTTAT
17283830 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.08
9 6 0.24
10 15 0.60
11 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (10 bp):
TGTTTTTATA
Found at i:17287871 original size:19 final size:20
Alignment explanation
Indices: 17287841--17287887 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17287831 CTCAAGAAAA
17287841 AATTTAAATAATAATATAAAT
1 AATTT-AATAATAATATAAAT
* *
17287862 -ATTTAATAATATTATTAAT
1 AATTTAATAATAATATAAAT
17287881 AATTTAA
1 AATTTAA
17287888 GTTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATAATAATATAAAT
Found at i:17288647 original size:14 final size:14
Alignment explanation
Indices: 17288605--17288652 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
17288595 CTTAAACCTT
17288605 GTTCAGGGTTTAAG
1 GTTCAGGGTTTAAG
17288619 G-TCAGGG-TTACAG
1 GTTCAGGGTTTA-AG
*
17288632 GTTTAGGGTTTAAG
1 GTTCAGGGTTTAAG
17288646 GTTCAGG
1 GTTCAGG
17288653 ATTCTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 14 0.48
15 3 0.10
ACGTcount: A:0.21, C:0.08, G:0.38, T:0.33
Consensus pattern (14 bp):
GTTCAGGGTTTAAG
Found at i:17291607 original size:13 final size:13
Alignment explanation
Indices: 17291589--17291629 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
17291579 GGATATTACA
17291589 TAGGGTTTGAGTT
1 TAGGGTTTGAGTT
*
17291602 TAGGGTTTGAGGT
1 TAGGGTTTGAGTT
*
17291615 TCGAGGTTTGAGTT
1 TAG-GGTTTGAGTT
17291629 T
1 T
17291630 GAGGTTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.44
Consensus pattern (13 bp):
TAGGGTTTGAGTT
Found at i:17291635 original size:13 final size:13
Alignment explanation
Indices: 17291592--17291635 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
17291582 TATTACATAG
17291592 GGTTTGAGTTT-A
1 GGTTTGAGTTTGA
*
17291604 GGGTTTGAGGTTCGA
1 -GGTTTGA-GTTTGA
17291619 GGTTTGAGTTTGA
1 GGTTTGAGTTTGA
17291632 GGTT
1 GGTT
17291636 CGGAATTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.59
14 10 0.37
15 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.41, T:0.43
Consensus pattern (13 bp):
GGTTTGAGTTTGA
Found at i:17293528 original size:2 final size:2
Alignment explanation
Indices: 17293521--17293550 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17293511 ACAAAAGATA
17293521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17293551 GAGAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17297694 original size:163 final size:164
Alignment explanation
Indices: 17297444--17297748 Score: 468
Period size: 163 Copynumber: 1.9 Consensus size: 164
17297434 CCTAAAAATG
* * * * *
17297444 TTGTCTTTAGATGGTCATCATGAGATCCGTTCTTCAGATTCCACCACGAAGGCGTTCCTTTCCAA
1 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
* * *
17297509 AGATAGCTACAAAGGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCC-TTTTAACAGAGTTTGC
66 AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
*
17297573 CACAAGGTATTCATTTGGTGTCCGCCCAAAGGCA
131 CACAAGGCATTCATTTGGTGTCCGCCCAAAGGCA
***
17297607 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTATGTCACGAAGGCATTCATTTCCAA
1 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
* * *
17297672 AGATAGGTACAAAAGTTTTCCTTTTAGAGTCTCGCCATGAAGACATCCTTTTTAACAGAGATAGC
66 AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
17297737 CACAAGGCATTC
131 CACAAGGCATTC
17297749 CTTTAACTGA
Statistics
Matches: 126, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
163 101 0.80
164 25 0.20
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (164 bp):
TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
CACAAGGCATTCATTTGGTGTCCGCCCAAAGGCA
Found at i:17297782 original size:29 final size:29
Alignment explanation
Indices: 17297715--17298039 Score: 329
Period size: 29 Copynumber: 11.3 Consensus size: 29
17297705 GCCATGAAGA
17297715 CATCCTTTTTAACAGAGATAGCCAC-AAGG
1 CATCC-TTTTAACAGAGATAGCCACAAAGG
* * *
17297744 CATTCC-TTTAACTGAGATAGTCACCAAGG
1 CA-TCCTTTTAACAGAGATAGCCACAAAGG
* *
17297773 CATCCTTTTAACAGAGAAAACCGA-AAAGG
1 CATCCTTTTAACAGAGATAGCC-ACAAAGG
*
17297802 CATCCTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * * *
17297831 C-TTCTTTT-TCAGAGATCGCCACAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17297858 CTTCCTTTTAATAGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * *
17297887 CATCATTTTAATAGAGATAGCCACAAAGT
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17297916 CATCTTTTTAACTGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17297945 CATCCTTTTAACAGAGATAGCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
** ** * *
17297974 CATCCTTTT-TTAGAGATCTCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17298002 CATCTTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
*
17298031 TATCCTTTT
1 CATCCTTTT
17298040 TCAAAGATCA
Statistics
Matches: 246, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
27 16 0.07
28 55 0.22
29 171 0.70
30 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
CATCCTTTTAACAGAGATAGCCACAAAGG
Found at i:17297925 original size:143 final size:143
Alignment explanation
Indices: 17297711--17298039 Score: 414
Period size: 143 Copynumber: 2.3 Consensus size: 143
17297701 TCTCGCCATG
* * *
17297711 AAGACATCCTTTTTAACAGAGATAGCCAC-AAGGCATTCCTTTAACTGAGATAGTCACCAAGGCA
1 AAGACATCC-TTTTAACAGAGATAGCCACAAAGGCA-TCTTTTAACTGAGATAGCCACAAAGGCA
* *
17297775 TCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAGCCATAAAGGC-TTCTTT
64 TCCTTTTAACAGAGAAAACC-ACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTT
17297838 TTCAGAGATCGCCACA
128 TTCAGAGATCGCCACA
* * *
17297854 AAGACTTCCTTTTAATAGAGATAGCCACAAAGGCATCATTTTAA-TAGAGATAGCCACAAAGTCA
1 AAGACATCCTTTTAACAGAGATAGCCACAAAGGCATC-TTTTAACT-GAGATAGCCACAAAGGCA
* * * *
17297918 TCTTTTTAACTGAGATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTT
64 TCCTTTTAACAGAGAAAACCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTT
* * *
17297983 TTAGAGATCTCCATA
129 TCAGAGATCGCCACA
* * *
17297998 AAGACATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTT
1 AAGACATCCTTTTAACAGAGATAGCCACAAAGGCAT-CTTTT
17298040 TCAAAGATCA
Statistics
Matches: 160, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
142 22 0.14
143 84 0.52
144 53 0.33
145 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (143 bp):
AAGACATCCTTTTAACAGAGATAGCCACAAAGGCATCTTTTAACTGAGATAGCCACAAAGGCATC
CTTTTAACAGAGAAAACCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTTTC
AGAGATCGCCACA
Found at i:17298013 original size:57 final size:57
Alignment explanation
Indices: 17297715--17298059 Score: 281
Period size: 57 Copynumber: 6.0 Consensus size: 57
17297705 GCCATGAAGA
* ** * *
17297715 CATCCTTTTTAACAGAGATAGCCAC-AAGGCATTCCTTTAACT-GAGATAGTCACCAAGG
1 CATCC-TTTTAACAGAGATAGCCACAAAGACA-TCCTTT-TTTAGAGATAGCCACAAAGG
* * * ** *
17297773 CATCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCC-ACAAAGACATCCTTTT-TTAGAGATAGCCACAAAGG
* * * * *
17297831 C-TTCTTTT-TCAGAGATCGCCACAAAGACTTCCTTTTAATAGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTT-TTAGAGATAGCCACAAAGG
* * * *
17297887 CATCATTTTAATAGAGATAGCCACAAAGTCAT-CTTTTTAACTGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTA--GAGATAGCCACAAAGG
* ** * *
17297945 CATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTTTTAGAGATCTCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGATAGCCACAAAGG
* * ** * *
17298002 CATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTTTCAAAGATCA-CCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGAT-AGCCACAAAGG
17298059 C
1 C
17298060 TTTCTTTTTC
Statistics
Matches: 233, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
55 1 0.00
56 40 0.17
57 98 0.42
58 87 0.37
59 7 0.03
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (57 bp):
CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGATAGCCACAAAGG
Found at i:17298054 original size:143 final size:141
Alignment explanation
Indices: 17297693--17298059 Score: 400
Period size: 143 Copynumber: 2.6 Consensus size: 141
17297683 AAAGTTTTCC
* * ** *
17297693 TTTTAGAG-TCTCGCCATGAAGACATCCTTTTTAACAGAGATAGCCACAAGGCATTCCTTTAACT
1 TTTTAGAGATCT--CCATAAAGACAT-CTTTTTAACAGAGATAGCCAAAAGGCA-TCCTTTTTCA
* *
17297757 GAGATAGTCACCAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAG
62 GAGATAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAG
* *
17297822 CCATAAAGGCTTCTT
127 CCATAAAGACTCCTT
* * * * * * *
17297837 TTTCAGAGATCGCCACAAAGACTTCCTTTTAATAGAGATAGCCACAAAGGCATCATTTTAAT-AG
1 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCA-AAAGGCATCCTTTT--TCAG
* * * * *
17297901 AGATAGCCACAAAGTCATCTTTTTAACTGAGATAGCC-ACAAAGGCATCCTTTTAACAGAGATAG
63 AGATAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAG
17297965 CCATAAAGACATCCTT
127 CCATAAAGAC-TCCTT
* *
17297981 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTTTCAAAG
1 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCA-AAAGGCATCCTTTTTCAGAG
17298046 ATCA-CCACAAAGGC
65 AT-AGCCACAAAGGC
17298060 TTTCTTTTTC
Statistics
Matches: 183, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
142 25 0.14
143 94 0.51
144 62 0.34
145 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (141 bp):
TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCAAAAGGCATCCTTTTTCAGAGA
TAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAGCCAT
AAAGACTCCTT
Found at i:17299701 original size:41 final size:41
Alignment explanation
Indices: 17299644--17299732 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
17299634 GCGTTTATAG
17299644 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTCA
1 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTT-A
* *
17299686 AAAAAACT-CCGCTAAAGGTCATGTTCTTTAGCGGCGCTTA
1 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTA
17299726 AAAAAAA
1 AAAAAAA
17299733 GACGCCACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.16
41 30 0.68
42 7 0.16
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (41 bp):
AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTA
Found at i:17299751 original size:43 final size:41
Alignment explanation
Indices: 17299644--17299751 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
17299634 GCGTTTATAG
* * * *
17299644 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTC
1 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
* *
17299685 AAAAAAACTCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAA
1 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTT-A
*
17299727 AAAAAAGACGCCACTAAAGATCATG
1 AAAAAA-ACGCCACTAAAGGTCATG
17299752 AAAAAAGACG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 37 0.64
42 6 0.10
43 15 0.26
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
Found at i:17299761 original size:25 final size:25
Alignment explanation
Indices: 17299727--17299776 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17299717 CGGCGCTTAA
17299727 AAAAAAGACGCCACTAAAGATCATG
1 AAAAAAGACGCCACTAAAGATCATG
*
17299752 AAAAAAGACGCCGCTAAAGATCATG
1 AAAAAAGACGCCACTAAAGATCATG
17299777 TTCTTTAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAAAAGACGCCACTAAAGATCATG
Found at i:17299794 original size:68 final size:66
Alignment explanation
Indices: 17299685--17299816 Score: 201
Period size: 68 Copynumber: 2.0 Consensus size: 66
17299675 GCGGCGCTTC
* * *
17299685 AAAAAAACTCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAAAAGACGCCACTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTT-AAAAAAAGACGCCACTAAAGATCA
17299750 TG
65 TG
* *
17299752 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGATGCCGCTAAAGATCA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGACGCCACTAAAGATCA
17299817 AGATCATGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 28 0.47
68 31 0.53
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (66 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGACGCCACTAAAGATCAT
G
Found at i:17299810 original size:42 final size:42
Alignment explanation
Indices: 17299752--17299882 Score: 165
Period size: 42 Copynumber: 3.0 Consensus size: 42
17299742 AAAGATCATG
*
17299752 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTA
1 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
17299794 AAAAAAGATGCCGCTAAAGATCAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAAGACGCCGCT----A--AAGATCATGTTCTTTAGCGGCGCTTA
*
17299842 AATAAAA-ACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AA-AAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
17299883 GATTCACAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
42 39 0.50
44 1 0.01
46 1 0.01
48 33 0.42
49 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:17299824 original size:48 final size:48
Alignment explanation
Indices: 17299768--17299864 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
17299758 GACGCCGCTA
*
17299768 AAGATCATGTTCTTTAGCAGCGCTTAAA-AAAAGATGCCGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAAA-ACGCCGCTAAAGATC
* *
17299816 AAGATCATGTTCTTTAGCGGCGCTTAAATAAAAACGTCGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAAAACGCCGCTAAAGATC
17299864 A
1 A
17299865 TGTTCTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (48 bp):
AAGATCATGTTCTTTAGCAGCGCTTAAATAAAAACGCCGCTAAAGATC
Found at i:17299912 original size:43 final size:43
Alignment explanation
Indices: 17299816--17299937 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
17299806 GCTAAAGATC
* * * * *
17299816 AAGATCATGTTCTTTAGCGGCGCTTAAAT-AAAAACGTCGCTA
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGCAA
* *
17299858 AAGATCATGTTCTTTAGCGGCGCTTGATTCACAAACGACGCGAA
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGC-AA
**
17299902 AAGA-AATGTTCTTTAGCGGCGCTTTCTTCACAAACG
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACG
17299938 CCGCTATAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 27 0.39
43 38 0.54
44 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (43 bp):
AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGCAA
Found at i:17300372 original size:21 final size:21
Alignment explanation
Indices: 17300346--17300438 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
17300336 TTCTTTTGAA
*
17300346 CCTCTGTTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
17300367 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
17300388 CCTCTGCTTCCCTCGCTGTAT
1 CCTCTGCTTCTCTCGCTGCAG
* * * * *
17300409 CCTTTACTTCCCTCACTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
17300430 CCTCTGCTT
1 CCTCTGCTT
17300439 TAAGTTGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.05, C:0.42, G:0.15, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:17305950 original size:9 final size:9
Alignment explanation
Indices: 17305938--17306260 Score: 248
Period size: 9 Copynumber: 37.0 Consensus size: 9
17305928 TAAGTAAATA
17305938 ATGTAAGTT
1 ATGTAAGTT
*
17305947 ATGTACGTGT
1 ATGTAAGT-T
17305957 A--TAAGTT
1 ATGTAAGTT
17305964 ATGTAAGTT
1 ATGTAAGTT
17305973 ATGT-A-TT
1 ATGTAAGTT
* *
17305980 AAGTAAGCT
1 ATGTAAGTT
17305989 ATGTAAGTT
1 ATGTAAGTT
* ** *
17305998 GTCAAAGTA
1 ATGTAAGTT
*
17306007 ATGTATGTT
1 ATGTAAGTT
17306016 ATGTAAG-T
1 ATGTAAGTT
17306024 -TGTAAGTT
1 ATGTAAGTT
*
17306032 AT-TATGTATT
1 ATGTAAG--TT
17306042 ATGTAAGTT
1 ATGTAAGTT
17306051 ATGTAAGTT
1 ATGTAAGTT
*
17306060 ATTTAAGTT
1 ATGTAAGTT
17306069 ATGTAAGTT
1 ATGTAAGTT
17306078 AAATGT-A-TT
1 --ATGTAAGTT
*
17306087 ATGTAGGTT
1 ATGTAAGTT
17306096 ATGTAAGTT
1 ATGTAAGTT
* *
17306105 GTGTAAGAT
1 ATGTAAGTT
*
17306114 ATTTAAGTT
1 ATGTAAGTT
17306123 ATGTAAGTT
1 ATGTAAGTT
* *
17306132 TTG-CA-TT
1 ATGTAAGTT
17306139 ATGTAAGTT
1 ATGTAAGTT
17306148 ATGTAAGTT
1 ATGTAAGTT
17306157 ATGTAAGTT
1 ATGTAAGTT
17306166 AAATGT-A-TT
1 --ATGTAAGTT
*
17306175 ATGTAGGTT
1 ATGTAAGTT
17306184 ATGTAAGTT
1 ATGTAAGTT
* *
17306193 GTGTAAGAT
1 ATGTAAGTT
*
17306202 ATTTAAGTT
1 ATGTAAGTT
*
17306211 ATGTGAGTT
1 ATGTAAGTT
*
17306220 TTGT-A-TT
1 ATGTAAGTT
17306227 ATGTAAGTT
1 ATGTAAGTT
* *
17306236 ATGTATGCT
1 ATGTAAGTT
17306245 ATGT-A-TT
1 ATGTAAGTT
17306252 ATGTAAGTT
1 ATGTAAGTT
17306261 GTTATGTTAT
Statistics
Matches: 243, Mismatches: 47, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
7 35 0.14
8 16 0.07
9 173 0.71
10 8 0.03
11 11 0.05
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Done.