Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 31 of 161
Found at i:9599449 original size:13 final size:12
Alignment explanation
Indices: 9599428--9599479 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 12
9599418 GCTCGGTTTT
9599428 GAAGAAGAAGAA
1 GAAGAAGAAGAA
9599440 GAAGGAAGAAGAA
1 GAA-GAAGAAGAA
9599453 GAAGAAGAAAGAAA
1 GAAGAAG-AAG-AA
9599467 GAGAGAAGAAGAA
1 GA-AGAAGAAGAA
9599480 AGANNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.19
13 17 0.47
14 7 0.19
15 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAA
Found at i:9599449 original size:16 final size:16
Alignment explanation
Indices: 9599429--9599482 Score: 81
Period size: 16 Copynumber: 3.2 Consensus size: 16
9599419 CTCGGTTTTG
*
9599429 AAGAAGAAGAAGAAGG
1 AAGAAGAAGAAGAAGA
9599445 AAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGA
9599461 AAGAAAGAGAGAAGAAGA
1 AAG-AAGA-AGAAGAAGA
9599479 AAGA
1 AAGA
9599483 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 18 0.51
17 5 0.14
18 12 0.34
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAAGAAGA
Found at i:9607386 original size:4 final size:4
Alignment explanation
Indices: 9607377--9607484 Score: 78
Period size: 4 Copynumber: 25.2 Consensus size: 4
9607367 CAGAAGGAGG
* *
9607377 GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA TGAGAA GAGAA AAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA -GA-AA GA-AA GAAA
9607426 GGAAA GAAA G-AA G-AA GAAAA GGAGAA GAGAA GAAA -AAA GAAA GAAA
1 -GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA GAAA GAAA GAAA
*
9607472 GAAG GAAA GAAA G
1 GAAA GAAA GAAA G
9607485 GGAAAGGAGA
Statistics
Matches: 88, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
3 9 0.10
4 48 0.55
5 25 0.28
6 6 0.07
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:9607431 original size:38 final size:36
Alignment explanation
Indices: 9607380--9607504 Score: 117
Period size: 38 Copynumber: 3.2 Consensus size: 36
9607370 AAGGAGGGAA
*
9607380 AGAAAGAAAGAAAGAAAGAAAGGAGAGGAAATGAGAAG
1 AGAAA-AAAGAAAGAAAGAAAGGAAAGGAAA-GAGAAG
*
9607418 AGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAG
1 AGAAAAAA-GAAAGAAAG-A-AAGGAAAGGA-AAGAGAAG
* *
9607458 AAAAAAGAAAGAAAGAAGGAAA-GAAAGGGAAAGGAGAAG
1 -AGAAA-AAAGAAAGAAAGAAAGGAAA-GGAAA-GAGAAG
9607497 AGAAAAAA
1 AGAAAAAA
9607505 AAGAAGAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
37 6 0.08
38 23 0.32
39 12 0.16
40 15 0.21
41 14 0.19
42 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (36 bp):
AGAAAAAAGAAAGAAAGAAAGGAAAGGAAAGAGAAG
Found at i:9607467 original size:45 final size:45
Alignment explanation
Indices: 9607381--9607524 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 45
9607371 AGGAGGGAAA
* * *
9607381 GAAAGAAAGAAAGAA-AGAAAGGAGAGGA-AATGAGAAGAGAAAAAAG
1 GAAAGAAAG-AAGAAGA-AAAGGAGAAGAGAA-GAAAAAAGAAAAAAG
9607427 GAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAAGAAAGAAA-
1 GAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAAGAAA-AAAG
* * * *
9607472 GAAGGAAAGAA-AGGGAAAGGAGAAGAGAA-AAAAAAGAAGAAGAG
1 GAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAAGAA-AAAAG
*
9607516 GGAAGAAAG
1 GAAAGAAAG
9607525 GGAAAAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
43 11 0.13
44 24 0.29
45 34 0.40
46 15 0.18
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (45 bp):
GAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAAAAGAAAAAAG
Found at i:9607477 original size:49 final size:43
Alignment explanation
Indices: 9607378--9607545 Score: 151
Period size: 40 Copynumber: 4.1 Consensus size: 43
9607368 AGAAGGAGGG
* * *
9607378 AAAGAAAGAAAGAAAGAAAGAAA-GGAGAGGA-AATGAGAAGAGA
1 AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAA-GAGAA-AAA
* * *
9607421 AAA-AAGGAAAGAAAG-AAG-AA-GAAAAGGAGAAGAGAAGAAA
1 AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAA
9607461 AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
* * *
9607504 AAAG-AAG-AAG-AGGGAAGAAAGGGAAA-AAAAAG-GAAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
9607542 AAAG
1 AAAG
9607546 GTAATTTTAT
Statistics
Matches: 110, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
38 10 0.09
39 4 0.04
40 34 0.31
41 18 0.16
42 17 0.15
43 12 0.11
44 15 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (43 bp):
AAAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
Found at i:9607540 original size:79 final size:80
Alignment explanation
Indices: 9607376--9607542 Score: 191
Period size: 79 Copynumber: 2.1 Consensus size: 80
9607366 GCAGAAGGAG
* * *
9607376 GGAAAGAAAGAAAGAAAGAAAGAAAGGAGAGGAAATGAGAAGAGAAAAAAGGAAAGAAAGAAGAA
1 GGAAA-AAAGAAAGAAAGAAAGAAAGAAGAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAA
* *
9607441 GAAAAGGAGAAGAGAA
65 GAAAAGGAGAAAAAAA
* *
9607457 -GAAAAAAGAAAGAAAGAAGGAAAGAA-AGGGAAAGGAGAAGAGAAAAAAA-AGAAG-AAGAGGG
1 GGAAAAAAGAAAGAAAGAAAGAAAGAAGA-GGAAAGGAGAAGAGAAAAAAAGA-AAGAAAGA-AG
*
9607518 AAGAAAGGGA-AAAAAAA
63 AAGAAAAGGAGAAAAAAA
9607535 GGAAAAAA
1 GGAAAAAA
9607543 AAGGTAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
78 11 0.15
79 59 0.80
80 4 0.05
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (80 bp):
GGAAAAAAGAAAGAAAGAAAGAAAGAAGAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAG
AAAAGGAGAAAAAAA
Found at i:9607873 original size:11 final size:12
Alignment explanation
Indices: 9607850--9607874 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9607840 CGAAAATAAT
9607850 AAAATGCGAAAA
1 AAAATGCGAAAA
9607862 AAAATGCGAAAA
1 AAAATGCGAAAA
9607874 A
1 A
9607875 TGTACATGTA
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:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATGCGAAAA
Found at i:9613588 original size:15 final size:12
Alignment explanation
Indices: 9613545--9613581 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9613535 TTACTTAAAA
* *
9613545 AAAATTATACTC
1 AAAATAATACAC
9613557 AAAATAATACAC
1 AAAATAATACAC
9613569 AAAATAATACAC
1 AAAATAATACAC
9613581 A
1 A
9613582 CTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAATACAC
Found at i:9613807 original size:3 final size:3
Alignment explanation
Indices: 9613799--9613863 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
9613789 TCTTCATACT
*
9613799 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC CAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
9613847 AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AA
9613864 TAATAATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9613957 original size:19 final size:21
Alignment explanation
Indices: 9613933--9613971 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9613923 ACTAAAACAA
*
9613933 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
9613952 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
9613972 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:9614035 original size:10 final size:10
Alignment explanation
Indices: 9613998--9614034 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
9613988 AAAATACCTC
9613998 CTTTTTCTGCT
1 CTTTTTCT-CT
9614009 CTTTTTCTCT
1 CTTTTTCTCT
9614019 CTTTTTCTCTT
1 CTTTTTCTC-T
9614030 CTTTT
1 CTTTT
9614035 CCGCGCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (10 bp):
CTTTTTCTCT
Found at i:9614154 original size:27 final size:28
Alignment explanation
Indices: 9614116--9614182 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
9614106 ATAATACGAG
*
9614116 TGGTGCCGCCAATTAGT-A-TGGCACCAT
1 TGGTGCCGCCAATT-GTCATTGGCACCAC
9614143 TGGTGCCGCCAA-TGTCATTGGCACCAC
1 TGGTGCCGCCAATTGTCATTGGCACCAC
9614170 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
9614183 ACCATTGGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 32 0.89
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (28 bp):
TGGTGCCGCCAATTGTCATTGGCACCAC
Found at i:9614188 original size:27 final size:27
Alignment explanation
Indices: 9614116--9614191 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
9614106 ATAATACGAG
** *
9614116 TGGTGCCGCCAATTAGTA-TGGCACCAT
1 TGGTGCCGCCAA-TACCATTGGCACCAC
**
9614143 TGGTGCCGCCAATGTCATTGGCACCAC
1 TGGTGCCGCCAATACCATTGGCACCAC
9614170 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATACCATTGGC
9614192 GTGACCAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAATACCATTGGCACCAC
Found at i:9614258 original size:27 final size:27
Alignment explanation
Indices: 9614228--9614282 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
9614218 ATTAGTATGC
* **
9614228 CACCATTGGTGCCGCCAATGGCATTGG
1 CACCACTGGTGCCGCCAATACCATTGG
9614255 CACCACTGGTGCCGCCAATACCATTGG
1 CACCACTGGTGCCGCCAATACCATTGG
9614282 C
1 C
9614283 GTGACCAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (27 bp):
CACCACTGGTGCCGCCAATACCATTGG
Found at i:9614282 original size:91 final size:91
Alignment explanation
Indices: 9614127--9614308 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
9614117 GGTGCCGCCA
* *
9614127 ATTAGTATGGCACCATTGGTGCCGCCAATGTCATTGGCACCACTGGTGCCGCCAATACCATTGGC
1 ATTAGTATGCCACCATTGGTGCCGCCAATGGCATTGGCACCACTGGTGCCGCCAATACCATTGGC
9614192 GTGACCAGTAAATTGTCACATCAGTC
66 GTGACCAGTAAATTGTCACATCAGTC
9614218 ATTAGTATGCCACCATTGGTGCCGCCAATGGCATTGGCACCACTGGTGCCGCCAATACCATTGGC
1 ATTAGTATGCCACCATTGGTGCCGCCAATGGCATTGGCACCACTGGTGCCGCCAATACCATTGGC
9614283 GTGACCAGTAAATTGTCACATCAGTC
66 GTGACCAGTAAATTGTCACATCAGTC
9614309 TAATTTTTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (91 bp):
ATTAGTATGCCACCATTGGTGCCGCCAATGGCATTGGCACCACTGGTGCCGCCAATACCATTGGC
GTGACCAGTAAATTGTCACATCAGTC
Found at i:9614379 original size:26 final size:27
Alignment explanation
Indices: 9614329--9614401 Score: 114
Period size: 26 Copynumber: 2.7 Consensus size: 27
9614319 TTAGTTTTTT
9614329 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAAT-AAAAAAAG
9614357 TTTATATATTTTGGTAAAT-AAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAG
9614383 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
9614402 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.52
27 2 0.05
28 19 0.43
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (27 bp):
TTTATATATTTTGGTAAATAAAAAAAG
Found at i:9616342 original size:4 final size:4
Alignment explanation
Indices: 9616333--9616365 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
9616323 GTAAAGTTGT
9616333 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
9616366 AAGTGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9620196 original size:22 final size:22
Alignment explanation
Indices: 9620167--9620230 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
9620157 TATAAAAGAT
9620167 AGTCAGTTGCTAGTAGTTAAGC
1 AGTCAGTTGCTAGTAGTTAAGC
* *
9620189 TGTCAGTTACTAGTTAGTT-AGC
1 AGTCAGTTGCTAG-TAGTTAAGC
* *
9620211 AGTTAAGTTGTTAGTAGTTA
1 AG-TCAGTTGCTAGTAGTTA
9620231 TTCTGGTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
AGTCAGTTGCTAGTAGTTAAGC
Found at i:9621906 original size:22 final size:22
Alignment explanation
Indices: 9621877--9621940 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
9621867 TATAAAAGAT
9621877 AGTCAGTTGCTAGTAGTTAAGC
1 AGTCAGTTGCTAGTAGTTAAGC
* *
9621899 TGTCAGTTACTAGTTAGTT-AGC
1 AGTCAGTTGCTAG-TAGTTAAGC
* *
9621921 AGTTAAGTTGTTAGTAGTTA
1 AG-TCAGTTGCTAGTAGTTA
9621941 TTCTGGTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
AGTCAGTTGCTAGTAGTTAAGC
Found at i:9626703 original size:16 final size:16
Alignment explanation
Indices: 9626684--9626717 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9626674 ATATTTCATA
9626684 ATTTTTATACATATCT
1 ATTTTTATACATATCT
*
9626700 ATTTTTATACATGTCT
1 ATTTTTATACATATCT
9626716 AT
1 AT
9626718 ATATGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTTTATACATATCT
Found at i:9626883 original size:24 final size:24
Alignment explanation
Indices: 9626856--9626901 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9626846 TTTATGATAG
*
9626856 TTACATACGTATATATGTATATGC
1 TTACATACATATATATGTATATGC
* * *
9626880 TTACTTATATATATATTTATAT
1 TTACATACATATATATGTATAT
9626902 AATAATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
TTACATACATATATATGTATATGC
Found at i:9629153 original size:9 final size:10
Alignment explanation
Indices: 9629135--9629180 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
9629125 AACGTCTCTT
9629135 TTTGCATTCA
1 TTTGCATTCA
9629145 TTT-CATTCA
1 TTTGCATTCA
9629154 TTTGCATTACA
1 TTTGCATT-CA
9629165 -TTGCA-TCA
1 TTTGCATTCA
*
9629173 TATGCATT
1 TTTGCATT
9629181 AGATTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 2 0.06
9 14 0.45
10 13 0.42
11 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (10 bp):
TTTGCATTCA
Found at i:9629159 original size:19 final size:19
Alignment explanation
Indices: 9629135--9629181 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9629125 AACGTCTCTT
*
9629135 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTGCA-TCA
9629154 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
9629173 TATGCATTA
1 TTTGCATTA
9629182 GATTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:9631892 original size:6 final size:6
Alignment explanation
Indices: 9631876--9631925 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
9631866 AAAAAAAGAG
*
9631876 AGAAAA A-AAAA AGAAAA AGAATAA A-AAGAA AGAAGA AGAGAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAA-AA AGAA-AA AGAAAA AGA-AAA AGAAAA
9631925 A
1 A
9631926 AAGAGAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.14
6 22 0.59
7 10 0.27
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:9631892 original size:21 final size:20
Alignment explanation
Indices: 9631868--9631929 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
9631858 AAAATATAAA
9631868 AAAAAGAGAGAAAAAAAAAAG
1 AAAAAGAGA-AAAAAAAAAAG
* *
9631889 AAAAAGA-ATAAAAAGAAAG
1 AAAAAGAGAAAAAAAAAAAG
*
9631908 AAGAAGAGAAAAGAAAAAAAG
1 AAAAAGAGAAAA-AAAAAAAG
9631929 A
1 A
9631930 GAAGGAGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.44
20 4 0.12
21 15 0.44
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAAGAGAAAAAAAAAAAG
Found at i:9631900 original size:33 final size:32
Alignment explanation
Indices: 9631863--9631925 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
9631853 CAATAAAAAT
9631863 ATAAAAA-AAAGAGAGAAAAAAAAAAGAAAAAGA
1 ATAAAAAGAAAGA-AG-AAAAAAAAAGAAAAAGA
* *
9631896 ATAAAAAGAAAGAAGAAGAGAAAAGAAAAA
1 ATAAAAAGAAAGAAGAAAAAAAAAGAAAAA
9631926 AAGAGAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 13 0.48
33 9 0.33
34 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (32 bp):
ATAAAAAGAAAGAAGAAAAAAAAAGAAAAAGA
Found at i:9631905 original size:26 final size:26
Alignment explanation
Indices: 9631876--9631929 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
9631866 AAAAAAAGAG
9631876 AGAAAAAAAAAAGA-AAAAGAATAAAA
1 AGAAAAAAAAAAGAGAAAAGAA-AAAA
* *
9631902 AG-AAAGAAGAAGAGAAAAGAAAAAA
1 AGAAAAAAAAAAGAGAAAAGAAAAAA
9631927 AGA
1 AGA
9631930 GAAGGAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (26 bp):
AGAAAAAAAAAAGAGAAAAGAAAAAA
Found at i:9633152 original size:45 final size:45
Alignment explanation
Indices: 9633018--9633289 Score: 264
Period size: 45 Copynumber: 6.1 Consensus size: 45
9633008 ATCAGTGAAA
* * * * *
9633018 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGACAGTGAAGTAGATCGAAG
* * * * * * *
9633063 ACACCAG-CCTT-ACATTCCTGTACTGACAGTGGAGCAGA-CTGAAG
1 ATAGCAGATCTTGTC-TTCCTGTATTGACAGTGAAGTAGATC-GAAG
* * *
9633107 ATAGCAGACCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGACAGTGAAGTAGATCGAAG
* * *
9633152 ATAGCAGATCTCGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGACAGTGAAGTAGATCGAAG
* *
9633197 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGACAGTGAAGTAGATCGAAG
* * * * *
9633242 ATAGCAGATCTTG-CTTTCCTATACTAACAGTGAAGCATATCGAAG
1 ATAGCAGATCTTGTC-TTCCTGTATTGACAGTGAAGTAGATCGAAG
9633287 ATA
1 ATA
9633290 TTATAGTTTG
Statistics
Matches: 190, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 35 0.18
45 152 0.80
46 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTATTGACAGTGAAGTAGATCGAAG
Found at i:9633203 original size:90 final size:90
Alignment explanation
Indices: 9633018--9633500 Score: 385
Period size: 90 Copynumber: 5.5 Consensus size: 90
9633008 ATCAGTGAAA
* * * * * * * * *
9633018 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCAG-CCTT-ACATTCC
1 ATAGCAGATCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTC-TTCC
* * * *
9633081 TGTACTGACAGTGGAGCAGA-CTGAAG
65 TGTATTGGCAGTGAAGTAGATC-GAAG
* *
9633107 ATAGCAGACCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTCGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
*
9633172 GTATTGGCAGTGAAGTAGATCAAAG
66 GTATTGGCAGTGAAGTAGATCGAAG
* *
9633197 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTG-CTTTCC
1 ATAGCAGATCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTC-TTCC
* * ** * *
9633261 TATACTAACAGTGAAGCATATCGAAG
65 TGTATTGGCAGTGAAGTAGATCGAAG
* * * * * * *
9633287 AT---A-TTATAGT-TTGC-A-A-T-AAAGC-AGACT-GA-AG-A--TAGCAGATCTTGTCTTCC
1 ATAGCAGATCTTGTCTTCCTATATTGACAGCGA-AGTAGATCGAAGATAGCAGATCTTGTCTTCC
9633337 TGTATTGGCAGTGAAGTAGATCGAAG
65 TGTATTGGCAGTGAAGTAGATCGAAG
* * * * * *
9633363 ATAGCAGATCTTGTCTACTTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTATCTTCCT
1 ATAGCAGATCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
* *
9633428 GTATTGGTAGTAAAGTAGATCGAAG
66 GTATTGGCAGTGAAGTAGATCGAAG
** * * *
9633453 ATAGCAGATCTTACCTTCCTATACT-AGCAGTGAAGCAGATCGAAGATA
1 ATAGCAGATCTTGTCTTCCTATATTGA-CAGCGAAGTAGATCGAAGATA
9633501 CTATAGTTTT
Statistics
Matches: 306, Mismatches: 66, Indels: 43
0.74 0.16 0.10
Matches are distributed among these distances:
76 38 0.12
77 1 0.00
78 1 0.00
79 2 0.01
80 7 0.02
81 6 0.02
82 1 0.00
83 2 0.01
84 1 0.00
85 8 0.03
86 7 0.02
87 2 0.01
88 1 0.00
89 45 0.15
90 182 0.59
91 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (90 bp):
ATAGCAGATCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
GTATTGGCAGTGAAGTAGATCGAAG
Found at i:9633378 original size:45 final size:45
Alignment explanation
Indices: 9633314--9633500 Score: 257
Period size: 45 Copynumber: 4.2 Consensus size: 45
9633304 AAAGCAGACT
*
9633314 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
* * * *
9633359 GAAGATAGCAGATCTTGTCTACTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
* * *
9633404 GAAGATAGCAAATCTTATCTTCCTGTATTGGTAGTAAAGTAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
* * * * *
9633449 GAAGATAGCAGATCTTACCTTCCTATACTAGCAGTGAAGCAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
9633494 GAAGATA
1 GAAGATA
9633501 CTATAGTTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (45 bp):
GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:9633459 original size:211 final size:211
Alignment explanation
Indices: 9633095--9633574 Score: 710
Period size: 211 Copynumber: 2.3 Consensus size: 211
9633085 CTGACAGTGG
* * *
9633095 AGCAGACTGAAGATAGCAGACCTTGTCTTCCTATATTGACAGCGAAGTAGATCGAAGATAGCAGA
1 AGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGA
* * * *
9633160 TCTCGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGC
66 TCTCGTCTACCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTATCTTCCTGTATTGGC
* * * *
9633225 AGCGAAGTAGATCGAAGATAGCAGATCTTGCTTTCCTATACTAACAGTGAAGCATATCGAAGATA
131 AGCAAAGTAGATCGAAGATAGCAGATCTTACCTTCCTATACTAACAGTGAAGCAGATCGAAGATA
*
9633290 TTATAGTTTGCAATAA
196 CTATAGTTTGCAATAA
*
9633306 AGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAGA
1 AGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGA
* * * *
9633371 TCTTGTCTACTTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTATCTTCCTGTATTGGT
66 TCTCGTCTACCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTATCTTCCTGTATTGGC
* *
9633436 AGTAAAGTAGATCGAAGATAGCAGATCTTACCTTCCTATACTAGCAGTGAAGCAGATCGAAGATA
131 AGCAAAGTAGATCGAAGATAGCAGATCTTACCTTCCTATACTAACAGTGAAGCAGATCGAAGATA
* *
9633501 CTATAGTTTTCAGTAA
196 CTATAGTTTGCAATAA
* * * * *
9633517 AGCAGACTGAAGATAGCAGATCTT-ACATTCCTGTACTGGCAGCAAAGCATATCGAAGA
1 AGCAGACTGAAGATAGCAGATCTTGTC-TTCCTGTATTGGCAGCGAAGTAGATCGAAGA
9633575 CACTAGCCTT
Statistics
Matches: 241, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
210 1 0.00
211 240 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (211 bp):
AGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGA
TCTCGTCTACCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTATCTTCCTGTATTGGC
AGCAAAGTAGATCGAAGATAGCAGATCTTACCTTCCTATACTAACAGTGAAGCAGATCGAAGATA
CTATAGTTTGCAATAA
Found at i:9633565 original size:76 final size:76
Alignment explanation
Indices: 9633436--9633579 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
9633426 CTGTATTGGT
* * ** *
9633436 AGTAAAGTAGATCGAAGATAGCAGATCTTACCTTCCTATACTAGCAGTGAAGCAGATCGAAGATA
1 AGTAAAGCAGATCGAAGATAGCAGATCTTACATTCCTATACTAGCAGCAAAGCAGATCGAAGACA
9633501 CTATAGTTTTC
66 CTATAGTTTTC
* * *
9633512 AGTAAAGCAGA-CTGAAGATAGCAGATCTTACATTCCTGTACTGGCAGCAAAGCATATCGAAGAC
1 AGTAAAGCAGATC-GAAGATAGCAGATCTTACATTCCTATACTAGCAGCAAAGCAGATCGAAGAC
9633576 ACTA
65 ACTA
9633580 GCCTTGCCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 1 0.02
76 58 0.98
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (76 bp):
AGTAAAGCAGATCGAAGATAGCAGATCTTACATTCCTATACTAGCAGCAAAGCAGATCGAAGACA
CTATAGTTTTC
Found at i:9633618 original size:44 final size:44
Alignment explanation
Indices: 9633570--9633707 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
9633560 AAAGCATATC
* *
9633570 GAAGACACTAGCCTTGCCTTCATATACTGACAGCGGAGCAGACT
1 GAAGACACAAGCCTTGCCTTCCTATACTGACAGCGGAGCAGACT
* ** * * * * * *
9633614 GAAGATAGCAAATCATGCCTTCCTGTACCGGCAACGAAGCAGA-T
1 GAAGACA-CAAGCCTTGCCTTCCTATACTGACAGCGGAGCAGACT
* * * *
9633658 CGAAGACACCAGCCTTGTCTTCCTATACTGACCGCGGAACAGACT
1 -GAAGACACAAGCCTTGCCTTCCTATACTGACAGCGGAGCAGACT
9633703 GAAGA
1 GAAGA
9633708 TAGTAGATCT
Statistics
Matches: 67, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
44 35 0.52
45 32 0.48
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (44 bp):
GAAGACACAAGCCTTGCCTTCCTATACTGACAGCGGAGCAGACT
Found at i:9633672 original size:89 final size:89
Alignment explanation
Indices: 9633517--9633757 Score: 329
Period size: 89 Copynumber: 2.7 Consensus size: 89
9633507 TTTTCAGTAA
* * * * *
9633517 AGCAGACTGAAGATAGCAGATCTTACATTCCTGTACTGGCAGCAAAGCATATCGAAGACACTAGC
1 AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGC
9633582 CTTGCCTTCATATACTGACAGCGG
66 CTTGCCTTCATATACTGACAGCGG
* * * *
9633606 AGCAGACTGAAGATAGCAAATCATGCCTTCCTGTACCGGCAACGAAGCAGATCGAAGACACCAGC
1 AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGC
* * *
9633671 CTTGTCTTCCTATACTGACCGCGG
66 CTTGCCTTCATATACTGACAGCGG
* * ** *
9633695 AACAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACCA
1 AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCA
9633758 TAGTTTGCAG
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 131 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (89 bp):
AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGC
CTTGCCTTCATATACTGACAGCGG
Found at i:9633991 original size:41 final size:41
Alignment explanation
Indices: 9633917--9634198 Score: 156
Period size: 44 Copynumber: 6.6 Consensus size: 41
9633907 AAGATGACAG
* * * *
9633917 ATCTTATCTCTCTGAAGTTACCGT-AGAGCAGATTGTATCCA
1 ATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAATCCA
* *
9633958 ATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGTTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAA--T-CCA
* * * * * ** * *
9634002 GTCCTATCTCCCTTATGTTGCAGTGGAGTGGATTAAAACCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATT-GAATC-CA
* * *
9634045 TATCTTATCTCTCTGAAGTTGCAGT-AGAGCAGATCGCATCCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAATCCA
* *
9634087 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAAAT-CA
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATT---G-AATCCA
* * * * * *
9634131 ATCCTATCTTCTTGAAGTTGCAGTGAAGCGGATTAAAATGACA
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATT-GAAT-CCA
* *
9634174 GATCTTATCTCTCTAAAGTTGCAGT
1 -ATCTTATCTCCCTGAAGTTGCAGT
9634199 AGAACGGATC
Statistics
Matches: 181, Mismatches: 44, Indels: 29
0.71 0.17 0.11
Matches are distributed among these distances:
41 62 0.34
42 5 0.03
43 6 0.03
44 104 0.57
45 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAATCCA
Found at i:9634072 original size:129 final size:129
Alignment explanation
Indices: 9633913--9634201 Score: 375
Period size: 129 Copynumber: 2.2 Consensus size: 129
9633903 ATCGAAGATG
* * * *
9633913 ACAGATCTTATCTCTCTGAAGTTACCGTAGAGCAGATTGTATCCAATCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTG
* * ** * * * *
9633978 CAGTGAAGTAGATTGAAGTTA-CTAGTCCTATCTCCCTT-ATGTTGCAGTGGAGTGGATTAAAAC
66 CAGTGAAGCAGATTAAAGAAATC-AATCCTATCT-CCTTGAAGTTGCAGTGAAGCGGATTAAAAC
9634041 C
129 C
*
9634042 ACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTG
* * * **
9634107 TAGTGGAGCAGATTAAAGAAATCAATCCTATCTTCTTGAAGTTGCAGTGAAGCGGATTAAAATG
66 CAGTGAAGCAGATTAAAGAAATCAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACC
*
9634171 ACAGATCTTATCTCTCTAAAGTTGCAGTAGA
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGA
9634202 ACGGATCACA
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
128 3 0.02
129 134 0.97
130 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (129 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTG
CAGTGAAGCAGATTAAAGAAATCAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACC
Found at i:9634193 original size:44 final size:43
Alignment explanation
Indices: 9633956--9634375 Score: 194
Period size: 44 Copynumber: 9.6 Consensus size: 43
9633946 AGATTGTATC
* * * *
9633956 CAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGTTA
1 CAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGA
* * * * * ** **
9633999 CTAGTCCTATCTCCCTTATGTTGCAGTGGAGTGGATTAAAACCA
1 C-AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGA
* *** *
9634043 CATATCTTATCTCTCTGAAGTTGCAGT-AGAGCAGA-TCGCAT-C
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAATGA
* * *
9634085 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGA-AA
1 CAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA-ATGA
* * * *
9634128 TCAATCCTATCTTCTTGAAGTTGCAGTGAAGCGGATTAAAATGA
1 -CAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGA
* * * * *
9634172 CAGATCTTATCTCTCTAAAGTTGCAGTAGAA-CGGATCACACCATGA
1 CA-ATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTA-A-AATGA
* ** * *
9634218 CAAGTCTTATCTCCCTAAAGTTGCAGT-AGAGCAGACTGGAGATAA
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGA-AGCAGA-TTAAAATGA
* * * * * **
9634263 CAAACTTTATCTCCCTGAAGTTGAAATGGAGCAAATTGAAGCT-A
1 CAATC-TTATCTCCCTGAAGTTGCAGTGAAGCAGATT-AAAATGA
*
9634307 CTAAT-TCTATCTCCCTGAAGTTGCAGTAGAA-CGGATTAAAATGA
1 C-AATCT-TATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAATGA
* *
9634351 TAAATCTTATAC-CTCTGAAGTTGCA
1 -CAATCTTAT-CTCCCTGAAGTTGCA
9634376 ATAGGTCAAA
Statistics
Matches: 281, Mismatches: 69, Indels: 53
0.70 0.17 0.13
Matches are distributed among these distances:
41 28 0.10
42 3 0.01
43 12 0.04
44 161 0.57
45 44 0.16
46 32 0.11
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (43 bp):
CAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGA
Found at i:9634285 original size:45 final size:43
Alignment explanation
Indices: 9634224--9634336 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 43
9634214 ATGACAAGTC
* * *
9634224 TTATCTCCCTAAAGTTGCAGTAGAGCAGACTGGAGATAACAAACT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGAT-ACAAA-T
* * * * * *
9634269 TTATCTCCCTGAAGTTGAAATGGAGCAAATTGAAGCTACTAAT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATACAAAT
9634312 TCTATCTCCCTGAAGTTGCAGTAGA
1 T-TATCTCCCTGAAGTTGCAGTAGA
9634337 ACGGATTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 2 0.04
44 24 0.44
45 29 0.53
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATACAAAT
Found at i:9634328 original size:179 final size:175
Alignment explanation
Indices: 9634047--9634375 Score: 412
Period size: 179 Copynumber: 1.9 Consensus size: 175
9634037 AAACCACATA
* * * * * *
9634047 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTGTAGTG
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATACAAACTTATCTCCCTGAAGTTGAAATG
* * * *
9634112 GAGCAGATTAAAGAAATCAATCCTATCTTCTTGAAGTTGCAGT-GAAGCGGATTAAAATGACAGA
66 GAGCAAATTAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAA-CGGATTAAAATGACAAA
9634176 TCTTAT-CTCTCTAAAGTTGCAGTAGAACGGATCACACCATGACAAG
130 TCTTATAC-CTCTAAAGTTGCAGTAGAACGGATCACACCATGACAAG
* *
9634222 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGGAGATAACAAACTTTATCTCCCTGAAGTTGA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGA-TCG-CAT-ACAAAC-TTATCTCCCTGAAGTTGA
* ** *
9634287 AATGGAGCAAATTGAAGCTA-CTAATTCTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAATGA
62 AATGGAGCAAATTAAAGAAATC-AATCCTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAATGA
* *
9634351 TAAATCTTATACCTCTGAAGTTGCA
126 CAAATCTTATACCTCTAAAGTTGCA
9634376 ATAGGTCAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
175 29 0.22
176 2 0.02
177 2 0.02
178 5 0.04
179 87 0.67
180 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (175 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCGCATACAAACTTATCTCCCTGAAGTTGAAATG
GAGCAAATTAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAATGACAAAT
CTTATACCTCTAAAGTTGCAGTAGAACGGATCACACCATGACAAG
Found at i:9634861 original size:16 final size:16
Alignment explanation
Indices: 9634840--9634870 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9634830 GAGCCACACG
9634840 TCCACTTGCCCTGTCC
1 TCCACTTGCCCTGTCC
9634856 TCCACTTGCCCTGTC
1 TCCACTTGCCCTGTC
9634871 TTCTGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.48, G:0.13, T:0.32
Consensus pattern (16 bp):
TCCACTTGCCCTGTCC
Found at i:9636206 original size:24 final size:24
Alignment explanation
Indices: 9636179--9636224 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9636169 TTTATGATAG
*
9636179 TTACATACGTATATATGTATATGC
1 TTACATACATATATATGTATATGC
* * *
9636203 TTACTTATATATATATTTATAT
1 TTACATACATATATATGTATAT
9636225 AATAATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
TTACATACATATATATGTATATGC
Found at i:9636717 original size:107 final size:107
Alignment explanation
Indices: 9636581--9637023 Score: 886
Period size: 107 Copynumber: 4.1 Consensus size: 107
9636571 AGAGAATCGA
9636581 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
1 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
9636646 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
66 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
9636688 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
1 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
9636753 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
66 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
9636795 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
1 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
9636860 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
66 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
9636902 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
1 GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
9636967 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
66 ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
9637009 GTCCTAACGTATTGG
1 GTCCTAACGTATTGG
9637024 ATATGACATG
Statistics
Matches: 336, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 336 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (107 bp):
GTCCTAACGTATTGGGTTCCGATTTTCTTCGTTGAATCTAAATAATCAAGATTACTCTTTTAAAT
ATATATAATAAAAAACTCATTATCGGGAATTCAATACGTTGT
Found at i:9651500 original size:11 final size:11
Alignment explanation
Indices: 9651486--9651523 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
9651476 TGTTACGTTG
9651486 TTTTGCTACTA
1 TTTTGCTACTA
*
9651497 TTTTGATACTA
1 TTTTGCTACTA
*
9651508 TATTGCTACTA
1 TTTTGCTACTA
9651519 TTTTG
1 TTTTG
9651524 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (11 bp):
TTTTGCTACTA
Found at i:9656754 original size:88 final size:86
Alignment explanation
Indices: 9656576--9656793 Score: 287
Period size: 88 Copynumber: 2.5 Consensus size: 86
9656566 TTAAGGGTGT
* *
9656576 AAAAAGCCTTCAAAATTTTTCAAAAAAAT-AATTAAGCCCCTTATTTTTTTGCACTCAATTGAGC
1 AAAAAGCCCTCAAACTTTTTCAAAAAAATCAATTAAGCCCC-TATTTTTTTGCACTCAATTGAGC
*
9656640 ACTTGAACTTTCAGAATACATAA
65 ACTTGAACTTTCAAAATACAT-A
* *
9656663 AAAAAGCCCTCAAACTTCTT-AAAAAAATCAATTAAGCCCCTACTTTTGTTTTCACTCAATTGAG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAATCAATTAAGCCCCTA-TTTT-TTTGCACTCAATTGAG
* * *
9656727 TACTTGAACTTTCAAAATGCATC
64 CACTTGAACTTTCAAAATACATA
* *
9656750 AAAAAGACCCTCAAACTTTTTCAAGAAAAGCAATTAAGCCCCTA
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAATCAATTAAGCCCCTA
9656794 ATCTTATTAC
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
86 10 0.09
87 38 0.33
88 47 0.41
89 20 0.17
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (86 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAATCAATTAAGCCCCTATTTTTTTGCACTCAATTGAGCA
CTTGAACTTTCAAAATACATA
Found at i:9656842 original size:19 final size:17
Alignment explanation
Indices: 9656815--9656867 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
9656805 AATTAGAAAA
9656815 AAATTATAATAAATAAT
1 AAATTATAATAAATAAT
*
9656832 AAATTTTATAA-AAATTATT
1 AAA--TTATAATAAA-TAAT
9656851 AAATTATAATAAA-AAT
1 AAATTATAATAAATAAT
9656867 A
1 A
9656868 TAAAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.10
17 9 0.30
18 6 0.20
19 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTATAATAAATAAT
Found at i:9656845 original size:29 final size:29
Alignment explanation
Indices: 9656812--9656881 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
9656802 ACAAATTAGA
* *
9656812 AAAAAATTATAATA-AATAAT-AAATTTT
1 AAAAAATTATAATATAATAATAAAAATAT
*
9656839 ATAAAAATTATTAA-ATTATAATAAAAATAT
1 A-AAAAATTA-TAATATAATAATAAAAATAT
9656869 AAAAAATTATAAT
1 AAAAAATTATAAT
9656882 TATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
27 1 0.03
28 12 0.34
29 16 0.46
30 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAAATTATAATATAATAATAAAAATAT
Found at i:9656863 original size:10 final size:10
Alignment explanation
Indices: 9656815--9656881 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
9656805 AATTAGAAAA
9656815 AAATTATAAT
1 AAATTATAAT
*
9656825 AAATAATAA-
1 AAATTATAAT
**
9656834 ATTTTATAA-
1 AAATTATAAT
9656843 AAATTAT--T
1 AAATTATAAT
9656851 AAATTATAAT
1 AAATTATAAT
* *
9656861 AAAAATATAAA
1 -AAATTATAAT
9656872 AAATTATAAT
1 AAATTATAAT
9656882 TATTAAAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
8 7 0.16
9 11 0.26
10 17 0.40
11 8 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATTATAAT
Found at i:9656870 original size:47 final size:45
Alignment explanation
Indices: 9656804--9656894 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 45
9656794 ATCTTATTAC
* *
9656804 AAATTAGAAAAAAATTATAATAAATAATAAATTTTATAAAAATTATT
1 AAATTAGAAAAAAATTATAAAAAATAAT-AATTAT-TAAAAATTATT
* *
9656851 AAATTATAATAAAAA-TATAAAAAATTATAATTATTAAAAATTAT
1 AAATTAGAA-AAAAATTATAAAAAATAATAATTATTAAAAATTAT
9656895 AATTTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 10 0.26
46 5 0.13
47 19 0.49
48 5 0.13
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (45 bp):
AAATTAGAAAAAAATTATAAAAAATAATAATTATTAAAAATTATT
Found at i:9657192 original size:29 final size:30
Alignment explanation
Indices: 9657144--9657236 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
9657134 TATTTTGTAT
* *
9657144 AATTTTCTTACGACTT-TATAAAATTTATA
1 AATTTTTTTACGATTTCTATAAAATTTATA
* * *
9657173 AATTTTTTTA-TATTTCTATATATTTTAT-
1 AATTTTTTTACGATTTCTATAAAATTTATA
*
9657201 AA-TTTTTTACGATTTTTATAAAATTT-TA
1 AATTTTTTTACGATTTCTATAAAATTTATA
9657229 CAATTTTT
1 -AATTTTT
9657237 GTTCTAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
27 8 0.16
28 17 0.34
29 21 0.42
30 4 0.08
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (30 bp):
AATTTTTTTACGATTTCTATAAAATTTATA
Found at i:9657217 original size:19 final size:19
Alignment explanation
Indices: 9657097--9657236 Score: 58
Period size: 19 Copynumber: 7.3 Consensus size: 19
9657087 TGGTACAATA
9657097 ATTTTTATAATTTTTTTACG
1 ATTTTTATAA-TTTTTTACG
** *
9657117 AAATTTAT-ATTTCTTTA-T
1 ATTTTTATAATTT-TTTACG
9657135 ATTTTGTATAATTTTCTTACG
1 ATTTT-TATAATTTT-TTACG
* * * *
9657156 A-CTTTATAAAATTTATA-A
1 ATTTTTAT-AATTTTTTACG
* * *
9657174 ATTTTT-TTATATTTCTA-T
1 ATTTTTATAAT-TTTTTACG
9657192 ATATTTTATAATTTTTTACG
1 AT-TTTTATAATTTTTTACG
** *
9657212 ATTTTTATAAAATTTTACA
1 ATTTTTATAATTTTTTACG
9657231 ATTTTT
1 ATTTTT
9657237 GTTCTAATTT
Statistics
Matches: 88, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
17 1 0.01
18 15 0.17
19 46 0.52
20 25 0.28
21 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACG
Found at i:9657219 original size:57 final size:59
Alignment explanation
Indices: 9657120--9657236 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 59
9657110 TTTTACGAAA
*
9657120 TTTATATTTCTTTATATTTTGTATAATTTTCTTACGACTTTATAAAATTTATA-AATTTT
1 TTTATATTTCTATATATTTTGTATAATTTTCTTACGACTTTATAAAATTT-TACAATTTT
*
9657179 TTTATATTTCTATATA-TTT-TATAATTTT-TTACGATTTTTATAAAATTTTACAATTTT
1 TTTATATTTCTATATATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTACAATTTT
9657236 T
1 T
9657237 GTTCTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
56 8 0.15
57 28 0.52
58 3 0.06
59 15 0.28
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (59 bp):
TTTATATTTCTATATATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTTT
Found at i:9673144 original size:21 final size:21
Alignment explanation
Indices: 9673120--9673164 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
9673110 TAAATTGCAA
9673120 TTATCTAAAGGGCCAAAATGG
1 TTATCTAAAGGGCCAAAATGG
9673141 TTATCTAAAGGGCCAAAATGG
1 TTATCTAAAGGGCCAAAATGG
9673162 TTA
1 TTA
9673165 ATAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (21 bp):
TTATCTAAAGGGCCAAAATGG
Found at i:9678596 original size:56 final size:56
Alignment explanation
Indices: 9678510--9678619 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
9678500 TTGAATGATA
*
9678510 TGCTTATATCTTGTGTGATGTGCATAGAAACAAGTGTGGAAAGATAATAAAATAAT
1 TGCTTATATCTTGTGTGATGTGCATAGAAACAAGTGTGGAAAGAGAATAAAATAAT
*
9678566 TGCTTATATCTTGTGTGATGTGCATAGAAACAAGTGTGGAAAGAGAATGAAATA
1 TGCTTATATCTTGTGTGATGTGCATAGAAACAAGTGTGGAAAGAGAATAAAATA
9678620 GTAAGTTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (56 bp):
TGCTTATATCTTGTGTGATGTGCATAGAAACAAGTGTGGAAAGAGAATAAAATAAT
Found at i:9678872 original size:45 final size:46
Alignment explanation
Indices: 9678774--9678872 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
9678764 TTTGAGTACT
* * *
9678774 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACAATTA
1 TCTGATCAAGAGAAAAAATGATAAGTGGTAGCTCTAGCTACAATTA
* *
9678820 TCTGATCAAGTGAAAAAATGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGAGAAAAAATGATAAGTGGTAGCTCTAGCTACAATTA
9678865 TCTGATCA
1 TCTGATCA
9678873 GGGACAAGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 19 0.40
46 29 0.60
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGAGAAAAAATGATAAGTGGTAGCTCTAGCTACAATTA
Found at i:9681106 original size:25 final size:26
Alignment explanation
Indices: 9681057--9681106 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9681047 CACAACAAAA
* *
9681057 TTTTGATGATTTTACCCCTAGTAAAC
1 TTTTGATGAATTTACCCCTAATAAAC
9681083 TTTTGATGAATTT-CCCCTAATAAA
1 TTTTGATGAATTTACCCCTAATAAA
9681107 ATTTCAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTTGATGAATTTACCCCTAATAAAC
Found at i:9685832 original size:9 final size:9
Alignment explanation
Indices: 9685815--9685851 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9685805 TGAGTTTTCG
9685815 AATTCGAAT
1 AATTCGAAT
*
9685824 AACTCGAAT
1 AATTCGAAT
9685833 AATTCGAAT
1 AATTCGAAT
9685842 AATTCGAAT
1 AATTCGAAT
9685851 A
1 A
9685852 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9689107 original size:17 final size:17
Alignment explanation
Indices: 9689085--9689128 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9689075 TGGTGGTGTT
9689085 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
9689100 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
9689117 TATATATATGTG
1 TATATATATGTG
9689129 GATCGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:9689512 original size:41 final size:41
Alignment explanation
Indices: 9689349--9689511 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
9689339 ATTGGTGAAT
*
9689349 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATA
* * * * *
9689390 TGAATCAGGCTATAAGCCTATCAGGCTAACTACCGGTGTTA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATA
* *
9689431 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATA
* *
9689472 TGAATCAGGCTATAAGCCTAGCAGGTTAAGTGCCGGTGAT
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAT
9689512 CCGAATATGA
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (41 bp):
TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATA
Found at i:9689745 original size:31 final size:34
Alignment explanation
Indices: 9689702--9689819 Score: 113
Period size: 37 Copynumber: 3.5 Consensus size: 34
9689692 TTATGTGTGC
* *
9689702 ATATGTAGGCATTAGGCATAGGTGGATATA-TAT
1 ATATGTATGCATTCGGCATAGGTGGATATAGTAT
*
9689735 -T-TGTATGCATTCGGCATAGGTAGATATAAGTGTAT
1 ATATGTATGCATTCGGCATAGGTGGATAT-A--GTAT
*
9689770 ATATGTATGCATTCGGCATAGGTGGGTATAAGTGA-
1 ATATGTATGCATTCGGCATAGGTGGATAT-AGT-AT
9689805 ATATG--TGCATTCGGC
1 ATATGTATGCATTCGGC
9689820 CTTTATAGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
31 23 0.32
32 2 0.03
33 10 0.14
35 10 0.14
36 2 0.03
37 26 0.36
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (34 bp):
ATATGTATGCATTCGGCATAGGTGGATATAGTAT
Found at i:9689771 original size:37 final size:37
Alignment explanation
Indices: 9689730--9689819 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
9689720 TAGGTGGATA
*
9689730 TATATTTGTATGCATTCGGCATAGGTAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGGTAGATATAAGTG
* *
9689767 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGGTAGATATAAGTG
9689804 -A-ATATG--TGCATTCGGC
1 TATATATGTATGCATTCGGC
9689820 CTTTATAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 10 0.20
35 5 0.10
36 1 0.02
37 34 0.68
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGGTAGATATAAGTG
Found at i:9692189 original size:150 final size:150
Alignment explanation
Indices: 9691918--9692217 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
9691908 TGTCCCAAGA
*
9691918 AGGATCGAATTCCTTTCACAGTACTTGGATCAGCCAGATTTTTAATTACCTCGACTTTGGCTTGG
1 AGGATCGAATTCCTTTCACAGTACTTGGATAAGCCAGATTTTTAATTACCTCGACTTTGGCTTGG
9691983 TCGACTTCTAAACCTTTAGCTGAGACGAAATGCCCCAACACTACTCCTTTTCAACCATGAGATGA
66 TCGACTTCTAAACCTTTAGCTGAGACGAAATGCCCCAACACTACTCCTTTTCAACCATGAGATGA
9692048 CATTTCTCAAAATTCAATAT
131 CATTTCTCAAAATTCAATAT
**
9692068 AGGATCGAATTCCTTTCACAGTACTTGGATAAGGTAGATTTTTAATTACCTCGACTTTGGCTTGG
1 AGGATCGAATTCCTTTCACAGTACTTGGATAAGCCAGATTTTTAATTACCTCGACTTTGGCTTGG
9692133 TCGACTTCTAAACCTTTAGCTGAGACGAAATGCCCCAACACTACTCCTTTTCAACCATGAGATGA
66 TCGACTTCTAAACCTTTAGCTGAGACGAAATGCCCCAACACTACTCCTTTTCAACCATGAGATGA
9692198 CATTTCTCAAAATTCAATAT
131 CATTTCTCAAAATTCAATAT
9692218 CAGATTAATC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (150 bp):
AGGATCGAATTCCTTTCACAGTACTTGGATAAGCCAGATTTTTAATTACCTCGACTTTGGCTTGG
TCGACTTCTAAACCTTTAGCTGAGACGAAATGCCCCAACACTACTCCTTTTCAACCATGAGATGA
CATTTCTCAAAATTCAATAT
Found at i:9701292 original size:13 final size:13
Alignment explanation
Indices: 9701274--9701298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9701264 ATAAAATTGG
9701274 AAAGATGATAAAA
1 AAAGATGATAAAA
9701287 AAAGATGATAAA
1 AAAGATGATAAA
9701299 TAATAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAGATGATAAAA
Found at i:9702849 original size:72 final size:72
Alignment explanation
Indices: 9702732--9702872 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
9702722 CTCATATTTT
* * *
9702732 AAAAAAAGGGGTCATGCCCAATAAGTTAGGACATGATCTTTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
9702797 ACTTGAG
66 ACTTGAG
* *
9702804 AAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCTTTTAAA
1 AAAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
9702869 ACTT
66 ACTT
9702873 AAGTTTGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (72 bp):
AAAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
ACTTGAG
Found at i:9703358 original size:22 final size:21
Alignment explanation
Indices: 9703329--9703369 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9703319 GACATAGATG
9703329 AATAAATAACAATAATAATGT
1 AATAAATAACAATAATAATGT
**
9703350 AATATAATAGTAATAATAAT
1 AATA-AATAACAATAATAAT
9703370 ATTAAAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
AATAAATAACAATAATAATGT
Found at i:9704871 original size:44 final size:44
Alignment explanation
Indices: 9704822--9704916 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
9704812 GTGATACGAT
*
9704822 TTGTAGCTTCAATCCCCTCTGCTGCAACTTCAGAGAGATATGAG
1 TTGTAGCTTCAATCCACTCTGCTGCAACTTCAGAGAGATATGAG
*
9704866 TTGTAGCTTCAATCCACTCTGCTGCAACTTCAGGGAGATATGAG
1 TTGTAGCTTCAATCCACTCTGCTGCAACTTCAGAGAGATATGAG
9704910 TTGTAGC
1 TTGTAGC
9704917 CTTAGTCTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TTGTAGCTTCAATCCACTCTGCTGCAACTTCAGAGAGATATGAG
Found at i:9704935 original size:44 final size:42
Alignment explanation
Indices: 9704843--9705314 Score: 263
Period size: 44 Copynumber: 10.6 Consensus size: 42
9704833 ATCCCCTCTG
* * ** **
9704843 CTGCAACTTCAGAGAGATATGAGTTGTAGCTTCAATCCACTCTG
1 CTGCAACTTCAGGGAGATAAGAGTTGTA-CTT-AATCTGCTCCA
* *
9704887 CTGCAACTTCAGGGAGATATGAGTTGTAGCCTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTTGTA--CTTAATCTGCTCCA
* ** *
9704931 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGCCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGAGTTGTA-CTT-AATCTGCTCCA
* * *
9704975 CTGCAACTTCAGGGGGATAAG-GTTTGTTACTTCAACCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGAG-TTG-TACTT-AATCTGCTCCA
* * ** * * *
9705019 CTGCAACTTCAGAGTGATAAGTTTTG-A-TATGATCTACTCTA
1 CTGCAACTTCAGGGAGATAAGAGTTGTACT-TAATCTGCTCCA
* * *
9705060 CTGCAACTTCAGAGAGATAAGATTGGTAGTTTATAGCTTTAATCTGTTCCA
1 CTGCAACTTCAGGGAGAT-A-A---G-AG-TTGTA-C-TTAATCTGCTCCA
* * * *
9705111 CTCCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTTG-TA-C-TTAATCTGCTCCA
* * *
9705156 CTACAACTTCAGGGAGATAAGA-TTCATCATTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTT-GT-A-CTTAATCTGCTCCA
* * *
9705200 CTGCAACTTCAGGGGGGTAGGA-TTAGTAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTT-GT-ACTT-AATCTGCTCCA
* * * *
9705244 CTGAAACTTCAAGGAGATAAGA-TTGGTTTACTCAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTT-G--TACTTAATCTGCTCCA
*
9705288 CTGCAACTTCAGGGAGATAAGACTTGT
1 CTGCAACTTCAGGGAGATAAGAGTTGT
9705315 TGGCTATGAT
Statistics
Matches: 342, Mismatches: 62, Indels: 50
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.08
42 4 0.01
43 6 0.02
44 226 0.66
45 48 0.14
46 3 0.01
48 2 0.01
49 2 0.01
50 1 0.00
51 23 0.07
52 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
CTGCAACTTCAGGGAGATAAGAGTTGTACTTAATCTGCTCCA
Found at i:9704979 original size:88 final size:87
Alignment explanation
Indices: 9704843--9705314 Score: 305
Period size: 88 Copynumber: 5.3 Consensus size: 87
9704833 ATCCCCTCTG
* * * * * ** ** *
9704843 CTGCAACTTCAGAGAGATATGAGTTGTAGCTTCAATCCACTCTGCTGCAACTTCAGGGAGATATG
1 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
*
9704908 AGTTGTAGCCTTAGTCTGCTCCA
66 AGTTGTA-CCTTAATCTGCTCCA
* * *
9704931 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGCCTGCCCCACTGCAACTTCAGGGGGATAAG
1 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
9704996 -GTTTGTTA-CTTCAACCTGCTCTA
66 AG-TTG-TACCTT-AATCTGCTCCA
* * ** * * * * *
9705019 CTGCAACTTCAGAGTGATAAGTTTTG-AT-ATGA-TCTACTCTACTGCAACTTCAGAGAGATAAG
1 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT-A-
* * *
9705081 ATTGGTAGTTTATAGCTTTAATCTGTTCCA
64 A---G-AG-TTGTA-CCTTAATCTGCTCCA
* * * * *
9705111 CTCCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTACAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAAGACTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* **
9705176 GA-TTCATCATTTTAATCTGCTCCA
65 GAGTT-GT-ACCTTAATCTGCTCCA
* * * * * * *
9705200 CTGCAACTTCAGGGGGGTAGGA-TTAGTAACTTCAATCTGCTCCACTGAAACTTCAAGGAGATAA
1 CTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* *
9705264 GA-TTGGTTTA-CTCAGTCTGCTCCA
65 GAGTT-G--TACCTTAATCTGCTCCA
9705288 CTGCAACTTCAGGGAGATAAGACTTGT
1 CTGCAACTTCAGGGAGATAAGACTTGT
9705315 TGGCTATGAT
Statistics
Matches: 297, Mismatches: 65, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
85 21 0.07
86 3 0.01
87 7 0.02
88 157 0.53
89 38 0.13
90 4 0.01
91 3 0.01
92 33 0.11
93 2 0.01
94 3 0.01
95 3 0.01
96 23 0.08
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
AGTTGTACCTTAATCTGCTCCA
Found at i:9705415 original size:50 final size:49
Alignment explanation
Indices: 9705354--9705734 Score: 269
Period size: 50 Copynumber: 7.6 Consensus size: 49
9705344 TGCAATGTCG
* * * *
9705354 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCTACTACACCGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACTGCCA
** * * * *
9705404 GGGAAGTAAGATTCGTTGTTGTGGCTTCAATCTTTTTAACTGCAATGTC-
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACTGCCA
* * * * * *
9705453 GGAGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTTCCATTGCACGGCCA
1 GG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACTGCCA
* * * * ** *
9705504 GGGAAGTAAGATTCGCTGTTGTATCTTCAATCTTTTTAACTGCAATTTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACTGCCA
* * * * * *
9705554 GGGAAGTAAGATTTGTCGTTGTGGCTTCAATCTATTCCATTACACTGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACTGCCA
* * * * * *
9705604 CGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCT-ACTGCACTGCCA
* * * * * **
9705654 GGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCACCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCTACTGCACTGCCA
** * *
9705704 ATGAAGTAAGATTCACTGTTGTAGCTTCAAT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAAT
9705735 TTACTTCACT
Statistics
Matches: 247, Mismatches: 76, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
49 9 0.04
50 230 0.93
51 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (49 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCTACTGCACTGCCA
Found at i:9705511 original size:100 final size:100
Alignment explanation
Indices: 9705338--9705734 Score: 578
Period size: 100 Copynumber: 4.0 Consensus size: 100
9705328 TTTAACTCTA
* * *
9705338 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCTACTACACCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCC
* *
9705403 AGGGAAGTAAGATTCGTTGTTGTGGCTTCAATCTT
66 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT
* * * * *
9705438 TTTAACTGCAATGTCGGAGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTTCCATTGCACGGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCC
*
9705503 AGGGAAGTAAGATTCGCTGTTGTATCTTCAATCTT
66 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT
* * * * * * *
9705538 TTTAACTGCAATTTCGGGGAAGTAAGATTTGTCGTTGTGGCTTCAATCTATTCCATTACACTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCC
*
9705603 ACGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT
66 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT
* *
9705638 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCACC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCC
** *
9705703 AATGAAGTAAGATTCACTGTTGTAGCTTCAAT
66 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAAT
9705735 TTACTTCACT
Statistics
Matches: 263, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 263 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCC
AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT
Found at i:9705828 original size:50 final size:50
Alignment explanation
Indices: 9705747--9705841 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
9705737 ACTTCACTTC
*
9705747 AGCTTTAATCTATTCCACTACAATGTCAGGGAAATAAGATTCGCTGTTGT
1 AGCTTTAATCTATTCCACTACAATCTCAGGGAAATAAGATTCGCTGTTGT
* *
9705797 AGCTTTAATCTGTTCCACTACACCA-CT-AGGGAAGTAAGATTCGCT
1 AGCTTTAATCTATTCCACTACA--ATCTCAGGGAAATAAGATTCGCT
9705842 ATTTTTTATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
50 38 0.95
51 1 0.03
52 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (50 bp):
AGCTTTAATCTATTCCACTACAATCTCAGGGAAATAAGATTCGCTGTTGT
Found at i:9706357 original size:38 final size:38
Alignment explanation
Indices: 9706306--9706378 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
9706296 TAACGCCTTC
*
9706306 TTGCCCGGCTGGCATCTCCAAAGAAACACTTAATCAGA
1 TTGCCCGGCTGGCATCTCCAAAAAAACACTTAATCAGA
* * *
9706344 TTGCCCTGCTGGCATCTCTAAAAAAACATTTAATC
1 TTGCCCGGCTGGCATCTCCAAAAAAACACTTAATC
9706379 CCGATTAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (38 bp):
TTGCCCGGCTGGCATCTCCAAAAAAACACTTAATCAGA
Found at i:9706474 original size:24 final size:23
Alignment explanation
Indices: 9706397--9706475 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 23
9706387 AGGCTCTTTG
*
9706397 TGAGCTTCCCGATA-TGGCTCGCT
1 TGAGCTTCCCGATATTGGCTC-CC
* **
9706420 TGAACTTCCCGATATATGGCTATC
1 TGAGCTTCCCGATAT-TGGCTCCC
*
9706444 TGAAGCTTCCCGTTATTGGCTCCC
1 TG-AGCTTCCCGATATTGGCTCCC
9706468 ATGAGCTT
1 -TGAGCTT
9706476 TTTGATTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
23 13 0.30
24 13 0.30
25 18 0.41
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.33
Consensus pattern (23 bp):
TGAGCTTCCCGATATTGGCTCCC
Found at i:9714568 original size:17 final size:17
Alignment explanation
Indices: 9714546--9714578 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9714536 AATGATTTTA
9714546 ATTTTATATA-ATTAATT
1 ATTTTAT-TACATTAATT
9714563 ATTTTATTACATTAAT
1 ATTTTATTACATTAAT
9714579 AATTCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATTACATTAATT
Found at i:9717242 original size:5 final size:5
Alignment explanation
Indices: 9717232--9717295 Score: 119
Period size: 5 Copynumber: 12.8 Consensus size: 5
9717222 TTAATAATGT
*
9717232 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TATTA TACTA TACTA
1 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA
9717282 TACTA TACTA TACT
1 TACTA TACTA TACT
9717296 TGAGTTTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TACTA
Found at i:9720134 original size:22 final size:22
Alignment explanation
Indices: 9720108--9720150 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9720098 CATCCAAACA
9720108 ATAATAACAAAAT-AGTAGTAAT
1 ATAATAACAAAATGA-TAGTAAT
*
9720130 ATAATAATAAAATGATAGTAA
1 ATAATAACAAAATGATAGTAA
9720151 AATAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (22 bp):
ATAATAACAAAATGATAGTAAT
Found at i:9743652 original size:121 final size:121
Alignment explanation
Indices: 9743438--9743669 Score: 347
Period size: 121 Copynumber: 1.9 Consensus size: 121
9743428 GGCAACACAG
* * * *
9743438 GTGAGTAAGAAGCTAGGATATCTGAAATTAATATATCATAACAGCAGGTATGCTATGCCAAAACA
1 GTGAGTAAGAAGCCAGGATATCTGAAATTAATAGATCATAACAACAGGTATGATATGCCAAAACA
*
9743503 TCGGCCTCTCCTCTTTGGCCCTTTAAACAAGCGCAGCCTTTTAGCAGGCGACGCAA
66 TCGGCCTCTCCTCTTTGGCCCTTTAAACAAGCACAGCCTTTTAGCAGGCGACGCAA
* * * *
9743559 GTGAGTAATAAGCCGGGGTATCTGAAATTAATAGATCATAACAACATGTATGATATGCCAAAACA
1 GTGAGTAAGAAGCCAGGATATCTGAAATTAATAGATCATAACAACAGGTATGATATGCCAAAACA
* * * *
9743624 TCGGTCTCTCCTCTTTGGCCTTTTAAACAGGCACTGCCTTTTAGCA
66 TCGGCCTCTCCTCTTTGGCCCTTTAAACAAGCACAGCCTTTTAGCA
9743670 TAAAAAGCTG
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
121 98 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (121 bp):
GTGAGTAAGAAGCCAGGATATCTGAAATTAATAGATCATAACAACAGGTATGATATGCCAAAACA
TCGGCCTCTCCTCTTTGGCCCTTTAAACAAGCACAGCCTTTTAGCAGGCGACGCAA
Found at i:9746613 original size:121 final size:121
Alignment explanation
Indices: 9746386--9746618 Score: 358
Period size: 121 Copynumber: 1.9 Consensus size: 121
9746376 GAGATTAACA
* * * *
9746386 GCTAAAAGACAGTGCCTGTTTAAAGGGCCGAAGAGGAGAGACCGATGTTTTGGCATAGCATACAT
1 GCTAAAAGACAGCGCCTGTTTAAAAGGCCAAAGAGGAAAGACCGATGTTTTGGCATAGCATACAT
* *
9746451 GCTGTTATGATCTATTAATTTCAGATACCCCGACTTATTACTCACCTATGTTGCCT
66 ACTGTTATGACCTATTAATTTCAGATACCCCGACTTATTACTCACCTATGTTGCCT
* * *
9746507 GCTAAAAGGCAGCGCCTGTTTAAAAGGCCAAAGAGGAAAGGCCGATGTTTTGGCATAGCATACCT
1 GCTAAAAGACAGCGCCTGTTTAAAAGGCCAAAGAGGAAAGACCGATGTTTTGGCATAGCATACAT
* * *
9746572 ACTGTTATGACCTATTAATTTCAGATATCCCGGCTTCTTACTCACCT
66 ACTGTTATGACCTATTAATTTCAGATACCCCGACTTATTACTCACCT
9746619 GCGTCGCCTT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 100 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (121 bp):
GCTAAAAGACAGCGCCTGTTTAAAAGGCCAAAGAGGAAAGACCGATGTTTTGGCATAGCATACAT
ACTGTTATGACCTATTAATTTCAGATACCCCGACTTATTACTCACCTATGTTGCCT
Found at i:9748188 original size:48 final size:48
Alignment explanation
Indices: 9748116--9748212 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
9748106 AAGGAATTAT
* *
9748116 AATCCCAAACAAAAATGAAACAATTTTTCTAGAATTTCATAGGGAAAG
1 AATCCCAAACAAAAATGAAACAATTTTTCTAGAAATTCACAGGGAAAG
9748164 NAATCCC-AACAAAAATGAAACAATTTTTCTAGAAATTCACAGGGAAAG
1 -AATCCCAAACAAAAATGAAACAATTTTTCTAGAAATTCACAGGGAAAG
9748212 A
1 A
9748213 TGCAAAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 39 0.85
49 6 0.13
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.23
Consensus pattern (48 bp):
AATCCCAAACAAAAATGAAACAATTTTTCTAGAAATTCACAGGGAAAG
Found at i:9749032 original size:23 final size:23
Alignment explanation
Indices: 9749006--9749049 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9748996 AAATTCTAAC
* *
9749006 TTTCAAATGGATTTTTGGGTTCT
1 TTTCAAATGGACTTTTAGGTTCT
*
9749029 TTTCAGATGGACTTTTAGGTT
1 TTTCAAATGGACTTTTAGGTT
9749050 GGATCGAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.23, T:0.50
Consensus pattern (23 bp):
TTTCAAATGGACTTTTAGGTTCT
Found at i:9751061 original size:21 final size:21
Alignment explanation
Indices: 9751035--9751077 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9751025 ACATTAACCC
* *
9751035 TAACTTTAGTATGGAATGAAT
1 TAACTTGAGTATGGAATAAAT
9751056 TAACTTGAGTATGGAATAAAT
1 TAACTTGAGTATGGAATAAAT
9751077 T
1 T
9751078 GATTGATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (21 bp):
TAACTTGAGTATGGAATAAAT
Found at i:9757570 original size:23 final size:22
Alignment explanation
Indices: 9757527--9757584 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9757517 AAAAGGCATC
* *
9757527 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9757548 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9757571 TGCATATCATATCT
1 TACAAATCATATCT
9757585 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9758628 original size:16 final size:16
Alignment explanation
Indices: 9758607--9758638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9758597 GGAAAGTGAC
*
9758607 AAGTTTGGATTTTATT
1 AAGTTTAGATTTTATT
9758623 AAGTTTAGATTTTATT
1 AAGTTTAGATTTTATT
9758639 TCTCAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
AAGTTTAGATTTTATT
Found at i:9770367 original size:17 final size:17
Alignment explanation
Indices: 9770316--9770367 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
9770306 AACAAAAATA
*
9770316 AAAGGAAAGGAAAGGAAAG
1 AAAGAAAAGGAAA--AAAG
* *
9770335 AAAGAAAGGGAGAAAAG
1 AAAGAAAAGGAAAAAAG
*
9770352 AATGAAAAGGAAAAAA
1 AAAGAAAAGGAAAAAA
9770368 AAATCTCTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 17 0.63
19 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
AAAGAAAAGGAAAAAAG
Found at i:9779686 original size:1 final size:1
Alignment explanation
Indices: 9779680--9779705 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9779670 TATGCTGAGG
9779680 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9779706 GGGGGGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9781445 original size:19 final size:18
Alignment explanation
Indices: 9781407--9781444 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9781397 CCCTAATGCA
*
9781407 TTATCTGTCTTGTTACTT
1 TTATCTGTCTTGCTACTT
9781425 TTATCTGTACTTGCTA-TT
1 TTATCTGT-CTTGCTACTT
9781443 TT
1 TT
9781445 TTTACTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATCTGTCTTGCTACTT
Found at i:9787108 original size:181 final size:181
Alignment explanation
Indices: 9786804--9787167 Score: 631
Period size: 181 Copynumber: 2.0 Consensus size: 181
9786794 ACGCATACGC
*
9786804 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTCTAAGGCCTCAAAAATTACCACGGAAGCTG
1 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTCTAAGGCCTCAAAAATTACCACGAAAGCTG
9786869 CCAAACTATCTCTTTTGGGTTCCATAACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
66 CCAAACTATCTCTTTTGGGTTCCATAACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
* * *
9786934 AGGACCCTGTTGTTGAGCCACTCCGTATGACTGT-TCGAACCGACTACTAGA
131 AGGAACCTGATGTTGAGCCACTCCATATGACTGTCT-GAACCGACTACTAGA
* * *
9786985 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTCTGAGGCCTCGAAAATTTCCACGAAAGCTG
1 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTCTAAGGCCTCAAAAATTACCACGAAAGCTG
*
9787050 CCAAACTATCTCTTTTGGGTTCCATGACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
66 CCAAACTATCTCTTTTGGGTTCCATAACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
*
9787115 AGGAACCTGATGTTGAGCCACTCCATATGACTGTCTGAACCGACTACTGGA
131 AGGAACCTGATGTTGAGCCACTCCATATGACTGTCTGAACCGACTACTAGA
9787166 TG
1 TG
9787168 CGGCGGGAGG
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 172 0.99
182 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (181 bp):
TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTCTAAGGCCTCAAAAATTACCACGAAAGCTG
CCAAACTATCTCTTTTGGGTTCCATAACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
AGGAACCTGATGTTGAGCCACTCCATATGACTGTCTGAACCGACTACTAGA
Found at i:9792421 original size:17 final size:17
Alignment explanation
Indices: 9792399--9792433 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9792389 AATGCAAAGT
*
9792399 AAAAACCTACGACTTCC
1 AAAAACCTACAACTTCC
9792416 AAAAACCTACAACTTCC
1 AAAAACCTACAACTTCC
9792433 A
1 A
9792434 TGACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAACCTACAACTTCC
Found at i:9805736 original size:94 final size:96
Alignment explanation
Indices: 9805521--9805785 Score: 307
Period size: 94 Copynumber: 2.8 Consensus size: 96
9805511 TTTTTTTTTT
* * *
9805521 CATTTCAATTACAATGATAAAATTTCAGTTTTGA------TAGTTAAACTCAAATATAATG-TTT
1 CATTTCAATTATAATGATAAAAATTCAGTTTTGATCCCTCTA-TTAAACTCAAATTTAA-GATTT
* **
9805579 AATCTTTATATTTTTATCTTCTTCTTTTTTTGC
64 AATCTTTATATTTTTATCTGCTTCTTTGCTTGC
* * * *
9805612 CATTTCAATTATAATGATAAAATTTTAGTTTTGATCCTTCTATTAAACTCAAATTTAAGATCTAA
1 CATTTCAATTATAATGATAAAAATTCAGTTTTGATCCCTCTATTAAACTCAAATTTAAGATTTAA
9805677 TCTTTATATTTTTA-CATGC-T-TTTGCTTGC
66 TCTTTATATTTTTATC-TGCTTCTTTGCTTGC
* ** *
9805706 CATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTGGTAAACTAAAATTTAAGATTTAA
1 CATTTCAATTATAATGATAAAAATTCAGTTTTGATCCCTCTATTAAACTCAAATTTAAGATTTAA
9805771 TCTTTATATTTTTAT
66 TCTTTATATTTTTAT
9805786 TTGACATAAT
Statistics
Matches: 150, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
91 32 0.21
94 78 0.52
95 3 0.02
96 35 0.23
97 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (96 bp):
CATTTCAATTATAATGATAAAAATTCAGTTTTGATCCCTCTATTAAACTCAAATTTAAGATTTAA
TCTTTATATTTTTATCTGCTTCTTTGCTTGC
Found at i:9808181 original size:58 final size:59
Alignment explanation
Indices: 9808080--9808190 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
9808070 TTTTATATAT
* * *
9808080 TTATACATACATATGTGTTTTATATTCTATAACTTTAAAATATATATATACATGCATTC
1 TTATACATACATATGTGTTTTACATTCTATAACTCTAAAATATATACATACATGCATTC
* * *
9808139 TTATA-ATATATATGTGTTTTACATTTTATAACTCCT-ATATATATACATACAT
1 TTATACATACATATGTGTTTTACATTCTATAACT-CTAAAATATATACATACAT
9808191 ATATTCTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 39 0.87
59 6 0.13
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (59 bp):
TTATACATACATATGTGTTTTACATTCTATAACTCTAAAATATATACATACATGCATTC
Found at i:9808294 original size:26 final size:26
Alignment explanation
Indices: 9808225--9808302 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
9808215 ATCTTAAAAT
* * *
9808225 ATACGTATACTTATATACATTTTATA
1 ATACATATACATATATATATTTTATA
** *
9808251 ATACATATATGTACATATATTTTATA
1 ATACATATACATATATATATTTTATA
**
9808277 ATTTATATACATATATAT-TTGTTATA
1 ATACATATACATATATATATT-TTATA
9808303 TTTTTGACAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
ATACATATACATATATATATTTTATA
Found at i:9814693 original size:8 final size:8
Alignment explanation
Indices: 9814680--9814725 Score: 60
Period size: 7 Copynumber: 5.9 Consensus size: 8
9814670 GTACAAGTGG
9814680 AAAAAAAT
1 AAAAAAAT
9814688 -AAAAAAT
1 AAAAAAAT
9814695 -AAAAAAT
1 AAAAAAAT
9814702 AAAAAAAT
1 AAAAAAAT
*
9814710 AACAAAAAG
1 AA-AAAAAT
9814719 AAAAAAA
1 AAAAAAA
9814726 CCTCAACCGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
7 14 0.40
8 14 0.40
9 7 0.20
ACGTcount: A:0.87, C:0.02, G:0.02, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9814723 original size:15 final size:15
Alignment explanation
Indices: 9814681--9814716 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
9814671 TACAAGTGGA
9814681 AAAAAAT-AAAAAAT
1 AAAAAATAAAAAAAT
9814695 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
9814710 AACAAAA
1 AA-AAAA
9814717 AGAAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.35
15 9 0.45
16 4 0.20
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:9815190 original size:20 final size:18
Alignment explanation
Indices: 9815162--9815198 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
9815152 AAAAAGAAAC
9815162 AAAAAGAAAAAAATAAAAT
1 AAAAAG-AAAAAATAAAAT
9815181 AAAAACGAAAAAATAAAA
1 AAAAA-GAAAAAATAAAA
9815199 AGAAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAGAAAAAATAAAAT
Found at i:9816421 original size:134 final size:133
Alignment explanation
Indices: 9816176--9816749 Score: 597
Period size: 134 Copynumber: 4.3 Consensus size: 133
9816166 AGATCTTATT
* * * ** ***
9816176 TTCCTGTATTGGCAGCGAAGTAG-GTCAAAGATAGCAGATCTTATCTTCCTGTA-TTGGCAGCAA
1 TTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGATCTTGTC-TCCTG-AGCAGG-AGTGG
* * *
9816239 AGT-GGATCAAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGCAAAGTAAATTGAAGATAGCAA
62 AGTAGG-TCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAA
*
9816303 GCCTTGTC
126 GTCTTGTC
*
9816311 TTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTCCTTGAGCAGGAGTGGAGT
1 TTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTCC-TGAGCAGGAGTGGAGT
* **
9816376 AGGTCAAAGATTA-CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAAGTC
65 AGGTCAAAGA-TAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAAGTC
*
9816440 TTATC
129 TTGTC
** * * *
9816445 TTCCTGTATTATCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCCCCCTGAGCAGCAATGGAGT
1 TTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGT-CTCCTGAGCAGGAGTGGAGT
** * * *
9816510 AGGTTGAAGATTGCAGATATTGTCTTCTTGTATTGGCAGCGAAGTAGATTGAAGATAGCAAGTCT
65 AGGTCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAAGTCT
9816575 TGTC
130 TGTC
* * ** * *
9816579 TTCCTGTATTGACAGTGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA-TTGGTAGCGAA
1 TTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTC-TCCTG-AGCAGG-AGTGGA
* * * * *
9816643 GTAGATCAAAGATAGCA-AGTCTTGTCTTCTTGTATTGACAACGAAGTAGACTGAAGATAGC-AG
63 GTAGGTCAAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAAG
9816706 ATCTTGTC
127 -TCTTGTC
* * *
9816714 TTCCGGTATTGGCAGCAAAGTGGA-TCGAAGATAGCA
1 TTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCA
9816750 AACCTTATCT
Statistics
Matches: 371, Mismatches: 55, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
133 2 0.01
134 227 0.61
135 141 0.38
136 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
TTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTCCTGAGCAGGAGTGGAGTA
GGTCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAAGTCTT
GTC
Found at i:9816917 original size:45 final size:45
Alignment explanation
Indices: 9816165--9816921 Score: 630
Period size: 45 Copynumber: 16.9 Consensus size: 45
9816155 CTAAAAATTA
* * * *
9816165 CAGATCTTATTTTCCTGTATTGGCAGCGAAGTAGGTCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
9816210 CAGATCTTATCTTCCTGTATTGGCAGCAAAGTGGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
9816255 CAGATCTTGTCTTTCTGTATTGGCAGCAAAGTAAATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
9816300 CA-AGCCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* ** * * * *
9816345 TAGATCTTGTC-TCCT-TGAGCAGG-AGTGGAGTAGGTCAAAGATTA-
1 CAGATCTTGTCTTCCTGT-A-TTGGCAGCGAAGTAGATCGAAGA-TAG
* *
9816389 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* **
9816434 CA-AGTCTTATCTTCCTGTATTATCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
** *** ** * * * *
9816479 CAGATCTTGTCCCCCTG-AGCAGCAATGGAGTAGGTTGAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
9816523 CAGATATTGTCTTCTTGTATTGGCAGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
9816568 CA-AGTCTTGTCTTCCTGTATTGACAGTGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* *
9816613 CAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
9816658 CA-AGTCTTGTCTTCTTGTATTGACAACGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * *
9816703 CAGATCTTGTCTTCCGGTATTGGCAGCAAAGTGGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
9816748 CAAACCTTATCTTCCTGTATTGGCAGCAAAGTATA-CTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * *** * * * *
9816793 TATATATTGTC-TCCT-TCAGCAGTAGTGGAA-TAGGTCGAAGATTG
1 CAGATCTTGTCTTCCTGT-ATTGGCAG-CGAAGTAGATCGAAGATAG
* * * *
9816837 TAGATCTTGTCTTCCAGTATCGGTAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
9816882 CAGATCTTGTCTTCCTGTACTGACAGTGAAGTAGATCGAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
9816922 AGCTGGTCCT
Statistics
Matches: 569, Mismatches: 112, Indels: 62
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.00
44 97 0.17
45 462 0.81
46 8 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:9817082 original size:44 final size:44
Alignment explanation
Indices: 9817017--9817136 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 44
9817007 AGCCACCAAC
* ** *
9817017 CTTATCTCCCTAAAGCCGCAGTGAAGCA-AGTTGTAGATAC-AAGT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGA-TTGAAGATACTAA-T
* * *
9817061 TTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACTAAT
* * * *
9817105 CCTATCTCTCTGAAGTTGCAGTGGAGCGGATT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATT
9817137 AAAAGGATGA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 60 0.95
45 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACTAAT
Found at i:9817160 original size:44 final size:44
Alignment explanation
Indices: 9817063--9817170 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
9817053 ATACAAGTTT
* * * *
9817063 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCGACTAATCA
*
9817107 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAAG-GA-TGAATCA
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGCGACT-AATCA
9817151 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCTCTGAAGTTGCAGT
9817171 TGGTCAGATC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 51 0.91
45 4 0.07
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCGACTAATCA
Found at i:9819030 original size:58 final size:59
Alignment explanation
Indices: 9818929--9819039 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
9818919 TTTTATATAT
* * *
9818929 TTATACATACATATGTGTTTTATATTCTATAACTTTAAAATATATATATACATGCATTC
1 TTATACATACATATGTGTTTTACATTCTATAACTCTAAAATATATACATACATGCATTC
* * *
9818988 TTATA-ATATATATGTGTTTTACATTTTATAACTCCT-ATATATATACATACAT
1 TTATACATACATATGTGTTTTACATTCTATAACT-CTAAAATATATACATACAT
9819040 ATATTCTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 39 0.87
59 6 0.13
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (59 bp):
TTATACATACATATGTGTTTTACATTCTATAACTCTAAAATATATACATACATGCATTC
Found at i:9819144 original size:26 final size:26
Alignment explanation
Indices: 9819075--9819152 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
9819065 ATCTTAAAAT
* * *
9819075 ATACGTATACTTATATACATTTTATA
1 ATACATATACATATATATATTTTATA
** *
9819101 ATACATATATGTACATATATTTTATA
1 ATACATATACATATATATATTTTATA
**
9819127 ATTTATATACATATATAT-TTGTTATA
1 ATACATATACATATATATATT-TTATA
9819153 TTTTTGACAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
ATACATATACATATATATATTTTATA
Found at i:9828836 original size:5 final size:5
Alignment explanation
Indices: 9828826--9828854 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9828816 AAAAATCATT
9828826 TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATT
9828855 TTTCTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:9835638 original size:6 final size:6
Alignment explanation
Indices: 9835627--9835661 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
9835617 GGTTTTCTCC
9835627 AAAATG AAAATG AAAATG AAAATAG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
9835662 TTATTTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:9840999 original size:12 final size:12
Alignment explanation
Indices: 9840978--9841011 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9840968 TTGAAGAAGA
9840978 ATGAGAAAATTG
1 ATGAGAAAATTG
*
9840990 ATGAGGAAATTG
1 ATGAGAAAATTG
9841002 A-GAGAAAATT
1 ATGAGAAAATT
9841012 AAGTGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (12 bp):
ATGAGAAAATTG
Found at i:9852406 original size:6 final size:6
Alignment explanation
Indices: 9852395--9852479 Score: 50
Period size: 6 Copynumber: 14.3 Consensus size: 6
9852385 TAAAAAAAAT
* ** ** *
9852395 AATCAA AATCAA AATCAA GATCAA AAAGAA AAGGAAA AATCAA AGTCAA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AA-TCAA AATCAA AATCAA
* * *
9852444 AAGCAAA AATAAA AATC-- AATCAA AGTCAA AAT-AA AA
1 AATC-AA AATCAA AATCAA AATCAA AATCAA AATCAA AA
9852480 GTATGAAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 43 0.73
7 8 0.14
ACGTcount: A:0.67, C:0.12, G:0.08, T:0.13
Consensus pattern (6 bp):
AATCAA
Found at i:9852434 original size:31 final size:31
Alignment explanation
Indices: 9852399--9852457 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9852389 AAAAATAATC
* *
9852399 AAAATCAAAATCAAGATCAAAAAGAAAAGGA
1 AAAATCAAAATCAAAAGCAAAAAGAAAAGGA
* *
9852430 AAAATCAAAGTCAAAAGCAAAAATAAAA
1 AAAATCAAAATCAAAAGCAAAAAGAAAA
9852458 ATCAATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (31 bp):
AAAATCAAAATCAAAAGCAAAAAGAAAAGGA
Found at i:9852437 original size:25 final size:25
Alignment explanation
Indices: 9852405--9852462 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
9852395 AATCAAAATC
*
9852405 AAAATC-AAGATCAAAAAG-AAAAGGA
1 AAAATCAAAG-TC-AAAAGCAAAAAGA
*
9852430 AAAATCAAAGTCAAAAGCAAAAATA
1 AAAATCAAAGTCAAAAGCAAAAAGA
9852455 AAAATCAA
1 AAAATCAA
9852463 TCAAAGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 21 0.72
26 3 0.10
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAATCAAAGTCAAAAGCAAAAAGA
Found at i:9852462 original size:19 final size:19
Alignment explanation
Indices: 9852423--9852462 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9852413 GATCAAAAAG
* * *
9852423 AAAAGGAAAAATCAAAGTC
1 AAAAGCAAAAATAAAAATC
9852442 AAAAGCAAAAATAAAAATC
1 AAAAGCAAAAATAAAAATC
9852461 AA
1 AA
9852463 TCAAAGTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAGCAAAAATAAAAATC
Found at i:9853372 original size:1 final size:1
Alignment explanation
Indices: 9853323--9853363 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
9853313 CCTTGATTTC
* * *
9853323 AAAAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9853364 GATGAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:9853372 original size:10 final size:10
Alignment explanation
Indices: 9853323--9853363 Score: 75
Period size: 10 Copynumber: 4.2 Consensus size: 10
9853313 CCTTGATTTC
9853323 AAAAA-AAAA
1 AAAAAGAAAA
9853332 AAAAAGAAAA
1 AAAAAGAAAA
9853342 AAAAAGAAAA
1 AAAAAGAAAA
9853352 AAAAAGAAAA
1 AAAAAGAAAA
9853362 AA
1 AA
9853364 GATGAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 5 0.16
10 26 0.84
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9853378 original size:17 final size:17
Alignment explanation
Indices: 9853323--9853365 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9853313 CCTTGATTTC
9853323 AAAAAAAA-AAAAAAGA
1 AAAAAAAAGAAAAAAGA
9853339 AAAAAAAAGAAAAAA-A
1 AAAAAAAAGAAAAAAGA
9853355 AAGAAAAAAGA
1 AA-AAAAAAGA
9853366 TGAAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAGA
Found at i:9854988 original size:14 final size:15
Alignment explanation
Indices: 9854967--9855002 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
9854957 TTTTGGTATA
9854967 TCTA-TTTTCTTT-T
1 TCTATTTTTCTTTCT
9854980 TCTATTTTTCTTTCT
1 TCTATTTTTCTTTCT
9854995 T-TATTTTT
1 TCTATTTTT
9855003 TCTCTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TCTATTTTTCTTTCT
Found at i:9855912 original size:3 final size:3
Alignment explanation
Indices: 9855904--9856061 Score: 316
Period size: 3 Copynumber: 52.7 Consensus size: 3
9855894 ATGTTTTCAA
9855904 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9855952 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9856000 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9856048 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
9856062 ACTCTTTTAA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 155 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9861961 original size:88 final size:88
Alignment explanation
Indices: 9861812--9862388 Score: 938
Period size: 88 Copynumber: 6.6 Consensus size: 88
9861802 AACAGATCAG
* * *
9861812 TGAAGACAAAAGATCTTGTCTTCCTGCATTGAAAGCGAAGCAGGTCGAAGACACAAACCTTGCCC
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
9861877 CTCTCGGTTGTAATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * *
9861900 TGAAGACAAAAGATCTTGCCTTTCTACATTGACGGCGAAGCAGCTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
9861965 CTCTCGGTTGTGATGGAACTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
9861988 TGAAGACAAAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGCTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
9862053 TTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
9862076 TGAAGAAAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
9862141 CTCTCGGTTGTGATGGTGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
9862164 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGTGAAGCAGGTCGAAGACACAAATCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
9862229 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
**
9862252 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTAAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
9862317 CTCTCGGTTGTGATGGAGTTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
9862340 TGAAGACAAAAGATCTTGCCTTGCTGCATTGACAGCGAAGTAAGTCGAA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAA
9862389 TAGATCTTGT
Statistics
Matches: 451, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 451 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:9861962 original size:44 final size:42
Alignment explanation
Indices: 9861838--9862145 Score: 124
Period size: 44 Copynumber: 7.0 Consensus size: 42
9861828 TGTCTTCCTG
* **
9861838 CATTGAAAGCGAAGCAGGTCGAAGACACAAACCTTGCCCCTCT
1 CATTG-AAGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
* * * * * *
9861881 CGGTTGTAATG-G-AGCTGGTTGAAGACAAAAGATCTTGCCTTTCT
1 C-ATTG-AA-GCGAAGCAGCTCGAAGACACAA-ACCTTGCCTTTCT
* *
9861925 ACATTGACGGCGAAGCAGCTCGAAGACACAAACCTTGCCTCTCT
1 -CATTGA-AGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
* * * * * * * *
9861969 CGGTTGTGATG-GAA-CTGGTTGAAGACAAAAGATCTTGCCTTCCT
1 C--AT-TGAAGCGAAGCAGCTCGAAGACACAA-ACCTTGCCTTTCT
9862013 GCATTGATAGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
1 -CATTGA-AGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
* * * * * * * * *
9862057 CGGTTGTGATG-G-AGCTGGTTGAAGAAAAAAGATCTTGCCTTCCT
1 C--AT-TGAAGCGAAGCAGCTCGAAGACACAA-ACCTTGCCTTTCT
* * *
9862101 GCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCT
1 -CATTGA-AGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
9862145 C
1 C
9862146 GGTTGTGATG
Statistics
Matches: 190, Mismatches: 52, Indels: 46
0.66 0.18 0.16
Matches are distributed among these distances:
42 6 0.03
43 50 0.26
44 81 0.43
45 47 0.25
46 6 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (42 bp):
CATTGAAGCGAAGCAGCTCGAAGACACAAACCTTGCCTTTCT
Found at i:9862396 original size:40 final size:40
Alignment explanation
Indices: 9862350--9862428 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
9862340 TGAAGACAAA
* * *
9862350 AGATCTTGCCTTGCTGCATTGACAGCGAAGTAAGTCGAAT
1 AGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAAT
* * *
9862390 AGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAA
1 AGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAA
9862429 GGCACAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
AGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAAT
Found at i:9862409 original size:128 final size:128
Alignment explanation
Indices: 9862262--9862516 Score: 375
Period size: 128 Copynumber: 2.0 Consensus size: 128
9862252 TGAAGACAAA
* *
9862262 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTAAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
9862327 TGATGGAGTTGGTTGAAGACAAAAGATCTTGCCTTGCTGCATTGACAGCGAAGTAAGTCGAAT
66 TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAAT
* * * *
9862390 AGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
* * * *
9862455 TGGTGGAGCTAGTTGAAGACAAAAGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAA
66 TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAA
9862517 GGCACAAACC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
128 112 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (128 bp):
AGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAAGTCGAAT
Found at i:9862444 original size:216 final size:216
Alignment explanation
Indices: 9862174--9863477 Score: 681
Period size: 220 Copynumber: 6.0 Consensus size: 216
9862164 TGAAGACAAA
* *
9862174 AGATCTTGCCTTCCTACATTGACAGTGAAGCAGGTCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
9862239 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTAAAGAC
66 TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGAC
* * * *
9862304 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAAAGATCTTGCCTTGCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCAT
*
9862369 TGACAGCGAAGTAAGTCGAAT
196 TGACAGCGAAGCAAGTCGAAT
* * *
9862390 AGATCTTGTCTTCC-AGCATTGACTGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGGTT
1 AGATCTTGCCTTCCTA-CATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* * * * *
9862454 GTGGTGGAGCTAGTTGAAGACAAAAGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAAGG
65 GTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGA
* *
9862519 CACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTAGTTGAAGACAAAAGATCTTGTCTTCCAGCA
130 CACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCA
* * *
9862584 TTGACTGCGAAGCAGGTCGAAGGCAC
195 TTGACAGCGAAGCAAGTCG-A---AT
* * * ** * * * * *
9862610 AAACCTTGCC-TCTCT-CGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGATCTTGTCT-TC-CT
1 AGATCTTGCCTTC-CTAC-ATTGACA-GCGAAGCAGGTCGAAGACACAA-ACCTTGCCTCTCTC-
* ** * * * * * *
9862669 GCATTGACAGTGAAGC-AGGTCGAAGACACAA-ACCTTGCCTCTCTCAG-TTGTGA-TG-G-AGC
61 G-GTTGTGA-TGGAGCTA-GTTGAAGACAAAAGATCTTGCCT-TC-CAGCAT-TGACAGCGAAGC
* ** * * * * * * *
9862728 TGGTTGAAGACACAAGATCTTGCCT-TCTTGCATTG-AAAGCGAAGC-AGGTCGAAGACACAA-A
120 AGGTCAAAGACACAA-ACCTTGCCTCTCTCG-GTTGTGATG-G-AGCTA-GTTGAAGACAAAAGA
* * ** ** ** * *
9862789 CCTTGCCTCTCTCGGTTTTGGTGGAGCTGGTTG-AAGAC-AAC
180 TCTTGCCT-TC-CAGCATT-G-ACAGC--GAAGCAAGTCGAAT
* *
9862830 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * * * * *
9862895 TGATGGAGCTGGTTGAAGAAAAAAGATCTTGTCTTCCTGCATTGACAACGAAGAAAGTCGAAGAC
66 TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGAC
* * * *
9862960 ACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAAAAGATCTTGCTTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCAT
* *
9863025 TGACAGCGAAGCAGGTCGAAGGCAC
196 TGACAGCGAAGCAAGTCG-A---AT
* * * ** * * * * * * *
9863050 AAACCTTGCC-TCTCT-CGGTTG-TGGTGGAGCTGGTTGAAGACAAAAGATCTTG-CTTTC-CTG
1 AGATCTTGCCTTC-CTAC-ATTGACAGCGAAGCAGGTCGAAGACACAA-ACCTTGCCTCTCTC-G
** * * * * * ** *
9863110 CAT-TGACAGCGAAGC-AGGTCGAAGGCACAA-ACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGC
62 GTTGTGA-TG-G-AGCTA-GTTGAAGACAAAAGATCTTGCCT-TC-CAGCAT-TGACAGCGAAGC
* ** * * ** * * *
9863168 TGGTTGAAGATA-ATAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGC-AGATCGAAGACACAA
120 AGGTCAAAGACACA-A-ACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTAG-TTGAAGACAAAA
* ** * ** *
9863228 -ACCTTGCCTCTCTC-GGTTGTGATGGAGCTGGTTG-AAGAC-AAT
178 GATCTTGCCT-TC-CAGCAT-TGA--CAGC--GAAGCAAGTCGAAT
* *
9863270 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
9863335 TGATGGAGCTGGTTGAAGACAATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGAC
* * *
9863400 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAATAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCAT
9863465 TGACAGCGAAGCA
196 TGACAGCGAAGCA
9863478 GATCGAAGAC
Statistics
Matches: 785, Mismatches: 208, Indels: 191
0.66 0.18 0.16
Matches are distributed among these distances:
214 4 0.01
215 5 0.01
216 195 0.25
217 3 0.00
218 26 0.03
219 151 0.19
220 201 0.26
221 154 0.20
222 28 0.04
223 3 0.00
224 5 0.01
225 6 0.01
226 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (216 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCAAAGAC
ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTAGTTGAAGACAAAAGATCTTGCCTTCCAGCAT
TGACAGCGAAGCAAGTCGAAT
Found at i:9862499 original size:88 final size:88
Alignment explanation
Indices: 9862387--9864868 Score: 3940
Period size: 88 Copynumber: 28.2 Consensus size: 88
9862377 AAGTAAGTCG
* * * *
9862387 AATAGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9862452 TTGTGGTGGAGCTAGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * * *
9862475 AAAAGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9862540 TTGTGGTGGAGCTAGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * * *
9862563 AAAAGATCTTGTCTTCCAGCATTGACTGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9862628 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9862651 AAAAGATCTTGTCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9862716 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* *
9862739 ACA-AGATCTTGCCTTCTTGCATTGAAAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCG
1 A-ATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCG
*
9862803 GTTTTGGTGGAGCTGGTTGAAGAC
65 GTTGTGGTGGAGCTGGTTGAAGAC
* *
9862827 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
* *
9862892 TTGTGATGGAGCTGGTTGAAGAA
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * * *
9862915 AAAAGATCTTGTCTTCCTGCATTGACAACGAAGAAAGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9862980 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * *
9863003 AAAAGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9863068 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * *
9863091 AAAAGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCGAAGGCACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
* *
9863156 TTGTGATGGAGCTGGTTGAAGAT
66 TTGTGGTGGAGCTGGTTGAAGAC
*
9863179 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9863244 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
*
9863267 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9863332 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
*
9863355 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9863420 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
*
9863443 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9863508 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * * *
9863531 AAAAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTACCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9863596 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* *
9863619 AATAGATTTTGCCTTCCTGCATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9863684 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* *
9863707 AATAGATTTTGCCTTCCTGCATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
* **
9863772 TTGTAGCAGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * *
9863795 AACAGATCTTGCCTTACTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
* *
9863860 TTGTGATGGAGTTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9863883 AATAGATCTTGCATTCCTGTATTGACAGCAAAGCAGGTCGAATACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9863948 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9863971 AATAGATCTTACCTTCTTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9864036 TTGTGGTGGAGCTGGTTGAAGCC
66 TTGTGGTGGAGCTGGTTGAAGAC
* ** *
9864059 AATAGATCTTGCCTTCCTGTATTGACAGCGAATTAGGTCGAAGACACAAACCTTACCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9864124 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9864147 AATAGATCTTACCTTCTTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9864212 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9864235 AATAGATCTTACCTTCTTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9864300 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9864323 AATAGATCTTACCTTCTTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9864388 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* * * *
9864411 AATAGATCTTACCTTCTTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
9864476 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* **
9864499 AATAGATCTTGCCTTCCTGTATTGACAGCGAAATAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9864564 CTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* **
9864587 AATAGATCTTGCCTTCCTGTATTGACAGCGAAATAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9864652 CTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* **
9864675 AATAGATCTTGCCTTCCTGTATTGACAGCGAAATAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9864740 TTGTGGTGGAGTTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
* *
9864763 AATAGATCTTTCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
9864828 TTGTGGTGGAGTTGGTTGAAGAC
66 TTGTGGTGGAGCTGGTTGAAGAC
*
9864851 AATAGATCTTTCCTTCCT
1 AATAGATCTTGCCTTCCT
9864869 TGAAGATCGA
Statistics
Matches: 2284, Mismatches: 108, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
87 1 0.00
88 2282 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (88 bp):
AATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
TTGTGGTGGAGCTGGTTGAAGAC
Found at i:9865031 original size:95 final size:95
Alignment explanation
Indices: 9864868--9865350 Score: 896
Period size: 95 Copynumber: 5.1 Consensus size: 95
9864858 CTTTCCTTCC
9864868 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
1 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
9864933 TTCTATCTCCCTGATTGGCAGAAGAATAGA
66 TTCTATCTCCCTGATTGGCAGAAGAATAGA
9864963 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
1 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
9865028 TTCTATCTCCCTGATTGGCAGAAGAATAGA
66 TTCTATCTCCCTGATTGGCAGAAGAATAGA
9865058 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
1 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
9865123 TTCTATCTCCCTGATTGGCAGAAGAATAGA
66 TTCTATCTCCCTGATTGGCAGAAGAATAGA
9865153 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
1 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
9865218 TTCTATCTCCCTGATTGGCAGAAGAATAGA
66 TTCTATCTCCCTGATTGGCAGAAGAATAGA
* **
9865248 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACA-TTAAAGCCAATA
1 TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAA-CTGATA
* **
9865312 ATTCTATCTCCCTGGTTGGCAGTGGAATAGA
65 ATTCTATCTCCCTGATTGGCAGAAGAATAGA
9865343 TTGAAGAT
1 TTGAAGAT
9865351 TTTAGATCTT
Statistics
Matches: 381, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
94 4 0.01
95 377 0.99
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (95 bp):
TTGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACTGATAA
TTCTATCTCCCTGATTGGCAGAAGAATAGA
Found at i:9865483 original size:126 final size:126
Alignment explanation
Indices: 9865252--9865483 Score: 356
Period size: 126 Copynumber: 1.8 Consensus size: 126
9865242 AATAGATTGA
*
9865252 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
* * * *
9865317 ATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATCTTATTTCCCAAAGTGGAGT
66 ATCTCCCTAGTTGGCAGTGGAATAGATCGAAGACTGTAGATCTTATTTCCCAAAGTGGAGT
* * * * * *
9865378 AGATTGAAGATGACATATTTTACCTCTCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
*
9865443 TTCTCCCTAGTTGGCAGTGGAATAGATCGAAGACTGTAGAT
66 ATCTCCCTAGTTGGCAGTGGAATAGATCGAAGACTGTAGAT
9865484 TCTATCCTCC
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 94 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (126 bp):
AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
ATCTCCCTAGTTGGCAGTGGAATAGATCGAAGACTGTAGATCTTATTTCCCAAAGTGGAGT
Done.