Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 8 of 91
Found at i:2369633 original size:2 final size:2
Alignment explanation
Indices: 2369626--2369731 Score: 162
Period size: 2 Copynumber: 53.5 Consensus size: 2
2369616 CTTCTTTTTA
2369626 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* * *
2369668 GT G- GT GG GT GG GT GG GNT -T GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT G-T GT GT GT GT GT GT GT GT GT GT GT GT
2369709 GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT G
2369732 GGTGGGTGGG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
1 2 0.02
2 93 0.98
ACGTcount: A:0.00, C:0.00, G:0.53, T:0.46
Consensus pattern (2 bp):
GT
Found at i:2372399 original size:23 final size:23
Alignment explanation
Indices: 2372355--2372400 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2372345 CTATACTTCC
*
2372355 GATTTCTCTCTCCAACGTTTTCA
1 GATTTCTCTCTCCAACGCTTTCA
* **
2372378 GATTTCTCTTTCTTACGCTTTCA
1 GATTTCTCTCTCCAACGCTTTCA
2372401 AGATACCAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.09, T:0.48
Consensus pattern (23 bp):
GATTTCTCTCTCCAACGCTTTCA
Found at i:2372860 original size:26 final size:26
Alignment explanation
Indices: 2372821--2372870 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2372811 CAACAATATT
*
2372821 TTTTTTTCAACATGACGTGTAACAAC
1 TTTTTTTCAACATGACGTGCAACAAC
*
2372847 TTTTTTT-AACCATGGCGTGCAACA
1 TTTTTTTCAA-CATGACGTGCAACA
2372871 TGATTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (26 bp):
TTTTTTTCAACATGACGTGCAACAAC
Found at i:2372970 original size:45 final size:45
Alignment explanation
Indices: 2372921--2373007 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
2372911 ACATGGTGTA
* *
2372921 TAACAACCTAACCATTACTT-GTCACAAGTTTTTGTACATGACGTG
1 TAACAACCTAA-CAATAATTCGTCACAAGTTTTTGTACATGACGTG
* * *
2372966 TAACAAGCTAACAATAATTCGTTACAGGTTTTTGTACATGAC
1 TAACAACCTAACAATAATTCGTCACAAGTTTTTGTACATGAC
2373008 ATGTCATAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 6 0.17
45 30 0.83
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (45 bp):
TAACAACCTAACAATAATTCGTCACAAGTTTTTGTACATGACGTG
Found at i:2373492 original size:17 final size:17
Alignment explanation
Indices: 2373471--2373524 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
2373461 CATTTGTATA
2373471 AAAATTTTAAATTTTTTT
1 AAAATTTTAAA-TTTTTT
*
2373489 AAATATTTT-TATTTTTT
1 AAA-ATTTTAAATTTTTT
*
2373506 AAAATTTAATAATTTTTT
1 AAAATTTTA-AATTTTTT
2373524 A
1 A
2373525 TTTAGTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.13
17 9 0.30
18 12 0.40
19 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAAATTTTAAATTTTTT
Found at i:2373581 original size:17 final size:18
Alignment explanation
Indices: 2373561--2373595 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2373551 ATTAATAACT
*
2373561 AATTTTAAT-AAATTTAG
1 AATTTAAATAAAATTTAG
2373578 AATTTAAATAAAATTTAG
1 AATTTAAATAAAATTTAG
2373596 GGTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTTAAATAAAATTTAG
Found at i:2377369 original size:7 final size:7
Alignment explanation
Indices: 2377357--2377393 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
2377347 CTTATTCTCT
2377357 CTTTTTA
1 CTTTTTA
2377364 CTTTTTA
1 CTTTTTA
*
2377371 TTTTTTA
1 CTTTTTA
2377378 -TTTTTA
1 CTTTTTA
2377384 -TTTTTA
1 CTTTTTA
2377390 CTTT
1 CTTT
2377394 CAATAGACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (7 bp):
CTTTTTA
Found at i:2377381 original size:13 final size:14
Alignment explanation
Indices: 2377358--2377393 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
2377348 TTATTCTCTC
2377358 TTTTTACTTTTTAT
1 TTTTTACTTTTTAT
2377372 TTTTTA-TTTTTA-
1 TTTTTACTTTTTAT
2377384 TTTTTACTTT
1 TTTTTACTTT
2377394 CAATAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTACTTTTTAT
Found at i:2382414 original size:21 final size:22
Alignment explanation
Indices: 2382390--2382437 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2382380 ACGTAACTCT
2382390 TTTTTTATTCT-CTCATTTTTA
1 TTTTTTATTCTACTCATTTTTA
* * *
2382411 TTTTTTATTTTATTTATTTTTA
1 TTTTTTATTCTACTCATTTTTA
2382433 TTTTT
1 TTTTT
2382438 ATTTTCAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTATTCTACTCATTTTTA
Found at i:2382426 original size:16 final size:16
Alignment explanation
Indices: 2382407--2382441 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2382397 TTCTCTCATT
2382407 TTTATTTTT-TATTTTA
1 TTTATTTTTAT-TTTTA
2382423 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
2382439 TTT
1 TTT
2382442 TCAACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:2384842 original size:10 final size:11
Alignment explanation
Indices: 2384827--2384855 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
2384817 TGAACAATGC
2384827 ATAAAAAATAT
1 ATAAAAAATAT
2384838 A-AAAAAATAT
1 ATAAAAAATAT
2384848 ATAAAAAA
1 ATAAAAAA
2384856 ATTAAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:2384849 original size:12 final size:12
Alignment explanation
Indices: 2384829--2384857 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2384819 AACAATGCAT
2384829 AAAAA-ATATAA
1 AAAAATATATAA
2384840 AAAAATATATAA
1 AAAAATATATAA
2384852 AAAAAT
1 AAAAAT
2384858 TAAGTGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATATATAA
Found at i:2386398 original size:21 final size:21
Alignment explanation
Indices: 2386356--2386401 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2386346 AATCATCAGA
* * *
2386356 ATCATCATCATCACCATCACC
1 ATCATCATCATAACAATAACC
*
2386377 ATCATCATCATAATAATAACC
1 ATCATCATCATAACAATAACC
2386398 ATCA
1 ATCA
2386402 CGACGCGCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (21 bp):
ATCATCATCATAACAATAACC
Found at i:2395993 original size:20 final size:19
Alignment explanation
Indices: 2395953--2395988 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2395943 GCTCAATAAT
2395953 TTTTAAAATAAATATTTTA
1 TTTTAAAATAAATATTTTA
2395972 TTTTAAAA-AAATATTTT
1 TTTTAAAATAAATATTTT
2395989 TTATTAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAAAATAAATATTTTA
Found at i:2402802 original size:8 final size:8
Alignment explanation
Indices: 2402789--2402839 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
2402779 TTTGTTAGAA
2402789 ACATGCAT
1 ACATGCAT
2402797 ACATGCAAT
1 ACATGC-AT
*
2402806 ACATGTAT
1 ACATGCAT
*
2402814 ACATACAT
1 ACATGCAT
2402822 ACATGCAT
1 ACATGCAT
2402830 ACACTGCAT
1 ACA-TGCAT
2402839 A
1 A
2402840 TATACATGCG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (8 bp):
ACATGCAT
Found at i:2402821 original size:4 final size:4
Alignment explanation
Indices: 2402789--2402867 Score: 52
Period size: 4 Copynumber: 19.2 Consensus size: 4
2402779 TTTGTTAGAA
* * ** * *
2402789 ACAT GCAT ACAT GCAAT ACAT GTAT ACAT ACAT ACAT GCAT ACACT GCAT
1 ACAT ACAT ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT
* *
2402839 ATAT ACAT GCGA- ACAT ACAT ACAT ACAT A
1 ACAT ACAT AC-AT ACAT ACAT ACAT ACAT A
2402868 TATTTATATT
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
3 1 0.02
4 47 0.85
5 7 0.13
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:2402823 original size:25 final size:25
Alignment explanation
Indices: 2402789--2402846 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
2402779 TTTGTTAGAA
* *
2402789 ACATGCATACATGCAATACA-TGTAT
1 ACATACATACATGCA-TACACTGCAT
2402814 ACATACATACATGCATACACTGCAT
1 ACATACATACATGCATACACTGCAT
*
2402839 ATATACAT
1 ACATACAT
2402847 GCGAACATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (25 bp):
ACATACATACATGCATACACTGCAT
Found at i:2403584 original size:22 final size:21
Alignment explanation
Indices: 2403559--2403605 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2403549 TTACTTATTA
*
2403559 AAGAAAAGGCTAATTTAAACAT
1 AAGAAAAGG-AAATTTAAACAT
**
2403581 AAGAATTGGAAATTTAAACAT
1 AAGAAAAGGAAATTTAAACAT
2403602 AAGA
1 AAGA
2403606 TATACTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.23
Consensus pattern (21 bp):
AAGAAAAGGAAATTTAAACAT
Found at i:2420586 original size:21 final size:21
Alignment explanation
Indices: 2420546--2420587 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2420536 TAATACCTCA
*
2420546 AAAAATTCATAAAATATTTTG
1 AAAAATTCAAAAAATATTTTG
*
2420567 AAAAATTCAAATAAATTTTTT
1 AAAAATTCAAA-AAATATTTT
2420588 TTATTACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATTCAAAAAATATTTTG
Found at i:2432578 original size:23 final size:22
Alignment explanation
Indices: 2432552--2432613 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
2432542 TAATTTTTTA
*
2432552 TTTTTATTATATTTAATTAAAT
1 TTTTTATTATAATTAATTAAAT
*
2432574 TTTTTATTTTTAATTAATTAAA-
1 TTTTTA-TTATAATTAATTAAAT
2432596 TTTTTATTATTAA-TAATT
1 TTTTTATTA-TAATTAATT
2432614 GATTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 15 0.43
23 13 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTATTATAATTAATTAAAT
Found at i:2432585 original size:19 final size:20
Alignment explanation
Indices: 2432553--2432590 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2432543 AATTTTTTAT
2432553 TTTTATTATATTTAATTAAA
1 TTTTATTATATTTAATTAAA
*
2432573 TTTT-TTATTTTTAATTAA
1 TTTTATTATATTTAATTAA
2432591 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATTATATTTAATTAAA
Found at i:2432597 original size:28 final size:26
Alignment explanation
Indices: 2432535--2432597 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 26
2432525 ATATTCACAA
2432535 AATTAAA-TAATTTTTTATTTTTATT
1 AATTAAATTAATTTTTTATTTTTATT
*
2432560 ATATTTAATTAAATTTTTTATTTTTAATT
1 A-ATTAAATT-AATTTTTTATTTTT-ATT
2432589 AATTAAATT
1 AATTAAATT
2432598 TTTATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 5 0.16
27 1 0.03
28 21 0.66
29 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
AATTAAATTAATTTTTTATTTTTATT
Found at i:2432886 original size:20 final size:19
Alignment explanation
Indices: 2432854--2432899 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
2432844 TAATTTAAAA
* *
2432854 TAAAAATATAAAAATTAAT
1 TAAAAATACAAAAAATAAT
2432873 TAAAAATAACAAAAAATAAT
1 TAAAAAT-ACAAAAAATAAT
*
2432893 TTAAAAT
1 TAAAAAT
2432900 TTTAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATACAAAAAATAAT
Found at i:2432896 original size:25 final size:24
Alignment explanation
Indices: 2432833--2432896 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
2432823 AATTAATTAT
*
2432833 AAAAATATATTTAATTTAAAATAAA
1 AAAAATA-ATTTAATTAAAAATAAA
*
2432858 AATATAA-AAATTAATTAAAAATAACA
1 AA-A-AATAATTTAATTAAAAATAA-A
2432884 AAAAATAATTTAA
1 AAAAATAATTTAA
2432897 AATTTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 2 0.06
25 23 0.72
26 5 0.16
27 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATAATTTAATTAAAAATAAA
Found at i:2432908 original size:17 final size:18
Alignment explanation
Indices: 2432886--2432953 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 18
2432876 AAATAACAAA
2432886 AAATA-ATTTAAAATTTT
1 AAATATATTTAAAATTTT
2432903 AAATA-ATTTAATAACTTTTT
1 AAATATATTTAA-AA--TTTT
2432923 AAA-ATATTATATAAATTTT
1 AAATATATT-TA-AAATTTT
2432942 AAATATATTTAA
1 AAATATATTTAA
2432954 TTAAATATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
17 11 0.25
18 3 0.07
19 10 0.23
20 15 0.34
21 4 0.09
22 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATATTTAAAATTTT
Found at i:2432924 original size:20 final size:18
Alignment explanation
Indices: 2432886--2432954 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 18
2432876 AAATAACAAA
2432886 AAATAATTTAA-AATTTT
1 AAATAATTTAATAATTTT
2432903 AAATAATTTAATAACTTTT
1 AAATAATTTAATAA-TTTT
*
2432922 TAA-AATATTATATAAATTTT
1 AAATAAT-TTA-AT-AATTTT
2432942 AAATATATTTAAT
1 AAATA-ATTTAAT
2432955 TAAATATACG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
17 11 0.26
18 5 0.12
19 9 0.21
20 10 0.23
21 6 0.14
22 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATAATTTAATAATTTT
Found at i:2440887 original size:14 final size:15
Alignment explanation
Indices: 2440831--2440887 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 15
2440821 AATTGTCTAT
2440831 TTTTTA-TTTAT-TA
1 TTTTTATTTTATATA
2440844 TTTTTATTTTATTATA
1 TTTTTATTTTA-TATA
2440860 TTTTTCATTATTATAT-
1 TTTTT-ATT-TTATATA
2440876 TTTTTATTTTAT
1 TTTTTATTTTAT
2440888 TCCTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.15
14 8 0.21
15 4 0.10
16 12 0.31
17 6 0.15
18 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTATATA
Found at i:2440902 original size:24 final size:24
Alignment explanation
Indices: 2440830--2440903 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
2440820 CAATTGTCTA
*
2440830 TTTTTTA-TTTATT-ATTTTTA-T
1 TTTTTTATTTTATTCATTATTATT
* *
2440851 TTTATTATATTT-TTCATTATTATA
1 TTTTTTAT-TTTATTCATTATTATT
*
2440875 TTTTTTATTTTATTCCTTATTATT
1 TTTTTTATTTTATTCATTATTATT
2440899 TTTTT
1 TTTTT
2440904 ATACCTTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 6 0.14
22 2 0.05
23 12 0.29
24 22 0.52
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTATTTTATTCATTATTATT
Found at i:2440910 original size:18 final size:17
Alignment explanation
Indices: 2440882--2440924 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
2440872 ATATTTTTTA
*
2440882 TTTTATTCCTTATTATTT
1 TTTTATACCTTA-TATTT
2440900 TTTTATACCTTATATTT
1 TTTTATACCTTATATTT
2440917 TTATTATA
1 TT-TTATA
2440925 AATTTCTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATACCTTATATTT
Found at i:2441020 original size:11 final size:11
Alignment explanation
Indices: 2441004--2441039 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
2440994 AAATAAAAAA
2441004 TTTTTGATGAT
1 TTTTTGATGAT
2441015 TTTTTGATGAT
1 TTTTTGATGAT
*
2441026 TTTTT-ATTAT
1 TTTTTGATGAT
2441036 TTTT
1 TTTT
2441040 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (11 bp):
TTTTTGATGAT
Found at i:2441048 original size:17 final size:17
Alignment explanation
Indices: 2441026--2441064 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2441016 TTTTGATGAT
*
2441026 TTTTTATTATTTTTATA
1 TTTTTATTATTATTATA
2441043 TTTTTATTATTATTATA
1 TTTTTATTATTATTATA
2441060 TTTTT
1 TTTTT
2441065 GTATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTATTATTATA
Found at i:2441069 original size:8 final size:8
Alignment explanation
Indices: 2441026--2441072 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
2441016 TTTTGATGAT
2441026 TTTTTATTA
1 TTTTTA-TA
2441035 TTTTTATA
1 TTTTTATA
2441043 TTTTTATTA
1 TTTTTA-TA
*
2441052 TTATTATA
1 TTTTTATA
*
2441060 TTTTTGTA
1 TTTTTATA
2441068 TTTTT
1 TTTTT
2441073 TTGTAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 21 0.62
9 13 0.38
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:2443826 original size:31 final size:31
Alignment explanation
Indices: 2443789--2443849 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
2443779 AGTTTTTGTA
*
2443789 TTTTTATTTTGAATCAAATAAATCTTTATAT
1 TTTTTATTTTGAATCAAATAAATCCTTATAT
2443820 TTTTTATTTTGAATCAAATAAATCCTTATA
1 TTTTTATTTTGAATCAAATAAATCCTTATA
2443850 ACTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTTATTTTGAATCAAATAAATCCTTATAT
Found at i:2447734 original size:112 final size:114
Alignment explanation
Indices: 2447570--2447799 Score: 389
Period size: 112 Copynumber: 2.0 Consensus size: 114
2447560 TTTCTAGCCA
2447570 TTTTTTTGTACTTTCTTTTTCTTACCACTCAATTCTCTTCTACTTATCCATGTCTTCCATG-AAT
1 TTTTTTTGTACTTTCTTTTTCTTACCACTCAATTCTCTTCTACTTATCCATGTCTTCCATGAAAT
2447634 TTTTAGACTTTTCCTAAAGTTTTGGTTGGAGCAAATTTTT-AAAATTACAC
66 TTTTAGACTTTTCC-AAAGTTTTGG-TGGAGCAAATTTTTAAAAATTACAC
2447684 TTNTTTTTG-ACTTTCTTTTTC-TACCACTCAATTCTCTTC-ACTTATCCATGTCTTCCATGAAA
1 TT-TTTTTGTACTTTCTTTTTCTTACCACTCAATTCTCTTCTACTTATCCATGTCTTCCATGAAA
*
2447746 TTTTTAGACTTTTCCAAAGTTTTGGTGGAGTAAATTTTTAAAAATTACAC
65 TTTTTAGACTTTTCCAAAGTTTTGGTGGAGCAAATTTTTAAAAATTACAC
2447796 TTTT
1 TTTT
2447800 ACCCCCGTAA
Statistics
Matches: 112, Mismatches: 1, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
111 15 0.13
112 42 0.38
113 35 0.31
114 14 0.12
115 6 0.05
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (114 bp):
TTTTTTTGTACTTTCTTTTTCTTACCACTCAATTCTCTTCTACTTATCCATGTCTTCCATGAAAT
TTTTAGACTTTTCCAAAGTTTTGGTGGAGCAAATTTTTAAAAATTACAC
Found at i:2447845 original size:29 final size:29
Alignment explanation
Indices: 2447785--2447848 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
2447775 GTAAATTTTT
** *
2447785 AAAAATTACACTTTTACCCCCGTAAAGTA
1 AAAAATTACACTTTTACCCCCAAAAACTA
* *
2447814 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTA
2447842 AAAAATT
1 AAAAATT
2447849 GCCCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTA
Found at i:2461644 original size:35 final size:35
Alignment explanation
Indices: 2461605--2461683 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 35
2461595 TTTTGGACAG
* * * *
2461605 AACAATTAAAATAAGTGAAGTACTATTTCACGTGA
1 AACAATTAAAATAAGTAAAATACTACTCCACGTGA
*
2461640 AACAATTAAAATAAGTAAAATACTACTCCATGTGA
1 AACAATTAAAATAAGTAAAATACTACTCCACGTGA
*
2461675 AATAATTAA
1 AACAATTAA
2461684 TACAAGAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (35 bp):
AACAATTAAAATAAGTAAAATACTACTCCACGTGA
Found at i:2461935 original size:29 final size:29
Alignment explanation
Indices: 2461903--2461981 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
2461893 CTTGTGTACT
* *
2461903 TGTTGACGTACACCTT-TTCCTTTTATATC
1 TGTTCACGTACAACTTCTT-CTTTTATATC
* *
2461932 TGTTCACGTATAACTTCTTCTTTTATATT
1 TGTTCACGTACAACTTCTTCTTTTATATC
* * *
2461961 TATTTATGTACAACTTCTTCT
1 TGTTCACGTACAACTTCTTCT
2461982 CTTGGACCGT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 39 0.95
30 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (29 bp):
TGTTCACGTACAACTTCTTCTTTTATATC
Found at i:2463093 original size:3 final size:3
Alignment explanation
Indices: 2463085--2463110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2463075 ATTCATATCA
2463085 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2463111 ACTATGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2467126 original size:3 final size:3
Alignment explanation
Indices: 2467111--2467144 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2467101 AATGACAAAG
*
2467111 TCA TCA TCC TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2467145 GCTGTTCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:2469970 original size:38 final size:37
Alignment explanation
Indices: 2469892--2469963 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
2469882 TTTGGTTTAT
2469892 AATTATTTTTTATTAAAAATATAATATAAATTGACAA
1 AATTATTTTTTATTAAAAATATAATATAAATTGACAA
2469929 AATTACTTTTTATATATAAAAA-AT-ATATAAATTGA
1 AATTA-TTTTT-TAT-TAAAAATATAATATAAATTGA
2469964 ATAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
37 5 0.16
38 16 0.50
39 5 0.16
40 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (37 bp):
AATTATTTTTTATTAAAAATATAATATAAATTGACAA
Found at i:2470172 original size:20 final size:20
Alignment explanation
Indices: 2470147--2470186 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2470137 ACATTATCTA
*
2470147 AAAAAAATCTATCGATAGAT
1 AAAAAAATCTATCAATAGAT
*
2470167 AAAAAATTCTATCAATAGAT
1 AAAAAAATCTATCAATAGAT
2470187 CACATAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAAAAATCTATCAATAGAT
Found at i:2470613 original size:22 final size:22
Alignment explanation
Indices: 2470565--2470621 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
2470555 GAGCAGTGAG
* *
2470565 AAGAAGGAGAAAAAGGCAATGT
1 AAGAAGGAGAAAAAGGCAAGGC
*
2470587 GAGAAGGAGAAAAA-GCTAAGGC
1 AAGAAGGAGAAAAAGGC-AAGGC
2470609 AAGAAGGAAGAAA
1 AAGAAGG-AGAAA
2470622 GTGGTGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.05
Consensus pattern (22 bp):
AAGAAGGAGAAAAAGGCAAGGC
Found at i:2484553 original size:30 final size:30
Alignment explanation
Indices: 2484517--2484601 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
2484507 GTGAAAGTAA
2484517 GTATAAAATTAAATTGTATGACTTTTCTAC
1 GTATAAAATTAAATTGTATGACTTTTCTAC
2484547 GTATAAAATTAAATTGTATGACTTTTCTAC
1 GTATAAAATTAAATTGTATGACTTTTCTAC
*
2484577 ATATAAAATTAAATTGTATGACTTT
1 GTATAAAATTAAATTGTATGACTTT
2484602 ATTTCTCTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (30 bp):
GTATAAAATTAAATTGTATGACTTTTCTAC
Found at i:2486047 original size:20 final size:20
Alignment explanation
Indices: 2486024--2486064 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2486014 TAAAAGAACA
2486024 AAAATATATTTA-AATTTTTT
1 AAAATA-ATTTAGAATTTTTT
2486044 AAAATAATTTATGAATTTTTT
1 AAAATAATTTA-GAATTTTTT
2486065 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AAAATAATTTAGAATTTTTT
Found at i:2486047 original size:21 final size:23
Alignment explanation
Indices: 2486023--2486074 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 23
2486013 ATAAAAGAAC
2486023 AAAAATATATTTA-AA-TTTTTT
1 AAAAATATATTTAGAATTTTTTT
2486044 -AAAATA-ATTTATGAATTTTTTTT
1 AAAAATATATTTA-GAA-TTTTTTT
2486067 AAAAATAT
1 AAAAATAT
2486075 TATACCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 5 0.20
20 6 0.24
21 2 0.08
23 6 0.24
24 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAAATATATTTAGAATTTTTTT
Found at i:2486960 original size:27 final size:27
Alignment explanation
Indices: 2486928--2486981 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2486918 TATTAATATT
* *
2486928 TCAATTACCAATTATTAATATTTTAAA
1 TCAATTACAAATAATTAATATTTTAAA
*
2486955 TCAATTATAAATAATTAATATTTTAAA
1 TCAATTACAAATAATTAATATTTTAAA
2486982 AAATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (27 bp):
TCAATTACAAATAATTAATATTTTAAA
Found at i:2486961 original size:20 final size:20
Alignment explanation
Indices: 2486904--2486967 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
2486894 TTANTTAAAT
* * *
2486904 TATTATAAATAAAATATTAA
1 TATTTTAAATCAATTATTAA
* *
2486924 TATTTCAATTACCAATTATTAA
1 TATTTTAA--ATCAATTATTAA
*
2486946 TATTTTAAATCAATTATAAA
1 TATTTTAAATCAATTATTAA
2486966 TA
1 TA
2486968 ATTAATATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 18 0.53
22 16 0.47
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTTAAATCAATTATTAA
Found at i:2487148 original size:18 final size:17
Alignment explanation
Indices: 2487112--2487157 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2487102 AAAAATAAAT
* *
2487112 AATTATAATAATATTTA
1 AATTATAATAAAATATA
2487129 AATTATAAATAAAATATA
1 AATTAT-AATAAAATATA
2487147 AATTATTAATA
1 AATTA-TAATA
2487158 CTTAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 18 0.72
19 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTATAATAAAATATA
Found at i:2487159 original size:111 final size:107
Alignment explanation
Indices: 2486961--2487185 Score: 296
Period size: 111 Copynumber: 2.1 Consensus size: 107
2486951 TAAATCAATT
2486961 ATAAATAATTAATATTTTAAAAAATAAAATAAAAATAAATAATCATAATAATATTTAAATTATAA
1 ATAAATAATTAATATTTTAAAAAATAAAATAAAAATAAATAATCATAATAATATTTAAATTATAA
* *
2487026 ATAAAATATTATTACTTTATACTATTAATGATTAAATTATAA
66 ATAAAATATAATTACTTAATACTATTAATGATTAAATTATAA
* *
2487068 ATAAATTATTAATA-TTTAAAAAATGAAATTAATTAAAAATAAATAATTATAATAATATTTAAAT
1 ATAAATAATTAATATTTTAAAAAAT--AA--AA-TAAAAATAAATAATCATAATAATATTTAAAT
* * * *
2487132 TATAAATAAAATATAAATTA-TTAATAC--TTAAAGAATAAAATAAAA
61 TATAAATAAAATAT-AATTACTTAATACTATTAATGATTAAATTATAA
2487177 ATAAATAAT
1 ATAAATAAT
2487186 CATAATAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
106 10 0.10
107 13 0.13
108 2 0.02
109 22 0.21
110 2 0.02
111 50 0.49
112 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (107 bp):
ATAAATAATTAATATTTTAAAAAATAAAATAAAAATAAATAATCATAATAATATTTAAATTATAA
ATAAAATATAATTACTTAATACTATTAATGATTAAATTATAA
Found at i:2487163 original size:33 final size:36
Alignment explanation
Indices: 2486987--2487213 Score: 125
Period size: 38 Copynumber: 6.2 Consensus size: 36
2486977 TTAAAAAATA
2486987 AAATAAAA-ATAAATAATCATAATAATATTTAAATTAT
1 AAATAAAATATAAAT-ATCAT-ATAATATTTAAATTAT
* * * *
2487024 AAATAAAATATTATTACTTTATACTATTAATGATTAAATTAT
1 AAATAAAATATAAATA--TCATA-TAAT-AT--TTAAATTAT
* * * * * *
2487066 AAATAAATTATTAATAT-TTA-AAAAATGAAA-T-T
1 AAATAAAATATAAATATCATATAATATTTAAATTAT
* *
2487098 AATTAAAA-ATAAATAATTATAATAATATTTAAATTAT
1 AAATAAAATATAAAT-ATCAT-ATAATATTTAAATTAT
* **
2487135 AAATAAAATATAAAT-T-AT-TAATACTTAAAGAAT
1 AAATAAAATATAAATATCATATAATATTTAAATTAT
2487168 AAAATAAAA-ATAAATAATCATAATAATATTTAAATTAT
1 -AAATAAAATATAAAT-ATCAT-ATAATATTTAAATTAT
2487206 AAA-AAAAT
1 AAATAAAAT
2487214 TACTATTTTT
Statistics
Matches: 144, Mismatches: 25, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
31 5 0.03
32 9 0.06
33 20 0.14
34 13 0.09
35 10 0.07
36 9 0.06
37 21 0.15
38 23 0.16
39 8 0.06
40 3 0.02
42 23 0.16
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (36 bp):
AAATAAAATATAAATATCATATAATATTTAAATTAT
Found at i:2487196 original size:71 final size:73
Alignment explanation
Indices: 2487068--2487213 Score: 217
Period size: 71 Copynumber: 2.0 Consensus size: 73
2487058 TAAATTATAA
* *
2487068 ATAAATTATTAATATTTAAAAAATGAAATTAATTAAAAATAAATAATTATAATAATATTTAAATT
1 ATAAATTATTAATACTTAAAAAAT-AAA-TAATTAAAAATAAATAATCATAATAATATTTAAATT
2487133 ATAAATAAAAT
64 ATAAA-AAAAT
*
2487144 ATAAATTATTAATACTTAAAGAAT-AA-AA-TAAAAATAAATAATCATAATAATATTTAAATTAT
1 ATAAATTATTAATACTTAAAAAATAAATAATTAAAAATAAATAATCATAATAATATTTAAATTAT
2487206 AAAAAAAT
66 AAAAAAAT
2487214 TACTATTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
70 5 0.07
71 36 0.54
72 2 0.03
74 2 0.03
76 22 0.33
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (73 bp):
ATAAATTATTAATACTTAAAAAATAAATAATTAAAAATAAATAATCATAATAATATTTAAATTAT
AAAAAAAT
Found at i:2487266 original size:26 final size:27
Alignment explanation
Indices: 2487229--2487282 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
2487219 TTTTTATAAC
**
2487229 ATTAATGATTAAATTAT-AAATAAAAT
1 ATTAATGATTAAAAAATAAAATAAAAT
2487255 ATTAAT-ATTTAAAAAATAAAATAAAAT
1 ATTAATGA-TTAAAAAATAAAATAAAAT
2487282 A
1 A
2487283 AAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 13 0.54
27 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTAATGATTAAAAAATAAAATAAAAT
Found at i:2487296 original size:19 final size:17
Alignment explanation
Indices: 2487264--2487300 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2487254 TATTAATATT
2487264 TAAAAAATAAAATAAAA
1 TAAAAAATAAAATAAAA
2487281 TAAAAAATATATAATAAAA
1 TAAAAAATA-A-AATAAAA
2487300 T
1 T
2487301 TTTTATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAAATAAAA
Found at i:2493245 original size:25 final size:24
Alignment explanation
Indices: 2493210--2493257 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2493200 TATTTTCTGC
2493210 ATTTTCCTTTTTCTGTAT-TTTTA
1 ATTTTCCTTTTTCTGTATATTTTA
*
2493233 ATTTTCACATTTTTCTTTATATTTT
1 ATTTTC-C-TTTTTCTGTATATTTT
2493258 TTGTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 1 0.05
25 10 0.48
26 4 0.19
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (24 bp):
ATTTTCCTTTTTCTGTATATTTTA
Found at i:2494419 original size:13 final size:13
Alignment explanation
Indices: 2494401--2494435 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
2494391 ATTTGGATTA
2494401 TTTATTATTTAT-T
1 TTTATT-TTTATAT
2494414 TTTATTTTTATAT
1 TTTATTTTTATAT
2494427 TTTATTTTT
1 TTTATTTTT
2494436 TGGTTTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTATAT
Found at i:2495293 original size:29 final size:29
Alignment explanation
Indices: 2495260--2495325 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
2495250 GCGTCTTCCC
**
2495260 CTCTCTTCTCGCCGACCTCTCTCTCTCTT
1 CTCTCTTCTCGCCGACCGATCTCTCTCTT
* * **
2495289 CTCTCTACTTGCCGGTCGATCTCTCTCTT
1 CTCTCTTCTCGCCGACCGATCTCTCTCTT
2495318 CTCTCTTC
1 CTCTCTTC
2495326 CGAACGACAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.05, C:0.44, G:0.09, T:0.42
Consensus pattern (29 bp):
CTCTCTTCTCGCCGACCGATCTCTCTCTT
Found at i:2496881 original size:104 final size:104
Alignment explanation
Indices: 2496701--2496911 Score: 386
Period size: 104 Copynumber: 2.0 Consensus size: 104
2496691 ACCCAAAAAA
* * *
2496701 ACCAAAATATGTATACGGGTATTAAAGTACGAATGTGGCCCTATAATATAGTCACCGGAGTATGC
1 ACCAAAATATGAATACAGGTATTAAAGTACGAATATGGCCCTATAATATAGTCACCGGAGTATGC
*
2496766 CCATGTCCATATAATTTGAGAAACATTTTTAATATAGTC
66 CCATGTCCATATAATTTGAGAAACATTTATAATATAGTC
2496805 ACCAAAATATGAATACAGGTATTAAAGTACGAATATGGCCCTATAATATAGTCACCGGAGTATGC
1 ACCAAAATATGAATACAGGTATTAAAGTACGAATATGGCCCTATAATATAGTCACCGGAGTATGC
2496870 CCATGTCCATATAATTTGAGAAACATTTATAATATAGTC
66 CCATGTCCATATAATTTGAGAAACATTTATAATATAGTC
2496909 ACC
1 ACC
2496912 GAAGTATGCC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (104 bp):
ACCAAAATATGAATACAGGTATTAAAGTACGAATATGGCCCTATAATATAGTCACCGGAGTATGC
CCATGTCCATATAATTTGAGAAACATTTATAATATAGTC
Found at i:2496909 original size:51 final size:51
Alignment explanation
Indices: 2496742--2496947 Score: 206
Period size: 51 Copynumber: 4.0 Consensus size: 51
2496732 AATGTGGCCC
*
2496742 TATAATATAGTCACCGGAGTATGCCCATGTCCATATAATTTGAGAAACATT
1 TATAATATAGTCACCGAAGTATGCCCATGTCCATATAATTTGAGAAACATT
* * * ** * ** **
2496793 TTTAATATAGTCACCAAAATATGAATACAGGT--AT-TAAAGT-ACGAATATGGC-CC
1 TATAATATAGTCACCGAAGTATG--CCCATGTCCATATAATTTGA-GAA-A---CATT
*
2496846 TATAATATAGTCACCGGAGTATGCCCATGTCCATATAATTTGAGAAACATT
1 TATAATATAGTCACCGAAGTATGCCCATGTCCATATAATTTGAGAAACATT
2496897 TATAATATAGTCACCGAAGTATGCCCATGTCCATATAATTTGAGAAACATT
1 TATAATATAGTCACCGAAGTATGCCCATGTCCATATAATTTGAGAAACATT
2496948 CTGTGAGTTA
Statistics
Matches: 120, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
49 1 0.01
50 8 0.07
51 76 0.63
53 26 0.22
54 8 0.07
55 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (51 bp):
TATAATATAGTCACCGAAGTATGCCCATGTCCATATAATTTGAGAAACATT
Found at i:2507749 original size:28 final size:28
Alignment explanation
Indices: 2507716--2507769 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
2507706 TATTACAAAC
2507716 AAATAAATTACA-CTAAATATAAATAAGT
1 AAATAAATTACATC-AAATATAAATAAGT
2507744 AAATAAATTACATCAAATATAAATAA
1 AAATAAATTACATCAAATATAAATAA
2507770 AGTTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATAAATTACATCAAATATAAATAAGT
Found at i:2513173 original size:24 final size:24
Alignment explanation
Indices: 2513132--2513179 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2513122 AAAGTATTGA
*
2513132 AGAAAGAAAAAGAGAGGTAAAAAG
1 AGAAAGAAAAAGACAGGTAAAAAG
*
2513156 AGAAAGAAGAAA-ACAGGTAGAAAG
1 AGAAAGAA-AAAGACAGGTAAAAAG
2513180 TGGCCCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.29, T:0.04
Consensus pattern (24 bp):
AGAAAGAAAAAGACAGGTAAAAAG
Found at i:2514628 original size:23 final size:22
Alignment explanation
Indices: 2514611--2514685 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
2514601 AATTATCTTT
2514611 TAATACAAAATATTATTAAATTA
1 TAATA-AAAATATTATTAAATTA
** *
2514634 TAATAAAAATATGT-TTGTATTT
1 TAATAAAAATAT-TATTAAATTA
** * *
2514656 TGGTGAAAATATTATTTAATTA
1 TAATAAAAATATTATTAAATTA
2514678 TAATAAAA
1 TAATAAAA
2514686 GTTATTTTGA
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.82
23 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (22 bp):
TAATAAAAATATTATTAAATTA
Found at i:2522495 original size:30 final size:30
Alignment explanation
Indices: 2522434--2522495 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
2522424 TAGTTATAAG
*
2522434 GACTTATTTGACCAAAAATAAAAATATAAT
1 GACTTATTTGACCAAAAATAAAAATACAAT
*** *
2522464 GACTTATTTGATTTAAAATAAAAGTACAAT
1 GACTTATTTGACCAAAAATAAAAATACAAT
2522494 GA
1 GA
2522496 TTTCATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (30 bp):
GACTTATTTGACCAAAAATAAAAATACAAT
Found at i:2524501 original size:30 final size:30
Alignment explanation
Indices: 2524445--2524504 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2524435 CTCATCGAAC
* * *
2524445 CATCTCCTCCTCAAGACGATACCGTCTCAA
1 CATCTCCTCCACAAGACAACACCGTCTCAA
*
2524475 CATCTCCTCCACAAGACAACATCGTCTCAA
1 CATCTCCTCCACAAGACAACACCGTCTCAA
2524505 ACCAAACCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.40, G:0.08, T:0.22
Consensus pattern (30 bp):
CATCTCCTCCACAAGACAACACCGTCTCAA
Found at i:2527609 original size:38 final size:38
Alignment explanation
Indices: 2527567--2527643 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
2527557 CCGACAACTA
* *
2527567 ATACCAGCAGTTCAAACATTCTCAATATGTGCAGATTC
1 ATACCAGCAATTCAAACATTCTCAATATGTGCAAATTC
**
2527605 ATACCAGCAATTCAGTCATTCTCAATATGTGCAAATTC
1 ATACCAGCAATTCAAACATTCTCAATATGTGCAAATTC
2527643 A
1 A
2527644 AATTCAGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (38 bp):
ATACCAGCAATTCAAACATTCTCAATATGTGCAAATTC
Found at i:2529307 original size:12 final size:12
Alignment explanation
Indices: 2529290--2529324 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2529280 TTAAATTATA
2529290 ATAAAATAAAAT
1 ATAAAATAAAAT
2529302 ATAAAATAAAAT
1 ATAAAATAAAAT
*
2529314 AAATAAATAAA
1 ATA-AAATAAA
2529325 TAAATAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:2529325 original size:17 final size:16
Alignment explanation
Indices: 2529260--2529328 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 16
2529250 TGTAGACACT
2529260 TAAAAAATAAATGAAAA
1 TAAAAAATAAAT-AAAA
2529277 -AAATTAAATTATAATAAAA
1 TAAA--AAA-TA-AATAAAA
*
2529296 TAAAATATAAAATAAAA
1 TAAAAAAT-AAATAAAA
2529313 TAAATAAATAAATAAA
1 TAAA-AAATAAATAAA
2529329 TAAGAGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
16 3 0.07
17 19 0.44
18 9 0.21
19 6 0.14
20 6 0.14
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (16 bp):
TAAAAAATAAATAAAA
Found at i:2542575 original size:62 final size:62
Alignment explanation
Indices: 2542480--2542950 Score: 566
Period size: 62 Copynumber: 7.7 Consensus size: 62
2542470 GAATTAAACT
* * * *
2542480 GAACCTGTTGTGAGAAAGTTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATC
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * *
2542542 GAACCTGTTATGAGATAGGTTGAGCCTAAATTAAGTTTAGGAATTTCAA---TATTTAAATC
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* *
2542601 GAACCTGTTGA-GAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATC
1 GAACCTGTT-ATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * *
2542663 AAACCTGTTATGAGATAAGTCGAGCCTA-ATTAAGTTTAGGAATTTCAA---TATTTAAATC
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * * **
2542721 GAACTTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTAATTTAAATC
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * * *
2542783 GAACTTGTTGTGAGATAGATCGAGACTAGATTAAGTCTAAGAATTTCAATTTTGTTTAAAT-
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * *
2542844 GAACCTGTTATGAGATAGGCCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATC
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
* * * *
2542906 GAACCTGTTGTAAGAT-GGTCGAGCCTAGATTAAATCTAGAAATTT
1 GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT
2542951 TAATCGAATT
Statistics
Matches: 349, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
58 33 0.09
59 68 0.19
60 1 0.00
61 93 0.27
62 154 0.44
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (62 bp):
GAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTGTTTAAATC
Found at i:2542757 original size:120 final size:121
Alignment explanation
Indices: 2542480--2543062 Score: 681
Period size: 120 Copynumber: 4.9 Consensus size: 121
2542470 GAATTAAACT
* * *
2542480 GAACCTGTTGTGAGAAAGTTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAA
1 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCGAA
* * * *
2542545 CCTGTTATGAGATAGGTTGAGCCTAAATTAAGTTTAGGAATTTCAATATTTAAATC
66 CCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATATTTAAATC
* *
2542601 GAACCTGTTGAGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCAAA
1 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCGAA
* * *
2542666 CCTGTTATGAGATAAGTCGAGCCTA-ATTAAGTTTAGGAATTTCAATATTTAAATC
66 CCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATATTTAAATC
* **
2542721 GAACTTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTAATTTAAATCGAA
1 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCGAA
* * * * *
2542786 CTTGTTGTGAGATAGATCGAGACTAGATTAAGTCTAAGAATTTCAATTTTGTTTAAAT-
66 CCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAA---TATTTAAATC
* * * * * * *
2542844 GAACCTGTTATGAGATAGGCCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCGAA
1 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCGAA
* *
2542909 CCTGTTGTAAGAT-GGTCGAGCCTAGATTAAATCTA-G-A----AAT-TTT-AATC
66 CCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATATTTAAATC
** * * * *
2542956 GAATTTATTCT-A-ATATGTGTCAAGCCTAGATCAAGTCTAA-AATTTTAATTTTGTTTAAATCG
1 GAACCTGTTGTGAGATA-G-GTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCG
* * *
2543018 AACCTATTGTGAGATAGGTCGAGCCAAGATTAAATCTAGGAATTT
64 AACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT
2543063 TAATCGGATT
Statistics
Matches: 399, Mismatches: 50, Indels: 30
0.83 0.10 0.06
Matches are distributed among these distances:
110 3 0.01
111 39 0.10
112 46 0.12
113 2 0.01
114 1 0.00
116 2 0.01
120 111 0.28
121 102 0.26
122 19 0.05
123 66 0.17
124 8 0.02
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (121 bp):
GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGTTTAAATCGAA
CCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATATTTAAATC
Found at i:2543049 original size:112 final size:112
Alignment explanation
Indices: 2542885--2543138 Score: 366
Period size: 112 Copynumber: 2.3 Consensus size: 112
2542875 TTAGTTTAGG
* *
2542885 AATTTCAATTTTGTTTAAATCGAACCTGTTGTAAGATGGTCGAGCCTAGATTAAATCTAGAAATT
1 AATTTCAATTTTGTTTAAATCGAACCTATTGTAAGATGGTCGAGCCAAGATTAAATCTAGAAATT
*
2542950 TTAATCGAATTTATTCTAATATGTGTCAAGCCTAGATCAAGTCTA-A
66 TTAATCGAATTTATTCTAATATGGGTCAAGCCTAGATCAAGTCTAGA
* * *
2542996 AATTTTAATTTTGTTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAATCTAGGAAT
1 AATTTCAATTTTGTTTAAATCGAACCTATTGTAAGAT-GGTCGAGCCAAGATTAAATCTAGAAAT
* * * * *
2543061 TTTAATCGGATTTGTTCTGATATGGGTCAAGCTTAGATCGAGTCTAGA
65 TTTAATCGAATTTATTCTAATATGGGTCAAGCCTAGATCAAGTCTAGA
* * *
2543109 AATTTCATTTTTGTTTAAATCAAACTTATT
1 AATTTCAATTTTGTTTAAATCGAACCTATT
2543139 TTGAAATAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
111 34 0.27
112 65 0.52
113 27 0.21
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (112 bp):
AATTTCAATTTTGTTTAAATCGAACCTATTGTAAGATGGTCGAGCCAAGATTAAATCTAGAAATT
TTAATCGAATTTATTCTAATATGGGTCAAGCCTAGATCAAGTCTAGA
Found at i:2543313 original size:22 final size:21
Alignment explanation
Indices: 2543283--2543329 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
2543273 AATAAATGAA
* *
2543283 AAAATTAAATTATAATAAAAT
1 AAAATTAAAGTAAAATAAAAT
*
2543304 AAAATATAAAGTAAAATAAATT
1 AAAAT-TAAAGTAAAATAAAAT
2543326 AAAA
1 AAAA
2543330 AAAAAAAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAATTAAAGTAAAATAAAAT
Found at i:2545457 original size:66 final size:67
Alignment explanation
Indices: 2545344--2545470 Score: 238
Period size: 66 Copynumber: 1.9 Consensus size: 67
2545334 ATAAAAATTT
*
2545344 AATTAATAAGTAGGCTATATTAAGATAACTTAAGATTAAATGGTACCGTTCGTGGAACGGGCGAT
1 AATTAATAAGTAGGCTATATTAAGATAACTTAAGATTAAATGGTACCGTTCGTAGAACGGGCGAT
2545409 TA
66 TA
2545411 AATTAA-AAGTAGGCTATATTAAGATAACTTAAGATTAAATGGTACCGTTCGTAGAACGGG
1 AATTAATAAGTAGGCTATATTAAGATAACTTAAGATTAAATGGTACCGTTCGTAGAACGGG
2545471 TGCCACAAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
66 53 0.90
67 6 0.10
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (67 bp):
AATTAATAAGTAGGCTATATTAAGATAACTTAAGATTAAATGGTACCGTTCGTAGAACGGGCGAT
TA
Found at i:2548815 original size:26 final size:26
Alignment explanation
Indices: 2548775--2548826 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2548765 TATTATATTA
*
2548775 TAAAAAATTGTATATAT-TAAAAAAG
1 TAAAAAATTATATATATATAAAAAAG
*
2548800 TAAATAAATTATATATATATATAAAAG
1 TAAA-AAATTATATATATATAAAAAAG
2548827 ATTAATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (26 bp):
TAAAAAATTATATATATATAAAAAAG
Found at i:2549546 original size:26 final size:26
Alignment explanation
Indices: 2549506--2549560 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
2549496 GATTAAGTAT
2549506 GCCAGTGATACTATTAGTCACTGGTC
1 GCCAGTGATACTATTAGTCACTGGTC
*
2549532 GCCAGTGATAGTATTAGTCACTGGTC
1 GCCAGTGATACTATTAGTCACTGGTC
2549558 GCC
1 GCC
2549561 TTAGTGGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (26 bp):
GCCAGTGATACTATTAGTCACTGGTC
Found at i:2562084 original size:23 final size:23
Alignment explanation
Indices: 2562054--2562155 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
2562044 CTTTAGAGTT
*
2562054 TGTGACACGCCATGGTGAGAATG
1 TGTGACACGGCATGGTGAGAATG
* ** *
2562077 TGTAACACAACATGGTGAGAATT
1 TGTGACACGGCATGGTGAGAATG
* *
2562100 TGTGACATGGCATGGTGATAATG
1 TGTGACACGGCATGGTGAGAATG
* * *
2562123 TGTGATATGGCATGGTGAGAATA
1 TGTGACACGGCATGGTGAGAATG
2562146 TGTGACACGG
1 TGTGACACGG
2562156 TTGTGACATG
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (23 bp):
TGTGACACGGCATGGTGAGAATG
Found at i:2562167 original size:34 final size:34
Alignment explanation
Indices: 2562123--2562188 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
2562113 GGTGATAATG
* *
2562123 TGTGATATGGCATGGT-GAGAATATGTGACACGGT
1 TGTGACATGGCATGGTAG-GAATATATGACACGGT
2562157 TGTGACATGGCATGGTAGGAATATATGACACG
1 TGTGACATGGCATGGTAGGAATATATGACACG
2562189 ACATGGTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (34 bp):
TGTGACATGGCATGGTAGGAATATATGACACGGT
Found at i:2562193 original size:23 final size:23
Alignment explanation
Indices: 2562167--2562237 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
2562157 TGTGACATGG
*
2562167 CATGGT-AGGAATATATGACACGA
1 CATGGTGA-GAATGTATGACACGA
* *
2562190 CATGGTGAGAATGCATGAAACGA
1 CATGGTGAGAATGTATGACACGA
*
2562213 CATGGTGAGAATGTGTGACACGA
1 CATGGTGAGAATGTATGACACGA
2562236 CA
1 CA
2562238 AGGTTTAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.20
Consensus pattern (23 bp):
CATGGTGAGAATGTATGACACGA
Found at i:2562279 original size:23 final size:23
Alignment explanation
Indices: 2562250--2562325 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
2562240 GTTTAGAGTT
* ** *
2562250 TGTGACATGCCATGGTGGGAATG
1 TGTGACATGGCATGGTGACAATA
2562273 TGTGACATGGCATGGTGACAATA
1 TGTGACATGGCATGGTGACAATA
2562296 TGTGACATGGCATGGTGACAATA
1 TGTGACATGGCATGGTGACAATA
2562319 TGTGACA
1 TGTGACA
2562326 CAGCTGTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (23 bp):
TGTGACATGGCATGGTGACAATA
Found at i:2562279 original size:93 final size:93
Alignment explanation
Indices: 2562156--2562478 Score: 304
Period size: 93 Copynumber: 3.4 Consensus size: 93
2562146 TGTGACACGG
* * ** * *
2562156 TTGTGACATGGCATGGTAGGAATATATGACACGACATGGTGAGAATGCATGAAACGACATGGTGA
1 TTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGAGAATGTGTGAAATGGCATGGTGA
*
2562221 GAATGTGTGACACGACAAGGTTTAGAGT
66 AAATGTGTGACACGACAAGGTTTAGAGT
* * * * * * *
2562249 TTGTGACATGCCATGGTGGGAATGTGTGACATGGCATGGTGACAATATGTGACATGGCATGGTGA
1 TTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGAGAATGTGTGAAATGGCATGGTGA
* * *
2562314 CAATATGTGACACAGCTGTGACATGACAGGGTTTAAAGT
66 -AA-A--T------G-TGTGACACGACAAGGTTTAGAGT
* * * *
2562353 TTGTGAGATGGCATGGTGGGAATATATGACACGACATGGTGTGAATGTGTGAGATGGCATGGTGA
1 TTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGAGAATGTGTGAAATGGCATGGTGA
** *
2562418 AAATGTGTGACACGGTATGGTTTAGAGT
66 AAATGTGTGACACGACAAGGTTTAGAGT
* * *
2562446 TTGTGACACGCCATAGAGGGAATATATGACACG
1 TTGTGACATGCCATGGTGGGAATATATGACACG
2562479 GCAGGATAAG
Statistics
Matches: 182, Mismatches: 37, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
93 98 0.54
94 2 0.01
95 1 0.01
97 1 0.01
100 1 0.01
102 1 0.01
103 3 0.02
104 75 0.41
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.26
Consensus pattern (93 bp):
TTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGAGAATGTGTGAAATGGCATGGTGA
AAATGTGTGACACGACAAGGTTTAGAGT
Found at i:2562347 original size:104 final size:104
Alignment explanation
Indices: 2562226--2562430 Score: 275
Period size: 104 Copynumber: 2.0 Consensus size: 104
2562216 GGTGAGAATG
* * * * *
2562226 TGTGACACGACAAGGTTTAGAGTTTGTGACATGCCATGGTGGGAATGTGTGACATGGCATGGTGA
1 TGTGACACGACAAGGTTTAAAGTTTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGA
*
2562291 CAATATGTGACATGGCATGGTGACAATATGTGACACAGC
66 CAATATGTGACATGGCATGGTGAAAATATGTGACACAGC
* * * * *
2562330 TGTGACATGACAGGGTTTAAAGTTTGTGAGATGGCATGGTGGGAATATATGACACGACATGGTGT
1 TGTGACACGACAAGGTTTAAAGTTTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGA
* * * *
2562395 GAATGTGTGAGATGGCATGGTGAAAATGTGTGACAC
66 CAATATGTGACATGGCATGGTGAAAATATGTGACAC
2562431 GGTATGGTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 86 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (104 bp):
TGTGACACGACAAGGTTTAAAGTTTGTGACATGCCATGGTGGGAATATATGACACGACATGGTGA
CAATATGTGACATGGCATGGTGAAAATATGTGACACAGC
Found at i:2562413 original size:23 final size:23
Alignment explanation
Indices: 2562354--2562427 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2562344 GTTTAAAGTT
* *
2562354 TGTGAGATGGCATGGTGGGAATA
1 TGTGAGATGGCATGGTGAGAATG
* * * * *
2562377 TATGACACGACATGGTGTGAATG
1 TGTGAGATGGCATGGTGAGAATG
*
2562400 TGTGAGATGGCATGGTGAAAATG
1 TGTGAGATGGCATGGTGAGAATG
2562423 TGTGA
1 TGTGA
2562428 CACGGTATGG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.27
Consensus pattern (23 bp):
TGTGAGATGGCATGGTGAGAATG
Found at i:2562641 original size:21 final size:21
Alignment explanation
Indices: 2562525--2562641 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 21
2562515 AGAGATGACT
*
2562525 TGGTGAGAATATGTGACACGC
1 TGGTGAGAATATGTGACACGG
* ** *
2562546 TAGTGTGAGAATGTGACACACCG
1 T-G-GTGAGAATATGTGACACGG
**
2562569 TGGT-ATGAATATGTGACATGCCT
1 TGGTGA-GAATATGTGACA--CGG
* *
2562592 TGGCGAGAATATGTGAGACGG
1 TGGTGAGAATATGTGACACGG
*
2562613 CATGGTGAGAATATGTGACATGG
1 --TGGTGAGAATATGTGACACGG
2562636 TGGTGA
1 TGGTGA
2562642 CATGGTGGGG
Statistics
Matches: 72, Mismatches: 16, Indels: 16
0.69 0.15 0.15
Matches are distributed among these distances:
20 1 0.01
21 19 0.26
22 2 0.03
23 49 0.68
24 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (21 bp):
TGGTGAGAATATGTGACACGG
Found at i:2562718 original size:23 final size:23
Alignment explanation
Indices: 2562680--2562724 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2562670 CCATGGCGAA
* *
2562680 AATCTGTGAGATGGCATAGTGAT
1 AATCTGTGACACGGCATAGTGAT
*
2562703 AATCTGTGACACGGCATGGTGA
1 AATCTGTGACACGGCATAGTGA
2562725 GAATATATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (23 bp):
AATCTGTGACACGGCATAGTGAT
Found at i:2563678 original size:31 final size:31
Alignment explanation
Indices: 2563636--2563742 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
2563626 GCATGGGTTG
*
2563636 GCGTGTTACAACATTTTACTTGGTCTGCATA
1 GCGTGTAACAACATTTTACTTGGTCTGCATA
* **
2563667 ACGTGTAACAACATTTTACTTACTCTGCATA
1 GCGTGTAACAACATTTTACTTGGTCTGCATA
* * *
2563698 GCATGTAACAACATTTGACTTGGTATGCATA
1 GCGTGTAACAACATTTTACTTGGTCTGCATA
*
2563729 GCGTGTAATAACAT
1 GCGTGTAACAACAT
2563743 ATATTTCTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (31 bp):
GCGTGTAACAACATTTTACTTGGTCTGCATA
Found at i:2565393 original size:151 final size:151
Alignment explanation
Indices: 2565123--2565827 Score: 658
Period size: 151 Copynumber: 4.7 Consensus size: 151
2565113 GTTTTGATGG
* * * ** * * *
2565123 TTTATGTTTAACAATTCTATATTTGATTATTAAATAACACAATAATATCTGTTATTGCAGCTGAC
1 TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGCAGTTGAC
* * * * ** * * * * * *
2565188 CAATGTGACAACATCTCCTCAATAATCGACAAGACTTGTTCAGACGCACAGTGGTAATGAGCCAT
66 CCATGCGACGACAGCTCCTCAACGACCAACAGGACCTGTTCAGATGCACAGTGGTAACGAGCCAT
* * * *
2565253 TGGTAATGATGGTTCTAACGA
131 CGATAATGACGATTCTAACGA
* *
2565274 TTTATGTTCAACAAATCCATATATGATTATCAAATAACATAGTAATA-CTTGTTATTGCAGTTGA
1 TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATC-TGTTATTGCAGTTGA
* ** * ** * * **
2565338 CCCATGCGACGATAGCTGTTTAACGACCAACAGGACCTACTCATATGCACGGTGGTAACGAGCTG
65 CCCATGCGACGACAGCTCCTCAACGACCAACAGGACCTGTTCAGATGCACAGTGGTAACGAGCCA
* ** * * *
2565403 TCGATAAGGGTGATTTTAATGG
130 TCGATAATGACGATTCTAACGA
* * * * * * *
2565425 TTTATCTTCAACAACTCCATATATGATTATTGAATAACACAGTAATATTTGTTGTTGCAATTGAC
1 TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGCAGTTGAC
* * * ** * *
2565490 CCATGTGACGACATCTCCTCAACGACGAGTAGGACCTGTTTAGATGCACAGTGGTAACAAGCCAT
66 CCATGCGACGACAGCTCCTCAACGACCAACAGGACCTGTTCAGATGCACAGTGGTAACGAGCCAT
* * *
2565555 CGGTAATGACAATTCTAACAA
131 CGATAATGACGATTCTAACGA
* *
2565576 TTTATGTTCAATAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGTAGTTGAC
1 TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGCAGTTGAC
* * ** * *
2565641 CAATGCGATGACAGCTCCTCAACGACTGACAGGACTTGTTCAGATGCACAGTGGTAACGAGCCAC
66 CCATGCGACGACAGCTCCTCAACGACCAACAGGACCTGTTCAGATGCACAGTGGTAACGAGCCAT
** * * *
2565706 CGATAAAAACGGTTCTAATGG
131 CGATAATGACGATTCTAACGA
* * *
2565727 TTTATGTTCAACAATTCCATATATGATTATTGAATAATATAGTAATATCTATTATTGCAGTTGAC
1 TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGCAGTTGAC
* * * * * *
2565792 TCATGTGACGAAAGCTCCT-AAAGACCGACAAGACCT
66 CCATGCGACGACAGCTCCTCAACGACCAACAGGACCT
2565828 ACTTAGACAC
Statistics
Matches: 437, Mismatches: 115, Indels: 5
0.78 0.21 0.01
Matches are distributed among these distances:
150 14 0.03
151 423 0.97
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (151 bp):
TTTATGTTCAACAATTCCATATATGATTATCGAATAACATAGTAATATCTGTTATTGCAGTTGAC
CCATGCGACGACAGCTCCTCAACGACCAACAGGACCTGTTCAGATGCACAGTGGTAACGAGCCAT
CGATAATGACGATTCTAACGA
Found at i:2565675 original size:302 final size:302
Alignment explanation
Indices: 2565098--2565827 Score: 847
Period size: 302 Copynumber: 2.4 Consensus size: 302
2565088 TGTCAGTGAA
* * * * * *
2565098 CCGTCGCTAAGGATGGTTTTGATGGTTTATGTTTAACAATTCTATATTTGATTATTAAATAACAC
1 CCGTCGATAAGGATGGTTTTAATGGTTTATGTTCAACAATTCCATATATGATTATTGAATAACAC
* * * * * *
2565163 AATAATATCTGTTATTGCAGCTGACCAATGTGACAACATCTCCTCAATAATCGACAAGACTTGTT
66 AGTAATATCTGTTATTGCAGTTGACCCATGTGACGACATCTCCTCAACAATCGACAAGACCTGTT
** * *** *
2565228 CAGACGCACAGTGGTAATGAGCCATTGGTAATGATGGTTCTAACGATTTATGTTCAACAAATCCA
131 CAGACGCACAGTGGTAACAAGCCATCGGTAATGACAATTCTAACAATTTATGTTCAACAAATCCA
* * **
2565293 TATATGATTATCAAATAACATAGTAATACTTGTTATTGCAGTTGACCCATGCGACGATAGCTGTT
196 TATATGATTATCAAATAACATAGTAATACTTGTTATTGCAGTTGACCAATGCGACGACAGCTCCT
* * *
2565358 TAACGACCAACAGGACCTACTCATATGCACGGTGGTAACGAG
261 CAACGACCAACAGGACCTACTCAGATGCACAGTGGTAACGAG
* * * * *
2565400 CTGTCGATAAGGGTGATTTTAATGGTTTATCTTCAACAACTCCATATATGATTATTGAATAACAC
1 CCGTCGATAAGGATGGTTTTAATGGTTTATGTTCAACAATTCCATATATGATTATTGAATAACAC
* * * * * *
2565465 AGTAATATTTGTTGTTGCAATTGACCCATGTGACGACATCTCCTCAACGA-CGAGTAGGACCTGT
66 AGTAATATCTGTTATTGCAGTTGACCCATGTGACGACATCTCCTCAACAATCGA-CAAGACCTGT
* * * *
2565529 TTAGATGCACAGTGGTAACAAGCCATCGGTAATGACAATTCTAACAATTTATGTTCAATAATTCC
130 TCAGACGCACAGTGGTAACAAGCCATCGGTAATGACAATTCTAACAATTTATGTTCAACAAATCC
* * *
2565594 ATATATGATTATCGAATAACATAGTAATA-TCTGTTATTGTAGTTGACCAATGCGATGACAGCTC
195 ATATATGATTATCAAATAACATAGTAATACT-TGTTATTGCAGTTGACCAATGCGACGACAGCTC
** * **
2565658 CTCAACGACTGACAGGACTTGTTCAGATGCACAGTGGTAACGAG
259 CTCAACGACCAACAGGACCTACTCAGATGCACAGTGGTAACGAG
** ** * * * *
2565702 CCACCGATAAAAACGGTTCTAATGGTTTATGTTCAACAATTCCATATATGATTATTGAATAATAT
1 CCGTCGATAAGGATGGTTTTAATGGTTTATGTTCAACAATTCCATATATGATTATTGAATAACAC
* * * * *
2565767 AGTAATATCTATTATTGCAGTTGACTCATGTGACGAAAGCTCCT-AA-AGACCGACAAGACCT
66 AGTAATATCTGTTATTGCAGTTGACCCATGTGACGACATCTCCTCAACA-ATCGACAAGACCT
2565828 ACTTAGACAC
Statistics
Matches: 352, Mismatches: 72, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
301 13 0.04
302 339 0.96
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (302 bp):
CCGTCGATAAGGATGGTTTTAATGGTTTATGTTCAACAATTCCATATATGATTATTGAATAACAC
AGTAATATCTGTTATTGCAGTTGACCCATGTGACGACATCTCCTCAACAATCGACAAGACCTGTT
CAGACGCACAGTGGTAACAAGCCATCGGTAATGACAATTCTAACAATTTATGTTCAACAAATCCA
TATATGATTATCAAATAACATAGTAATACTTGTTATTGCAGTTGACCAATGCGACGACAGCTCCT
CAACGACCAACAGGACCTACTCAGATGCACAGTGGTAACGAG
Found at i:2566518 original size:81 final size:80
Alignment explanation
Indices: 2566433--2566699 Score: 275
Period size: 81 Copynumber: 3.3 Consensus size: 80
2566423 AGCAGTTGAT
* * ** *
2566433 GCTGAAAGAGACCATGTTCCTCAAATAGATGCGGTTGTTAAGATAGCTATGGGAGGGGATGGGAA
1 GCTGAAAGAGACCATGTTCCTCAAAT-GATGCAGTTGTTGAGGCAGCTGTGGGAGGGGATGGGAA
*
2566498 CCTTGAATTAGTTCAG
65 CCTTGAATCAGTTCAG
* *
2566514 GCTG-AAGAAGACCATGTTCCTCAAGCTGATGCAGTTGTTGAGGCAGCTGTGGGAAGGGATGGGA
1 GCTGAAAG-AGACCATGTTCCTCAA-ATGATGCAGTTGTTGAGGCAGCTGTGGGAGGGGATGGGA
* *
2566578 AACTTGAATCAGTTTAG
64 ACCTTGAATCAGTTCAG
* * * * ** * * * * **
2566595 GCTGAAGGAAAACATGTTCCTTAAGCCGATACAATTGTTGAGGCGGCTGCGGGAGGGGATGAAAA
1 GCTGAAAGAGACCATGTTCCTCAA-ATGATGCAGTTGTTGAGGCAGCTGTGGGAGGGGATGGGAA
2566660 CCTTGAATCAGTTCAG
65 CCTTGAATCAGTTCAG
* *
2566676 GCTGAAGGAGACCATGATCCTCAA
1 GCTGAAAGAGACCATGTTCCTCAA
2566700 TGCACTCCTG
Statistics
Matches: 155, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 3 0.02
81 149 0.96
82 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (80 bp):
GCTGAAAGAGACCATGTTCCTCAAATGATGCAGTTGTTGAGGCAGCTGTGGGAGGGGATGGGAAC
CTTGAATCAGTTCAG
Found at i:2567594 original size:79 final size:79
Alignment explanation
Indices: 2567442--2567670 Score: 235
Period size: 79 Copynumber: 2.9 Consensus size: 79
2567432 TACTGATGGT
* * * ** * *
2567442 GTGTCACAACAAGATGTCAACGACATCTAACAATTGGAGTGTGACGTGTCACCCTATAATACTAC
1 GTGTCAAAACAAAATGTCAACAACATCTAACAATTGGAACGTGGCGTGTCACCCTATAATACTGC
** * *
2567507 AACAACATGGTGAC
66 AATGACATGGCGAA
** * * *
2567521 GTGTCATGACAAAATGTCAACAACATCTAATC-TTTGGAACGTGGTGTGTCACCCTATAATATTG
1 GTGTCAAAACAAAATGTCAACAACATCTAA-CAATTGGAACGTGGCGTGTCACCCTATAATACTG
*
2567585 TAATGACATGGCGAA
65 CAATGACATGGCGAA
* * * * * *
2567600 GTGTCAAAACAAGATGTTAACGACATCTAACAATTGGAGCGTGGCGTGTCATCTTATAATACTGC
1 GTGTCAAAACAAAATGTCAACAACATCTAACAATTGGAACGTGGCGTGTCACCCTATAATACTGC
2567665 AATGAC
66 AATGAC
2567671 TTATGTGTGT
Statistics
Matches: 120, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
78 1 0.01
79 118 0.98
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (79 bp):
GTGTCAAAACAAAATGTCAACAACATCTAACAATTGGAACGTGGCGTGTCACCCTATAATACTGC
AATGACATGGCGAA
Found at i:2568037 original size:70 final size:71
Alignment explanation
Indices: 2567939--2568110 Score: 242
Period size: 70 Copynumber: 2.5 Consensus size: 71
2567929 AATGACATAG
*
2567939 CAGCGCGTCATGACAAGATGTCAATGACATCTTTAGAG-AGTGGCGTGTCACCCTATAAAACTGC
1 CAGCGTGTCATGACAAGATGTCAATGACATCTTTAGAGCA-TGGCGTGTCACCCTATAAAACTGC
*
2568003 AACGACT
65 AACGACA
* * * * *
2568010 C-GTGTGTCACGACAAGATGTCAATGACACCTTTAGAGCATGGCTTGTCACCCTATAATACTGCA
1 CAGCGTGTCATGACAAGATGTCAATGACATCTTTAGAGCATGGCGTGTCACCCTATAAAACTGCA
2568074 ACGACA
66 ACGACA
*
2568080 CAGCGTGTCATGACAAGA-GTCAACGACATCT
1 CAGCGTGTCATGACAAGATGTCAATGACATCT
2568111 AACAATTGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
70 72 0.82
71 16 0.18
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (71 bp):
CAGCGTGTCATGACAAGATGTCAATGACATCTTTAGAGCATGGCGTGTCACCCTATAAAACTGCA
ACGACA
Found at i:2568052 original size:191 final size:191
Alignment explanation
Indices: 2567712--2568071 Score: 479
Period size: 193 Copynumber: 1.9 Consensus size: 191
2567702 TCTTTAGAGA
* * * *
2567712 GTGGTGTATCACTTATAATAATGCAACCACACGGCACCGTGTCACGACAAGATGTTAACGAGATC
1 GTGGTGTATCACTTATAATAATGCAACCACACAGCACCGCGTCACGACAAGATGTCAACGACATC
* * * *
2567777 TTTGGAAAGTGCCGTGTGACCCTATAATACTGCAACAACTCTTGTGTGTGACGACAAGATGTCAA
66 TTTAGAAAGTGCCGTGTCACCCTATAAAACTGCAACAACTC-TGTGTGTCACGACAAGATGTCAA
* *
2567842 TGACATCTTTAGAGCATGGCGTGCCAATCTATAATACTGTAATGAAATCTAATAATTGAAGC
130 TGACACCTTTAGAGCATGGCGTGCCAACCTATAATACTGTAATGAAATCTAATAATTGAAGC
* * ** * * * *
2567904 GTGGTGTGTCACTCTATAATATTGCAATGACATAGCAGCGCGTCATGACAAGATGTCAATGACAT
1 GTGGTGTATCACT-TATAATAATGCAACCACACAGCACCGCGTCACGACAAGATGTCAACGACAT
* * *
2567969 CTTTAGAGAGTGGCGTGTCACCCTATAAAACTGCAACGACTC-GTGTGTCACGACAAGATGTCAA
65 CTTTAGAAAGTGCCGTGTCACCCTATAAAACTGCAACAACTCTGTGTGTCACGACAAGATGTCAA
* * *
2568033 TGACACCTTTAGAGCATGGCTTGTCACCCTATAATACTG
130 TGACACCTTTAGAGCATGGCGTGCCAACCTATAATACTG
2568072 CAACGACACA
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
191 55 0.38
192 12 0.08
193 76 0.53
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (191 bp):
GTGGTGTATCACTTATAATAATGCAACCACACAGCACCGCGTCACGACAAGATGTCAACGACATC
TTTAGAAAGTGCCGTGTCACCCTATAAAACTGCAACAACTCTGTGTGTCACGACAAGATGTCAAT
GACACCTTTAGAGCATGGCGTGCCAACCTATAATACTGTAATGAAATCTAATAATTGAAGC
Found at i:2569418 original size:26 final size:27
Alignment explanation
Indices: 2569389--2569439 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
2569379 TTTATTGTAT
*
2569389 TAAAAATATATAAA-AATT-ATAAAACA
1 TAAAAATA-AAAAATAATTGATAAAACA
2569415 TAAAAATAAAAAATAATTGATAAAA
1 TAAAAATAAAAAATAATTGATAAAA
2569440 TTACTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
TAAAAATAAAAAATAATTGATAAAACA
Found at i:2571149 original size:17 final size:17
Alignment explanation
Indices: 2571127--2571169 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2571117 TTTTTTTAAT
*
2571127 TATTTTTTACTTATATA
1 TATTTTTAACTTATATA
* *
2571144 TATTTTTAATTTTTATA
1 TATTTTTAACTTATATA
2571161 TATTTTTAA
1 TATTTTTAA
2571170 TATAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTAACTTATATA
Found at i:2573329 original size:2 final size:2
Alignment explanation
Indices: 2573317--2573365 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
2573307 AAGATAATTT
* * * *
2573317 GA GA GA TGA GA GA GA GA GA GT GA GT GA GC GA GT GA GA GA GA GA
1 GA GA GA -GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2573360 GA GA GA
1 GA GA GA
2573366 AAGCTTATGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.49, T:0.08
Consensus pattern (2 bp):
GA
Found at i:2574792 original size:18 final size:18
Alignment explanation
Indices: 2574769--2574814 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2574759 TCTGGCTGGA
2574769 ACTCCCCCTTGCATGGCC
1 ACTCCCCCTTGCATGGCC
2574787 ACTCCCCCTTGCATGGCC
1 ACTCCCCCTTGCATGGCC
*
2574805 ACTCTCCCTT
1 ACTCCCCCTT
2574815 AACGTCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.50, G:0.13, T:0.26
Consensus pattern (18 bp):
ACTCCCCCTTGCATGGCC
Found at i:2583857 original size:28 final size:28
Alignment explanation
Indices: 2583825--2583889 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
2583815 TAACTTACCA
* *
2583825 TTGGGCCTTTTTCATTTTTTTATGACCT
1 TTGGGCCTTTTTCATTTCTTTATAACCT
*
2583853 TTGGGTCTTTTTCATTTCTTTATAACCT
1 TTGGGCCTTTTTCATTTCTTTATAACCT
2583881 TTGGGCCTT
1 TTGGGCCTT
2583890 CTCCATGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.11, C:0.18, G:0.15, T:0.55
Consensus pattern (28 bp):
TTGGGCCTTTTTCATTTCTTTATAACCT
Found at i:2583975 original size:25 final size:25
Alignment explanation
Indices: 2583942--2584000 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
2583932 TTATTTTTTA
2583942 TTTCATATTGGGCCATGCCCACTTAT
1 TTTC-TATTGGGCCATGCCCACTTAT
* *
2583968 TTTCTATTGGGTCATGCCCATTTAT
1 TTTCTATTGGGCCATGCCCACTTAT
2583993 TTTCTATT
1 TTTCTATT
2584001 TCTTTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (25 bp):
TTTCTATTGGGCCATGCCCACTTAT
Found at i:2584318 original size:34 final size:34
Alignment explanation
Indices: 2584236--2584341 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 34
2584226 AGCTGTCCAC
* * * * *
2584236 TTTTCCTGCACAAACTATCAGCAAATAGCTCTAA
1 TTTTTCTGCACAAATTAGCAGCAAACAGCTCAAA
*
2584270 TTTTTCTGCACAAATTAGCAGCAAACAACTCAAA
1 TTTTTCTGCACAAATTAGCAGCAAACAGCTCAAA
* *
2584304 TTTTTCTGCACAAATT-GACAGTAAACAGCTTAAA
1 TTTTTCTGCACAAATTAG-CAGCAAACAGCTCAAA
2584338 TTTT
1 TTTT
2584342 CAGCAGCCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 1 0.02
34 61 0.98
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (34 bp):
TTTTTCTGCACAAATTAGCAGCAAACAGCTCAAA
Found at i:2584731 original size:21 final size:20
Alignment explanation
Indices: 2584707--2584747 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2584697 TCATAACCGA
2584707 CTTCTCTCATTTATCTCTTTT
1 CTTCTCTCATTTAT-TCTTTT
* *
2584728 CTTCTTTCCTTTATTCTTTT
1 CTTCTCTCATTTATTCTTTT
2584748 GTTCAGCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (20 bp):
CTTCTCTCATTTATTCTTTT
Found at i:2585783 original size:18 final size:20
Alignment explanation
Indices: 2585742--2585783 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
2585732 TAAAAAATTT
* *
2585742 TATAAAAATAGTTATTAAAT
1 TATAAAAATAGTTATAAAAA
2585762 TATAAAAA-A-TTATAAAAA
1 TATAAAAATAGTTATAAAAA
2585780 TATA
1 TATA
2585784 TACATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TATAAAAATAGTTATAAAAA
Found at i:2586507 original size:36 final size:36
Alignment explanation
Indices: 2586460--2586535 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2586450 TACAATCTGT
* * *
2586460 TTCAAATACATTAAAACAATGGGCTTTCTTAGGAAG
1 TTCAAAAACATTAAAACAATGGGCTTTCTCAAGAAG
*
2586496 TTCAAAAACATTAAGACAATGGGCTTTCTCAAGAAG
1 TTCAAAAACATTAAAACAATGGGCTTTCTCAAGAAG
2586532 TTCA
1 TTCA
2586536 CAAAGAGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (36 bp):
TTCAAAAACATTAAAACAATGGGCTTTCTCAAGAAG
Found at i:2589470 original size:19 final size:19
Alignment explanation
Indices: 2589446--2589482 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2589436 CTTCTAAACT
2589446 TTAAATCATACTCCAATAC
1 TTAAATCATACTCCAATAC
2589465 TTAAATCATACTCCAATA
1 TTAAATCATACTCCAATA
2589483 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAATCATACTCCAATAC
Found at i:2598900 original size:13 final size:13
Alignment explanation
Indices: 2598882--2598906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2598872 TTCCAGAAAA
2598882 TTTATAAAATCAT
1 TTTATAAAATCAT
2598895 TTTATAAAATCA
1 TTTATAAAATCA
2598907 CTATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:2600074 original size:28 final size:27
Alignment explanation
Indices: 2600035--2600088 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
2600025 AATGCTCTGG
*
2600035 GGGGTGCAAAATTACCGTTTTGCCCCC
1 GGGGTGCAAAATTACAGTTTTGCCCCC
*
2600062 GGGGTGGCAAAATTACATTTTTGCCCC
1 GGGGT-GCAAAATTACAGTTTTGCCCC
2600089 AAAAACTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (27 bp):
GGGGTGCAAAATTACAGTTTTGCCCCC
Found at i:2604467 original size:229 final size:228
Alignment explanation
Indices: 2603976--2604776 Score: 829
Period size: 230 Copynumber: 3.5 Consensus size: 228
2603966 TATTGAGCAC
* * * * *
2603976 GCAATGCAGTTTTAATTTGTATCACGTAATGCCAAATGAAAATTTCCATGCGTCGTAGGACTATC
1 GCAATGCAGTTTTAATCTGTATCACGCAATGCCAAATGAAAATTGCCATACGTCAT-GGACTATC
* * * ** * * *
2604041 AAATTGCTGTCCA-GAGTCTCCCTAATACTAGTCCCATAAACCATGAGTCACACTATGATGACCA
65 AAATTGCTGTCCATG-GTATCCCTAATACCAGTCACGCAAACCATAAGTCACGCTTTGATGACCA
* * * * * * * *
2604105 ACATGTCACACTTTGACCTTTATACTCAGCCATGCAACCTCTAAAAACCAAGCTTGACATTCAGG
129 ACATGTCACGCATTGACCTTTTTACTCAGTCATGCAACCTTTAAAAACCAAGCCTGACATGCATG
* * *
2604170 CCAAAAACGTAACACGATGCCCTTTCAACTATTCAC
194 CCAAAAACATAACACGATGCCCTTTCAACTA-CCAA
* * *
2604206 GCAATGCAGTTTTAATCTGTATCACACAATGTCATATGAAAATTGCCATACGTCATGGAACTATC
1 GCAATGCAGTTTTAATCTGTATCACGCAATGCCAAATGAAAATTGCCATACGTCATGG-ACTATC
*
2604271 AAATTTCTGTCCATGGTATCCCTAATACCAGTCACGCAAACCATAAG-CACGCTTTGATGACCAA
65 AAATTGCTGTCCATGGTATCCCTAATACCAGTCACGCAAACCATAAGTCACGCTTTGATGACCAA
* ** * * * * * **
2604335 CATGTCATGCATTGATTTTTTTACTCAATCACGCAATCTTTGAAAACGAAGCCCAACATGCATGC
130 CATGTCACGCATTGACCTTTTTACTCAGTCATGCAACCTTTAAAAACCAAGCCTGACATGCATGC
* *
2604400 AAAAAACATAACACGATGCCCTCTCAACTACGCAA
195 CAAAAACATAACACGATGCCCTTTCAACTAC-CAA
* ** * * * *
2604435 GCAATGCAGTTTTAATTTGTATCTTGCAATGTCAAATGAAAATTGCTATGCGTCATGAGATTATC
1 GCAATGCAGTTTTAATCTGTATCACGCAATGCCAAATGAAAATTGCCATACGTCATG-GACTATC
* * * * * *
2604500 AAATTGCTATCCATGGTATCCCTGATACCAGCCATGCAAACCATAAGTCATG-TTAT-ACCGACC
65 AAATTGCTGTCCATGGTATCCCTAATACCAGTCACGCAAACCATAAGTCACGCTT-TGA-TGACC
*
2604563 AACATGTCACGCATTGACCTTTTTACAT-AGTCATACAACCTTTAAAAACCAAGCCTGACATGCA
128 AACATGTCACGCATTGACCTTTTTAC-TCAGTCATGCAACCTTTAAAAACCAAGCCTGACATGCA
***
2604627 TGCCAAAAACATAATGTGATGCCCTTTCAACTACCAA
192 TGCCAAAAACATAACACGATGCCCTTTCAACTACCAA
* * * * * * *
2604664 CCTAATGTAATTTTAATCTGTATCACGCAATGCCATATGAAAAATGCCATACATCACAGGACTAT
1 GC-AATGCAGTTTTAATCTGTATCACGCAATGCCAAATGAAAATTGCCATACGTCA-TGGACTAT
* ** * * * *
2604729 CAAATTGTTGTCTGTGGTCTCCTTAATACCAGTCACTCAAACTATAAG
64 CAAATTGCTGTCCATGGTATCCCTAATACCAGTCACGCAAACCATAAG
2604777 CCATGTTATG
Statistics
Matches: 465, Mismatches: 96, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
229 197 0.42
230 265 0.57
231 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (228 bp):
GCAATGCAGTTTTAATCTGTATCACGCAATGCCAAATGAAAATTGCCATACGTCATGGACTATCA
AATTGCTGTCCATGGTATCCCTAATACCAGTCACGCAAACCATAAGTCACGCTTTGATGACCAAC
ATGTCACGCATTGACCTTTTTACTCAGTCATGCAACCTTTAAAAACCAAGCCTGACATGCATGCC
AAAAACATAACACGATGCCCTTTCAACTACCAA
Found at i:2605349 original size:26 final size:26
Alignment explanation
Indices: 2605308--2605374 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
2605298 CTCTCTGTTC
2605308 AATGATACAACAAAGAATAATTTGGA
1 AATGATACAACAAAGAATAATTTGGA
* *
2605334 AATGATATAACTAAGAATAATTTGGA
1 AATGATACAACAAAGAATAATTTGGA
*
2605360 GATGATGCACAACAA
1 AATGAT--ACAACAA
2605375 TGTTACTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 29 0.85
28 5 0.15
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (26 bp):
AATGATACAACAAAGAATAATTTGGA
Found at i:2621896 original size:42 final size:42
Alignment explanation
Indices: 2621796--2621908 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
2621786 CAGCTCATAT
* *
2621796 GCACTCCCACTAGCACATGGCTGGGTCAACATCGGCTTATGC
1 GCACTCCCACTAGCACATAGCTAGGTCAACATCGGCTTATGC
* ** * *
2621838 GTACTCTGACTCGCACATAGCTAGGTCAGCATCGGCTTATGC
1 GCACTCCCACTAGCACATAGCTAGGTCAACATCGGCTTATGC
* *
2621880 GCACTCCCACTTGCACATAGCCAGGTCAA
1 GCACTCCCACTAGCACATAGCTAGGTCAA
2621909 TATCATTACA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
GCACTCCCACTAGCACATAGCTAGGTCAACATCGGCTTATGC
Found at i:2624648 original size:63 final size:62
Alignment explanation
Indices: 2624578--2624741 Score: 161
Period size: 63 Copynumber: 2.6 Consensus size: 62
2624568 AACTTAAATT
* * * *
2624578 CTTTTGTGCCAAGATAACTGGGCTTAGACGTCTTGGATGCCAACTAAAGTGGTCTTAAACAT-
1 CTTTTGTGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAACTAAAGTGGGCTCAAAC-TC
* * * * * * *
2624640 CTCTTTGTGCCAACATATCTAGGCTTAAATATCTTGGATGCTAGCTAAATTGGGCTCAAACTC
1 CT-TTTGTGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAACTAAAGTGGGCTCAAACTC
** *
2624703 CTTTTGTGCCAACG-TAACTGAACTTACACATCTTGGATG
1 CTTTTGTGCCAA-GATAACTGGGCTTAAACATCTTGGATG
2624742 TGAGGTAAAC
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
62 32 0.40
63 49 0.60
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (62 bp):
CTTTTGTGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAACTAAAGTGGGCTCAAACTC
Found at i:2624832 original size:30 final size:31
Alignment explanation
Indices: 2624759--2626006 Score: 355
Period size: 31 Copynumber: 40.7 Consensus size: 31
2624749 AACTCTTTTA
* * *
2624759 CCAATATAACTGGACTTAAA-CATCTTAGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * * *
2624790 CTAGTTAAATTGGGCTTAAATC-CCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
2624820 CCAATATAATTGGGCTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * *
2624851 CTAGCTAAATTGGGCTT-AATCATCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* *
2624881 CCAATATAACTAGGCTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
**
2624912 CCAACTAAATTGGGCTTAAAT-AT-TTTTATG
1 CCAA-TAAATTGGGCTTAAATCATCTTGGATG
* * *
2624942 CCAACATAACTGAGCTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * *
2624973 CCAGCTAAATTGGGCTTAAACTC-TTTTTG-TG
1 CCA-ATAAATTGGGCTTAAA-TCATCTTGGATG
* * * * *
2625004 CTAACGT-AACTGGACTTATA-CATTTTGGATG
1 CCAA--TAAATTGGGCTTAAATCATCTTGGATG
* * *
2625035 CTAGGTAAATTGGGCTTAAATC-TCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
** * *
2625065 CCAATATAGCTAGACTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* ** *
2625096 CTAGCCAAATTGGGCTTAAA-CATCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* * *
2625126 CCAATATAACTAGGCCTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* *
2625157 CCGACTAAATTGGGCTT-AATCATCTT-TATG
1 CC-AATAAATTGGGCTTAAATCATCTTGGATG
* ***
2625187 CCAA-AGTAACTAAACTTAAA-CATCTTGGATG
1 CCAATA--AATTGGGCTTAAATCATCTTGGATG
* * *
2625218 CCAGGTAAATTGGGCTTAAAT-TTCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* * *
2625248 CCAACGT-AACTAGGCTTAAA-CATCTTGGATA
1 CCAA--TAAATTGGGCTTAAATCATCTTGGATG
* *
2625279 CCAGCTAAATTGGGCTT-AATCATCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* *
2625309 CCAATATAACTGGGCTTAAA-CATCTTGAATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * *
2625340 CCAGTTAAATTGGGCTTAAACTC-TTTTTG-TG
1 CCA-ATAAATTGGGCTTAAA-TCATCTTGGATG
* * *
2625371 CCAACGT-AACTGGACTTATA-CATCTTGGATG
1 CCAA--TAAATTGGGCTTAAATCATCTTGGATG
* * *
2625402 CTAGGTAAATTGGGCTTAAATC-TCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* ** **
2625432 CCAACATAGCTATGCTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * *
2625463 CTAGATAAATTGGGCTTAAACTCCT-TTTG-TG
1 CCA-ATAAATTGGGCTTAAA-TCATCTTGGATG
* * * *
2625494 CCAATGTAACTAGACTTATAA--ATCTTGGATG
1 CCAAT-AAATTGGGCTTA-AATCATCTTGGATG
* *
2625525 CCAGGTAAATTGGGCTTAAATC-TCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
** *
2625555 CCAACGT-AGCTAGGCTTAAAT-ATCTTGGATG
1 CCAA--TAAATTGGGCTTAAATCATCTTGGATG
* * * * *
2625586 CTAGCTAAATTAGGCTTAAACTCCT-TTTG-TG
1 CCA-ATAAATTGGGCTTAAA-TCATCTTGGATG
* *
2625617 CCAACGT-AATTGGACTTATA-CATCTTGGATG
1 CCAA--TAAATTGGGCTTAAATCATCTTGGATG
* ** * *
2625648 CGAGGAAATTTTGGGCTTAAATC-TTTTTG-TG
1 CCAATAAA--TTGGGCTTAAATCATCTTGGATG
* * * *
2625679 CCAACTTAACTGGACTTATA-CATCTTGGATG
1 CCAA-TAAATTGGGCTTAAATCATCTTGGATG
* * *
2625710 CTAGGTAAATTGGGCTT-AATCATCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* ** * *
2625740 CCAATATAACTAAGCTTAAACTC-TTTTTG-TG
1 CCAATA-AATTGGGCTTAAA-TCATCTTGGATG
* * *
2625771 CCAATATAACTGGACTT-AATCATCTCGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* *
2625802 CCATTTAAATTGGGCTT-AATCATCTTTG-TG
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* ** * ** *
2625832 CCAATGTAGCTAGATTTAAA-CATCTTGGACG
1 CCAAT-AAATTGGGCTTAAATCATCTTGGATG
* * * * *
2625863 CTAGCTAAATTGGGCTTGAA-CATCTT-TATA
1 CCA-ATAAATTGGGCTTAAATCATCTTGGATG
* *
2625893 CCTATATAACTGGGCTTAAAT-ATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* * *
2625924 CCAGCA-AAATTAGACTT-AATCATCTTTG-TG
1 CCA--ATAAATTGGGCTTAAATCATCTTGGATG
*
2625954 CCAATATAACTGGGCTTAAA-CATCTTGGATG
1 CCAATA-AATTGGGCTTAAATCATCTTGGATG
* *
2625985 CTAGCTAAATTGGGCTTAAATC
1 CCA-ATAAATTGGGCTTAAATC
2626007 CTCTCATGTT
Statistics
Matches: 857, Mismatches: 244, Indels: 231
0.64 0.18 0.17
Matches are distributed among these distances:
28 2 0.00
29 29 0.03
30 314 0.37
31 442 0.52
32 62 0.07
33 8 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
CCAATAAATTGGGCTTAAATCATCTTGGATG
Found at i:2624854 original size:61 final size:61
Alignment explanation
Indices: 2624747--2625764 Score: 1073
Period size: 61 Copynumber: 16.7 Consensus size: 61
2624737 GGATGTGAGG
* * * *
2624747 TAAA-CTCTTT-TACCAATATAACTGGACTTAAACATCTTAGATGCTAGTTAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * * *
2624806 TAAATCCCTTTGTGCCAATATAATTGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * *
2624867 T-AATCATCTTTGTGCCAATATAACTAGGCTTAAACATCTTGGATGCCAACTAAATTGGGCT
1 TAAATC-TCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * * * *
2624928 TAAATATTTTTATGCCAACATAACT-GAGCTTAAACATCTTGGATGCCAGCTAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGA-CTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * ** * * * *
2624989 TAAACTCTTTTTGTGCTAACGTAACTGGACTTATACATTTTGGATGCTAGGTAAATTGGGCT
1 TAAA-TCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* *
2625051 TAAATCTCTTTGTGCCAATATAGCTAGACTTAAACATCTTGGATGCTAGCCAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * *
2625112 TAAA-CATCTTTGTGCCAATATAACTAGGCCTAAACATCTTGGATGC-CGACTAAATTGGGCT
1 TAAATC-TCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAG-CTAAATTGGGCT
* * * *
2625173 T-AATCATCTTTATGCCAA-AGTAACTAAACTTAAACATCTTGGATGCCAGGTAAATTGGGCT
1 TAAATC-TCTTTGTGCCAATA-TAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* ** * * *
2625234 TAAATTTCTTTGTGCCAACGTAACTAGGCTTAAACATCTTGGATACCAGCTAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * * * *
2625295 T-AATCATCTTTGTGCCAATATAACTGGGCTTAAACATCTTGAATGCCAGTTAAATTGGGCT
1 TAAATC-TCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* ** * * *
2625356 TAAACTCTTTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCT
1 TAAA-TCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * *
2625418 TAAATCTCTTTGTGCCAACATAGCTATG-CTTAAACATCTTGGATGCTAGATAAATTGGGCT
1 TAAATCTCTTTGTGCCAATATAACTA-GACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
* * *
2625479 TAAA-CTCCTTTTGTGCCAATGTAACTAGACTTATAA-ATCTTGGATGCCAGGTAAATTGGGCT
1 TAAATCT-C-TTTGTGCCAATATAACTAGACTTA-AACATCTTGGATGCTAGCTAAATTGGGCT
** * * * *
2625541 TAAATCTCTTTGTGCCAACGTAGCTAGGCTTAAATATCTTGGATGCTAGCTAAATTAGGCT
1 TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
** * * * * *
2625602 TAAA-CTCCTTTTGTGCCAACGTAATTGGACTTATACATCTTGGATGCGAG-GAAATTTTGGGCT
1 TAAATCT-C-TTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAA--TTGGGCT
* * * *
2625665 TAAATCTTTTTGTGCCAACT-TAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCT
1 TAAATCTCTTTGTGCCAA-TATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
2625726 T-AATCATCTTTGTGCCAATATAACTA-AGCTTAAAC-TCTT
1 TAAATC-TCTTTGTGCCAATATAACTAGA-CTTAAACATCTT
2625765 TTTGTGCCAA
Statistics
Matches: 823, Mismatches: 102, Indels: 67
0.83 0.10 0.07
Matches are distributed among these distances:
59 4 0.00
60 34 0.04
61 532 0.65
62 230 0.28
63 21 0.03
64 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (61 bp):
TAAATCTCTTTGTGCCAATATAACTAGACTTAAACATCTTGGATGCTAGCTAAATTGGGCT
Found at i:2625067 original size:123 final size:123
Alignment explanation
Indices: 2624765--2625728 Score: 1120
Period size: 123 Copynumber: 7.9 Consensus size: 123
2624755 TTTACCAATA
* * * * * *
2624765 TAACTGGACTTAAACATCTTAGATGCTAGTTAAATTGGGCTTAAATCCCTTTGTGCCAATATAAT
1 TAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAAC
* * **
2624830 TGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTT-AA-TCATCTTTGTGCCAATA
66 TGAGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTC-TTTTTGTGCCAACG
** * * *
2624887 TAACTAGG-CTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAATATTTTTATGCCAACATAA
1 TAACT-GGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAA
* *
2624951 CTGAGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCTTTTTGTGCTAACG
65 CTGAGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
* * * * *
2625010 TAACTGGACTTATACATTTTGGATGCTAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATATAGC
1 TAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAAC
* **
2625075 T-AGACTTAAACATCTTGGATGCTAGCCAAATTGGGCTTAAACATC--TTTGTGCCAATA
66 TGAG-CTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAAC-TCTTTTTGTGCCAACG
* * *
2625132 TAACTAGG-CCTAAACATCTTGGATGCC-GACTAAATTGGGCTT-AATCATCTTTATGCCAA-AG
1 TAACT-GGACTTAAACATCTTGGATGCCAG-GTAAATTGGGCTTAAATC-TCTTTGTGCCAACA-
* * * *
2625193 TAACTAAACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAA-T-TTCTTTGTGCCAACG
62 TAACTGAGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTT-TTTGTGCCAACG
* * *
2625254 TAACTAGG-CTTAAACATCTTGGATACCAGCTAAATTGGGCTT-AATCATCTTTGTGCCAATATA
1 TAACT-GGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATC-TCTTTGTGCCAACATA
* * * *
2625317 ACTGGGCTTAAACATCTTGAATGCCAGTTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
64 ACTGAGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
* * *
2625377 TAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAGC
1 TAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAAC
* * *
2625442 T-ATGCTTAAACATCTTGGATGCTAGATAAATTGGGCTTAAACTCCTTTTGTGCCAATG
66 TGA-GCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
* * *
2625500 TAACTAGACTTATAA-ATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACGTAG
1 TAACTGGACTTA-AACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAA
* * *
2625564 CT-AGGCTTAAATATCTTGGATGCTAGCTAAATTAGGCTTAAACTCCTTTTGTGCCAACG
65 CTGA-GCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
* * * * *
2625623 TAATTGGACTTATACATCTTGGATGCGAGG-AAATTTTGGGCTTAAATCTTTTTGTGCCAACTTA
1 TAACTGGACTTAAACATCTTGGATGCCAGGTAAA--TTGGGCTTAAATCTCTTTGTGCCAACATA
* *
2625687 ACTG-GACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAA
64 ACTGAG-CTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAA
2625729 TCATCTTTGT
Statistics
Matches: 731, Mismatches: 84, Indels: 52
0.84 0.10 0.06
Matches are distributed among these distances:
120 1 0.00
121 6 0.01
122 292 0.40
123 360 0.49
124 72 0.10
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (123 bp):
TAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAACATAAC
TGAGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAACG
Found at i:2625232 original size:367 final size:363
Alignment explanation
Indices: 2624570--2625728 Score: 1356
Period size: 367 Copynumber: 3.2 Consensus size: 363
2624560 GATTGTGTAA
* * * * * *
2624570 CTTAAAT-TCTTTTGTGCCAAGATAACTGGGCTTAGACGTCTTGGATGCCAACTAAAGTGGTCTT
1 CTTAAATAT-TTTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTT
* * * * * * *
2624634 AAACATCTCTTTGTGCCAACATATCTAGG-CTTAAATATCTTGGATGCTAGCTAAATTGGGCTCA
65 AAAC-TCTTTTTGTGCCAACGTAACT-GGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTA
* * *
2624698 AA-CTCCTTTTGTGCCAACGTAACT-GAACTTACACATCTTGGATG-T-G--A---GG--TAAAC
128 AATCT-C-TTTGTGCCAACATAGCTAG-ACTTAAACATCTTGGATGCTAGAAATTGGGCTTAAAC
* * * * *
2624752 TCTTT-TACCAATATAACT-GGACTTAAACATCTTAGATGCTAGTTAAATTGGGCTTAAATCCCT
190 TCTTTGTGCCAATATAACTAGG-CTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAATCTCT
* *
2624815 TTGTGCCAATA-TAATTGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAATCATCTTTG
254 TTGTGCCAA-AGTAACTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAATC-TCTTTG
**
2624879 TGCCAATATAACTAGGCTTAAACATCTTGGATGCCAACTAAATTGGG
317 TGCCAACGTAACTAGGCTTAAACATCTTGGATGCCAACTAAATTGGG
* *
2624926 CTTAAATATTTTTATGCCAACATAACTGAGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTA
1 CTTAAATATTTTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTA
* *
2624991 AACTCTTTTTGTGCTAACGTAACTGGACTTATACATTTTGGATGCTAGGTAAATTGGGCTTAAAT
66 AACTCTTTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAAAT
*
2625056 CTCTTTGTGCCAATATAGCTAGACTTAAACATCTTGGATGCTAGCCAAATTGGGCTTAAACATCT
131 CTCTTTGTGCCAACATAGCTAGACTTAAACATCTTGGATGCTAG--AAATTGGGCTTAAAC-TCT
*
2625121 TTGTGCCAATATAACTAGGCCTAAACATCTTGGATGCC-GACTAAATTGGGCTT-AATCATCTTT
193 TTGTGCCAATATAACTAGGCTTAAACATCTTGGATGCCAG-CTAAATTGGGCTTAAATC-TCTTT
* ** * * *
2625184 ATGCCAAAGTAACTAAACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATTTCTTTGTGC
256 GTGCCAAAGTAACTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTT-AATCTCTTTGTGC
* *
2625249 CAACGTAACTAGGCTTAAACATCTTGGATACCAGCTAAATTGGG
320 CAACGTAACTAGGCTTAAACATCTTGGATGCCAACTAAATTGGG
* * * *
2625293 CTT-AATCATCTTTGTGCCAATATAACTGGGCTTAAACATCTTGAATGCCAGTTAAATTGGGCTT
1 CTTAAAT-ATTTTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTT
2625357 AAACTCTTTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAAA
65 AAACTCTTTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAAA
2625422 TCTCTTTGTGCCAACATAGCTATG-CTTAAACATCTTGGATGCTAGATAAATTGGGCTTAAACTC
130 TCTCTTTGTGCCAACATAGCTA-GACTTAAACATCTTGGATGCTAG--AAATTGGGCTTAAACT-
* * *
2625486 CTTTTGTGCCAATGTAACTAGACTTATAA-ATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCT
191 C-TTTGTGCCAATATAACTAGGCTTA-AACATCTTGGATGCCAGCTAAATTGGGCTTAAATCTCT
* * * * *
2625550 TTGTGCCAACGTAGCTAGGCTTAAATATCTTGGATGCTAGCTAAATTAGGCTTAAACTCCTTTTG
254 TTGTGCCAAAGTAACTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAATCT-C-TTTG
* * * **
2625615 TGCCAACGTAA-TTGGACTTATACATCTTGGATG-CGAGGAAATTTTGGG
317 TGCCAACGTAACTAGG-CTTAAACATCTTGGATGCCAACTAAA--TTGGG
* * * * * *
2625663 CTTAAATCTTTTTGTGCCAACTTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTA
1 CTTAAATATTTTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTA
2625728 A
66 A
2625729 TCATCTTTGT
Statistics
Matches: 687, Mismatches: 81, Indels: 56
0.83 0.10 0.07
Matches are distributed among these distances:
354 33 0.05
355 52 0.08
356 61 0.09
357 1 0.00
360 1 0.00
363 2 0.00
365 5 0.01
366 15 0.02
367 313 0.46
368 106 0.15
369 37 0.05
370 58 0.08
371 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (363 bp):
CTTAAATATTTTTGTGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTA
AACTCTTTTTGTGCCAACGTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTTAAAT
CTCTTTGTGCCAACATAGCTAGACTTAAACATCTTGGATGCTAGAAATTGGGCTTAAACTCTTTG
TGCCAATATAACTAGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAATCTCTTTGTGCC
AAAGTAACTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAATCTCTTTGTGCCAACGT
AACTAGGCTTAAACATCTTGGATGCCAACTAAATTGGG
Found at i:2625830 original size:61 final size:61
Alignment explanation
Indices: 2625765--2626003 Score: 282
Period size: 61 Copynumber: 3.9 Consensus size: 61
2625755 TTAAACTCTT
* * **
2625765 TTTGTGCCAATATAACTGGACTTAATCATCTCGGATGCCATTTAAATTGGGCTTAATCATC
1 TTTGTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAATCATC
* * * * * *
2625826 TTTGTGCCAATGTAGCTAGATTTAAACATCTTGGACGCTAGCTAAATTGGGCTTGAA-CATC
1 TTTGTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTT-AATCATC
* * * * * * * *
2625887 TTTATACCTATATAACTGGGCTTAAATATCTTGGATGCCAGCAAAATTAGACTTAATCATC
1 TTTGTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAATCATC
* *
2625948 TTTGTGCCAATATAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAA
1 TTTGTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAA
2626004 ATCCTCTCAT
Statistics
Matches: 144, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
60 2 0.01
61 140 0.97
62 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (61 bp):
TTTGTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAATCATC
Found at i:2625940 original size:153 final size:153
Alignment explanation
Indices: 2625658--2625948 Score: 338
Period size: 153 Copynumber: 1.9 Consensus size: 153
2625648 CGAGGAAATT
* * * * *
2625658 TTGGGCTTAAATCTTTTTGTGCCAACTTAACTGGACTTATACATCTTGGATGCTAGGTAAATTGG
1 TTGGGCTTAAATCTCTTTGTGCCAACTTAACTAGACTTAAACATCTTGGACGCTAGCTAAATTGG
* * * * * * * *
2625723 GCTTAATCATCTTTGTGCCAATATAACTAAGCTTAAACTCTTTTTGTGCCAATATAACTGGACTT
66 GCTTAATCATCTTTATACCAATATAACTAAGCTTAAACTATCTTGGTGCCAACAAAACTAGACTT
2625788 AATCATCTCGGATGCCATTTAAA
131 AATCATCTCGGATGCCATTTAAA
* *
2625811 TTGGGCTT-AATCATCTTTGTGCCAA-TGTAGCTAGATTTAAACATCTTGGACGCTAGCTAAATT
1 TTGGGCTTAAATC-TCTTTGTGCCAACT-TAACTAGACTTAAACATCTTGGACGCTAGCTAAATT
* ** * *
2625874 GGGCTTGAA-CATCTTTATACCTATATAACTGGGCTTAAA-TATCTTGGATGCCAGCAAAATTAG
64 GGGCTT-AATCATCTTTATACCAATATAACTAAGCTTAAACTATCTTGG-TGCCAACAAAACTAG
2625937 ACTTAATCATCT
127 ACTTAATCATCT
2625949 TTGTGCCAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
152 10 0.09
153 102 0.89
154 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (153 bp):
TTGGGCTTAAATCTCTTTGTGCCAACTTAACTAGACTTAAACATCTTGGACGCTAGCTAAATTGG
GCTTAATCATCTTTATACCAATATAACTAAGCTTAAACTATCTTGGTGCCAACAAAACTAGACTT
AATCATCTCGGATGCCATTTAAA
Found at i:2625947 original size:122 final size:122
Alignment explanation
Indices: 2625774--2626001 Score: 323
Period size: 122 Copynumber: 1.9 Consensus size: 122
2625764 TTTTGTGCCA
*** * * *
2625774 ATATAACTGGACTTAATCATCTCGGATGCCATTTAAATTGGGCTTAATCATCTTTGTGCCAATGT
1 ATATAACTGGACTTAATCATCTCGGATGCCAGCAAAATTAGACTTAATCATCTTTGTGCCAATAT
* *
2625839 AGCTAGATTTAAACATCTTGGACGCTAGCTAAATTGGGCTTGAACATCTTTATACCT
66 AACTAGACTTAAACATCTTGGACGCTAGCTAAATTGGGCTTGAACATCTTTATACCT
* *
2625896 ATATAACTGGGCTTAAAT-ATCTTGGATGCCAGCAAAATTAGACTTAATCATCTTTGTGCCAATA
1 ATATAACTGGACTT-AATCATCTCGGATGCCAGCAAAATTAGACTTAATCATCTTTGTGCCAATA
* * *
2625960 TAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTT
65 TAACTAGACTTAAACATCTTGGACGCTAGCTAAATTGGGCTT
2626002 AAATCCTCTC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 89 0.97
123 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (122 bp):
ATATAACTGGACTTAATCATCTCGGATGCCAGCAAAATTAGACTTAATCATCTTTGTGCCAATAT
AACTAGACTTAAACATCTTGGACGCTAGCTAAATTGGGCTTGAACATCTTTATACCT
Found at i:2626003 original size:92 final size:92
Alignment explanation
Indices: 2624759--2626005 Score: 286
Period size: 92 Copynumber: 13.6 Consensus size: 92
2624749 AACTCTTTTA
* * * * ** *
2624759 CCAATATAACTGGACTTAAACATCTTAGATGCTAGTTAAATTGGGCTTAAATCCCTTTG-TGCCA
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAATATCTTGGATGCCA
** * * * * * *
2624823 ATATAATTGGGCTTAAACATCTTGGATG
66 GCAAAACTAGACTTAATCATCTTTG-TG
* * * * * * * * *
2624851 CTAGCTA-AATTGGGCTTAATCATCTTTG-TGCCA-ATATAACTAGGCTTAAACATCTTGGATGC
1 CCA-ATATAACTGGGCTTAAACATCTTGGATGCCAGCTA-AATTGGGCTTAAATATCTTGGATGC
* * * * * * *
2624913 CAACTAAATTGGGCTTAAAT-ATTTTTATG
64 CAGCAAAACTAGACTT-AATCATCTTTGTG
* * * * * *
2624942 CCAACATAACTGAGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCTTTTTG-TGCT
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAA-TATCTTGGATGCC
* ** *
2625006 AACGTAACTGGACTT-ATACAT-TTTGGATG
65 AGCAAAACTAGACTTAAT-CATCTTT-G-TG
* * * * * ** * * *
2625035 CTAGGTA-AATTGGGCTTAAATC-TCTTTG-TGCCA-ATATAGCTAGACTTAAACATCTTGGATG
1 CCA-ATATAACTGGGCTTAAA-CATCTTGGATGCCAGCTA-AATTGGGCTTAAATATCTTGGATG
* * * * * *
2625096 CTAGCCAAATTGGGCTTAAACATCTTTGTG
63 CCAGCAAAACTAGACTTAATCATCTTTGTG
* * *
2625126 CCAATATAACTAGGCCTAAACATCTTGGATGCC-GACTAAATTGGGCTT-AATCATCTT-TATGC
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAG-CTAAATTGGGCTTAAAT-ATCTTGGATGC
* * *
2625188 CA--AAGTAACTAAACTTAAACATCTTGGATG
64 CAGCAA--AACTAGACTTAATCATCTTTG-TG
* * ** * * * * * *
2625218 CCAGGTA-AATTGGGCTTAAATTTCTTTG-TGCCAACGT-AACTAGGCTTAAACATCTTGGATAC
1 CCA-ATATAACTGGGCTTAAACATCTTGGATGCCAGC-TAAATTGGGCTTAAATATCTTGGATGC
* * * *
2625280 CAGCTAAATTGGGCTTAATCATCTTTGTG
64 CAGCAAAACTAGACTTAATCATCTTTGTG
* * * * *
2625309 CCAATATAACTGGGCTTAAACATCTTGAATGCCAGTTAAATTGGGCTTAAACTCTTTTTG-TGCC
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAA-TATCTTGGATGCC
* ** * *
2625373 AACGTAACTGGACTT-ATACATCTTGGATG
65 AGCAAAACTAGACTTAAT-CATCTTTG-TG
* * * * * ** *
2625402 CTAGGTA-AATTGGGCTTAAATC-TCTTTG-TGCCAACATAGCTAT--GCTTAAACATCTTGGAT
1 CCA-ATATAACTGGGCTTAAA-CATCTTGGATGCCAGC-TAAAT-TGGGCTTAAATATCTTGGAT
* * * * *
2625462 GCTAG-ATAAATTGGGCTTAAAC-TCCTTTTGTG
62 GCCAGCA-AAACTAGACTTAATCAT-C-TTTGTG
* * * * * *
2625494 CCAATGTAACTAGACTTATAA-ATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG-TGCC
1 CCAATATAACTGGGCTTA-AACATCTTGGATGCCAGCTAAATTGGGCTTAAATATCTTGGATGCC
* ** * * *
2625557 AACGTAGCTAGGCTTAAAT-ATCTTGGATG
65 AGCAAAACTAGACTT-AATCATCTTTG-TG
* * * * * * * * *
2625586 CTAGCTA-AATTAGGCTTAAAC-TCCTTTTG-TGCCAACGT-AATTGGACTTATACATCTTGGAT
1 CCA-ATATAACTGGGCTTAAACAT-C-TTGGATGCCAGC-TAAATTGGGCTTAAATATCTTGGAT
* * ** * * *
2625647 GCGAGGAAATTTTGGGCTTAAATC-TTTTTGTG
62 GCCAGCAAA-ACTAGACTT-AATCATCTTTGTG
* * * * *
2625679 CCAACT-TAACTGGACTTATACATCTTGGATGCTAGGTAAATTGGGCTT-AATCATCTTTG-TGC
1 CCAA-TATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAT-ATCTTGGATGC
** * *
2625741 CAATATAACTA-AGCTTAAACTC-TTTTTGTG
64 CAGCAAAACTAGA-CTT-AA-TCATCTTTGTG
* * * ** *
2625771 CCAATATAACTGGACTTAATCATCTCGGATGCCATTTAAATTGGGCTT-AATCATCTTTG-TGCC
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAT-ATCTTGGATGCC
**** * * * * *
2625834 AATGTAGCTAGATTTAAACATCTTGGACG
65 AGCAAAACTAGACTTAATCATCTTTG-TG
* * * * * * *
2625863 CTAGCTA-AATTGGGCTTGAACATCTT-TATACCTA--TATAACTGGGCTTAAATATCTTGGATG
1 CCA-ATATAACTGGGCTTAAACATCTTGGATGCC-AGCTA-AATTGGGCTTAAATATCTTGGATG
*
2625924 CCAGCAAAATTAGACTTAATCATCTTTGTG
63 CCAGCAAAACTAGACTTAATCATCTTTGTG
*
2625954 CCAATATAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTTAAAT
1 CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAT
2626006 CCTCTCATGT
Statistics
Matches: 813, Mismatches: 254, Indels: 176
0.65 0.20 0.14
Matches are distributed among these distances:
89 1 0.00
90 15 0.02
91 200 0.25
92 434 0.53
93 141 0.17
94 22 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (92 bp):
CCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAATATCTTGGATGCCA
GCAAAACTAGACTTAATCATCTTTGTG
Found at i:2628051 original size:12 final size:12
Alignment explanation
Indices: 2628028--2628076 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
2628018 TTATTTTTTC
2628028 TTTCTT-TCTTT
1 TTTCTTCTCTTT
2628039 TTTCTTCTCTTTT
1 TTTCTTCTC-TTT
*
2628052 TTTCTTCTTTTT
1 TTTCTTCTCTTT
2628064 TTTCTTCT-TTT
1 TTTCTTCTCTTT
2628075 TT
1 TT
2628077 CACACCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 11 0.31
12 13 0.37
13 11 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTCTCTTT
Found at i:2628055 original size:20 final size:20
Alignment explanation
Indices: 2628021--2628075 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
2628011 TATACTCTTA
*
2628021 TTTTT-TCTTTCTTTCTT-T
1 TTTTTCTCTTTTTTTCTTCT
2628039 TTTCTTCTCTTTTTTTCTTCT
1 TTT-TTCTCTTTTTTTCTTCT
*
2628060 TTTTTTTCTTCTTTTT
1 TTTTTCTCTT-TTTTT
2628076 TCACACCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.10
19 2 0.06
20 17 0.55
21 9 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTCTTTTTTTCTTCT
Found at i:2628063 original size:23 final size:24
Alignment explanation
Indices: 2628023--2628076 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 24
2628013 TACTCTTATT
2628023 TTTTCTTTCTTTCTTTTTTCTTC-TC
1 TTTT-TTTCTTTCTTTTTT-TTCTTC
2628048 TTTTTTTC-TTCTTTTTTTTCTTC
1 TTTTTTTCTTTCTTTTTTTTCTTC
2628071 TTTTTT
1 TTTTTT
2628077 CACACCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.11
23 17 0.61
24 4 0.14
25 4 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTTCTTTTTTTTCTTC
Found at i:2639119 original size:28 final size:28
Alignment explanation
Indices: 2639085--2639138 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
2639075 AATTGAAATT
2639085 TTATTTATGTTTGATGTAATGTATTTGC
1 TTATTTATGTTTGATGTAATGTATTTGC
* *
2639113 TTATTTATGTTTGGTGTAATTTATTT
1 TTATTTATGTTTGATGTAATGTATTT
2639139 ATTTGTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.17, T:0.61
Consensus pattern (28 bp):
TTATTTATGTTTGATGTAATGTATTTGC
Found at i:2643256 original size:59 final size:58
Alignment explanation
Indices: 2643165--2643292 Score: 229
Period size: 59 Copynumber: 2.2 Consensus size: 58
2643155 AATACCAAGT
2643165 ATTTTATAATTATGTGTAACATTTCACTATTTACTACATTGTATATTTCATTATTGAC
1 ATTTTATAATTATGTGTAACATTTCACTATTTACTACATTGTATATTTCATTATTGAC
* *
2643223 ATTTTATAGTTTATGTGTAACATTTCACTATTTACTACATTTTATATTTCATTATTGAC
1 ATTTTATA-ATTATGTGTAACATTTCACTATTTACTACATTGTATATTTCATTATTGAC
2643282 ATTTTATAATT
1 ATTTTATAATT
2643293 TGAGTGGGGT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 10 0.15
59 56 0.85
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.52
Consensus pattern (58 bp):
ATTTTATAATTATGTGTAACATTTCACTATTTACTACATTGTATATTTCATTATTGAC
Found at i:2643470 original size:2 final size:2
Alignment explanation
Indices: 2643463--2643500 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2643453 TTCCTCATAC
2643463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2643501 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.