Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000935.1 Hibiscus syriacus cultivar Beakdansim tig00001869_pilon, whole genome shotgun sequence
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: 730910
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:10366 original size:18 final size:19
Alignment explanation
Indices: 10340--10388 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
10330 CCTAAATTTG
*
10340 GTATTGATACTCAG-GCCA
1 GTATCGATACTCAGTGCCA
*
10358 GTATCGATACCCAGTGCCA
1 GTATCGATACTCAGTGCCA
10377 GT-TCGATACTCA
1 GTATCGATACTCA
10389 TCCAAGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (19 bp):
GTATCGATACTCAGTGCCA
Found at i:14666 original size:18 final size:19
Alignment explanation
Indices: 14645--14696 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
14635 TGCCAAATTT
14645 AGTATCGATACTCATGG-G
1 AGTATCGATACTCATGGAG
14663 AGTATCGATAC-CTATGGCAG
1 AGTATCGATACTC-ATGG-AG
*
14683 AGTATTGATACTCA
1 AGTATCGATACTCA
14697 CCACAAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 15 0.52
20 12 0.41
21 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (19 bp):
AGTATCGATACTCATGGAG
Found at i:19991 original size:7 final size:7
Alignment explanation
Indices: 19981--20012 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
19971 AGAAAAAAAC
19981 GAATATA
1 GAATATA
19988 GAATATA
1 GAATATA
*
19995 GAGTATA
1 GAATATA
20002 GAATATA
1 GAATATA
20009 GAAT
1 GAAT
20013 TCTGCAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (7 bp):
GAATATA
Found at i:20896 original size:13 final size:12
Alignment explanation
Indices: 20878--20921 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
20868 CTTTTCTTCG
20878 ATATTAAAAATAA
1 ATATT-AAAATAA
20891 ATATTAAAATAA
1 ATATTAAAATAA
*
20903 TTTATTTAAAATAA
1 -ATA-TTAAAATAA
20917 ATATT
1 ATATT
20922 TATTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTAAAATAA
Found at i:20922 original size:13 final size:13
Alignment explanation
Indices: 20878--20923 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
20868 CTTTTCTTCG
*
20878 ATATTAAAAATAA
1 ATATTTAAAATAA
20891 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
20903 TTTATTTAAAATAA
1 -ATATTTAAAATAA
20917 ATATTTA
1 ATATTTA
20924 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 11 0.39
14 9 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:21800 original size:15 final size:15
Alignment explanation
Indices: 21780--21815 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
21770 TAAGTTTATC
21780 TTCTTTCTTTTTCT-T
1 TTCTTTC-TTTTCTGT
21795 TTCTTTCTTTTCTGT
1 TTCTTTCTTTTCTGT
21810 TTCTTT
1 TTCTTT
21816 GTATCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (15 bp):
TTCTTTCTTTTCTGT
Found at i:22288 original size:3 final size:3
Alignment explanation
Indices: 22272--22361 Score: 164
Period size: 3 Copynumber: 30.3 Consensus size: 3
22262 TGTAATTTTA
*
22272 AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22319 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22362 TGAGTAAAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:22829 original size:113 final size:112
Alignment explanation
Indices: 22614--23266 Score: 1021
Period size: 113 Copynumber: 5.8 Consensus size: 112
22604 TTTTGATGAG
*
22614 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCT
* * * * *
22678 -GAAAAAATAACCCATCAAGTAATAGATTTGAG-CAAAAAGGTTGAACAAA
64 GGCAAAAATAATCCATCAAGTGAT-GAATTCAGAC-AAAAGGTTGAACAAA
22727 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTG
22792 GCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
65 GCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
*
22840 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
22905 C-AAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
66 CAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
22951 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
*
23016 CAAAAATAATCCATCAAGTGATGAATTCAGATAAAAGGTTGAACAAA
66 CAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
*
23063 TTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAA-CTTCT
* * * *
23128 CTGG-AAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAA
62 CTGGCAAAA-ATAATCCATCAA-GTGATGAATTCAGACAAAAGGTTGAACAAA
*
23180 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
*
23245 -AAAAGATAATCCATCAAATGAT
66 CAAAA-ATAATCCATCAAGTGAT
23267 AGATTTGAAT
Statistics
Matches: 513, Mismatches: 17, Indels: 21
0.93 0.03 0.04
Matches are distributed among these distances:
111 110 0.21
112 89 0.17
113 163 0.32
114 45 0.09
115 27 0.05
116 20 0.04
117 59 0.12
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
CAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
Found at i:22877 original size:24 final size:23
Alignment explanation
Indices: 22842--22886 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
22832 TGAACAAATT
22842 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
22866 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
22887 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:23236 original size:229 final size:223
Alignment explanation
Indices: 22614--23266 Score: 1019
Period size: 229 Copynumber: 2.9 Consensus size: 223
22604 TTTTGATGAG
* *
22614 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCA-GATGAGTTCTTCTCATTATGAACTTTCTC
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACCTTCTC
* * * * * *
22677 TGAAAAAATAACCCATCAAGTAATAGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGA
65 TG-GAAAATAATCCATCAAGTGAT-GAATTCA-AAAAAAGGTTGAACAAATTCTTCTCATTATGA
22742 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCAT
127 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGCAAAAATAATCCAT
22807 CAAGTGATGAATTCAGACAAAAGGTTGAACAAA
191 CAAGTGATGAATTCAGACAAAAGGTTGAACAAA
22840 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAT-ATGAGTTCTTCTCATTATGAA-CTTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACCTTCTCT
*
22903 GGCAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GG-AAAATAATCCATCAAGTGATGAATTCA-AAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
22968 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCATCAA
129 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCATCAA
*
23033 GTGATGAATTCAGATAAAAGGTTGAACAAA
194 GTGATGAATTCAGACAAAAGGTTGAACAAA
*
23063 TTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--ATGATGAGTTCTTCTCATTATGAACCTTCT
*
23128 CTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTAT
64 CTGGAAAA--TAATCCATCAA-GTGATGAATTCAAA-AAAAGGTTGAACAAATTCTTCTCATTAT
*
23193 GAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG-AAAAGATAATCC
125 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAA-ATAATCC
*
23257 ATCAAATGAT
189 ATCAAGTGAT
23267 AGATTTGAAT
Statistics
Matches: 400, Mismatches: 15, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
223 86 0.22
224 78 0.19
225 27 0.07
226 77 0.19
227 10 0.03
228 16 0.04
229 106 0.26
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (223 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACCTTCTCT
GGAAAATAATCCATCAAGTGATGAATTCAAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATCCATCAAGT
GATGAATTCAGACAAAAGGTTGAACAAA
Found at i:25391 original size:10 final size:10
Alignment explanation
Indices: 25378--25431 Score: 63
Period size: 11 Copynumber: 5.0 Consensus size: 10
25368 TTGACCCCCC
25378 TTTTTTTCTT
1 TTTTTTTCTT
25388 TTTTTTTCTT
1 TTTTTTTCTT
25398 TTCTTTTCTCTCT
1 TT-TTTT-TCT-T
*
25411 TTTTTTTTTCT
1 TTTTTTTCT-T
25422 TTTTTTTCTT
1 TTTTTTTCTT
25432 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 13 0.33
11 16 0.41
12 7 0.18
13 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:36733 original size:13 final size:12
Alignment explanation
Indices: 36715--36758 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
36705 ATTTTCTTCG
36715 ATATTAAAAATAA
1 ATATT-AAAATAA
36728 ATATTAAAATAA
1 ATATTAAAATAA
*
36740 TTTATTTAAAATAA
1 -ATA-TTAAAATAA
36754 ATATT
1 ATATT
36759 TATTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTAAAATAA
Found at i:36759 original size:13 final size:13
Alignment explanation
Indices: 36715--36760 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
36705 ATTTTCTTCG
*
36715 ATATTAAAAATAA
1 ATATTTAAAATAA
36728 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
36740 TTTATTTAAAATAA
1 -ATATTTAAAATAA
36754 ATATTTA
1 ATATTTA
36761 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 11 0.39
14 9 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:37642 original size:15 final size:15
Alignment explanation
Indices: 37622--37657 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
37612 TAAGTTTATC
37622 TTCTTTCTTTTTCT-T
1 TTCTTTC-TTTTCTGT
37637 TTCTTTCTTTTCTGT
1 TTCTTTCTTTTCTGT
37652 TTCTTT
1 TTCTTT
37658 GTATCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (15 bp):
TTCTTTCTTTTCTGT
Found at i:38132 original size:3 final size:3
Alignment explanation
Indices: 38116--38181 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
38106 TGTAATTTTA
*
38116 AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
38163 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
38182 TGAGTAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:42387 original size:18 final size:18
Alignment explanation
Indices: 42361--42402 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42351 GATGTGAGTG
*
42361 GTAGTATCGATACTCATT
1 GTAGCATCGATACTCATT
42379 GTAGCATCGATACTCATT
1 GTAGCATCGATACTCATT
42397 GTAGCA
1 GTAGCA
42403 CCCATATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (18 bp):
GTAGCATCGATACTCATT
Found at i:43024 original size:54 final size:54
Alignment explanation
Indices: 42874--43155 Score: 365
Period size: 54 Copynumber: 5.2 Consensus size: 54
42864 TTCATTGAAA
* * ** * * * *
42874 TGCACACATAGTGCCTTTACGGTAATTCATAAACATATTATGAATTTTGT-AGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * *
42927 TACA-ACATATAGTGCCTATACAGTTG-TCATCAACATATGATGAATTATGTGGGT
1 TGCACAC-T-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* *
42981 TGCACACTTACTGTCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
43035 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATCTGATGAATTCTGT-GGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
43088 TCGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
1 T-GCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
43143 TACACACTTAGTG
1 TGCACACTTAGTG
43156 GTTGTAGTAC
Statistics
Matches: 201, Mismatches: 21, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
52 2 0.01
53 42 0.21
54 151 0.75
55 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:47120 original size:54 final size:53
Alignment explanation
Indices: 47054--47393 Score: 404
Period size: 54 Copynumber: 6.3 Consensus size: 53
47044 TCTATTGAGA
** * * *
47054 TGCACATGTAGTGCCTATACGGTCATTCATAAACATATTATGAATTCCGT-CGT
1 TGCACAT-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* **
47107 TCGCAGATATAGTGCCTATACGGTTGTTCATCAACATAT-AGTGAATTTTGTGGGT
1 T-GCACAT-TAGTGCCTATACGGTTGTTCATCAACATATGA-TGAATTCCGTGGGT
*
47162 TGTACATTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACA-TTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*
47216 TGCACACTTAGTGCCTATACGGTTGTTCATCGACATATGATGAATTCCGTGGGT
1 TGCACA-TTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * *
47270 TACACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTAC-TTGGT
1 TGCACA-TTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * *
47323 TCGTACACTTAGTACC--TA-GGTTGTTCATCAACATATGATGAATTACGTGGGT
1 T-GCACA-TTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
47375 TGCACACTTAGTGCCTATA
1 TGCACA-TTAGTGCCTATA
47394 GTACACATAG
Statistics
Matches: 253, Mismatches: 25, Indels: 18
0.85 0.08 0.06
Matches are distributed among these distances:
51 40 0.16
52 7 0.03
53 9 0.04
54 192 0.76
55 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (53 bp):
TGCACATTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:56515 original size:20 final size:20
Alignment explanation
Indices: 56492--56544 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
56482 CTTTTAAGAT
56492 CATATAGATGCATTTAGCAG
1 CATATAGATGCATTTAGCAG
56512 CATATAGATGCATTTAGCAG
1 CATATAGATGCATTTAGCAG
*
56532 CATATAGTTGCAT
1 CATATAGATGCAT
56545 GTGGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
CATATAGATGCATTTAGCAG
Found at i:57952 original size:19 final size:21
Alignment explanation
Indices: 57928--57970 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
57918 ACCATACTAC
57928 CATCATTCCA-TTT-CCACAA
1 CATCATTCCATTTTGCCACAA
*
57947 CATCATTTCATTTTGCCACAA
1 CATCATTCCATTTTGCCACAA
57968 CAT
1 CAT
57971 TCTCATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.30, C:0.33, G:0.02, T:0.35
Consensus pattern (21 bp):
CATCATTCCATTTTGCCACAA
Found at i:60067 original size:24 final size:24
Alignment explanation
Indices: 59980--60067 Score: 68
Period size: 24 Copynumber: 3.7 Consensus size: 24
59970 ATACACGAAT
* * * *
59980 GTACTAACATAGGAGTACCCAAAG
1 GTACTAATACAGGAGTACACATAG
* ** *
60004 GTACTAATACAGGAGTGCATTTAT
1 GTACTAATACAGGAGTACACATAG
* * *
60028 GCACTTATACACGAGTACACATAG
1 GTACTAATACAGGAGTACACATAG
*
60052 GTACTAATATAGGAGT
1 GTACTAATACAGGAGT
60068 GCACGAATGC
Statistics
Matches: 45, Mismatches: 19, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
GTACTAATACAGGAGTACACATAG
Found at i:66418 original size:24 final size:24
Alignment explanation
Indices: 66372--66446 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
66362 ACCCAAAGGT
* * *
66372 ACTAATACAAGAGTGCACGTATGC
1 ACTAATATAGGAGTGCACATATGC
* *
66396 ACTTATATAGGAGTGCACATATGT
1 ACTAATATAGGAGTGCACATATGC
66420 ACTAATATAGGAGTGCACGA-ATGC
1 ACTAATATAGGAGTGCAC-ATATGC
66444 ACT
1 ACT
66447 CTTATTGGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
ACTAATATAGGAGTGCACATATGC
Found at i:66456 original size:24 final size:23
Alignment explanation
Indices: 66382--66457 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
66372 ACTAATACAA
*
66382 GAGTGCACGTATGCACTTATATAG
1 GAGTGCACGAATGCACTT-TATAG
* *
66406 GAGTGCAC-ATATGTACTAATATAG
1 GAGTGCACGA-ATGCACT-TTATAG
*
66430 GAGTGCACGAATGCACTCTTATTG
1 GAGTGCACGAATGCACT-TTATAG
66454 GAGT
1 GAGT
66458 ACAACAAGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 41 0.98
25 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (23 bp):
GAGTGCACGAATGCACTTTATAG
Found at i:66601 original size:24 final size:24
Alignment explanation
Indices: 66574--66621 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
66564 TACAAGAATG
*
66574 CACTAAACATGATCGATCAATAAA
1 CACTAAACAAGATCGATCAATAAA
* *
66598 CACTAAATAAGATCGATCGATAAA
1 CACTAAACAAGATCGATCAATAAA
66622 AATTCTACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (24 bp):
CACTAAACAAGATCGATCAATAAA
Found at i:68133 original size:20 final size:20
Alignment explanation
Indices: 68108--68147 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
68098 TCTAAAATAG
*
68108 TCAAATTTC-ACATTCTAACA
1 TCAAA-TTCAACACTCTAACA
68128 TCAAATTCAACACTCTAACA
1 TCAAATTCAACACTCTAACA
68148 ATAAATCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAAATTCAACACTCTAACA
Found at i:71256 original size:19 final size:20
Alignment explanation
Indices: 71232--71285 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
71222 TGCAAAAATG
71232 GTATCGATACCATAGCA-TA
1 GTATCGATACCATAGCAGTA
* *
71251 GTATCGGTACCATAGTATGGTA
1 GTATCGATACCATAGCA--GTA
71273 GTATCGATACCAT
1 GTATCGATACCAT
71286 GGTAGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 15 0.52
22 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACCATAGCAGTA
Found at i:71767 original size:45 final size:45
Alignment explanation
Indices: 71716--71841 Score: 198
Period size: 45 Copynumber: 2.8 Consensus size: 45
71706 TGAACAAAAT
71716 ATAATAATGCATATGGGTGCATTATCGACATAAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATCGACATAAAAGGATGCCAAA
* * **
71761 ATAATAATGCATATGGATGCATTATCGGCACGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATCGACATAAAAGGATGCCAAA
* *
71806 ATAATAATGCATATGGGTGGATTATCAACATAAAAG
1 ATAATAATGCATATGGGTGCATTATCGACATAAAAG
71842 TATGATATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (45 bp):
ATAATAATGCATATGGGTGCATTATCGACATAAAAGGATGCCAAA
Found at i:77922 original size:21 final size:21
Alignment explanation
Indices: 77895--77948 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
77885 TCTACTAAGT
*
77895 AGTATCGATACTGATTCAATC
1 AGTATCGATACCGATTCAATC
* *
77916 GGTATCGATACCGATTGAATC
1 AGTATCGATACCGATTCAATC
77937 AGTATCGATACC
1 AGTATCGATACC
77949 AAAGGGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (21 bp):
AGTATCGATACCGATTCAATC
Found at i:78540 original size:45 final size:45
Alignment explanation
Indices: 78472--78771 Score: 503
Period size: 45 Copynumber: 6.7 Consensus size: 45
78462 AACGAATGAA
*
78472 CAAAATAATAATGCATATAGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
78517 CAAAATAATAATGTATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
78562 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
78607 CAAAATAATAATGCATATGGATGCATTATCGGCATGAAATGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
78652 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
78697 CAAAATTATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
** * *
78742 CATAGTTGA-AATACATATGGGTGCATTATC
1 CA-AAATAATAATGCATATGGGTGCATTATC
78772 AACATAAAAG
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 239 0.99
46 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
Found at i:78796 original size:45 final size:45
Alignment explanation
Indices: 78481--78816 Score: 387
Period size: 45 Copynumber: 7.4 Consensus size: 45
78471 ACAAAATAAT
* * *
78481 AATGCATATAGGTGCATTATCGGCATGAAAGGATGCCA-AAATAA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* * *
78525 TAATGTATATGGGTGCATTATCGGCATGAAAGGATGCCA-AAATAA
1 -AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* *
78570 TAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCA-AAATAA
1 -AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* * * *
78615 TAATGCATATGGATGCATTATCGGCATGAAATGATGCCA-AAATAA
1 -AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
*
78660 TAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAAATT-A
1 -AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
*
78705 TAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAGTTGA
1 -AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* ** * * *
78751 AATACATATGGGTGCATTATCAACATAAAAGTATGCTATAATTGAA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTG-A
78797 AATGCATAAT-GGTGCATTAT
1 AATGCAT-ATGGGTGCATTAT
78817 AAATATGAAT
Statistics
Matches: 269, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
45 246 0.91
46 21 0.08
47 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
Found at i:83190 original size:15 final size:15
Alignment explanation
Indices: 83170--83221 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
83160 TAATAAGGTT
83170 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
83185 ATTTATTCTAAAATA
1 ATTTATTTTAAAATA
83200 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
83215 ATTTATT
1 ATTTATT
83222 AGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:83249 original size:22 final size:22
Alignment explanation
Indices: 83224--83266 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83214 AATTTATTAG
83224 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
83246 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
83267 TACTCTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:83287 original size:32 final size:30
Alignment explanation
Indices: 83246--83773 Score: 172
Period size: 32 Copynumber: 19.7 Consensus size: 30
83236 TATTTTAAAA
83246 TATGGATTGATTTATTTTAAATACTCTATTAG
1 TATGGATTGATTTATTTTAAATA-T-TATTAG
83278 TATGGATTGATTTATTTTAAA-A-TA-T-G
1 TATGGATTGATTTATTTTAAATATTATTAG
83304 -A---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
*
83332 TATGGATTGGTTTATTTT--A-A--A--A-
1 TATGGATTGATTTATTTTAAATATTATTAG
83354 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
83386 TATGGATTGATTTATTTT--A-A--A--A-
1 TATGGATTGATTTATTTTAAATATTATTAG
83408 TATGGATTGATTTATTTTAAA-A-TA-T-G
1 TATGGATTGATTTATTTTAAATATTATTAG
* * * * *
83434 GATTGATTTA-TTATTGT-AGT-TGTA-T-G
1 TATGGATTGATTTATTTTAAATAT-TATTAG
* * * **
83460 GATTGATTTA-TT-TTAAATAAT-TTATTAG
1 TATGGATTGATTTATTTTA-AATATTATTAG
*
83488 TATGGATTAATTTATTTT--A-A--A--A-
1 TATGGATTGATTTATTTTAAATATTATTAG
83510 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
*
83542 TATAGATTGATTTATTTT-AA-A--A-TA-
1 TATGGATTGATTTATTTTAAATATTATTAG
*
83566 T-T-GATTGATTTATTTTAAATAATTTACTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
83596 TATGGATTGATTTATTTT---TA--A--A-
1 TATGGATTGATTTATTTTAAATATTATTAG
83618 TATGGATTGATTTATTTT-AA----A--A-
1 TATGGATTGATTTATTTTAAATATTATTAG
83640 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
*
83672 TATGGATTGATTTATTTT---TA--A--AA
1 TATGGATTGATTTATTTTAAATATTATTAG
* *
83695 TATGGATTGATTTA--TTA--T-TGTAGTCG
1 TATGGATTGATTTATTTTAAATAT-TATTAG
*
83721 TATAGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAT-A-TTATTAG
*
83753 TGTGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
83774 ATATGGATTG
Statistics
Matches: 391, Mismatches: 25, Indels: 160
0.68 0.04 0.28
Matches are distributed among these distances:
21 2 0.01
22 121 0.31
23 24 0.06
24 8 0.02
25 18 0.05
26 44 0.11
27 7 0.02
28 19 0.05
29 11 0.03
30 6 0.02
31 7 0.02
32 123 0.31
33 1 0.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (30 bp):
TATGGATTGATTTATTTTAAATATTATTAG
Found at i:83287 original size:54 final size:54
Alignment explanation
Indices: 83200--83805 Score: 713
Period size: 54 Copynumber: 11.4 Consensus size: 54
83190 TTCTAAAATA
*
83200 ATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
83255 ATTTATTTTAAATACTCTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
83309 ATTTATTTTAAATAATTTATTAGTATGGATTGGTTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
83363 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * ***
83417 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
83465 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
83519 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
83573 ATTTATTTTAAATAATTTACTAGTATGGATTGATTTATTTTTAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** ** * ** * * *
83627 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* * * * * *** *
83681 ATTTATTTTTAA-AA--TA-T-GGATTGATTTA-TTATTGTAGTCGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
83730 ATTTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
83784 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
83806 TTGTAGTTGT
Statistics
Matches: 472, Mismatches: 61, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
47 7 0.01
48 26 0.06
49 29 0.06
50 12 0.03
51 5 0.01
52 9 0.02
53 15 0.03
54 346 0.73
55 23 0.05
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:83308 original size:22 final size:22
Alignment explanation
Indices: 83278--83320 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83268 ACTCTATTAG
*
83278 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
83300 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
83321 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:83357 original size:22 final size:22
Alignment explanation
Indices: 83332--83660 Score: 109
Period size: 22 Copynumber: 13.0 Consensus size: 22
83322 AATTTATTAG
*
83332 TATGGATTGGTTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
83354 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
83378 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
83408 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
83430 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
83456 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
83480 TTTATTAGTATGGATTAATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
83510 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
83534 TTTATTAGTATAGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
*
83564 TATTGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
83588 TTTACTAGTATGGATTGATTTATTTTTAAA
1 --TA-T-GGATTGA-T---TTATTTTAAAA
83618 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
83640 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
83661 TAATTTATTA
Statistics
Matches: 230, Mismatches: 33, Indels: 88
0.66 0.09 0.25
Matches are distributed among these distances:
22 72 0.31
23 8 0.03
24 11 0.05
25 10 0.04
26 50 0.22
27 8 0.03
28 36 0.16
29 7 0.03
30 8 0.03
31 7 0.03
32 13 0.06
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:83518 original size:156 final size:156
Alignment explanation
Indices: 83300--83584 Score: 525
Period size: 156 Copynumber: 1.8 Consensus size: 156
83290 TATTTTAAAA
**
83300 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGGTTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
*
83365 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
66 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
83430 TATGGATTGATTTATTATTGTAGTTG
131 TATGGATTGATTTATTATTGTAGTTG
*
83456 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
*
83521 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATTGATTGATTTATTTTAAA
66 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
83585 TAATTTACTA
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 124 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (156 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
TATGGATTGATTTATTATTGTAGTTG
Found at i:83558 original size:210 final size:212
Alignment explanation
Indices: 83246--83805 Score: 823
Period size: 210 Copynumber: 2.7 Consensus size: 212
83236 TATTTTAAAA
* * *
83246 TATGGATTGATTTATTTTAAATACTCTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAAT-TATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
*
83311 TTATTTTAAATAATTTATTAGTATGGATTGGTTTATTTTAAAATATGGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
83376 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGAT
130 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGAT
83441 TTA-TT-AT-TGTAGTT-G
195 TTATTTAATATGTA-TTAG
83456 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAA-TTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
* *
83521 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATTGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
* *
83586 AATTTACTAGTATGGATTGATTTATTTTTAAATATGGATTGATTTATTTTAAAATATGGATTGAT
130 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGAT
*
83651 TTATTTTAAATAATTTATTAG
195 TTA-TTT-AAT-ATGTATTAG
* * * * * *** *
83672 TATGGATTGATTTATTTTTAA-AA-TA-T-GGATTGATTTA-TTATTGTAGTCGTATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTATTAGTATGGATTAATTTATTTTA-AAATATGGATTGAT
*
83732 TTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
83797 AATTTATTA
130 AATTTATTA
83806 TTGTAGTTGT
Statistics
Matches: 319, Mismatches: 22, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
210 195 0.61
211 89 0.28
212 3 0.01
213 2 0.01
214 2 0.01
215 4 0.01
216 24 0.08
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (212 bp):
TATGGATTGATTTATTTTAAATAATTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATT
TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATT
TATTTAATATGTATTAG
Found at i:83855 original size:31 final size:31
Alignment explanation
Indices: 83820--83878 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
83810 AGTTGTATGG
* * *
83820 ATTATTTAAATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
83851 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
83879 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:96529 original size:22 final size:20
Alignment explanation
Indices: 96496--96552 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 20
96486 ATTGATACTG
96496 GTAGGGGTATCGATACCAAA
1 GTAGGGGTATCGATACCAAA
**
96516 GTAGGGTAGTATCGATACCATG
1 GTAGGG--GTATCGATACCAAA
96538 GTAGGGGTATCGATA
1 GTAGGGGTATCGATA
96553 TTGAAGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.45
22 18 0.55
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (20 bp):
GTAGGGGTATCGATACCAAA
Found at i:96979 original size:45 final size:45
Alignment explanation
Indices: 96924--97268 Score: 345
Period size: 45 Copynumber: 7.7 Consensus size: 45
96914 ATGAAAATAC
*** * *
96924 AAATGCATATGGGTGCATTATTGGCATGAAA-GGATGCCATAGTTG
1 AAATGCATATGGGTGCATTATCAACA-GAAATGTATGCTATAGTTG
* * * * *
96969 AAATGTATATGGGTACATTATCAACAAAAATGTATACTATGGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAGTTG
* * *
97014 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAGTTG
* *
97059 AAATGCATATGGGTGCATTATCAATAGAAATGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAGTTG
* * *
97104 AAATGCATATGGGTGCATTATCAACATAAGA-GCATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAA-ATGTATGCTATAGTTG
** * * * *
97149 AAATATATATGGGTACACTATCAACAGAAAAGTATACTAT-GTTTG
1 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAG-TTG
* * * * * *
97194 AATTGTATATGGGTACATTATCAAAAGAAAAGTATACTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAGTTG
** *
97239 AAATGCATATGGGTGTGTTATCAATAGAAA
1 AAATGCATATGGGTGCATTATCAACAGAAA
97269 CATGTTATAG
Statistics
Matches: 255, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
44 5 0.02
45 248 0.97
46 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTATAGTTG
Found at i:97171 original size:135 final size:134
Alignment explanation
Indices: 96924--97262 Score: 409
Period size: 135 Copynumber: 2.5 Consensus size: 134
96914 ATGAAAATAC
* * * *
96924 AAATGCATATGGGTGCATTATTGGC-AT-GAAAGGATGCCATAGTTGAAATGTATATGGGTACAT
1 AAATGCATATGGGTGCATTA-T--CAATAGAAAGTATGCTATAGTTGAAATGCATATGGGTGCAT
* * * *
96987 TATCAACAAAAATGTATACTATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCT
63 TATCAACAAAAATGCATACTATGGTTGAAATATATATGGGTACACTATCAACAGAAAAGTATACT
97052 ATAG-TTG
128 AT-GTTTG
*
97059 AAATGCATATGGGTGCATTATCAATAGAAATGTATGCTAGAGTTGAAATGCATATGGGTGCATTA
1 AAATGCATATGGGTGCATTATCAATAGAAA-GTATGCTATAGTTGAAATGCATATGGGTGCATTA
* *
97124 TCAACATAAGA-GCATGCTA-GAGTTGAAATATATATGGGTACACTATCAACAGAAAAGTATACT
65 TCAACA-AAAATGCATACTATG-GTTGAAATATATATGGGTACACTATCAACAGAAAAGTATACT
97187 ATGTTTG
128 ATGTTTG
* * * * * **
97194 AATTGTATATGGGTACATTATCAAAAGAAAAGTATACTATAGTTGAAATGCATATGGGTGTGTTA
1 AAATGCATATGGGTGCATTATCAATAG-AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTA
97259 TCAA
65 TCAA
97263 TAGAAACATG
Statistics
Matches: 178, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
132 1 0.01
133 2 0.01
134 7 0.04
135 162 0.91
136 6 0.03
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.31
Consensus pattern (134 bp):
AAATGCATATGGGTGCATTATCAATAGAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTAT
CAACAAAAATGCATACTATGGTTGAAATATATATGGGTACACTATCAACAGAAAAGTATACTATG
TTTG
Found at i:97268 original size:90 final size:90
Alignment explanation
Indices: 96952--97252 Score: 390
Period size: 90 Copynumber: 3.3 Consensus size: 90
96942 TATTGGCATG
* * *
96952 AAAGGATGCCATAGTTGAAATGTATATGGGTACATTATCAACA-AAAATGTATACTATGGTTGAA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAA-GTATACTATGGTTGAA
97016 ATGTATATGGGTACATTATCAACAGA
65 ATGTATATGGGTACATTATCAACAGA
* * * *
97042 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAATAGAAATGTATGCTA-GAGTTGAA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATG-GTTGAA
* * *
97106 ATGCATATGGGTGCATTATCAACATA
65 ATGTATATGGGTACATTATCAACAGA
* * * ** * * *
97132 AGAGCATGCTAGAGTTGAAATATATATGGGTACACTATCAACAGAAAAGTATACTATGTTTGAAT
1 AAAGTATGCTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATGGTTGAAA
*
97197 TGTATATGGGTACATTATCAAAAGA
66 TGTATATGGGTACATTATCAACAGA
*
97222 AAAGTATACTATAGTTGAAATGCATATGGGT
1 AAAGTATGCTATAGTTGAAATGCATATGGGT
97253 GTGTTATCAA
Statistics
Matches: 176, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
89 1 0.01
90 171 0.97
91 4 0.02
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (90 bp):
AAAGTATGCTATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATGGTTGAAA
TGTATATGGGTACATTATCAACAGA
Found at i:103531 original size:95 final size:95
Alignment explanation
Indices: 103362--103583 Score: 248
Period size: 95 Copynumber: 2.3 Consensus size: 95
103352 TAATGAAGTG
* * ** *
103362 GTATCGATACCATGGTGAGGATATCGATACCAGGTAACATCGAACCTAATTTTGGTATCGATACC
1 GTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCGAACCTAATTTTGGTATCGATACC
** * *
103427 ATACAGGGGTATCGTTACCATAGTATAGTA
66 ATACAGGGGTATCAATACCAAAGTAGAGTA
* * * * *
103457 GTATCTATACCACGGTAAGGGTATCGATACTGGGCCACATCGAATCTAATTTTGGTATTGATACG
1 GTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCGAACCTAATTTTGGTATCGATAC-
** * *
103522 GGTA-GGGGGTATCAATACCAAAGTAGGGTA
65 CATACAGGGGTATCAATACCAAAGTAGAGTA
* *
103552 GTATCGATACCATAGTAAGGGCATCGATACTG
1 GTATCGATACCATGGTAAGGGTATCGATACTG
103584 AAGGGCCATA
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
95 102 0.98
96 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (95 bp):
GTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCGAACCTAATTTTGGTATCGATACC
ATACAGGGGTATCAATACCAAAGTAGAGTA
Found at i:104273 original size:95 final size:95
Alignment explanation
Indices: 104082--104324 Score: 262
Period size: 95 Copynumber: 2.5 Consensus size: 95
104072 GATTCAATCA
* * * *
104082 GTATCAATACCTAATG-A-AGTGGTATCGATACCATGGTGAGGGTATCGATACTGGGTAACATCG
1 GTATCGATACC-AATGTAGAGTAGTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCG
104145 AACCTAATTTTAGTATCGATACCATATAGGG
65 AACCTAATTTTAGTATCGATACCATATAGGG
* * * *
104176 GTATCGTTACC-ATAGTATAGTAGTATCAATACCATGGTAAGGGTATCGATACTGGGCCACATCG
1 GTATCGATACCAAT-GTAGAGTAGTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCG
* * * *
104240 AATCTAATTTTGGTATTGATA-C-TGGTAGAGG
65 AACCTAATTTTAGTATCGATACCAT-ATAG-GG
* * *
104271 GTATCGATACCAATGTAGGGTAGTATCGATACCATAGTAGGGTAGTATCGATAC
1 GTATCGATACCAATGTAGAGTAGTATCGATACCATGGTAAGG--GTATCGATAC
104325 CATAGTAGGG
Statistics
Matches: 124, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
92 2 0.02
93 2 0.02
94 14 0.11
95 94 0.76
96 2 0.02
97 10 0.08
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (95 bp):
GTATCGATACCAATGTAGAGTAGTATCGATACCATGGTAAGGGTATCGATACTGGGCAACATCGA
ACCTAATTTTAGTATCGATACCATATAGGG
Found at i:104290 original size:19 final size:19
Alignment explanation
Indices: 104268--104344 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 19
104258 ATACTGGTAG
104268 AGGGTATCGATACCA-ATGT
1 AGGGTATCGATACCATA-GT
104287 AGGGTAGTATCGATACCATAGT
1 A-GG--GTATCGATACCATAGT
104309 AGGGTAGTATCGATACCATAGT
1 A-GG--GTATCGATACCATAGT
*
104331 AGGGGTATTGATAC
1 A-GGGTATCGATAC
104345 TGAAGGGCCA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
19 1 0.02
20 11 0.21
22 40 0.75
23 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (19 bp):
AGGGTATCGATACCATAGT
Found at i:104299 original size:22 final size:22
Alignment explanation
Indices: 104271--104334 Score: 112
Period size: 22 Copynumber: 2.9 Consensus size: 22
104261 CTGGTAGAGG
104271 GTATCGATACCA-ATGTAGGGTA
1 GTATCGATACCATA-GTAGGGTA
104293 GTATCGATACCATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
104315 GTATCGATACCATAGTAGGG
1 GTATCGATACCATAGTAGGG
104335 GTATTGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:104828 original size:45 final size:45
Alignment explanation
Indices: 104775--105035 Score: 236
Period size: 45 Copynumber: 5.8 Consensus size: 45
104765 GTGTACTATG
*
104775 GTTGAAATGTATATGTGTACATTATCAACAGAAAAGTATGCTAGA
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * * **
104820 GATGAAATGCATATGGGTGCATTATCAACAGAACTGTATGCTAGA
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * * * * * *
104865 GTTGAAATGCATATGGGTGCATTAACAATAGAAGAGCATGTTAGA
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* ** * ** **
104910 GTTGAAATTTATATATGTACATTTTCAATGGAAAAGTATATTATG-
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTA-GA
* * * ** *
104955 GTTGAAATGTTTATGGGTACATTATCAAAAGAAAAATACACTATA
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * *
105000 GTAGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAG
105036 ATGTTATAGA
Statistics
Matches: 173, Mismatches: 41, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
45 172 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (45 bp):
GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
Found at i:104962 original size:135 final size:134
Alignment explanation
Indices: 104775--105041 Score: 311
Period size: 135 Copynumber: 2.0 Consensus size: 134
104765 GTGTACTATG
* * *
104775 GTTGAAATGTATATGTGTACATTATCAACAGAAAAGTATGCTAGAGATGAAATGCATATGGGTGC
1 GTTGAAATGTATATATGTACATTATCAACAGAAAAGTATACTAGAGATGAAATGCATATGGGTAC
* *** ** * * *
104840 ATTATCAACAGAACTGTATGCTAGAGTTGAAATGCATATGGGTGCATTAACAATAGAAGAGCATG
66 ATTATCAAAAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTAACAACAGAAAAG-ATG
104905 TTAGA
130 TTAGA
* * ** * * **
104910 GTTGAAATTTATATATGTACATTTTCAATGGAAAAGTATATTATG-GTTGAAATGTTTATGGGTA
1 GTTGAAATGTATATATGTACATTATCAACAGAAAAGTATACTA-GAGATGAAATGCATATGGGTA
* *
104974 CATTATCAAAAGAAAAATACACTATAGTAGAAATGCATATGGGTGCATTATCAACAGAAAAGATG
65 CATTATCAAAAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTAACAACAGAAAAGATG
105039 TTA
130 TTA
105042 TAGATTAAAG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
134 6 0.06
135 102 0.94
136 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (134 bp):
GTTGAAATGTATATATGTACATTATCAACAGAAAAGTATACTAGAGATGAAATGCATATGGGTAC
ATTATCAAAAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTAACAACAGAAAAGATGT
TAGA
Found at i:105034 original size:90 final size:90
Alignment explanation
Indices: 104759--105035 Score: 261
Period size: 90 Copynumber: 3.1 Consensus size: 90
104749 ATGGGTACAA
* * * *
104759 AGAAAGGTGTACTATGGTTGAAATGTATATGTGTACATTATCAACAGAAAAGTATGCTAGAG-AT
1 AGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAAAAGAAAAGTATGCTAGAGTA-
104823 GAAATGCATATGGGTGCATTATCAAC
65 GAAATGCATATGGGTGCATTATCAAC
** * * * * * * * * *
104849 AGAACTGTATGCTA-GAGTTGAAATGCATATGGGTGCATTAACAATAGAAGAGCATGTTAGAGTT
1 AGAAAAGTATACTATG-GTTGAAATGTATATGGGTACATTATCAAAAGAAAAGTATGCTAGAGTA
** ** * * *
104913 GAAATTTATATATGTACATTTTCAAT
65 GAAATGCATATGGGTGCATTATCAAC
* * * * ** *
104939 GGAAAAGTATATTATGGTTGAAATGTTTATGGGTACATTATCAAAAGAAAAATACACTATAGTAG
1 AGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAAAAGAAAAGTATGCTAGAGTAG
105004 AAATGCATATGGGTGCATTATCAAC
66 AAATGCATATGGGTGCATTATCAAC
105029 AGAAAAG
1 AGAAAAG
105036 ATGTTATAGA
Statistics
Matches: 138, Mismatches: 46, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
89 1 0.01
90 136 0.99
91 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (90 bp):
AGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAAAAGAAAAGTATGCTAGAGTAG
AAATGCATATGGGTGCATTATCAAC
Found at i:111265 original size:95 final size:95
Alignment explanation
Indices: 111100--111317 Score: 269
Period size: 95 Copynumber: 2.3 Consensus size: 95
111090 GAAGTGGTAC
* * *
111100 CGATACCATGGTGAGGGTATCGATA-TCGGGTAAGATCGAACCTAATTTTGGTATCGATACTATA
1 CGATACCATGGTAAGGGTATCGATACT-GGGCAACATCGAACCTAATTTTGGTATCGATACTATA
* * *
111164 TAGGGGTATCGTTACCATAGTATAATAGTAT
65 TAGGGGTATCGATACCAAAGTAGAATAGTAT
* * * *
111195 CGATACCATGGTAAGGGTATCGATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTA
1 CGATACCATGGTAAGGGTATCGATACTGGGCAACATCGAACCTAATTTTGGTATCGATACT-ATA
* **
111260 -GGGGGTATCGATACCAAAGTAGGGTAGTAT
65 TAGGGGTATCGATACCAAAGTAGAATAGTAT
* *
111290 CGATATCATAGTAAGGGTATCGATACTG
1 CGATACCATGGTAAGGGTATCGATACTG
111318 AAGAGCCATA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 103 0.97
96 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (95 bp):
CGATACCATGGTAAGGGTATCGATACTGGGCAACATCGAACCTAATTTTGGTATCGATACTATAT
AGGGGTATCGATACCAAAGTAGAATAGTAT
Found at i:111292 original size:22 final size:20
Alignment explanation
Indices: 111262--111315 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
111252 TACTGGTAGG
*
111262 GGGTATCGATACCAAAGTAG
1 GGGTATCGATACCAAAGTAA
* *
111282 GGTAGTATCGATATCATAGTAA
1 GG--GTATCGATACCAAAGTAA
111304 GGGTATCGATAC
1 GGGTATCGATAC
111316 TGAAGAGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCAAAGTAA
Found at i:112017 original size:95 final size:95
Alignment explanation
Indices: 111817--111996 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 95
111807 GATTCAATCA
* * * * *
111817 GTATCGATACC-TAATGA-AGTGGTATCGATACCATGGTGAGGGTATTGATATCGGGTAACATCG
1 GTATCGATACCATAGT-ATAGTAGTATCAATACCATGGTAAGGGTATTGATATCGGGCAACATCG
111880 AACCTAATTTTGGTATCGATACCATATAGGG
65 AACCTAATTTTGGTATCGATACCATATAGGG
* *
111911 GTATCGTTACCATAGTATAGTAGTATCAATACCATGGTAAGGGTATTGATA-CTGGGCCACATCG
1 GTATCGATACCATAGTATAGTAGTATCAATACCATGGTAAGGGTATTGATATC-GGGCAACATCG
* *
111975 AATCTAATTTTGGTATTGATAC
65 AACCTAATTTTGGTATCGATAC
111997 TGGTAGGGGG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
94 12 0.16
95 62 0.84
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (95 bp):
GTATCGATACCATAGTATAGTAGTATCAATACCATGGTAAGGGTATTGATATCGGGCAACATCGA
ACCTAATTTTGGTATCGATACCATATAGGG
Found at i:112450 original size:742 final size:742
Alignment explanation
Indices: 111022--112505 Score: 2664
Period size: 742 Copynumber: 2.0 Consensus size: 742
111012 TACCTATATC
* *
111022 ATAGGCAAAAATTAAGCTAAATCATATGAGAAGTATCAATATTGATTCAATCAGTATCGGTACCT
1 ATAGGCAAAAATTAAGCTAAATCATATGAGAAGTATCAATACTGATTCAATCAGTATCGATACCT
*
111087 AATGAAGTGGTACCGATACCATGGTGAGGGTATCGATATCGGGTAAGATCGAACCTAATTTTGGT
66 AATGAAGTGGTACCGATACCATGGTGAGGGTATCGATATCGGGTAACATCGAACCTAATTTTGGT
* *
111152 ATCGATACTATATAGGGGTATCGTTACCATAGTATAATAGTATCGATACCATGGTAAGGGTATCG
131 ATCGATACCATATAGGGGTATCGTTACCATAGTATAATAGTATCAATACCATGGTAAGGGTATCG
*
111217 ATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTAGGGGGTATCGATACCAAAGTAG
196 ATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTAGGGGGTATCGATACCAAACTAG
* *
111282 GGTAGTATCGATATCATAGTAAGGGTATCGATACTGAAGAGCCATAAATTTTAAGTTGGGCTGAT
261 GGTAATATCGATACCATAGTAAGGGTATCGATACTGAAGAGCCATAAATTTTAAGTTGGGCTGAT
**
111347 ATTGTTGTCGAAAGGTTAATAATAAGTATTTTGATTAATGTTTAAGTTATAATTGTTAAGAAATA
326 ATTGTTGTAAAAAGGTTAATAATAAGTATTTTGATTAATGTTTAAGTTATAATTGTTAAGAAATA
111412 CACTAACAATTGATATTACGCATGTATTTAATGAATGTGGGATAGATCAAAATCAATCTTCCTAA
391 CACTAACAATTGATATTACGCATGTATTTAATGAATGTGGGATAGATCAAAATCAATCTTCCTAA
*
111477 GCAAGTAAGGCGAAAGGCAAGGGTAAAGTTCAGGAGTAATCATCCTTACTTTTGGACACTTAGCG
456 GCAAGTAAGGCGAAAGGCAAGGGTAAAGTTCAGGAGTAATCATCATTACTTTTGGACACTTAGCG
* *
111542 AGGAAAGCCATGTGAGTACATTTTATTGTATGCAATCTAGATGAAAATGATTAGCAATTATTTAA
521 AAGAAAGCCAGGTGAGTACATTTTATTGTATGCAATCTAGATGAAAATGATTAGCAATTATTTAA
* *
111607 TATAAATTGTTTAATTGTTAATGTATGTTTTACTGTAATTACTATGTTTTATTGTGTATAAGTTT
586 TATAAATTGTTTAATTGTTAATGTATGCTTTACTGTAATTACTATGTTTTATTGTGTATAAGTTC
*
111672 GAGTATGAAAATACAAATGCATATGTGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGT
651 GAGTATGAAAATACAAATGCATATGTGTGAATTATTGGCATGAAAGGATGCCATAGTTGAAATGT
*
111737 ATATGGGTG-CATTATCAAAAGAAAGGT
716 ATACGGG-GACATTATCAAAAGAAAGGT
* * *
111764 ATAGGCAAAAATTAGGCTAAATCATCTGAGAAGTATCGATACTGATTCAATCAGTATCGATACCT
1 ATAGGCAAAAATTAAGCTAAATCATATGAGAAGTATCAATACTGATTCAATCAGTATCGATACCT
* *
111829 AATGAAGTGGTATCGATACCATGGTGAGGGTATTGATATCGGGTAACATCGAACCTAATTTTGGT
66 AATGAAGTGGTACCGATACCATGGTGAGGGTATCGATATCGGGTAACATCGAACCTAATTTTGGT
* *
111894 ATCGATACCATATAGGGGTATCGTTACCATAGTATAGTAGTATCAATACCATGGTAAGGGTATTG
131 ATCGATACCATATAGGGGTATCGTTACCATAGTATAATAGTATCAATACCATGGTAAGGGTATCG
*
111959 ATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTAGGGGGTATTGATACCAAACTAG
196 ATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTAGGGGGTATCGATACCAAACTAG
* * * *
112024 GGTAATATTGATGCCATAGTAGGGGTATCGATACTGAAGGGCCATAAATTTTAAGTTGGGCTGAT
261 GGTAATATCGATACCATAGTAAGGGTATCGATACTGAAGAGCCATAAATTTTAAGTTGGGCTGAT
112089 ATTGTTGTAAAAAGGTTAATAATAAGTATTTTGATTAATGTTTAAGTTATAATTGTTAAGAAATA
326 ATTGTTGTAAAAAGGTTAATAATAAGTATTTTGATTAATGTTTAAGTTATAATTGTTAAGAAATA
*
112154 CACTAACAATTGTTATTACGCATGTATTTAATGAATGTGGGATAGATCAAAATCAATCTTCCTAA
391 CACTAACAATTGATATTACGCATGTATTTAATGAATGTGGGATAGATCAAAATCAATCTTCCTAA
*
112219 GCGAGTAAGGCGAAAGGCAAGGGTAAAGTTCAGGAGTAATCATCATTACTTTTGGACACTTAGCG
456 GCAAGTAAGGCGAAAGGCAAGGGTAAAGTTCAGGAGTAATCATCATTACTTTTGGACACTTAGCG
112284 AAGAAAGCCAGGTGAGTACATTTTATTGTATGCAATCTAGATGAAAATGATTAGCAATTATTTAA
521 AAGAAAGCCAGGTGAGTACATTTTATTGTATGCAATCTAGATGAAAATGATTAGCAATTATTTAA
112349 TATAAATTGTTTAATTGTTAATGTATGCTTTACTGTAATTACTATGTTTTATTGTGTATAAGTTC
586 TATAAATTGTTTAATTGTTAATGTATGCTTTACTGTAATTACTATGTTTTATTGTGTATAAGTTC
*
112414 GAGTATGAAAATACAAATGCATATGTGTGAATTATTGGCATGAAAGGATGTCATAGTTGAAATGT
651 GAGTATGAAAATACAAATGCATATGTGTGAATTATTGGCATGAAAGGATGCCATAGTTGAAATGT
112479 ATACGGGGACATTATCAAAAGAAAGGT
716 ATACGGGGACATTATCAAAAGAAAGGT
112506 GTACTATGGT
Statistics
Matches: 709, Mismatches: 32, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
741 1 0.00
742 708 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (742 bp):
ATAGGCAAAAATTAAGCTAAATCATATGAGAAGTATCAATACTGATTCAATCAGTATCGATACCT
AATGAAGTGGTACCGATACCATGGTGAGGGTATCGATATCGGGTAACATCGAACCTAATTTTGGT
ATCGATACCATATAGGGGTATCGTTACCATAGTATAATAGTATCAATACCATGGTAAGGGTATCG
ATACTGGGCCACATCGAATCTAATTTTGGTATTGATACTGGTAGGGGGTATCGATACCAAACTAG
GGTAATATCGATACCATAGTAAGGGTATCGATACTGAAGAGCCATAAATTTTAAGTTGGGCTGAT
ATTGTTGTAAAAAGGTTAATAATAAGTATTTTGATTAATGTTTAAGTTATAATTGTTAAGAAATA
CACTAACAATTGATATTACGCATGTATTTAATGAATGTGGGATAGATCAAAATCAATCTTCCTAA
GCAAGTAAGGCGAAAGGCAAGGGTAAAGTTCAGGAGTAATCATCATTACTTTTGGACACTTAGCG
AAGAAAGCCAGGTGAGTACATTTTATTGTATGCAATCTAGATGAAAATGATTAGCAATTATTTAA
TATAAATTGTTTAATTGTTAATGTATGCTTTACTGTAATTACTATGTTTTATTGTGTATAAGTTC
GAGTATGAAAATACAAATGCATATGTGTGAATTATTGGCATGAAAGGATGCCATAGTTGAAATGT
ATACGGGGACATTATCAAAAGAAAGGT
Found at i:112518 original size:45 final size:45
Alignment explanation
Indices: 112468--112774 Score: 309
Period size: 45 Copynumber: 6.8 Consensus size: 45
112458 AGGATGTCAT
* * * *
112468 AGTTGAAATGTATACGGGGACATTATCAAAAGAAAGGTGTACTATG
1 AGTTGAAATGTATATGGGGACATTATCAACAGAAAAGTATACTA-G
* *
112514 -GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
1 AGTTGAAATGTATATGGGGACATTATCAACAGAAAAGTATACTAG
* * * * *
112558 AGATGACATGCATATGGGTG-CATTATCAACAGAAATGTATGCTAG
1 AGTTGAAATGTATATGGG-GACATTATCAACAGAAAAGTATACTAG
* * * *
112603 AGTTGAAATGCATATGGGTG-CATTATCAACAGAAGAGCATGCTAG
1 AGTTGAAATGTATATGGG-GACATTATCAACAGAAAAGTATACTAG
* * *
112648 AGTTGAAATGTATATGGGTACATTATCAACGGAAAAGTATATTATG
1 AGTTGAAATGTATATGGGGACATTATCAACAGAAAAGTATACTA-G
* * * * *
112694 -GTTGAAATGTATATGGGTACATTATCAATAGAAAAATACACTAT
1 AGTTGAAATGTATATGGGGACATTATCAACAGAAAAGTATACTAG
* *
112738 AGTAGAAATGCATATGGGTG-CATTATCAACAGAAAAG
1 AGTTGAAATGTATATGGG-GACATTATCAACAGAAAAG
112775 ATGTTATAGA
Statistics
Matches: 221, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.00
45 219 0.99
46 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (45 bp):
AGTTGAAATGTATATGGGGACATTATCAACAGAAAAGTATACTAG
Found at i:112608 original size:90 final size:89
Alignment explanation
Indices: 112471--112774 Score: 360
Period size: 90 Copynumber: 3.4 Consensus size: 89
112461 ATGTCATAGT
* * * * *
112471 TGAAATGTATACGGG-GACATTATCAAAAGAAAGGTGTACTATGGTTGAAATGTATATGGGTACA
1 TGAAATGCATATGGGTG-CATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACA
112535 TTATCAACAGAAAAGTATGCTAGAG
65 TTATCAACAGAAAAGTATGCTAGAG
* * * * *
112560 ATGACATGCATATGGGTGCATTATCAACAGAAATGTATGCTA-GAGTTGAAATGCATATGGGTGC
1 -TGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATG-GTTGAAATGTATATGGGTAC
* *
112624 ATTATCAACAGAAGAGCATGCTAGAG
64 ATTATCAACAGAAAAGTATGCTAGAG
* * * *
112650 TTGAAATGTATATGGGTACATTATCAACGGAAAAGTATATTATGGTTGAAATGTATATGGGTACA
1 -TGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACA
* * ** *
112715 TTATCAATAGAAAAATACACTATAG
65 TTATCAACAGAAAAGTATGCTAGAG
112740 TAGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 T-GAAATGCATATGGGTGCATTATCAACAGAAAAG
112775 ATGTTATAGA
Statistics
Matches: 179, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
89 2 0.01
90 175 0.98
91 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (89 bp):
TGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACAT
TATCAACAGAAAAGTATGCTAGAG
Found at i:112672 original size:135 final size:135
Alignment explanation
Indices: 112514--112771 Score: 374
Period size: 135 Copynumber: 1.9 Consensus size: 135
112504 GTGTACTATG
* * *
112514 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTA-GAGATGACATGCATATGGGTG
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATG-GATGAAATGCATATGGGTA
** ** *
112578 CATTATCAACAGAAATGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCAT
65 CATTATCAACAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTATCAACAGAAGAGCAT
112643 GCTAGA
130 GCTAGA
* * * *
112649 GTTGAAATGTATATGGGTACATTATCAACGGAAAAGTATATTATGGTTGAAATGTATATGGGTAC
1 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATGGATGAAATGCATATGGGTAC
* *
112714 ATTATCAATAGAAAAATACACTATAGTAGAAATGCATATGGGTGCATTATCAACAGAA
66 ATTATCAACAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTATCAACAGAA
112772 AAGATGTTAT
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
135 107 0.99
136 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (135 bp):
GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATGGATGAAATGCATATGGGTAC
ATTATCAACAGAAAAATACACTAGAGTAGAAATGCATATGGGTGCATTATCAACAGAAGAGCATG
CTAGA
Found at i:112808 original size:90 final size:89
Alignment explanation
Indices: 112514--112813 Score: 268
Period size: 90 Copynumber: 3.3 Consensus size: 89
112504 GTGTACTATG
** ** *
112514 GTTGAAATGTATATGG-GTACATTATCAACAGAAAAGTATGCTAGAG-ATGACATGCATATGGGT
1 GTTGAAATGTATATGGTGT--ATTATCAACAGAAAAACACACTAGAGTA-GAAATGCATATGGGT
* * *
112577 GCATTATCAACAGAAATGTATGCTAGA
63 GCATTATCAACAGAAAAGTATGTTATA
* * * * ** * * *
112604 GTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAGAGTTGAAATGTATATGGGTAC
1 GTTGAAATGTATAT-GGTGTATTATCAACAGAAAAACACACTAGAGTAGAAATGCATATGGGTGC
* * *
112669 ATTATCAACGGAAAAGTATATTATG
65 ATTATCAACAGAAAAGTATGTTATA
* * *
112694 GTTGAAATGTATATGG-GTACATTATCAATAGAAAAATACACTATAGTAGAAATGCATATGGGTG
1 GTTGAAATGTATATGGTGT--ATTATCAACAGAAAAACACACTAGAGTAGAAATGCATATGGGTG
112758 CATTATCAACAGAAAAG-ATGTTATA
64 CATTATCAACAGAAAAGTATGTTATA
*
112783 GATT-AAAGTGTATAATGGTGTATTATAAACA
1 G-TTGAAA-TGTAT-ATGGTGTATTATCAACA
112814 TAAATGGAGG
Statistics
Matches: 170, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
88 1 0.01
89 12 0.07
90 148 0.87
91 6 0.04
92 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (89 bp):
GTTGAAATGTATATGGTGTATTATCAACAGAAAAACACACTAGAGTAGAAATGCATATGGGTGCA
TTATCAACAGAAAAGTATGTTATA
Found at i:113532 original size:35 final size:35
Alignment explanation
Indices: 113486--113553 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
113476 CTTTAATTCT
* * *
113486 TTAGTCGAACTATGGGGTCTGAAGAAAGGACTTTG
1 TTAGTCGAACTATGCGATCTGAAGAAAAGACTTTG
* *
113521 TTAGTTGAACTATGCGATCTGCAGAAAAGACTT
1 TTAGTCGAACTATGCGATCTGAAGAAAAGACTT
113554 ACCACTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (35 bp):
TTAGTCGAACTATGCGATCTGAAGAAAAGACTTTG
Found at i:114727 original size:56 final size:56
Alignment explanation
Indices: 114667--114778 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
114657 TTTACGTAAC
114667 ATTTTAGGTTCTAATCGAAAATATTACATTTTTATATTAAAAAGTTAGCATTTGAG
1 ATTTTAGGTTCTAATCGAAAATATTACATTTTTATATTAAAAAGTTAGCATTTGAG
114723 ATTTTAGGTTCTAATCGAAAATATTACATTTTTATATTAAAAAGTTAGCATTTGAG
1 ATTTTAGGTTCTAATCGAAAATATTACATTTTTATATTAAAAAGTTAGCATTTGAG
114779 GTTGCGAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (56 bp):
ATTTTAGGTTCTAATCGAAAATATTACATTTTTATATTAAAAAGTTAGCATTTGAG
Found at i:115658 original size:17 final size:17
Alignment explanation
Indices: 115636--115710 Score: 64
Period size: 17 Copynumber: 4.2 Consensus size: 17
115626 TACAAAAAAT
*
115636 ATATATTATATACTATA
1 ATATATAATATACTATA
*
115653 ATATATAATATGCTATA
1 ATATATAATATACTATA
115670 ATATAATACTATATAACATATA
1 ATAT-ATA--ATAT-AC-TATA
*
115692 A-CTATAATATA-TATA
1 ATATATAATATACTATA
115707 ATAT
1 ATAT
115711 TCGATATACG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.11
16 1 0.02
17 20 0.43
18 7 0.15
20 7 0.15
21 2 0.04
22 5 0.11
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATATAATATACTATA
Found at i:115684 original size:15 final size:15
Alignment explanation
Indices: 115635--115709 Score: 50
Period size: 15 Copynumber: 4.9 Consensus size: 15
115625 GTACAAAAAA
*
115635 TATATATTAT-ATAC
1 TATATAATATAATAC
115649 TATA-ATATATAATA-
1 TATATA-ATATAATAC
*
115663 TGCTATAATATAATAC
1 T-ATATAATATAATAC
*
115679 TATATAACAT-ATAAC
1 TATATAATATAAT-AC
115694 TATAATATATATAATA
1 TAT-ATA-ATATAATA
115710 TTCGATATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
13 1 0.02
14 10 0.21
15 25 0.53
16 5 0.11
17 4 0.09
18 2 0.04
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (15 bp):
TATATAATATAATAC
Found at i:115705 original size:22 final size:21
Alignment explanation
Indices: 115633--115707 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
115623 GTGTACAAAA
*
115633 AATATATATTA-TAT-ACTAT
1 AATATATATAACTATAACTAT
*
115652 AATATATAATATGCTATAA-TAT
1 AATATAT-ATA-ACTATAACTAT
115674 AATACTATATAACATATAACTAT
1 AATA-TATATAAC-TATAACTAT
115697 AATATATATAA
1 AATATATATAA
115708 TATTCGATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 7 0.15
20 2 0.04
21 1 0.02
22 25 0.54
23 11 0.24
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (21 bp):
AATATATATAACTATAACTAT
Found at i:116042 original size:10 final size:11
Alignment explanation
Indices: 116011--116040 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
116001 GTTTTATTTT
116011 AATTTTTTAAG
1 AATTTTTTAAG
116022 AATTGTTTTAAG
1 AATT-TTTTAAG
116034 AATTTTT
1 AATTTTT
116041 AATTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (11 bp):
AATTTTTTAAG
Found at i:118765 original size:3 final size:3
Alignment explanation
Indices: 118759--118823 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
118749 TTCATTTAAA
* *
118759 TAT TAT T-T ATAT TTAT TAT TAT TAT TAT TAT TAT AAT TTT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
118805 TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
118824 AATAATTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 3 0.06
3 47 0.87
4 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:119995 original size:10 final size:10
Alignment explanation
Indices: 119980--120010 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
119970 CCAGAAAGCA
119980 TGTTTTAATT
1 TGTTTTAATT
119990 TGTTTTAATT
1 TGTTTTAATT
*
120000 TATTTTAATT
1 TGTTTTAATT
120010 T
1 T
120011 AGTATTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TGTTTTAATT
Found at i:120270 original size:23 final size:23
Alignment explanation
Indices: 120181--120291 Score: 63
Period size: 23 Copynumber: 4.8 Consensus size: 23
120171 ACAAGTTTTA
*
120181 TTATTATTATT-TTTTTTACA-TT
1 TTATTATTATTATTATTTA-ATTT
* *
120203 TTATTATTAGTATT-TTAGTCATTGT
1 TTATTATTATTATTATT--TAATT-T
*
120228 TTAGTTA-TATT-TTAACTTAATTT
1 TTA-TTATTATTATT-ATTTAATTT
*
120251 TTATTATTATTATTATTTAATTA
1 TTATTATTATTATTATTTAATTT
*
120274 TTACTT-TAATTATTATTT
1 TTA-TTATTATTATTATTT
120292 TATTATATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
22 15 0.21
23 32 0.46
24 12 0.17
25 7 0.10
26 4 0.06
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTATTATTATTATTATTTAATTT
Found at i:121141 original size:28 final size:29
Alignment explanation
Indices: 121110--121165 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
121100 TAATTCTTTC
*
121110 TTTTCA-AAT-TTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATATA-TTATTA
*
121138 TTTTCATAATATTTATATGTATATTATT
1 TTTTCATAATATTTATATATATATTATT
121166 TTAATGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTCATAATATTTATATATATATTATTA
Found at i:128279 original size:8 final size:9
Alignment explanation
Indices: 128252--128282 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
128242 AAATGGCAAT
128252 CATTCTTTA
1 CATTCTTTA
128261 CATTCTTTA
1 CATTCTTTA
128270 CATT-TTTA
1 CATTCTTTA
128278 CATTC
1 CATTC
128283 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:131817 original size:22 final size:24
Alignment explanation
Indices: 131790--131839 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
131780 ATGCTTGAAG
*
131790 AAAAAATGATGA-AAAAAAT-ATA
1 AAAAAATAATGAGAAAAAATAATA
131812 AAAAAATAATGATGAAAAAATAATA
1 AAAAAATAATGA-GAAAAAATAATA
131837 AAA
1 AAA
131840 GAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
24 7 0.29
25 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (24 bp):
AAAAAATAATGAGAAAAAATAATA
Found at i:131828 original size:25 final size:26
Alignment explanation
Indices: 131790--131858 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
131780 ATGCTTGAAG
*
131790 AAAA-AATGATGAAAAAAATATAA-A
1 AAAATAATGATGAAAAAAATAAAAGA
131814 AAAATAATGATGAAAAAATAATAAAAGA
1 AAAATAATGATG-AAAAA-AATAAAAGA
*
131842 AAAATAA-AATGAAAAAA
1 AAAATAATGATGAAAAAA
131859 TGAATGAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 4 0.10
25 8 0.21
26 10 0.26
27 9 0.23
28 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (26 bp):
AAAATAATGATGAAAAAAATAAAAGA
Found at i:131832 original size:14 final size:14
Alignment explanation
Indices: 131785--131865 Score: 57
Period size: 14 Copynumber: 6.0 Consensus size: 14
131775 ATATTATGCT
131785 TGAAGAAAA-AATGA
1 TGAA-AAAATAATGA
131799 TG-AAAAA-AAT-A
1 TGAAAAAATAATGA
*
131810 TAAAAAAATAATGA
1 TGAAAAAATAATGA
131824 TGAAAAAATAAT-A
1 TGAAAAAATAATGA
** *
131837 AAAGAAAAATAA-AA
1 TGA-AAAAATAATGA
131851 TGAAAAAATGAATGA
1 TGAAAAAAT-AATGA
131866 AAGAGAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
11 2 0.04
12 12 0.23
13 12 0.23
14 26 0.49
15 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (14 bp):
TGAAAAAATAATGA
Found at i:131868 original size:28 final size:28
Alignment explanation
Indices: 131801--131874 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
131791 AAAAATGATG
* *
131801 AAAAA-AATATAA-AAAAATAATGATGA
1 AAAAATAATAAAAGAAAAATAATAATGA
131827 AAAAATAATAAAAGAAAAATAA-AATGA
1 AAAAATAATAAAAGAAAAATAATAATGA
*
131854 AAAAATGAATGAAAGAGAAAA
1 AAAAAT-AATAAAAGA-AAAA
131875 GAAGGGTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.12
27 16 0.39
28 16 0.39
29 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (28 bp):
AAAAATAATAAAAGAAAAATAATAATGA
Found at i:132242 original size:18 final size:17
Alignment explanation
Indices: 132212--132253 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
132202 TTCCAAGCTT
132212 ATTT-TTTTTAAATTCA
1 ATTTATTTTTAAATTCA
132228 ATTTATTTTTGAAATTCA
1 ATTTATTTTT-AAATTCA
132246 ATTTATTT
1 ATTTATTT
132254 AATATAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTATTTTTAAATTCA
Found at i:133662 original size:112 final size:113
Alignment explanation
Indices: 133461--133989 Score: 442
Period size: 124 Copynumber: 4.5 Consensus size: 113
133451 AGAAGAACTC
* * * **
133461 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACCCAATGGAT
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTT-TAACCTTTTGTTTGAATTCATCACATAATGGAT
** * * *
133526 CAACAATGCCAG-GAAAATTTCATAATAAGAAGAACTTATCTGAAG-AGG
65 CAACTTTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * * *
133574 AAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTATTTGAATTCATTACTTAATGGATC
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTGAATTCATCACATAATGGATC
133639 AACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
66 AACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * * ** *
133687 AAGAACAAGTTCATAATGAAAAGAGCTTGTTTAACCTTTTGCAT-AACTCTATCACAGAAGGAGA
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTGAATTC-ATCAC--------A
** *
133751 TAGATCACCATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
57 TA-AT--GGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * ** * *
133811 AAGAAGAAGTTAATAATGAGAAGAACTTGTTCAACCTTTTGCAT-CACTCTATCACATAAGGAGA
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTGAATTC-ATCACAT----A-A
* * *
133875 TAGATCAACATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGG
60 T-G-----GATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * *
133935 AAGAAAAAGTTCATAATGAGAAGAATTTGTTCAA--TATTTGTTTG-ATTCTATCACA
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCT-TTTGTTTGAATTC-ATCACA
133990 AAAGGAGATA
Statistics
Matches: 349, Mismatches: 42, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
112 70 0.20
113 73 0.21
116 2 0.01
119 1 0.00
120 4 0.01
121 2 0.01
122 3 0.01
123 15 0.04
124 179 0.51
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (113 bp):
AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTGAATTCATCACATAATGGATC
AACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
Found at i:133782 original size:124 final size:123
Alignment explanation
Indices: 133636--134092 Score: 609
Period size: 124 Copynumber: 3.7 Consensus size: 123
133626 TACTTAATGG
*
133636 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAACAAGTTCAT
1 ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCAT
* * * * *
133701 AATGAAAAGAGCTTGTTTAACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCACC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
*
133760 ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTAAT
1 ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCAT
* *
133825 AATGAGAAGAACTTGTTCAACCTTTTGCATCACTCTATCACATAAGGAGATAGATCAAC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
* * *
133884 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAAAAGTTCAT
1 ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAG-AAAAGTTCAT
* ** * * **
133949 AATGAGAAGAATTTGTTCAA--TATTTGTTTGATTCTATCACAAAAGGAGATAGATCAGT
65 AATGAGAAGAACTTGTTCAACCT-TTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
* * * * * *
134007 ATCAGCATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-TAAG--AAGTTCACA
1 ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATA
*
134069 ATGAGAAGAGCTTGTTCAACCTTT
66 ATGAGAAGAACTTGTTCAACCTTT
134093 GCTAGATTAC
Statistics
Matches: 299, Mismatches: 30, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
119 25 0.08
120 2 0.01
121 1 0.00
122 4 0.01
123 73 0.24
124 192 0.64
125 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (123 bp):
ATCAACTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
Found at i:134319 original size:3 final size:3
Alignment explanation
Indices: 134313--134385 Score: 78
Period size: 3 Copynumber: 24.7 Consensus size: 3
134303 TTCATTTAAA
* *
134313 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TAT TAT AAT AAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
134357 AAT AAT TAT TAT TAT TAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
134386 AATAATTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:135813 original size:28 final size:28
Alignment explanation
Indices: 135782--135889 Score: 73
Period size: 28 Copynumber: 3.8 Consensus size: 28
135772 CATTGTTTAG
135782 TTATATTTTAACTTAATT-TTT-ATTATTA
1 TTATATTTTAA-TT-ATTATTTAATTATTA
135810 TTAT-TTTTAATTATTACTTTAATTATTA
1 TTATATTTTAATTATTA-TTTAATTATTA
* * * *
135838 TTTTATTAT-ATTAGTCTTATAATTA-TA
1 TTATATTTTAATTATTATT-TAATTATTA
* *
135865 TATATTTTTTATTTATTTATTTAAT
1 T-TATATTTTAATTA-TTATTTAAT
135890 AATGTTTATT
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
25 3 0.05
26 2 0.03
27 14 0.23
28 30 0.48
29 10 0.16
30 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (28 bp):
TTATATTTTAATTATTATTTAATTATTA
Found at i:135819 original size:22 final size:22
Alignment explanation
Indices: 135726--135841 Score: 94
Period size: 22 Copynumber: 5.0 Consensus size: 22
135716 ATTTATTTAC
135726 AATTTTTATTATTATTATTTTT
1 AATTTTTATTATTATTATTTTT
135748 ACA-TTTTATTATTATTATTTTAGT
1 A-ATTTTTATTATTATTATTTT--T
* *
135772 CATTGTTTAGTTA-TATT-TTAACTT
1 AATT-TTTA-TTATTATTATT--TTT
135796 AATTTTTATTATTATTATTTTT
1 AATTTTTATTATTATTATTTTT
*
135818 AATTATTACTTTAATTATTATTTT
1 AATTTTTA--TT-ATTATTATTTT
135842 ATTATATTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
22 31 0.41
23 10 0.13
24 12 0.16
25 19 0.25
26 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (22 bp):
AATTTTTATTATTATTATTTTT
Found at i:135832 original size:12 final size:11
Alignment explanation
Indices: 135794--135846 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
135784 ATATTTTAAC
*
135794 TTAATTTTTAT
1 TTAATTATTAT
*
135805 TATTATTATT-T
1 T-TAATTATTAT
135816 TTAATTATTACT
1 TTAATTATTA-T
135828 TTAATTATTAT
1 TTAATTATTAT
*
135839 TTTATTAT
1 TTAATTAT
135847 ATTAGTCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.20
11 11 0.31
12 17 0.49
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTAATTATTAT
Found at i:143404 original size:67 final size:67
Alignment explanation
Indices: 143296--143431 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
143286 GAATACAATT
*
143296 ATGAGTAAATTTATTGGCCACATGCTTGATATTGGTTTCATCATTGGTAAACAATAATTTGAAGT
1 ATGAGTAAATTTATTGGCCACATGCTTGATATTGGTTTCATCATTGGTAAACAATAAATTGAAGT
143361 GG
66 GG
* *
143363 ATGAGTAAATTTATTGGCTACATGCTTGATATTGGTTTCATCATTGTTAAACAATAAATTGAAGT
1 ATGAGTAAATTTATTGGCCACATGCTTGATATTGGTTTCATCATTGGTAAACAATAAATTGAAGT
143428 GG
66 GG
143430 AT
1 AT
143432 AATAATTGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (67 bp):
ATGAGTAAATTTATTGGCCACATGCTTGATATTGGTTTCATCATTGGTAAACAATAAATTGAAGT
GG
Found at i:154491 original size:20 final size:21
Alignment explanation
Indices: 154466--154505 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
154456 TCGTGCATCA
154466 AAGTCTTT-GTGGAGGCCATG
1 AAGTCTTTCGTGGAGGCCATG
*
154486 AAGTCTTTCGTTGAGGCCAT
1 AAGTCTTTCGTGGAGGCCAT
154506 AAATTCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (21 bp):
AAGTCTTTCGTGGAGGCCATG
Found at i:173958 original size:24 final size:25
Alignment explanation
Indices: 173883--173943 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
173873 AATTGTTTTG
173883 AAATTC-TTCATTAAATAATTTTCA
1 AAATTCTTTCATTAAATAATTTTCA
173907 AAATTCTTTCATTAAATAATTTTCA
1 AAATTCTTTCATTAAATAATTTTCA
173932 AAATTCTTTCAT
1 AAATTCTTTCAT
173944 AAGACATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATTCTTTCATTAAATAATTTTCA
Found at i:174584 original size:44 final size:45
Alignment explanation
Indices: 174536--174636 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
174526 CCCTAGAAAC
* * *
174536 CTTGATTTTCTCACAAA-CGAAATCAA-TTTGTTAGTGATGTCATT
1 CTTGACTTTCTCACAAATAGAAATCAACTTT-TTAGTAATGTCATT
* * * *
174580 CTTGACTTTCTCGCAAATAGGAGTCAACTTTTTAGTAATTTCATT
1 CTTGACTTTCTCACAAATAGAAATCAACTTTTTAGTAATGTCATT
174625 CTTGACTTTCTC
1 CTTGACTTTCTC
174637 GTGAAAATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 15 0.31
45 30 0.62
46 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (45 bp):
CTTGACTTTCTCACAAATAGAAATCAACTTTTTAGTAATGTCATT
Found at i:174625 original size:45 final size:44
Alignment explanation
Indices: 174558--175300 Score: 377
Period size: 45 Copynumber: 16.5 Consensus size: 44
174548 ACAAACGAAA
*
174558 TCAATTTGTTAGTGATGTCATTCTTGACTTTCTCGCAAATAGGAG
1 TCAATTT-TTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * * *
174603 TCAACTTTTTAGTAATTTCATTCTTGACTTTCTCGTGAAA-ATGCG
1 TCAA-TTTTTAGTGATGTCATTCTTGACTTTCTCG-CAAAGAGGAG
* * * * *
174648 TAAATTTTTAGTGATGTCATTCTTAACTATCTCACGAAGAGGAG
1 TCAATTTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* **
174692 TCAATCTTTTAGTTG-TGTAATTCTTGACTTTCTCGCGGAGAGGAG
1 TCAAT-TTTTAG-TGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * ***
174737 TCAATCTTTTAGTGTTGTTC-TTATTGACTCTCTCATGAAGAGGAG
1 TCAAT-TTTTAGTGATG-TCATTCTTGACTTTCTCGCAAAGAGGAG
* ** * * * * * * *
174782 CCAACCATTAAGTAATGTCATTCTTGACTCTCTTGCGAAGATGAA
1 TCAA-TTTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
****
174827 TCAATCTTTTAGTGATGTCATTCTTGACTTTCTTATGAAGAGGAG
1 TCAAT-TTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * * * * **
174872 TCAATCTTTTATTGTTTTCCTTATTGACTCTCTCGTTAAGAGGAG
1 TCAAT-TTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * * * * *
174917 TCAACCTTTAAGTGATGTCATTCTTAACTCTCTCTCATGAAAAGAAG
1 TCAA-TTTTTAGTGATGTCATTCTTGACTTTCTCGCA--AAGAGGAG
* * **
174964 TCAATCTTTTAGTGATGTCATTCTTTACCTTCTCGTGAAGAGGAG
1 TCAAT-TTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * *
175009 TCAATGTCTTT-GTGATGTCCTTCTTGACTTTATCACGAAGAGGAG
1 TCAAT-T-TTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * * * * * *
175054 TCAACCTTTTATTAGA-GTCATTATTGACTTCCTCACGAATAGAAG
1 TCAA-TTTTTAGT-GATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * * * * * ** *
175099 TCAACCTTTTAGTGATG-CAATATTAACTTTTTTGCGGAGATGAG
1 TCAA-TTTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* * ** * *
175143 TCAATCTTTTAGTGTTGTCCTTCCAGACTTTCTCGCGTAA-ATGAG
1 TCAAT-TTTTAGTGATGTCATTCTTGACTTTCTCGC-AAAGAGGAG
* * ** * **
175188 TTAACTTTTTAGTGATATCCGTCTTGACTTTCTCTCAATTAGGAG
1 TCAA-TTTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
* ** *
175233 TCAATCTTTTAGTGATGTCATTCTTGACTTTATCGCGTAGACGAG
1 TCAAT-TTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
*
175278 TCAACTTTTTGGAT-ATGTCATTC
1 TCAA-TTTTTAG-TGATGTCATTC
175301 AGTGATGTCC
Statistics
Matches: 530, Mismatches: 141, Indels: 54
0.73 0.19 0.07
Matches are distributed among these distances:
43 2 0.00
44 74 0.14
45 402 0.76
46 18 0.03
47 34 0.06
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (44 bp):
TCAATTTTTAGTGATGTCATTCTTGACTTTCTCGCAAAGAGGAG
Found at i:174850 original size:135 final size:134
Alignment explanation
Indices: 174556--175160 Score: 519
Period size: 135 Copynumber: 4.5 Consensus size: 134
174546 TCACAAACGA
* * **
174556 AATCAAT-TTGTTAGTGATGTCATTCTTGACTTTCTCGCAAATAGGAGTCAA-CTTTTTAGTAAT
1 AATCAATCTT-TTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATC-TTTTAGTGTT
* * * * * * ** * * *
174619 -TTCATTCTTGACTTTCTCGTGAAAATGCGT-AAATTTTTAGTGATGTCATTCTTAACTATCTCA
64 GTTC-TTATTGACTCTCTCATGAAGAGGAGTCAACCTTTAAGTAATGTCATTCTTAACTCTCTCA
174682 CGAAGAGG
128 CGAAGA-G
* * *
174690 AGTCAATCTTTTAGTTG-TGTAATTCTTGACTTTCTCGCGGAGAGGAGTCAATCTTTTAGTGTTG
1 AATCAATCTTTTAG-TGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * * **
174754 TTCTTATTGACTCTCTCATGAAGAGGAGCCAACCATTAAGTAATGTCATTCTTGACTCTCTTGCG
65 TTCTTATTGACTCTCTCATGAAGAGGAGTCAACCTTTAAGTAATGTCATTCTTAACTCTCTCACG
174819 AAGATG
130 AAGA-G
*** *
174825 AATCAATCTTTTAGTGATGTCATTCTTGACTTTCTTATGAAGAGGAGTCAATCTTTTATTGTT-T
1 AATCAATCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTGT
* * *
174889 TCCTTATTGACTCTCTCGTTAAGAGGAGTCAACCTTTAAGTGATGTCATTCTTAACTCTCTCTCA
66 T-CTTATTGACTCTCTCATGAAGAGGAGTCAACCTTTAAGTAATGTCATTCTTAA--CTCTCTCA
* *
174954 TGAAAAG
128 CGAAGAG
* * * * *
174961 AAGTCAATCTTTTAGTGATGTCATTCTTTACCTTCTCGTGAAGAGGAGTCAATGTCTTT-GTGAT
1 AA-TCAATCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATCT-TTTAGTGTT
* * * * * * * * *
175025 GTCCTTCTTGACTTTATCACGAAGAGGAGTCAACCTTTTATTAGA-GTCATTATTGACT-TCCTC
64 GTTCTTATTGACTCTCTCATGAAGAGGAGTCAACCTTTAAGTA-ATGTCATTCTTAACTCT-CTC
*
175088 ACGAATAG
127 ACGAAGAG
* * * * * * * *
175096 AAGTCAACCTTTTAGTGATG-CAATATTAACTTTTTTGCGGAGATGAGTCAATCTTTTAGTGTTG
1 AA-TCAATCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
175160 T
65 T
175161 CCTTCCAGAC
Statistics
Matches: 382, Mismatches: 74, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
133 3 0.01
134 102 0.27
135 169 0.44
136 3 0.01
137 100 0.26
138 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (134 bp):
AATCAATCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTGT
TCTTATTGACTCTCTCATGAAGAGGAGTCAACCTTTAAGTAATGTCATTCTTAACTCTCTCACGA
AGAG
Found at i:175596 original size:3 final size:3
Alignment explanation
Indices: 175526--175580 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
175516 TCATCCTAGT
* * * * *
175526 TTA TTT TTA TTA TTTA TTA TTA TTG TTA TTA TAA TTA TAA TAA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
175572 TTA TTA TTA
1 TTA TTA TTA
175581 AAATTCATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:176949 original size:3 final size:3
Alignment explanation
Indices: 176936--176978 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
176926 TAATAGAAAT
* * *
176936 TTA TT- TTA TTA TTA TTA TAA TTA TTC TTA TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
176979 TTTTATGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:188091 original size:26 final size:25
Alignment explanation
Indices: 188061--188112 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
188051 TGCAGTTTTT
188061 ATCATATC-TATTTTTTCGACTTTAAA
1 ATCATATCTTATTTTTT--ACTTTAAA
*
188087 ATCATTTCTTTATTTTTTACTTTAAA
1 ATCATATC-TTATTTTTTACTTTAAA
188113 TCGCCTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 15 0.65
28 8 0.35
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (25 bp):
ATCATATCTTATTTTTTACTTTAAA
Found at i:193584 original size:23 final size:23
Alignment explanation
Indices: 193535--193586 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
193525 AAAGAAAACT
* *
193535 CAACTAGCTACAAGTGGTCAACT
1 CAACTAGCTACAAGTGATCAACC
**
193558 CAACTAGCTACAAGTGATCCTCC
1 CAACTAGCTACAAGTGATCAACC
193581 CAACTA
1 CAACTA
193587 CCCTTATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (23 bp):
CAACTAGCTACAAGTGATCAACC
Found at i:206149 original size:53 final size:55
Alignment explanation
Indices: 206075--206255 Score: 199
Period size: 53 Copynumber: 3.3 Consensus size: 55
206065 GGAGTATGGA
* * *
206075 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
* * *
206130 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
* * * * *
206183 ACTCGAACAATCTTCAACAAAT-GGGTCCGCTCCCTATTTCTCTAGGGAGTAT-AG
1 ACTCGAACAATCTTCAAC-AATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
*
206237 AACTCGAACATCTCTTCAA
1 -ACTCGAACA-ATCTTCAA
206256 ACGGGTTCGC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
53 46 0.43
54 4 0.04
55 46 0.43
56 10 0.09
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
Found at i:206325 original size:51 final size:51
Alignment explanation
Indices: 206200--206974 Score: 959
Period size: 51 Copynumber: 15.0 Consensus size: 51
206190 CAATCTTCAA
* * * * * *
206200 CAAATGGGTCCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* *
206253 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
206304 CAAACGGGTTCGCTCCTTCTTTTTTTAAGGAGTATAGAACTTGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
206355 CAAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* *
206408 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
206457 C-AACTGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
1 CAAAC-GGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACA--TCTT
*
206510 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
206561 CAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACA--TCTT
*
206614 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
206665 CAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACA--TCTT
*
206718 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
** * * *
206769 CAAACGGGTTCGCTCCTTCTTTCTTTAAAGAGTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
206820 CACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* *
206871 CAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * * *
206922 CAAACGGGTTCGTTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
206973 CA
1 CA
206975 TTTGCTTCAC
Statistics
Matches: 641, Mismatches: 64, Indels: 36
0.87 0.09 0.05
Matches are distributed among these distances:
49 5 0.01
50 5 0.01
51 451 0.70
53 174 0.27
54 6 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
Found at i:206378 original size:155 final size:155
Alignment explanation
Indices: 206174--206974 Score: 1057
Period size: 155 Copynumber: 5.2 Consensus size: 155
206164 TTTCTTCAGA
* * * *
206174 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTCCGCTCCCTATTTCTCTAGGGAGTATAGA
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
* * * *
206238 ACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCT
61 ACTCGAACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCT
*
206303 TCAAACGGGTTCGCTCCTTCTTTTTTTAAG
126 TCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * *
206333 GAGTATAGAACTTGAACATCTTCAAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
206398 AACATCTCTTC--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AA
66 AACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
* * * *
206460 CTGGGTTCACTCCCTCTTTCTCTAGG
131 C-GGGTTCGCTCCTTCTTTCTTTAAG
* * * * *
206486 GAGTATGGAACT-TAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAAC
1 GAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAAC
* *
206550 TCGAACA--TCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTC
63 TCGAACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA--TC
206612 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
125 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * *
206643 GAGTATGGAACTCGAACATCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-T
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* * *
206707 AGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAA
66 A-ACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAA
*
206772 ACGGGTTCGCTCCTTCTTTCTTTAAA
130 ACGGGTTCGCTCCTTCTTTCTTTAAG
* * * *
206798 GAGTATAGAACTCGCATATCTTCACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
*
206863 GACA--TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
66 AACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
*
206926 CGGGTTCGTTCCTTCTTTCTTTAAG
131 CGGGTTCGCTCCTTCTTTCTTTAAG
* *
206951 GAGTATAGAACTCGCATATCTTCA
1 GAGTATAGAACTCGAACATCTTCA
206975 TTTGCTTCAC
Statistics
Matches: 573, Mismatches: 52, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
152 4 0.01
153 186 0.32
154 2 0.00
155 272 0.47
157 84 0.15
158 10 0.02
159 14 0.02
160 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (155 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
AACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
CGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:206379 original size:102 final size:103
Alignment explanation
Indices: 206200--206974 Score: 1028
Period size: 104 Copynumber: 7.5 Consensus size: 103
206190 CAATCTTCAA
* * * * * * *
206200 CAAATGGGTCCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCG
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACA--TCTTCAAACGGGTTCG
* * * *
206265 CTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACA-TCTT
64 CTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
* * * *
206304 CAAACGGGTTCGCTCCTTCTTTTTTTAAGGAGTATAGAACTTGAACATCTTCAAACGAGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
* *
206369 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACA-CTCTT
* * * *
206408 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCAC
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAAC-GGGTTCGC
*
206470 TCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
65 TCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA-CTCTT
*
206510 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAATGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
*
206575 CCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA-CTCTT
*
206614 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAATGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
*
206679 CCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA-CTCTT
206718 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
* * ** * * *
206783 CCTTCTTTCTTTAAAGAGTATAGAACTCGCATA-TCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
* * * *
206820 CACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
206885 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACA-TCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
* * * *
206922 CAAACGGGTTCGTTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCA
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCA
206975 TTTGCTTCAC
Statistics
Matches: 609, Mismatches: 54, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
101 4 0.01
102 274 0.45
104 329 0.54
105 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (103 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
Found at i:207402 original size:36 final size:36
Alignment explanation
Indices: 207344--207533 Score: 238
Period size: 36 Copynumber: 5.2 Consensus size: 36
207334 ACTCTTCTGA
* * **
207344 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
207381 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
207417 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
207453 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
207489 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
207525 GAAGGCTTA
1 GAAGGCTTA
207534 GGATTGACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
35 1 0.01
36 122 0.90
37 13 0.10
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:208448 original size:127 final size:127
Alignment explanation
Indices: 208264--208574 Score: 432
Period size: 127 Copynumber: 2.4 Consensus size: 127
208254 CTCAATAACT
* *
208264 TCTTGGTCTGAATCTTATT-TTCTCATCATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
1 TCTTGGTCTGAATCTT-TTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
*
208328 ACTGGTACGGGCCTTTCAAAATGCCCCTATTACCTCAAATTGTAAGGCTCATTCTTCATGCC-TC
65 ACTGGTACGGGCC-TTCAAAATGCCCC-ATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
208392 -CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
1 TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
* * **
208456 CTGGTATGGGCCTTCAAAATGCCCCATCACCTTAGTTTGTAAGGCTCATTCTTCATGCCTTC
66 CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
** * * * *
208518 TTCTTCCTCTGAAT-TTTGTCATCTCAACCTAATGTGGGTTCAGCCGTGCCACAACAT
1 -TCTTGGTCTGAATCTTT-TCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACAT
208575 ATCGCAACTT
Statistics
Matches: 165, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
125 30 0.18
126 17 0.10
127 73 0.44
128 45 0.27
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (127 bp):
TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
Found at i:209467 original size:15 final size:16
Alignment explanation
Indices: 209447--209480 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
209437 TGCATTAAAG
209447 ATTTTTTA-AAAAAAA
1 ATTTTTTACAAAAAAA
*
209462 ATTTTTTACAAATAAA
1 ATTTTTTACAAAAAAA
209478 ATT
1 ATT
209481 AACCCTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTTTTACAAAAAAA
Found at i:209478 original size:16 final size:15
Alignment explanation
Indices: 209442--209480 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
209432 TATATTGCAT
209442 TAAAGATTTTTTAAAA
1 TAAA-ATTTTTTAAAA
*
209458 AAAAATTTTTTACAAA
1 TAAAATTTTTTA-AAA
209474 TAAAATT
1 TAAAATT
209481 AACCCTGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAATTTTTTAAAA
Found at i:209829 original size:16 final size:16
Alignment explanation
Indices: 209811--209840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
209801 TTCATTCTTT
209811 TTTTC-ATTTTTCTCA
1 TTTTCAATTTTTCTCA
209826 TTTTCAATTTTTCTC
1 TTTTCAATTTTTCTC
209841 TTTCTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTTTCTCA
Found at i:209868 original size:24 final size:24
Alignment explanation
Indices: 209834--209889 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
209824 CATTTTCAAT
* *
209834 TTTTCTCTTTCTTTTCCTTTTTTA
1 TTTTCTCTTTCATTTCATTTTTTA
*
209858 TTTTCTTTTTCATTTCATTTTTT-
1 TTTTCTCTTTCATTTCATTTTTTA
*
209881 TTATCTCTT
1 TTTTCTCTT
209890 CTTTTTCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTCTCTTTCATTTCATTTTTTA
Found at i:212501 original size:21 final size:21
Alignment explanation
Indices: 212477--212574 Score: 128
Period size: 21 Copynumber: 4.7 Consensus size: 21
212467 ATGTGATGTA
*
212477 GTCTTCAT-GTCTTTATGAAGG
1 GTCTTC-TCGTCTTTATGAACG
* *
212498 GTCTTCAT-GTCTCTATGAATG
1 GTCTTC-TCGTCTTTATGAACG
*
212519 GTCTTCTCATCTTTATGAACG
1 GTCTTCTCGTCTTTATGAACG
212540 GTCTTCTCGTCTTTATGAACG
1 GTCTTCTCGTCTTTATGAACG
212561 GTCTTCTCGTCTTT
1 GTCTTCTCGTCTTT
212575 GGTACGACTA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
20 1 0.01
21 69 0.99
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
GTCTTCTCGTCTTTATGAACG
Found at i:214851 original size:15 final size:17
Alignment explanation
Indices: 214811--214851 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
214801 TAAACGAAGG
214811 CTAAAATTAAATGAACA
1 CTAAAATTAAATGAACA
214828 C-AAAA-TAAA-GAA-A
1 CTAAAATTAAATGAACA
214841 CTAAAATTAAA
1 CTAAAATTAAA
214852 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 7 0.32
15 8 0.36
16 4 0.18
17 1 0.05
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (17 bp):
CTAAAATTAAATGAACA
Found at i:218224 original size:21 final size:19
Alignment explanation
Indices: 218195--218237 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
218185 AACTCAAGGG
*
218195 GAGTCTTGATACTCATCAAGA
1 GAGTATTGATACTCA-CAA-A
218216 GAGTATTGATACTCACAAA
1 GAGTATTGATACTCACAAA
218235 GAG
1 GAG
218238 GCATCAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 14 0.67
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
GAGTATTGATACTCACAAA
Found at i:219728 original size:76 final size:77
Alignment explanation
Indices: 219561--219740 Score: 221
Period size: 76 Copynumber: 2.4 Consensus size: 77
219551 TTGAAATACC
* *
219561 TAAAAAATAATATTTAAAATAATA--CT-AAATTCTAATTAAAATACAAAAACCTATTTAAACTA
1 TAAAATATAATATTTAAAATAATATCCTAAAACTCTAATTAAAATACAAAAACCTATTTAAACTA
219623 AAATACCTAAAA
66 AAATACCTAAAA
* * * *
219635 CAAAGATAAAATA-TAAAAATAATATCCTAAAACT-TAATTAAAATACTAAAACCTATTTAAACT
1 TAAA-ATATAATATTTAAAATAATATCCTAAAACTCTAATTAAAATACAAAAACCTATTTAAACT
219698 AAAATA-C-AAAGA
65 AAAATACCTAAA-A
* *
219710 TAAAATATAATGTTTAAAATATTATCCTAAA
1 TAAAATATAATATTTAAAATAATATCCTAAA
219741 TTTGAGTTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
74 22 0.25
75 27 0.30
76 36 0.40
77 4 0.04
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (77 bp):
TAAAATATAATATTTAAAATAATATCCTAAAACTCTAATTAAAATACAAAAACCTATTTAAACTA
AAATACCTAAAA
Found at i:224420 original size:24 final size:24
Alignment explanation
Indices: 224393--224454 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
224383 GAAAAGGTAC
*
224393 AAAAAAATAA-ATAATTATAAATTA
1 AAAAAAATAATA-AATAATAAATTA
* *
224417 AAAATAATAATAAATAATGAATTA
1 AAAAAAATAATAAATAATAAATTA
* *
224441 AAAATAGTAATAAA
1 AAAAAAATAATAAA
224455 GATAAAAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (24 bp):
AAAAAAATAATAAATAATAAATTA
Found at i:225169 original size:70 final size:75
Alignment explanation
Indices: 225088--225284 Score: 235
Period size: 77 Copynumber: 2.7 Consensus size: 75
225078 AACAAGCTAA
* * *
225088 AATATCTTAAATCCAAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT-A-AAA-AT-AA
1 AATATCCTAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAACAAAGATAAA
* *
225148 TAT-TTAAAAT
65 AATATAAAAAT
* * *
225158 AATATTCTAAATCCTAATTAAAATACAAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAA
1 AATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT--AACAAAGATAA
225223 AAATATAAAAAT
64 AAATATAAAAAT
* *
225235 AATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 AATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
225285 AAAGATAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
69 4 0.04
70 41 0.39
73 1 0.01
74 3 0.03
75 2 0.02
76 4 0.04
77 51 0.48
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (75 bp):
AATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAACAAAGATAAAA
ATATAAAAAT
Found at i:229397 original size:38 final size:39
Alignment explanation
Indices: 229223--229411 Score: 204
Period size: 39 Copynumber: 4.9 Consensus size: 39
229213 TTTTTTTTCA
* * *
229223 AAAATAAATCCAA-AGATTTATTTTCTTTTACAAAATAGG
1 AAAATAAATTCAATA-ATTTATTTCCTTTTACAAAATACG
* * * *
229262 AAAATAAATCCAACAATTTATTTACTTTTACAAAATACC
1 AAAATAAATTCAATAATTTATTTCCTTTTACAAAATACG
* * *
229301 AAAATAAATTCAATAATATATTTCTTTTTACAAAACA-G
1 AAAATAAATTCAATAATTTATTTCCTTTTACAAAATACG
* *
229339 AAAAATAAACTCAATAATTTATTTCCTTTTACAACATA-G
1 -AAAATAAATTCAATAATTTATTTCCTTTTACAAAATACG
***
229378 AAAATAAATTCACGGATTTATTTCCTTTTACAAA
1 AAAATAAATTCAATAATTTATTTCCTTTTACAAA
229412 CCAAAATCAT
Statistics
Matches: 128, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
38 29 0.23
39 98 0.77
40 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.36
Consensus pattern (39 bp):
AAAATAAATTCAATAATTTATTTCCTTTTACAAAATACG
Found at i:229489 original size:58 final size:57
Alignment explanation
Indices: 229376--229579 Score: 198
Period size: 58 Copynumber: 3.5 Consensus size: 57
229366 TTTACAACAT
** * * * *
229376 AGAAAATAAATTC-ACGGATTTATTTCCTTTTACAAACCAAAATCATATAAAATTCTTA
1 AGAAAATAAATTCAAC-GATTTATTTCCTTTTACAAAATAGAATC-TTTAAGATTCTCA
* * * *
229434 AAAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCCTTTAGGATTCTGA
1 AGAAAATAAATTCAACGATTTATTTCCTTTTACAAAATAGAAT-CTTTAAGATTCTCA
* * * *
229492 AGTAAATAAATTCAACAATTTATTTACTTTTA-AAAGATAGAAT-TTTCCATGATTCTCA
1 AGAAAATAAATTCAACGATTTATTTCCTTTTACAAA-ATAGAATCTTT--AAGATTCTCA
229550 AGAAAATAAATTCAACGATTTATTTTCCTT
1 AGAAAATAAATTCAACGATTTA-TTTCCTT
229580 ACAAAGTTAG
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
56 3 0.02
57 3 0.02
58 107 0.88
59 8 0.07
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (57 bp):
AGAAAATAAATTCAACGATTTATTTCCTTTTACAAAATAGAATCTTTAAGATTCTCA
Found at i:233434 original size:16 final size:16
Alignment explanation
Indices: 233413--233443 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
233403 ATTTCTATGC
233413 AACTACTCGTCTGCAT
1 AACTACTCGTCTGCAT
233429 AACTACTCGTCTGCA
1 AACTACTCGTCTGCA
233444 AGCACATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (16 bp):
AACTACTCGTCTGCAT
Found at i:237740 original size:20 final size:19
Alignment explanation
Indices: 237707--237762 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
237697 CAAAAACATA
237707 CTCTGGTATCGATACTAGC
1 CTCTGGTATCGATACTAGC
* *
237726 CTCTCGGTATTGATACTACCC
1 CTCT-GGTATCGATACTA-GC
* *
237747 CTTTAGTATCGATACT
1 CTCTGGTATCGATACT
237763 CTTTTAAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (19 bp):
CTCTGGTATCGATACTAGC
Found at i:239664 original size:21 final size:21
Alignment explanation
Indices: 239638--239696 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
239628 TTGGGAGTGT
239638 AGGTGCATCGGTACACTCTCA
1 AGGTGCATCGGTACACTCTCA
239659 AGGTGCATCGGTACACTCTCA
1 AGGTGCATCGGTACACTCTCA
239680 AGGTGCATCGGTACACT
1 AGGTGCATCGGTACACT
239697 GTGTGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (21 bp):
AGGTGCATCGGTACACTCTCA
Found at i:240585 original size:22 final size:22
Alignment explanation
Indices: 240531--240585 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
240521 TGTTCAAATT
*
240531 AAAATTCAAATCATTCAAACAC
1 AAAATCCAAATCATTCAAACAC
240553 AAATATCCAAATCATTCAAA-AC
1 AAA-ATCCAAATCATTCAAACAC
240575 ACAAATCCAAA
1 A-AAATCCAAA
240586 AACATCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAATCCAAATCATTCAAACAC
Found at i:243267 original size:7 final size:8
Alignment explanation
Indices: 243233--243266 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
243223 TTCGAACAAC
243233 TTCTTTTAT
1 TTCTTTT-T
*
243242 TCCTTTTT
1 TTCTTTTT
243250 TTCTTTTT
1 TTCTTTTT
243258 TTCTTTTT
1 TTCTTTTT
243266 T
1 T
243267 CGAACTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTCTTTTT
Found at i:244938 original size:14 final size:13
Alignment explanation
Indices: 244910--244946 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
244900 TGCTTGAGCG
*
244910 AATAAAAATATAA
1 AATAAAAATAAAA
244923 AATAAAAATGAAAA
1 AATAAAAAT-AAAA
244937 AATAAAAATA
1 AATAAAAATA
244947 TAATGGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:247851 original size:18 final size:19
Alignment explanation
Indices: 247828--247868 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
247818 ATATGAGATT
247828 TAAATAAAAATGATTAAA-
1 TAAATAAAAATGATTAAAG
*
247846 TAAATAAAAGTGATTAAAG
1 TAAATAAAAATGATTAAAG
247865 TAAA
1 TAAA
247869 AATAAGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (19 bp):
TAAATAAAAATGATTAAAG
Found at i:249151 original size:12 final size:13
Alignment explanation
Indices: 249134--249166 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
249124 ATCGGCAAAA
*
249134 TTTGAAAACTAT-
1 TTTGAAAACAATG
249146 TTTGAAAACAATG
1 TTTGAAAACAATG
249159 TTTGAAAA
1 TTTGAAAA
249167 ATCATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:249717 original size:21 final size:23
Alignment explanation
Indices: 249658--249765 Score: 80
Period size: 23 Copynumber: 4.9 Consensus size: 23
249648 GGTACACTCC
* *
249658 TGAGTGTATCGATACACATTCAA
1 TGAGTGTATCGATGCACTTTCAA
* * *
249681 TGAATGCATCGGTGCACTTTC-A
1 TGAGTGTATCGATGCACTTTCAA
*
249703 T-AGTGTATCGATGCACATTCAA
1 TGAGTGTATCGATGCACTTTCAA
* * * * *
249725 TGAATGCAACGGTACACTTTC-A
1 TGAGTGTATCGATGCACTTTCAA
*
249747 T-AGTTTATCGATGCACTTT
1 TGAGTGTATCGATGCACTTT
249766 GCACAAAAAT
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
21 27 0.44
22 6 0.10
23 29 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (23 bp):
TGAGTGTATCGATGCACTTTCAA
Found at i:249759 original size:44 final size:44
Alignment explanation
Indices: 249660--249762 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
249650 TACACTCCTG
* * *
249660 AGTGTATCGATACACATTCAATGAATGCATCGGTGCACTTTCAT
1 AGTGTATCGATGCACATTCAATGAATGCAACGGTACACTTTCAT
249704 AGTGTATCGATGCACATTCAATGAATGCAACGGTACACTTTCAT
1 AGTGTATCGATGCACATTCAATGAATGCAACGGTACACTTTCAT
*
249748 AGTTTATCGATGCAC
1 AGTGTATCGATGCAC
249763 TTTGCACAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAATGAATGCAACGGTACACTTTCAT
Found at i:259256 original size:2 final size:2
Alignment explanation
Indices: 259249--259306 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
259239 TAATAATTTA
259249 AT AT 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 AT AT
259291 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
259307 TATTATTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:261255 original size:15 final size:15
Alignment explanation
Indices: 261232--261282 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
261222 CGCCCCGTAT
* *
261232 CCGCACCGCATCCAC
1 CCGCCCCGCATCCGC
261247 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
* * *
261262 CCTCCTCACATCCGC
1 CCGCCCCGCATCCGC
261277 CCGCCC
1 CCGCCC
261283 AACTAAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.12, C:0.65, G:0.14, T:0.10
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Done.