Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004078.1 Hibiscus syriacus cultivar Beakdansim tig00008924_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: 175306
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:4130 original size:16 final size:16
Alignment explanation
Indices: 4101--4139 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4091 GAAATAATCA
4101 AAAT-TATTAAATATT
1 AAATATATTAAATATT
*
4116 AAATATATTATATATT
1 AAATATATTAAATATT
4132 AAATATAT
1 AAATATAT
4140 ATTTTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATATTAAATATT
Found at i:6630 original size:34 final size:34
Alignment explanation
Indices: 6571--6637 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
6561 TTCTTGAGAG
*
6571 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
6605 TTGTTTTCTCCTTATTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
6638 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:12342 original size:20 final size:21
Alignment explanation
Indices: 12317--12362 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12307 TCTGGGCAAG
*
12317 GGGTA-TGATACTCTATGAAT
1 GGGTATTGATACCCTATGAAT
12337 GGGTATTGATACCCTATGAAT
1 GGGTATTGATACCCTATGAAT
12358 GGGTA
1 GGGTA
12363 CCGATACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (21 bp):
GGGTATTGATACCCTATGAAT
Found at i:12368 original size:21 final size:21
Alignment explanation
Indices: 12323--12370 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12313 CAAGGGGTAT
* **
12323 GATACTCTATGAATGGGTATT
1 GATACCCTATGAATGGGTACC
12344 GATACCCTATGAATGGGTACC
1 GATACCCTATGAATGGGTACC
12365 GATACC
1 GATACC
12371 TAATACCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (21 bp):
GATACCCTATGAATGGGTACC
Found at i:13190 original size:31 final size:31
Alignment explanation
Indices: 13152--13241 Score: 153
Period size: 31 Copynumber: 2.9 Consensus size: 31
13142 AAGTCGAGGG
* *
13152 TTACCTATGTCCTTCGGGACATATGTACAAT
1 TTACCTATGTCCTTTGGGACATATGGACAAT
13183 TTACCTATGTCCTTTGGGACATATGGACAAT
1 TTACCTATGTCCTTTGGGACATATGGACAAT
*
13214 TTACCTATGTCATTTGGGACATATGGAC
1 TTACCTATGTCCTTTGGGACATATGGAC
13242 GGTGGTCCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCCTTTGGGACATATGGACAAT
Found at i:13539 original size:9 final size:9
Alignment explanation
Indices: 13524--13565 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
13514 GAGATATGAT
13524 TGATAATAA
1 TGATAATAA
*
13533 TGCTAATAA
1 TGATAATAA
13542 TGATAA-AA
1 TGATAATAA
13550 TGATAATAA
1 TGATAATAA
*
13559 GGATAAT
1 TGATAAT
13566 GAAATGATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (9 bp):
TGATAATAA
Found at i:13556 original size:17 final size:18
Alignment explanation
Indices: 13524--13565 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
13514 GAGATATGAT
*
13524 TGATAATAATGCTAATAA
1 TGATAATAATGATAATAA
13542 TGATAA-AATGATAATAA
1 TGATAATAATGATAATAA
*
13559 GGATAAT
1 TGATAAT
13566 GAAATGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (18 bp):
TGATAATAATGATAATAA
Found at i:19140 original size:34 final size:34
Alignment explanation
Indices: 19081--19147 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
19071 TTCTTAATAT
*
19081 TTGTTTTCTCCTTTTTATCA-AGAGAGAGTTGTTA
1 TTGTTTTCTCCTTTTGATCAGAGAGA-AGTTGTTA
19115 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
19148 AATTTCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 13 0.45
35 8 0.28
36 8 0.28
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:21202 original size:29 final size:29
Alignment explanation
Indices: 21167--21248 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
21157 AAACTAAATT
*
21167 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
21196 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
21225 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
21249 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:25961 original size:29 final size:29
Alignment explanation
Indices: 25927--26007 Score: 135
Period size: 29 Copynumber: 2.8 Consensus size: 29
25917 AACTAAATTA
*
25927 ATGTCATTACTTACATCATTTAATTAAAG
1 ATGTCATTGCTTACATCATTTAATTAAAG
*
25956 ATGTCATTGCTTACATCATTTAATTAATG
1 ATGTCATTGCTTACATCATTTAATTAAAG
25985 ATGTCATTGCTTACATCAATTTA
1 ATGTCATTGCTTACATC-ATTTA
26008 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (29 bp):
ATGTCATTGCTTACATCATTTAATTAAAG
Found at i:36276 original size:17 final size:17
Alignment explanation
Indices: 36254--36311 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
36244 GATAAGAACA
*
36254 AGATAATATCTTTTTAT
1 AGATAATATCTTTATAT
36271 AGATAATATCTTTATAT
1 AGATAATATCTTTATAT
* * *
36288 ATATATATATATATATAT
1 AGATA-ATATCTTTATAT
*
36306 ATATAA
1 AGATAA
36312 AGATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 21 0.58
18 15 0.42
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
AGATAATATCTTTATAT
Found at i:36290 original size:2 final size:2
Alignment explanation
Indices: 36283--36323 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
36273 ATAATATCTT
* *
36283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36324 TAAATTTTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:36596 original size:29 final size:29
Alignment explanation
Indices: 36561--36623 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
36551 TTTATCTCTT
*
36561 TTAATATTTCATTCTCACTCTA-CTCTTAA
1 TTAATATTTCATTCTAACTCTACCT-TTAA
*
36590 TTAATATTTGATTCTAACTCTACCTTTAA
1 TTAATATTTCATTCTAACTCTACCTTTAA
36619 TTAAT
1 TTAAT
36624 GATGGATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAATATTTCATTCTAACTCTACCTTTAA
Found at i:47344 original size:17 final size:15
Alignment explanation
Indices: 47296--47340 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
47286 GGATTTAATA
47296 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
*
47311 ATGTTTTAGATTTATTT
1 AT-TTTTA-TTTTATTT
47328 ATTTTTACTTTTA
1 ATTTTTA-TTTTA
47341 ATTTTTTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.56
17 9 0.36
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (15 bp):
ATTTTTATTTTATTT
Found at i:53927 original size:23 final size:23
Alignment explanation
Indices: 53885--53928 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
53875 ATACAAGAGT
* *
53885 TATATCTATTCATTACGAATAGG
1 TATATCCATTCATGACGAATAGG
*
53908 TATATCCATTCATGATGAATA
1 TATATCCATTCATGACGAATA
53929 TTCACATACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (23 bp):
TATATCCATTCATGACGAATAGG
Found at i:54419 original size:18 final size:18
Alignment explanation
Indices: 54388--54426 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54378 AGTCATATCA
**
54388 TGTGGAGGGTTCACATAT
1 TGTGGAGGAATCACATAT
*
54406 TGTGGAGGAATCACATCT
1 TGTGGAGGAATCACATAT
54424 TGT
1 TGT
54427 TCTTCTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (18 bp):
TGTGGAGGAATCACATAT
Found at i:59004 original size:22 final size:22
Alignment explanation
Indices: 58977--59050 Score: 130
Period size: 22 Copynumber: 3.4 Consensus size: 22
58967 AATAAAGCTT
58977 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
58999 TAATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
59021 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
59043 TCATCTTT
1 TCATCTTT
59051 AAAGAGTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:62946 original size:32 final size:32
Alignment explanation
Indices: 62905--62967 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
62895 TGAAGAAATG
*
62905 ATTGTTATGCTCATCTTGTAGAGATACTTCTC
1 ATTGTTATGCTCATCTCGTAGAGATACTTCTC
62937 ATTGTTATGCTCATCTCGTAGAGATACTTCT
1 ATTGTTATGCTCATCTCGTAGAGATACTTCT
62968 TGTGTCTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (32 bp):
ATTGTTATGCTCATCTCGTAGAGATACTTCTC
Found at i:63493 original size:17 final size:16
Alignment explanation
Indices: 63473--63581 Score: 94
Period size: 17 Copynumber: 6.6 Consensus size: 16
63463 ATTTCTCCTC
63473 TTTTTCTTTTTCCCTTT
1 TTTTTCTTTTT-CCTTT
63490 TTTTTCCTTTTTCCTTT
1 TTTTT-CTTTTTCCTTT
*
63507 TTTCTCATTTTTCCTTT
1 TTTTTC-TTTTTCCTTT
** *
63524 TTCATCTTTTTTC-TT
1 TTTTTCTTTTTCCTTT
* *
63539 TTTTTCTTTTTTCTCAT
1 TTTTTCTTTTTCCT-TT
* * *
63556 TTTTCCTTTTTCATCT
1 TTTTTCTTTTTCCTTT
63572 TTTTTCTTTT
1 TTTTTCTTTT
63582 CTCTTTCTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
15 13 0.17
16 17 0.22
17 40 0.53
18 6 0.08
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCTTTTTCCTTT
Found at i:63499 original size:24 final size:24
Alignment explanation
Indices: 63472--63581 Score: 89
Period size: 25 Copynumber: 4.5 Consensus size: 24
63462 AATTTCTCCT
*
63472 CTTTTTCTTTTTCCCTTTTTTTTC
1 CTTTTTCTTTTTTCCTTTTTTTTC
**
63496 CTTTTTCCTTTTTT-CTCATTTTTC
1 CTTTTT-CTTTTTTCCTTTTTTTTC
*
63520 CTTTTTCATCTTTTTTC-TTTTTTTC
1 CTTTTTC-T-TTTTTCCTTTTTTTTC
* **
63545 TTTTTTCTCATTTTTCCTTTTTCATC
1 CTTTTTCT--TTTTTCCTTTTTTTTC
*
63571 TTTTTTCTTTT
1 CTTTTTCTTTT
63582 CTCTTTCTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.01
24 25 0.36
25 29 0.41
26 15 0.21
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTTTCTTTTTTCCTTTTTTTTC
Found at i:63500 original size:7 final size:7
Alignment explanation
Indices: 63490--63581 Score: 58
Period size: 7 Copynumber: 11.6 Consensus size: 7
63480 TTTTCCCTTT
63490 TTTTTCC
1 TTTTTCC
63497 TTTTTCC
1 TTTTTCC
63504 TTTTTTCTC
1 -TTTTTC-C
63513 ATTTTTCC
1 -TTTTTCC
63521 TTTTTCATC
1 TTTTTC--C
*
63530 TTTTTTCTT
1 -TTTTTC-C
*
63539 TTTTTCT
1 TTTTTCC
63546 TTTTTCTC
1 TTTTTC-C
63554 ATTTTTCC
1 -TTTTTCC
63562 TTTTTCATC
1 TTTTTC--C
*
63571 TTTTTTC
1 TTTTTCC
63578 TTTT
1 TTTT
63582 CTCTTTCTTC
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
7 31 0.43
8 14 0.19
9 21 0.29
10 6 0.08
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCC
Found at i:63534 original size:41 final size:41
Alignment explanation
Indices: 63489--63581 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
63479 TTTTTCCCTT
63489 TTTTTTCCTTTTTCCTTTTTTCTCATTTTTCCTTTTTCATC
1 TTTTTTCCTTTTTCCTTTTTTCTCATTTTTCCTTTTTCATC
* *
63530 TTTTTTCTTTTTTTCTTTTTTCTCATTTTTCCTTTTTCATC
1 TTTTTTCCTTTTTCCTTTTTTCTCATTTTTCCTTTTTCATC
63571 TTTTTT-CTTTT
1 TTTTTTCCTTTT
63582 CTCTTTCTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 4 0.08
41 45 0.92
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.75
Consensus pattern (41 bp):
TTTTTTCCTTTTTCCTTTTTTCTCATTTTTCCTTTTTCATC
Found at i:63582 original size:15 final size:15
Alignment explanation
Indices: 63522--63594 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
63512 CATTTTTCCT
63522 TTTTCATCTTTTTTC
1 TTTTCATCTTTTTTC
**
63537 TTTTTTTCTTTTTTC
1 TTTTCATCTTTTTTC
*
63552 ---TCA--TTTTTCC
1 TTTTCATCTTTTTTC
63562 TTTTTCATCTTTTTTC
1 -TTTTCATCTTTTTTC
*
63578 TTTTC-TCTTTCTTC
1 TTTTCATCTTTTTTC
63592 TTT
1 TTT
63595 CTTTACTGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
10 6 0.13
12 1 0.02
14 14 0.31
15 18 0.40
16 6 0.13
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCATCTTTTTTC
Found at i:67063 original size:10 final size:11
Alignment explanation
Indices: 66994--67073 Score: 67
Period size: 11 Copynumber: 7.0 Consensus size: 11
66984 ATAAGTTAAT
66994 AATAATAATAA
1 AATAATAATAA
*
67005 AATAATCATGAA
1 AATAATAAT-AA
*
67017 GATAATAATTTAA
1 AATAATAA--TAA
67030 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
67041 AAGTAATAATAA
1 AA-TAATAATAA
67053 AATAA-AATAA
1 AATAATAATAA
67063 AATAATAATAA
1 AATAATAATAA
67074 TTAAAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
10 12 0.21
11 20 0.36
12 15 0.27
13 6 0.11
14 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:68050 original size:22 final size:22
Alignment explanation
Indices: 68020--68086 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
68010 CTTCCTTTCT
*
68020 TCTCTCTTCTCTGTTTTTTTTG
1 TCTCCCTTCTCTGTTTTTTTTG
*
68042 TCTCCCTTCTCTGTTTTTTCTG
1 TCTCCCTTCTCTGTTTTTTTTG
*
68064 TCTCCCTTCTCTGTTGTTTTTG
1 TCTCCCTTCTCTGTTTTTTTTG
68086 T
1 T
68087 TTGCAGGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.00, C:0.27, G:0.10, T:0.63
Consensus pattern (22 bp):
TCTCCCTTCTCTGTTTTTTTTG
Found at i:68494 original size:3 final size:3
Alignment explanation
Indices: 68488--68535 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
68478 AATAATTATT
**
68488 TAA TAA TAA T-A TAA T-A TATA TAA TAA TAA TAA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
68532 TAA T
1 TAA T
68536 TAAGTAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:68536 original size:12 final size:12
Alignment explanation
Indices: 68477--68536 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
68467 TATGGGCTTC
*
68477 TAATAATTA-TT
1 TAATAATAATTT
*
68488 TAATAATAATAT
1 TAATAATAATTT
* **
68500 AATATATATAATAA
1 TA-ATA-ATAATTT
68514 TAATAATAATTT
1 TAATAATAATTT
68526 TAATAATAATT
1 TAATAATAATT
68537 AAGTAAAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 8 0.21
12 18 0.46
13 6 0.15
14 7 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:73442 original size:21 final size:21
Alignment explanation
Indices: 73404--73444 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
73394 ACTATGGCTT
* *
73404 TGAAGTAAGGCGCCTTGATTA
1 TGAAGTAAAGCGCATTGATTA
*
73425 TGAAGTAAAGCTCATTGATT
1 TGAAGTAAAGCGCATTGATT
73445 CTTAATTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (21 bp):
TGAAGTAAAGCGCATTGATTA
Found at i:76201 original size:31 final size:31
Alignment explanation
Indices: 76163--76272 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
76153 AGGGTTGAGG
* *
76163 GTTTACCTGTGTTCATCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
76194 GTTTACCTACGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
76225 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
76256 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
76273 AGAATCTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:77005 original size:20 final size:20
Alignment explanation
Indices: 76968--77005 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76958 ATGCATCGAT
*
76968 GCACTGTAGCACGGTTCATG
1 GCACTGTAGCACGATTCATG
*
76988 GCACTGTAGCACTATTCA
1 GCACTGTAGCACGATTCA
77006 CGGTATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (20 bp):
GCACTGTAGCACGATTCATG
Found at i:81733 original size:31 final size:31
Alignment explanation
Indices: 81579--81733 Score: 213
Period size: 31 Copynumber: 5.0 Consensus size: 31
81569 GGGTCGAGGA
* *
81579 TTTACCTGTGTTCTTCGGGACATATAGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
*
81610 TTTACCTATGTTCTTCGGGATATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
* *
81641 TTTACCTTTGTTCTTTGGGACATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
*
81672 TTTACCTATGTTCTTCGGGACATATAGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
* * *
81703 ATTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTTACCTATGTTCTTCGGGA-CATATGGACTG
81734 GTCCTTCGGG
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 109 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
TTTACCTATGTTCTTCGGGACATATGGACTG
Found at i:82403 original size:21 final size:21
Alignment explanation
Indices: 82373--82414 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
82363 CGAAAGTTAT
*
82373 TGTAGTAGTGCATCGATGCAC
1 TGTAGCAGTGCATCGATGCAC
82394 TGTAGCAGTGCATCGATGCAC
1 TGTAGCAGTGCATCGATGCAC
82415 AATTTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATGCAC
Found at i:86553 original size:11 final size:10
Alignment explanation
Indices: 86525--86549 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
86515 TAAATATGAC
86525 CTAAATGCAA
1 CTAAATGCAA
86535 CTAAATGCAA
1 CTAAATGCAA
86545 CTAAA
1 CTAAA
86550 ATGCTATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:98667 original size:16 final size:15
Alignment explanation
Indices: 98648--98745 Score: 92
Period size: 16 Copynumber: 6.1 Consensus size: 15
98638 CATCTCTCAT
98648 TTTTCTCTTTTTTTTC
1 TTTTCT-TTTTTTTTC
98664 TTTTCTTTTTTTATT-
1 TTTTCTTTTTTT-TTC
98679 TGTTT-TTTTTCTTCTTC
1 T-TTTCTTTTT-TT-TTC
*
98696 ATTTTCTTTTTTTTCC
1 -TTTTCTTTTTTTTTC
*
98712 TCTTCTTTTCTTTTTC
1 TTTTCTTTT-TTTTTC
98728 TGTTTCTTTTTTTTTC
1 T-TTTCTTTTTTTTTC
98744 TT
1 TT
98746 ATAATATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
15 21 0.30
16 30 0.43
17 12 0.17
18 6 0.09
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:98672 original size:12 final size:12
Alignment explanation
Indices: 98647--98739 Score: 59
Period size: 12 Copynumber: 7.4 Consensus size: 12
98637 TCATCTCTCA
*
98647 TTTTTCTCTT-T
1 TTTTTCTTTTCT
98658 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
98670 TTTTT-TATTTGT
1 TTTTTCT-TTTCT
98682 TTTTT-TTCTTCT
1 TTTTTCTT-TTCT
*
98694 TCATTTTCTTTTTT
1 T--TTTTCTTTTCT
98708 TTCCTCTTCTTTTC-
1 TT--T-TTCTTTTCT
98722 TTTTTCTGTTTCT
1 TTTTTCT-TTTCT
98735 TTTTT
1 TTTTT
98740 TTTCTTATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
11 15 0.23
12 26 0.39
13 5 0.08
14 11 0.17
15 9 0.14
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:98686 original size:53 final size:49
Alignment explanation
Indices: 98629--98738 Score: 125
Period size: 48 Copynumber: 2.2 Consensus size: 49
98619 TGAAATAATA
* * *
98629 TTTTTTTCTCATCTCTCATTTTTCTCTTTTTTTTCTTTTCTTTT-TTTATT-TG
1 TTTTTTT-TCTTCT-TCA-TTTTCT-TTTTTTTCCTCTTCTTTTCTTT-TTCTG
98681 TTTTTTTTCTTCTTCATTTTCTTTTTTTTCCTCTTCTTTTCTTTTTCTG
1 TTTTTTTTCTTCTTCATTTTCTTTTTTTTCCTCTTCTTTTCTTTTTCTG
98730 TTTCTTTTT
1 TTT-TTTTT
98739 TTTTCTTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
48 18 0.35
49 14 0.27
50 8 0.15
51 5 0.10
52 7 0.13
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (49 bp):
TTTTTTTTCTTCTTCATTTTCTTTTTTTTCCTCTTCTTTTCTTTTTCTG
Found at i:98705 original size:21 final size:20
Alignment explanation
Indices: 98681--98726 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
98671 TTTTTATTTG
*
98681 TTTTTTTTCTTCTTCATTTTC
1 TTTTTTTTCCTCTTC-TTTTC
98702 TTTTTTTTCCTCTTCTTTTC
1 TTTTTTTTCCTCTTCTTTTC
98722 TTTTT
1 TTTTT
98727 CTGTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTCCTCTTCTTTTC
Found at i:98741 original size:21 final size:19
Alignment explanation
Indices: 98647--98741 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
98637 TCATCTCTCA
*
98647 TTTTTCTCTTTTTTTTCTT
1 TTTTTTTCTTTTTTTTCTT
*
98666 TTCTTTTT-TTATTTGTT-TT
1 TT-TTTTTCTT-TTTTTTCTT
* **
98685 TTTTCTTCTTCATTTTCTT
1 TTTTTTTCTTTTTTTTCTT
* *
98704 TTTTTTCCTCTTCTTTTCTT
1 TTTTTTTCT-TTTTTTTCTT
98724 TTTCTGTTTCTTTTTTTT
1 TTT-T-TTTCTTTTTTTT
98742 TCTTATAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
18 7 0.12
19 19 0.33
20 20 0.35
21 7 0.12
22 4 0.07
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTCTT
Found at i:101436 original size:47 final size:45
Alignment explanation
Indices: 101366--101490 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
101356 TATAAAATCT
*
101366 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
101411 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
101458 CTTGCCA-TTATT-CATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
101491 GCATACTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
43 21 0.28
44 3 0.04
45 10 0.14
46 2 0.03
47 38 0.51
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:101498 original size:38 final size:41
Alignment explanation
Indices: 101366--101504 Score: 131
Period size: 47 Copynumber: 3.2 Consensus size: 41
101356 TATAAAATCT
* *
101366 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCA-TTAT-TCATAAGCTCGTAAGCTTATTTTAGC--AATA
*
101411 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCA-TT--ATT-CATAAGCTCGTAAGCTTATTTTAGC-A-ATA
*
101458 CTTGCCATTATTCATAAGCTCGTAAGCTTA-TTT-GC-ATA
1 CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
101496 CTTACCATT
1 CTTACCATT
101505 TATTAACCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
38 11 0.13
41 1 0.01
42 3 0.04
43 18 0.21
44 3 0.04
45 10 0.12
46 4 0.05
47 35 0.41
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (41 bp):
CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
Found at i:105334 original size:14 final size:14
Alignment explanation
Indices: 105315--105404 Score: 75
Period size: 14 Copynumber: 6.7 Consensus size: 14
105305 CTCATTTTTC
105315 TCTTTTTTTTCTTT
1 TCTTTTTTTTCTTT
*
105329 TCTTTTTTTT-ATT
1 TCTTTTTTTTCTTT
*
105342 T-GTTTTTTTC--T
1 TCTTTTTTTTCTTT
**
105353 TCTTCATTTTCTTT
1 TCTTTTTTTTCTTT
*
105367 T-TTTTTCTTCTTT
1 TCTTTTTTTTCTTT
105380 T-TTTCTTTTTCTGTT
1 TCTTT-TTTTTCT-TT
105395 TCTTTTTTTT
1 TCTTTTTTTT
105405 TCTTATAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.03
12 13 0.22
13 16 0.27
14 18 0.30
15 8 0.13
16 3 0.05
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:105361 original size:19 final size:18
Alignment explanation
Indices: 105339--105405 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
105329 TCTTTTTTTT
105339 ATTTGTTTTTTTCTTCTTC
1 ATTT-TTTTTTTCTTCTTC
*
105358 ATTTTCTTTTTTTTTCTTC
1 ATTTT-TTTTTTCTTCTTC
*
105377 TTTTTTTCTTTTTCTGT-TTC
1 -ATTTTT-TTTTTCT-TCTTC
105397 -TTTTTTTTT
1 ATTTTTTTTT
105406 CTTATAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 17 0.41
20 13 0.32
21 1 0.02
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (18 bp):
ATTTTTTTTTTCTTCTTC
Found at i:105368 original size:33 final size:32
Alignment explanation
Indices: 105323--105408 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 32
105313 TCTCTTTTTT
*
105323 TTCTTTTCTTTTTTTTAT-TTGTTTTTTTCTTC
1 TTCTTTTCTTTTTTTT-TCTTCTTTTTTTCTTC
*
105355 TTCATTTTCTTTTTTTTTCTTCTTTTTTTCTTT
1 TTC-TTTTCTTTTTTTTTCTTCTTTTTTTCTTC
105388 TTCTGTTTCTTTTTTTTTCTT
1 TTCT-TTTCTTTTTTTTTCTT
105409 ATAATATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
32 5 0.10
33 44 0.90
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (32 bp):
TTCTTTTCTTTTTTTTTCTTCTTTTTTTCTTC
Found at i:105372 original size:22 final size:21
Alignment explanation
Indices: 105344--105408 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
105334 TTTTTATTTG
105344 TTTTTTTCTTCTTCATTTTCTT
1 TTTTTTTCTTCTT-ATTTTCTT
*
105366 TTTTTTTCTTCTTTTTTTCTT
1 TTTTTTTCTTCTTATTTTCTT
*
105387 TTTCTGTTTCTT-TTTTTTTCTT
1 TTT-T-TTTCTTCTTATTTTCTT
105409 ATAATATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
21 10 0.25
22 24 0.60
23 6 0.15
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTTTTCTTCTTATTTTCTT
Found at i:108094 original size:47 final size:45
Alignment explanation
Indices: 108024--108148 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
108014 AATAAAATCT
*
108024 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
108069 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
108116 CTTGCCA-TTATT-CATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
108149 GCATACTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
43 21 0.28
44 3 0.04
45 10 0.14
46 2 0.03
47 38 0.51
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:108156 original size:38 final size:41
Alignment explanation
Indices: 108024--108162 Score: 131
Period size: 47 Copynumber: 3.2 Consensus size: 41
108014 AATAAAATCT
* *
108024 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCA-TTAT-TCATAAGCTCGTAAGCTTATTTTAGC--AATA
*
108069 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCA-TT--ATT-CATAAGCTCGTAAGCTTATTTTAGC-A-ATA
*
108116 CTTGCCATTATTCATAAGCTCGTAAGCTTA-TTT-GC-ATA
1 CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
108154 CTTACCATT
1 CTTACCATT
108163 TATTAACCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
38 11 0.13
41 1 0.01
42 3 0.04
43 18 0.21
44 3 0.04
45 10 0.12
46 4 0.05
47 35 0.41
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (41 bp):
CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
Found at i:110488 original size:25 final size:25
Alignment explanation
Indices: 110459--110508 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
110449 ATTTCAATGA
* *
110459 ATAAAATATATATAATGGCAAAATT
1 ATAAAAAATATACAATGGCAAAATT
*
110484 ATAAAAAATATACAATGGTAAAATT
1 ATAAAAAATATACAATGGCAAAATT
110509 TATACGGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (25 bp):
ATAAAAAATATACAATGGCAAAATT
Found at i:125634 original size:18 final size:18
Alignment explanation
Indices: 125601--125656 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
125591 GATAAAATTG
* *
125601 AAAAACTATAATAAAATA
1 AAAAATTATAAAAAAATA
* *
125619 AACAATTATAAAAAAAGA
1 AAAAATTATAAAAAAATA
* *
125637 AAAAATAATAAAATAATA
1 AAAAATTATAAAAAAATA
125655 AA
1 AA
125657 TAATGAATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAATTATAAAAAAATA
Found at i:126459 original size:76 final size:75
Alignment explanation
Indices: 126357--126566 Score: 339
Period size: 76 Copynumber: 2.8 Consensus size: 75
126347 TCTTAAATTC
* * *
126357 TAATTAAAACACTTAAAACTAATTAAATTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
126422 ATCTTAAAACT
65 ATCCTAAAACT
*
126433 TAATTAAAGTACTAAAATCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
126498 ATCCTAAAACT
65 ATCCTAAAACT
*
126509 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAATAAAGATAAAATATAA
1 TAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
126567 TATTTAAAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
75 5 0.04
76 120 0.96
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (75 bp):
TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATA
TCCTAAAACT
Found at i:126475 original size:44 final size:43
Alignment explanation
Indices: 126426--126550 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 43
126416 AATAATATCT
126426 TAAAACTTAATTAAAGTACTAAAATCTATTTAAACTAAAATACC
1 TAAAACTTAATTAAAGTACTAAAA-CTATTTAAACTAAAATACC
* * *
126470 TAAAAC------AAAG-A-TAAAA-TA-TAAAAATAATAT-CC
1 TAAAACTTAATTAAAGTACTAAAACTATTTAAACTAAAATACC
*
126502 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
1 TAAAACTTAATTAAAGTACTAAAA-CTATTTAAACTAAAATACC
126546 TAAAA
1 TAAAA
126551 TAAAGATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 24
0.67 0.08 0.26
Matches are distributed among these distances:
32 8 0.13
33 9 0.15
34 2 0.03
36 5 0.08
37 1 0.02
38 7 0.11
39 1 0.02
40 5 0.08
42 2 0.03
43 9 0.15
44 13 0.21
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.28
Consensus pattern (43 bp):
TAAAACTTAATTAAAGTACTAAAACTATTTAAACTAAAATACC
Found at i:126505 original size:32 final size:32
Alignment explanation
Indices: 126388--126507 Score: 89
Period size: 32 Copynumber: 3.4 Consensus size: 32
126378 ATTAAATTAA
126388 AATA-CCTAAAACAAAGATAAAATATAAAAAT
1 AATATCCTAAAACAAAGATAAAATATAAAAAT
* * *
126419 AATATCTTAAAACTTAATTAAAGTACTAAAATCTATTTAAACT
1 AATATCCTAAAAC------AAAG-A-TAAAA--TA-TAAAAAT
*
126462 AAAATACCTAAAACAAAGATAAAATATAAAAAT
1 AATAT-CCTAAAACAAAGATAAAATATAAAAAT
126495 AATATCCTAAAAC
1 AATATCCTAAAAC
126508 TTAATTAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 25
0.67 0.08 0.25
Matches are distributed among these distances:
31 4 0.06
32 15 0.22
33 9 0.13
34 2 0.03
36 5 0.07
37 1 0.01
38 8 0.12
39 1 0.01
40 5 0.07
42 2 0.03
43 9 0.13
44 7 0.10
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.26
Consensus pattern (32 bp):
AATATCCTAAAACAAAGATAAAATATAAAAAT
Found at i:129610 original size:2 final size:2
Alignment explanation
Indices: 129603--129628 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
129593 CTATACATAC
129603 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
129629 TATTAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:137194 original size:18 final size:19
Alignment explanation
Indices: 137171--137206 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
137161 GGATTAAATA
137171 AAATAA-TATTTTATAATC
1 AAATAATTATTTTATAATC
137189 AAATAATTATTTTATAAT
1 AAATAATTATTTTATAAT
137207 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATTATTTTATAATC
Found at i:137229 original size:16 final size:16
Alignment explanation
Indices: 137208--137247 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
137198 TTTTATAATT
137208 TTTAATAATAAAAAGA
1 TTTAATAATAAAAAGA
**
137224 TTTAATAATAGGAAGA
1 TTTAATAATAAAAAGA
*
137240 TTCAATAA
1 TTTAATAA
137248 AACAATTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (16 bp):
TTTAATAATAAAAAGA
Found at i:139444 original size:3 final size:3
Alignment explanation
Indices: 139436--139462 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
139426 CTCATTTGTA
139436 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
139463 TAATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:146562 original size:21 final size:22
Alignment explanation
Indices: 146538--146578 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
146528 ATCACACCCG
146538 AATGGAG-ACCCAAACCGGTCC
1 AATGGAGTACCCAAACCGGTCC
*
146559 AATGGAGTACCCAAATCGGT
1 AATGGAGTACCCAAACCGGT
146579 TAGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.15
Consensus pattern (22 bp):
AATGGAGTACCCAAACCGGTCC
Found at i:147680 original size:9 final size:9
Alignment explanation
Indices: 147666--147699 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
147656 TTTTTCTTTG
*
147666 TTATTTTAC
1 TTATTTTAT
147675 TTATTTTAT
1 TTATTTTAT
147684 TTATTTTAT
1 TTATTTTAT
147693 TTATTTT
1 TTATTTT
147700 CTCTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTAT
Found at i:147790 original size:14 final size:15
Alignment explanation
Indices: 147771--147807 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
147761 TATATATATC
147771 TATTATTATTTTA-T
1 TATTATTATTTTACT
147785 TATTATTA-TTTACT
1 TATTATTATTTTACT
147799 TATT-TTATT
1 TATTATTATT
147808 AAACATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTATTTTACT
Found at i:148172 original size:35 final size:35
Alignment explanation
Indices: 148126--148201 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
148116 AAAATAGTCC
* *
148126 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
148161 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
148196 TCAATT
1 TCAATT
148202 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:149159 original size:28 final size:27
Alignment explanation
Indices: 149128--149190 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
149118 AGTTGATACA
*
149128 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
149156 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
149184 ATATTTT
1 ATATTTT
149191 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:149793 original size:20 final size:19
Alignment explanation
Indices: 149770--149881 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 19
149760 TTTTTTTTAA
*
149770 TATTTATTTGTCTTTTTCTT
1 TATTTATTT-TCTTTTTATT
* * *
149790 TATTTCTTTTATCTTTATCT
1 TATTTATTTTCTTTTTAT-T
*
149810 TACTTTTATTTTCTTTATATTTT
1 TA--TTTATTTTCTTT-T-TATT
149833 TATTTATTTAT-TTATTTATT
1 TATTTATTT-TCTT-TTTATT
*
149853 TATTTTATTCTTGTTTTTATT
1 TA-TTTATT-TTCTTTTTATT
149874 TATTTATT
1 TATTTATT
149882 ATATGCACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
19 6 0.08
20 22 0.30
21 25 0.34
22 14 0.19
23 4 0.05
24 2 0.03
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTTATTTTCTTTTTATT
Found at i:149797 original size:8 final size:8
Alignment explanation
Indices: 149784--149853 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
149774 TATTTGTCTT
149784 TTTCTTTA
1 TTTCTTTA
149792 TTTCTTT-
1 TTTCTTTA
*
149799 TATCTTTA
1 TTTCTTTA
149807 TCTTACTTTTA
1 T-TT-C-TTTA
149818 TTTTCTTTA
1 -TTTCTTTA
149827 TATT-TTTA
1 T-TTCTTTA
*
149835 TTTATTTA
1 TTTCTTTA
*
149843 TTTATTTA
1 TTTCTTTA
149851 TTT
1 TTT
149854 ATTTTATTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
7 8 0.15
8 29 0.55
9 7 0.13
10 2 0.04
11 6 0.11
12 1 0.02
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTCTTTA
Found at i:149799 original size:14 final size:15
Alignment explanation
Indices: 149780--149818 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
149770 TATTTATTTG
149780 TCTTTT-TCTTTATT
1 TCTTTTATCTTTATT
149794 TCTTTTATCTTTATCT
1 TCTTTTATCTTTAT-T
149810 TACTTTTAT
1 T-CTTTTAT
149819 TTTCTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 2 0.09
17 7 0.32
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TCTTTTATCTTTATT
Found at i:149838 original size:12 final size:11
Alignment explanation
Indices: 149818--149883 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
149808 CTTACTTTTA
*
149818 TTTTCTTTATAT
1 TTTTATTTAT-T
149830 TTTTATTTATT
1 TTTTATTTATT
149841 TATTTATTTATTT
1 T-TTTATTTA-TT
149854 ATTTTATTCT-TGT
1 -TTTTATT-TAT-T
149867 TTTTATTTATT
1 TTTTATTTATT
*
149878 TATTAT
1 TTTTAT
149884 ATGCACATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
11 9 0.20
12 26 0.57
13 9 0.20
14 2 0.04
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:149840 original size:4 final size:4
Alignment explanation
Indices: 149831--149881 Score: 61
Period size: 4 Copynumber: 12.5 Consensus size: 4
149821 TCTTTATATT
149831 TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTCT- TGTT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TT-TA T-TTA TTTA TTTA TTTA
149880 TT
1 TT
149882 ATATGCACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 35 0.81
5 6 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:149842 original size:16 final size:17
Alignment explanation
Indices: 149823--149881 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
149813 TTTTATTTTC
149823 TTTATATT-TTTATTTA
1 TTTATATTATTTATTTA
149839 TTTAT-TTATTTATTTA
1 TTTATATTATTTATTTA
* *
149855 TTT-TATTCTTGTTTTTA
1 TTTATATTATT-TATTTA
149872 TTTAT-TTATT
1 TTTATATTATT
149882 ATATGCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 3 0.08
16 20 0.56
17 12 0.33
18 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATATTATTTATTTA
Found at i:149860 original size:33 final size:33
Alignment explanation
Indices: 149814--149881 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
149804 TTATCTTACT
149814 TTTATTTTCTTTATAT-TT-TTATTTATTTATTTA
1 TTTATTTTCTTTAT-TCTTGTT-TTTATTTATTTA
149847 TTTATTTAT-TTTATTCTTGTTTTTATTTATTTA
1 TTTATTT-TCTTTATTCTTGTTTTTATTTATTTA
149880 TT
1 TT
149882 ATATGCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
32 1 0.03
33 28 0.88
34 3 0.09
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (33 bp):
TTTATTTTCTTTATTCTTGTTTTTATTTATTTA
Found at i:152009 original size:21 final size:21
Alignment explanation
Indices: 151976--152016 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
151966 GCAAAGAAGA
*
151976 TGGAAGAGAAGATCAAAATGT
1 TGGAAGACAAGATCAAAATGT
* *
151997 TGGAAGACTAGATGAAAATG
1 TGGAAGACAAGATCAAAATG
152017 GTCAAAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.20
Consensus pattern (21 bp):
TGGAAGACAAGATCAAAATGT
Found at i:154614 original size:64 final size:64
Alignment explanation
Indices: 154535--154770 Score: 341
Period size: 64 Copynumber: 3.7 Consensus size: 64
154525 TTTTGCAGCT
* * *
154535 TTTAGAGTCAATTTCAACTTCATAGCAAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCA
* * *
154599 TTTAGAGTCAATTTCAACTTCACA-CTGAAGAATATTGGACTCAACAAATAACTTTTCAGTTTCA
1 TTTAGAGTCAATTTCAACTTCACAGC-GAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCA
* *
154663 TTTAGAGTCAATTTCAACTTCAC-GTCGAAGGTTATTGGACTCAACAAACAACTTTCCAGTTTTA
1 TTTAGAGTCAATTTCAACTTCACAG-CGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCA
* * *
154727 TTCAGAGTCAATTTCAATTTCACAGCGAATGATATTGGACTCAA
1 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAA
154771 AACGACACAA
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
63 1 0.01
64 150 0.98
65 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (64 bp):
TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCA
Found at i:155070 original size:66 final size:66
Alignment explanation
Indices: 154985--155143 Score: 246
Period size: 66 Copynumber: 2.4 Consensus size: 66
154975 ATTTAGATTG
* **
154985 GATTTCAACTTCACGACGAAGAATATCCAATTCAAGGATCAACTTCACAATGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
155050 C
66 C
* * *
155051 GATTTCAACTTCACGACGAAGGATATCTAATTCATGGCTCAACTTCACAACAAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
155116 C
66 C
* *
155117 AATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
155144 GTGCCCATAA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 85 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
C
Found at i:155264 original size:120 final size:123
Alignment explanation
Indices: 155051--155341 Score: 390
Period size: 120 Copynumber: 2.4 Consensus size: 123
155041 GGCCATCCAC
* * *
155051 GATTTCAACTTCACGACGAAGGATATCTAATTCATGGCTCAACTTCACAACAAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCAA
* * *
155116 CAATTTCAACTTCACGATGAAGGATATCGTGCCCATAAGCAACAT-A-CAATA-CTTG
66 CAATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATCATCAATAGATTG
* * ** *
155171 GATTTCAACTTCACGACGAAGGATATCCAATTTAAGGCTCAACTTCACAACGAATTGGTCATCAA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCAA
* * **
155236 CGATTTCAACTTCACGACGGAGGATATCGTGCCCACAAGCAACATCCATCTCTAGATTG
66 CAATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAT-CATCAATAGATTG
* * *
155295 GATTTCAACTTCACAACGAAGGATATTCAATTCAAAGCTCAACTTCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCA
155342 TAGCGAATGA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
120 98 0.66
122 1 0.01
123 3 0.02
124 46 0.31
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (123 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGCCATCAA
CAATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACATCATCAATAGATTG
Found at i:157110 original size:28 final size:29
Alignment explanation
Indices: 157010--157110 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 29
157000 TAATCCCTTA
* * * *
157010 TTATTATTTATATTTAATTA-TATTATAT
1 TTATTATATATATTTTATTAGTTTTTTAT
* *
157038 ATATATATATATATATTTATTGGTTTTTTAT
1 TTAT-TATATATAT-TTTATTAGTTTTTTAT
*
157069 TTATTACTAT-TATTTTGTTAG-TTTTTA-
1 TTATTA-TATATATTTTATTAGTTTTTTAT
157096 TTATGTATATATATT
1 TTAT-TATATATATT
157111 ATTTTTATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
27 7 0.12
28 15 0.26
29 14 0.24
30 10 0.17
31 12 0.21
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (29 bp):
TTATTATATATATTTTATTAGTTTTTTAT
Found at i:157123 original size:19 final size:18
Alignment explanation
Indices: 157090--157138 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
157080 ATTTTGTTAG
*
157090 TTTTTATTATGTATATATA
1 TTTTT-TTATATATATATA
*
157109 TTATTTTTATATATATTTA
1 TT-TTTTTATATATATATA
*
157128 TTTTTCTATAT
1 TTTTTTTATAT
157139 TTTACTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 15 0.58
20 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTTATATATATATA
Found at i:157128 original size:16 final size:16
Alignment explanation
Indices: 157101--157142 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
157091 TTTTATTATG
157101 TATATATA-TTATTTT
1 TATATATATTTATTTT
157116 TATATATATTTATTTT
1 TATATATATTTATTTT
*
157132 TCTATAT-TTTA
1 TATATATATTTA
157143 CTGTATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATATATTTATTTT
Found at i:157350 original size:2 final size:2
Alignment explanation
Indices: 157345--157376 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
157335 CTAGTATTTA
157345 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
157377 CTTTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157428 original size:2 final size:2
Alignment explanation
Indices: 157421--157498 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
157411 ACCATATTAC
157421 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
157463 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
157499 GGTCCCTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157592 original size:16 final size:16
Alignment explanation
Indices: 157571--157609 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
157561 TTTTTTAATA
157571 TTTATTTATCTTTTTC
1 TTTATTTATCTTTTTC
*
157587 TTTATTTGTCTTTTTC
1 TTTATTTATCTTTTTC
157603 TTTATTT
1 TTTATTT
157610 CGTTATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTATCTTTTTC
Found at i:157656 original size:17 final size:18
Alignment explanation
Indices: 157612--157676 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
157602 CTTTATTTCG
157612 TTATCTTTAT-TTTACTTT
1 TTATCTTTATATTTA-TTT
*
157630 TATTTCCTTTATATTT-TTT
1 T-TAT-CTTTATATTTATTT
*
157649 TTATCTTTTTATTTATTT
1 TTATCTTTATATTTATTT
*
157667 TTATTTTTAT
1 TTATCTTTAT
157677 TCTTGTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 9 0.24
18 14 0.37
19 6 0.16
20 6 0.16
21 3 0.08
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATCTTTATATTTATTT
Found at i:157674 original size:28 final size:29
Alignment explanation
Indices: 157595--157694 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 29
157585 TCTTTATTTG
* * *
157595 TCTTTTTCTTTATTTCGTTATCTTTATTTTA
1 TCTTTTTATTTATTT--TTATATTTTTTTTA
**
157626 -C-TTTTATTT-CCTTTATATTTTTTTTA
1 TCTTTTTATTTATTTTTATATTTTTTTTA
*
157652 TCTTTTTATTTATTTTTAT-TTTTATTCT-
1 TCTTTTTATTTATTTTTATATTTT-TTTTA
*
157680 TGTTTTTATTTATTT
1 TCTTTTTATTTATTT
157695 ATTTATTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
26 12 0.21
27 1 0.02
28 27 0.48
29 15 0.27
30 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (29 bp):
TCTTTTTATTTATTTTTATATTTTTTTTA
Found at i:157675 original size:16 final size:16
Alignment explanation
Indices: 157569--157701 Score: 59
Period size: 16 Copynumber: 7.5 Consensus size: 16
157559 GTTTTTTTAA
* *
157569 TATTTATTTATCTTTT
1 TATTTATTTTTATTTT
* * *
157585 TCTTTATTTGTCTTTT
1 TATTTATTTTTATTTT
* *
157601 TCTTTATTTCGTTATCTT
1 TATTTATTT--TTATTTT
*
157619 TATTTTACTTTTATTTCCTT
1 TA-TTTATTTTTA-TT--TT
*
157639 TATATTTTTTTTATCTTTT
1 TAT-TTATTTTTA--TTTT
157658 TATTTATTTTTATTTT
1 TATTTATTTTTATTTT
*
157674 TATTCTTGTTTTTATTTATT
1 TA-T-TTATTTTTA-TT-TT
157694 TATTTATT
1 TATTTATT
157702 ATATGTACAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
16 29 0.32
17 4 0.04
18 26 0.29
19 15 0.16
20 15 0.16
21 2 0.02
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.74
Consensus pattern (16 bp):
TATTTATTTTTATTTT
Found at i:163533 original size:251 final size:260
Alignment explanation
Indices: 163204--163813 Score: 785
Period size: 251 Copynumber: 2.4 Consensus size: 260
163194 CTTATTCATA
*
163204 TATTGAATAAAAAT-ATTTTTTCATTATTTTGGGTCGGGTCGGGTTTCTAATTCATATATTCAGG
1 TATTGAATAAAAATAATTTTTT-ATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCAGG
163268 TCGAGTCCGGTGAAACTTTATTTTGGTCAGGTC-A-G-TTTTTTAAGTGTGATATTCAGATCGGG
65 TCGAGTCCGGTGAAACTTTATTTTGGTCAGGTCGAGGTTTTTTTAAGTGTGATATTCAGATCGGG
*
163330 TCGAGTTCGGGTTTAGGAG-G-AAAATA-C-CC-GACCTG-AAAATATATAATTTTACCTTATAT
130 TCGAGTTCGGGTTTAGG-GTGAAAAATACCACCTGACCTGAAAAATATATAATTCTACCTTATAT
*
163389 A-TTAGGAATAATTACAATAATA-C-C-C-CTCTAAATATA-ATTTTTTCAATTAAGTCACTGTT
194 ATTTAGGAATAATTACAATAATACCTCTCTCTCTAAATATATATTTTTCCAATTAAGTCACTGTT
163448 TT
259 TT
*
163450 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGATCTGATCGGATTTCTAATTCATATATT
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGG----G-TCGGGTTTCTAATTCATATATT
* * * *
163515 CAGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTCGGTTTTTTTAAGTGTGATATTCG
61 CAGGTCGAGTCCGGTGAAACTTTATTTTGGTCAGGTCGA---GGTTTTTTTAAGTGTGATATTCA
* * * *
163580 GGTTGGTTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCTGACCTGACTCAAAAAATATATAA
123 GATCGGGTCGAGTTCGGGTTTAGGGTGAAAAATA-CC-ACCTGACCTG-----AAAAATATATAA
*
163645 TTCTACCTTATATATTTAGGAATAATTACAATAATACCTCTCTCTCTATATATATATTTTTCCAA
181 TTCTACCTTATATATTTAGGAATAATTACAATAATACCTCTCTCTCTAAATATATATTTTTCCAA
163710 TTAAGTCACTGTTTT
246 TTAAGTCACTGTTTT
163725 TATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCAG
1 TATTGAATAAAAATAA--TTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCAG
163790 GTC-A----GGTGAAACTTTATTTTGGTC
64 GTCGAGTCCGGTGAAACTTTATTTTGGTC
163814 GGATCGGGTC
Statistics
Matches: 316, Mismatches: 15, Indels: 45
0.84 0.04 0.12
Matches are distributed among these distances:
246 28 0.09
247 7 0.02
250 1 0.00
251 55 0.17
252 1 0.00
256 2 0.01
257 40 0.13
258 6 0.02
260 1 0.00
262 2 0.01
263 6 0.02
267 20 0.06
269 24 0.08
270 21 0.07
271 1 0.00
272 28 0.09
273 2 0.01
274 10 0.03
275 40 0.13
277 21 0.07
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (260 bp):
TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCAGGT
CGAGTCCGGTGAAACTTTATTTTGGTCAGGTCGAGGTTTTTTTAAGTGTGATATTCAGATCGGGT
CGAGTTCGGGTTTAGGGTGAAAAATACCACCTGACCTGAAAAATATATAATTCTACCTTATATAT
TTAGGAATAATTACAATAATACCTCTCTCTCTAAATATATATTTTTCCAATTAAGTCACTGTTTT
Found at i:165157 original size:60 final size:57
Alignment explanation
Indices: 165015--165159 Score: 166
Period size: 60 Copynumber: 2.5 Consensus size: 57
165005 TTTTAAGGGT
** *
165015 AAAGTATAC-AAATGGTCCCTCGACTATAGAATTATTTTATTAAGTTTTTCGACTATTA
1 AAAGT-TACAAAATGGTCCCT-GACTATAGAATTATTTTATTAAGTCCTTCAACTATTA
* ** *
165073 AAAGTTACAAAATGATCTTTTGACTATAGAATGTTATTTTGTTAAGTCCTTCAACTATTA
1 AAAGTTACAAAATGGTC-CCTGACTATAGAA--TTATTTTATTAAGTCCTTCAACTATTA
165133 AAAGTTACAAAATGGTCACCTGACTAT
1 AAAGTTACAAAATGGTC-CCTGACTAT
165160 TCATTATGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.04
58 22 0.31
59 1 0.01
60 46 0.64
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (57 bp):
AAAGTTACAAAATGGTCCCTGACTATAGAATTATTTTATTAAGTCCTTCAACTATTA
Found at i:165409 original size:29 final size:29
Alignment explanation
Indices: 165339--165410 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
165329 AATTGCTTTG
*
165339 GGCCCCC-ATTTTTTCATCTTTATAATTA
1 GGCCCCCAATTTTTTCATCTTTATAACTA
* *
165367 GGCCCCCAACTTTTTCATTTTTATAACTA
1 GGCCCCCAATTTTTTCATCTTTATAACTA
* *
165396 GGCCTCTAATTTTTT
1 GGCCCCCAATTTTTT
165411 AAATCTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 7 0.19
29 30 0.81
ACGTcount: A:0.21, C:0.25, G:0.08, T:0.46
Consensus pattern (29 bp):
GGCCCCCAATTTTTTCATCTTTATAACTA
Found at i:165476 original size:44 final size:42
Alignment explanation
Indices: 165422--165546 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 42
165412 AATCTTATTT
*
165422 TTTTACCTTTACAATTGAGGTCCTAATTTTTATTCAATCACACA
1 TTTTA-CTTTATAATTGAGGTCCTAATTTTTATTCAATC-CACA
** * *
165466 TTTTATCTTTATAATTGAAATCTCTAATTTTT-TTCAATCCCCT
1 TTTTA-CTTTATAATTGAGGTC-CTAATTTTTATTCAATCCACA
* *
165509 TTTTACATTTATAATTGAGGCGCCTAA-TTTAATTCAAT
1 TTTTAC-TTTATAATTGAGG-TCCTAATTTTTATTCAAT
165547 TTTTTAACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
42 4 0.06
43 28 0.42
44 26 0.39
45 9 0.13
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (42 bp):
TTTTACTTTATAATTGAGGTCCTAATTTTTATTCAATCCACA
Found at i:165536 original size:43 final size:43
Alignment explanation
Indices: 165421--165886 Score: 145
Period size: 44 Copynumber: 10.4 Consensus size: 43
165411 AAATCTTATT
* * *
165421 TTTTTACCTTTACAATTGAGGTCCTAATTTTTATTCAATCACAC
1 TTTTTACATTTATAATTGAGGCCCTAATTTTT-TTCAATCACAC
* ** * *
165465 ATTTTATC-TTTATAATTGAAATCTCTAATTTTTTTCAATC-CCC
1 TTTTTA-CATTTATAATTG-AGGCCCTAATTTTTTTCAATCACAC
**
165508 TTTTTACATTTATAATTGAGGCGCCTAATTTAATTCAAT-----
1 TTTTTACATTTATAATTGAGGC-CCTAATTTTTTTCAATCACAC
**
165547 TTTTTA-ACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTAC
1 TTTTTACA-TTTATAATTGAGGCCC-TAATTTTTTTCAA--TCA----C-AC
* * *
165598 ATTTTCTACCTTTATAACTT-AGGCCCTTAA-TTTTAT-AATCTCAC
1 -TTTT-TACATTTATAA-TTGAGGCCC-TAATTTTTTTCAATCACAC
* * * *
165642 CTGTTA-ACTTTATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTTCTAC
1 TTTTTACA-TTTATAATTGAGGCCCTAATTTTTTTCAA--TCA----C-AC
* * * * * *
165692 ATTTTCTACCTTTACAATTGACGCCCCTAA-TTTTGTCAATCTCAA
1 -TTTT-TACATTTATAATTGA-GGCCCTAATTTTTTTCAATCACAC
* * * * *
165737 TTTCTACATTGATAATTGAAGCCTTTAATTTTTTT-AATCCCAC
1 TTTTTACATTTATAATTGAGGCC-CTAATTTTTTTCAATCACAC
* * *
165780 TTTTTTA-ACTTTATAGTTGAGGCCCTTAA-GTTTTTCAATCTCAC
1 -TTTTTACA-TTTATAATTGAGGCCC-TAATTTTTTTCAATCACAC
* * ** * * *
165824 TTTCTACCTTTATAATTGAGGCCTCTAAACTTTTTCAAACTCAA
1 TTTTTACATTTATAATTGAGGCC-CTAATTTTTTTCAATCACAC
* *
165868 TTTCTACCTTTATAATTGA
1 TTTTTACATTTATAATTGA
165887 TTCCCCTAAG
Statistics
Matches: 317, Mismatches: 59, Indels: 92
0.68 0.13 0.20
Matches are distributed among these distances:
38 3 0.01
39 29 0.09
41 5 0.02
42 25 0.08
43 83 0.26
44 90 0.28
45 15 0.05
46 1 0.00
49 3 0.01
50 4 0.01
51 4 0.01
52 29 0.09
53 24 0.08
54 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (43 bp):
TTTTTACATTTATAATTGAGGCCCTAATTTTTTTCAATCACAC
Found at i:165723 original size:94 final size:96
Alignment explanation
Indices: 165550--165735 Score: 306
Period size: 94 Copynumber: 2.0 Consensus size: 96
165540 ATTCAATTTT
*
165550 TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTATAA
1 TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
* *
165615 CTTAGGCCCTTAATTTTAT-AATCTCACCTG
66 CTTACGCCCCTAATTTTATCAATCTCACCTG
165645 TTAACTTTATAATTGAGGCCCTTA-GTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
1 TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
*
165709 -TTGACGCCCCTAATTTTGTCAATCTCA
66 CTT-ACGCCCCTAATTTTATCAATCTCA
165736 ATTTCTACAT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
93 2 0.02
94 52 0.61
95 31 0.36
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.45
Consensus pattern (96 bp):
TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
CTTACGCCCCTAATTTTATCAATCTCACCTG
Found at i:165752 original size:95 final size:94
Alignment explanation
Indices: 165550--165782 Score: 283
Period size: 95 Copynumber: 2.5 Consensus size: 94
165540 ATTCAATTTT
* *
165550 TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTATAA
1 TTAACTTGATAATTGAGGCCCTTA-GTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
* * *
165615 CTTAGGCCCTTAATTTTATAATCTCACCTG
65 CTTACGCCCCTAATTTTATAATCTCACATG
*
165645 TTAACTTTATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA-
1 TTAACTTGATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAAC
*
165709 TTGACGCCCCTAATTTTGTCAATCTCA-AT-
66 TT-ACGCCCCTAATTTTAT-AATCTCACATG
* * * * * *
165738 TTCTACATTGATAATTGAAGCCTTTAATTTTTTTAATCCCACTTT
1 TT-AAC-TTGATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTT
165783 TTTAACTTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
93 4 0.03
94 55 0.45
95 63 0.52
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.45
Consensus pattern (94 bp):
TTAACTTGATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAAC
TTACGCCCCTAATTTTATAATCTCACATG
Found at i:165769 original size:94 final size:94
Alignment explanation
Indices: 165550--165769 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 94
165540 ATTCAATTTT
* * * *
165550 TTAACTTTATAATTGAGGCCCTTACGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTATAA
1 TTAACTTGATAATTGAAGCCCTTA-GATTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA
* * *
165615 CTTAGGCCCTTAATTTTATAATCTCACCTG
65 CTTACGCCCCTAATTTTATAATCTCACATG
* * *
165645 TTAACTTTATAATTGAGGCCCTTAGTTTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAA-
1 TTAACTTGATAATTGAAGCCCTTAGATTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAAC
*
165709 TTGACGCCCCTAATTTTGTCAATCTCA-AT-
66 TT-ACGCCCCTAATTTTAT-AATCTCACATG
* *
165738 TTCTACATTGATAATTGAAGCCTTTA-ATTTTT
1 TT-AAC-TTGATAATTGAAGCCCTTAGATTTTT
165770 TTAATCCCAC
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
93 4 0.04
94 60 0.54
95 47 0.42
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (94 bp):
TTAACTTGATAATTGAAGCCCTTAGATTTTTCAATCTCACTTTCTACATTTTCTACCTTTACAAC
TTACGCCCCTAATTTTATAATCTCACATG
Found at i:165858 original size:44 final size:43
Alignment explanation
Indices: 165694--165886 Score: 185
Period size: 44 Copynumber: 4.4 Consensus size: 43
165684 CTTTCTACAT
* * *
165694 TTTCTACCTTTACAATTGACGCC-CCTAATTTTGTCAATCTCAA
1 TTTCTACCTTTATAATTGAGGCCTCTTAATTTT-TCAATCTCAA
* * * * * *
165737 TTTCTACATTGATAATTGAAGCCT-TTAATTTTTTTAATCCCACT
1 TTTCTACCTTTATAATTGAGGCCTCTTAA-TTTTTCAATCTCA-A
* * * *
165781 TTTTTAACTTTATAGTTGAGGCC-CTTAAGTTTTTCAATCTCAC
1 TTTCTACCTTTATAATTGAGGCCTCTTAA-TTTTTCAATCTCAA
* *
165824 TTTCTACCTTTATAATTGAGGCCTCTAAACTTTTTCAAACTCAA
1 TTTCTACCTTTATAATTGAGGCCTCTTAA-TTTTTCAATCTCAA
165868 TTTCTACCTTTATAATTGA
1 TTTCTACCTTTATAATTGA
165887 TTCCCCTAAG
Statistics
Matches: 120, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
43 49 0.41
44 71 0.59
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (43 bp):
TTTCTACCTTTATAATTGAGGCCTCTTAATTTTTCAATCTCAA
Found at i:165879 original size:87 final size:87
Alignment explanation
Indices: 165694--165905 Score: 230
Period size: 87 Copynumber: 2.4 Consensus size: 87
165684 CTTTCTACAT
*
165694 TTTCTACCTTTACAATTGACGCCCCTAA-TTTTGTCAATCTCAATTTCTACATTGATAATTGAAG
1 TTTCTACCTTTATAATTGACGCCCCTAAGTTTT-TCAATCTCAATTTCTACATTGATAATTGAAG
* * * * *
165758 CCTTTAATTTTTTTAATCCCACT
65 CCTTAAACTTTTTCAAACCCACA
* * * * * * * * *
165781 TTTTTAACTTTATAGTTGAGGCCCTTAAGTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGC
1 TTTCTACCTTTATAATTGACGCCCCTAAGTTTTTCAATCTCAATTTCTACATTGATAATTGAAGC
*
165846 CTCTAAACTTTTTCAAACTCA-A
66 CT-TAAACTTTTTCAAACCCACA
**
165868 TTTCTACCTTTATAATTGATTCCCCTAAGTTTTTCAAT
1 TTTCTACCTTTATAATTGACGCCCCTAAGTTTTTCAAT
165906 TGATTATTGA
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
87 84 0.83
88 17 0.17
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (87 bp):
TTTCTACCTTTATAATTGACGCCCCTAAGTTTTTCAATCTCAATTTCTACATTGATAATTGAAGC
CTTAAACTTTTTCAAACCCACA
Found at i:167008 original size:13 final size:13
Alignment explanation
Indices: 166990--167015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
166980 TTTATTTGTA
166990 TTATTATTATTAT
1 TTATTATTATTAT
167003 TTATTATTATTAT
1 TTATTATTATTAT
167016 CTACTATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:168399 original size:60 final size:59
Alignment explanation
Indices: 168331--168515 Score: 151
Period size: 60 Copynumber: 3.1 Consensus size: 59
168321 AGTTTAGTTT
* * * * *
168331 TTTAAATTTTCGTTTTTACTGTTTTAGCCTTTTGAGTTTCTGTTTTTGCTATTGTAGTCA
1 TTTAAATTTTCGTTTTTACTGTTTTAGCC-CTTAAGTTACTATTTTTCCTATTGTAGTCA
** * * *
168391 TTTAAA-TTTCTGTTTTTGTTGTTTTATTCCCTTAAGTTACTATTTTTCCTATTTTAGTCC
1 TTTAAATTTTC-GTTTTTACTGTTTTA-GCCCTTAAGTTACTATTTTTCCTATTGTAGTCA
* * * * * *
168451 TTTAAATGTTT-GTTTTTTCTATTTTAGTCCCTTAAG-TACCTGTTTGTACTATTTTAGTCA
1 TTTAAAT-TTTCGTTTTTACTGTTTTAG-CCCTTAAGTTA-CTATTTTTCCTATTGTAGTCA
168511 TTTAA
1 TTTAA
168516 GTTTATGTTG
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
59 6 0.06
60 90 0.89
61 2 0.02
62 3 0.03
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (59 bp):
TTTAAATTTTCGTTTTTACTGTTTTAGCCCTTAAGTTACTATTTTTCCTATTGTAGTCA
Found at i:168401 original size:30 final size:30
Alignment explanation
Indices: 168338--168524 Score: 137
Period size: 30 Copynumber: 6.3 Consensus size: 30
168328 TTTTTTAAAT
* * *
168338 TTTC-GTTTTTACTGTTTTAG-CCTTTTGAG
1 TTTCTGTTTTTGCTATTTTAGTCC-TTTAAG
* * *
168367 TTTCTGTTTTTGCTATTGTAGTCATTTAAA
1 TTTCTGTTTTTGCTATTTTAGTCCTTTAAG
* * * *
168397 TTTCTGTTTTTGTTGTTTTATTCCCTTAAG
1 TTTCTGTTTTTGCTATTTTAGTCCTTTAAG
* * * *
168427 TTACTATTTTTCCTATTTTAGTCCTTTAAA
1 TTTCTGTTTTTGCTATTTTAGTCCTTTAAG
* *
168457 TGTT-TGTTTTTTCTATTTTAGTCCCTTAAG
1 T-TTCTGTTTTTGCTATTTTAGTCCTTTAAG
** * * *
168487 TACCTGTTTGTACTATTTTAGTCATTTAAG
1 TTTCTGTTTTTGCTATTTTAGTCCTTTAAG
*
168517 TTTATGTT
1 TTTCTGTT
168525 GTTTCCATTC
Statistics
Matches: 119, Mismatches: 35, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
29 4 0.03
30 113 0.95
31 2 0.02
ACGTcount: A:0.17, C:0.13, G:0.12, T:0.58
Consensus pattern (30 bp):
TTTCTGTTTTTGCTATTTTAGTCCTTTAAG
Found at i:170375 original size:32 final size:32
Alignment explanation
Indices: 170338--170399 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
170328 TTGTACATGT
170338 ACTAACTGATTTCACTTCTTTTGTTTGTGTAC
1 ACTAACTGATTTCACTTCTTTTGTTTGTGTAC
* **
170370 ACTAACTTATTTCTTTTCTTTTGTTTGTGT
1 ACTAACTGATTTCACTTCTTTTGTTTGTGT
170400 CATTTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.56
Consensus pattern (32 bp):
ACTAACTGATTTCACTTCTTTTGTTTGTGTAC
Done.