Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_153
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: 155967
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:3616 original size:13 final size:13
Alignment explanation
Indices: 3598--3622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3588 ACTAGCTCTC
3598 TTTTTTTCACAAT
1 TTTTTTTCACAAT
3611 TTTTTTTCACAA
1 TTTTTTTCACAA
3623 CTTGATATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTTCACAAT
Found at i:3700 original size:11 final size:11
Alignment explanation
Indices: 3658--3700 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
3648 AATGGAAACT
3658 AGTTTTTTTTCG
1 AGTTTTTTTT-G
*
3670 A-ATTTTTTTG
1 AGTTTTTTTTG
*
3680 AATTTTTTTTG
1 AGTTTTTTTTG
3691 AGTTTTTTTT
1 AGTTTTTTTT
3701 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 2 0.07
11 24 0.89
12 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (11 bp):
AGTTTTTTTTG
Found at i:14426 original size:17 final size:18
Alignment explanation
Indices: 14404--14437 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14394 ACAACACTCC
*
14404 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
14421 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
14438 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:15504 original size:31 final size:28
Alignment explanation
Indices: 15459--15532 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 28
15449 CTCGCAAGAC
*
15459 TTTTCAC-TTTTTTTTTAACTTGATTTT
1 TTTTCACTTTTTTTTTTAACTCGATTTT
**
15486 TTTGGTCACCTTTTTTTTTTTGCTCGATTTT
1 TTT--TCA-CTTTTTTTTTTAACTCGATTTT
15517 TTTTCACTTTTTTTTT
1 TTTTCACTTTTTTTTT
15533 GAATTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 3 0.08
28 10 0.25
29 6 0.15
30 1 0.03
31 20 0.50
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (28 bp):
TTTTCACTTTTTTTTTTAACTCGATTTT
Found at i:15528 original size:12 final size:12
Alignment explanation
Indices: 15513--15582 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 12
15503 TTTTGCTCGA
*
15513 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
15525 TTTTTTTTGAATT
1 TTTTTTTTCAA-T
15538 TTTTTTTCAATCAAT
1 TTTTTTT---TCAAT
15553 TTTTTTTTCGAAT
1 TTTTTTTTC-AAT
*
15566 TTTTTTTT-GAT
1 TTTTTTTTCAAT
15577 TTTTTT
1 TTTTTT
15583 GTTACTCCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.16
12 11 0.22
13 19 0.39
15 8 0.16
16 3 0.06
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:15540 original size:13 final size:13
Alignment explanation
Indices: 15524--15582 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
15514 TTTTTTTCAC
15524 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
15537 TTTTTTTTCAATCAAT
1 TTTTTTTT---TGAAT
*
15553 TTTTTTTTCGAA-
1 TTTTTTTTTGAAT
15565 TTTTTTTTTG-AT
1 TTTTTTTTTGAAT
15577 TTTTTT
1 TTTTTT
15583 GTTACTCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 1 0.03
12 15 0.39
13 10 0.26
16 12 0.32
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:40857 original size:10 final size:10
Alignment explanation
Indices: 40844--40881 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
40834 AAGAAGCTAA
40844 ATTGAGCTCG
1 ATTGAGCTCG
40854 ATTGAGCT-G
1 ATTGAGCTCG
40863 ACTTGAGCTCG
1 A-TTGAGCTCG
*
40874 AGTGAGCT
1 ATTGAGCT
40882 GGAAATGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:40868 original size:20 final size:20
Alignment explanation
Indices: 40845--40882 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
40835 AGAAGCTAAA
*
40845 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
40865 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
40883 GAAATGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:42542 original size:27 final size:27
Alignment explanation
Indices: 42511--42583 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
42501 TCTTCTTCAA
42511 CATCTTTTTCTTTTTCAATTTT-TTCT
1 CATCTTTTTCTTTTTCAATTTTCTTCT
* *
42537 CAATCTCAATTTCTTTTTCAATTTTCTTTT
1 C-ATCT--TTTTCTTTTTCAATTTTCTTCT
* *
42567 CTTCATTTTCTTTTTCA
1 CATCTTTTTCTTTTTCA
42584 CTCACTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 15 0.39
29 18 0.47
30 4 0.11
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (27 bp):
CATCTTTTTCTTTTTCAATTTTCTTCT
Found at i:42547 original size:17 final size:18
Alignment explanation
Indices: 42525--42558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42515 TTTTTCTTTT
42525 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
42542 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
42559 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:45186 original size:10 final size:10
Alignment explanation
Indices: 45173--45210 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
45163 AAGAAGCTAA
45173 ATTGAGCTCG
1 ATTGAGCTCG
45183 ATTGAGCT-G
1 ATTGAGCTCG
45192 ACTTGAGCTCG
1 A-TTGAGCTCG
*
45203 AGTGAGCT
1 ATTGAGCT
45211 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:45197 original size:20 final size:20
Alignment explanation
Indices: 45174--45211 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45164 AGAAGCTAAA
*
45174 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
45194 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
45212 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:45992 original size:24 final size:25
Alignment explanation
Indices: 45937--45992 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
45927 ACAAACAAAT
* *
45937 TCTTTTTTCATTTTCATCACTCGTT
1 TCTTTTTTCATTTTAATCACTCGTC
45962 TC-TTTTTC-TTTTGAATCACTC-TC
1 TCTTTTTTCATTTT-AATCACTCGTC
45985 TCTTTTTT
1 TCTTTTTT
45993 TATCACTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 2 0.07
ACGTcount: A:0.11, C:0.23, G:0.04, T:0.62
Consensus pattern (25 bp):
TCTTTTTTCATTTTAATCACTCGTC
Found at i:48276 original size:14 final size:14
Alignment explanation
Indices: 48257--48284 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48247 CTAGACCCTA
48257 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
48271 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
48285 CCTTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (14 bp):
TGCAATTTTTTTTT
Found at i:55043 original size:13 final size:14
Alignment explanation
Indices: 55011--55048 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
55001 TTTGGTCACC
55011 CTTTTTTTTTGCTCA
1 CTTTTTTTTT-CTCA
*
55026 ATTTTTTTTT-TCA
1 CTTTTTTTTTCTCA
55039 CTTTTTTTTT
1 CTTTTTTTTT
55049 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (14 bp):
CTTTTTTTTTCTCA
Found at i:55046 original size:30 final size:29
Alignment explanation
Indices: 54973--55050 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 29
54963 CTCGCAAGAC
54973 TTTTCACTTTTTTTTTAACTTCATTTTTT
1 TTTTCACTTTTTTTTTAACTTCATTTTTT
* *
55002 TTGGTCACCCTTTTTTTTT-GC-TCAATTTTTT
1 TT-TTCA--CTTTTTTTTTAACTTC-ATTTTTT
55033 TTTTCACTTTTTTTTTAA
1 TTTTCACTTTTTTTTTAA
55051 TTTTTTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
28 10 0.25
29 2 0.05
30 8 0.20
31 10 0.25
32 10 0.25
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTCACTTTTTTTTTAACTTCATTTTTT
Found at i:55081 original size:13 final size:12
Alignment explanation
Indices: 55013--55086 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 12
55003 TGGTCACCCT
55013 TTTTTTTTGCTCAA
1 TTTTTTTT--TCAA
*
55027 TTTTTTTTTTCAC
1 -TTTTTTTTTCAA
55040 TTTTTTTTT-AA
1 TTTTTTTTTCAA
55051 TTTTTTTTTCGATCAA
1 -TTTTTTTT---TCAA
55067 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
55080 TTTTTTT
1 TTTTTTT
55087 GATTTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
11 1 0.02
12 19 0.37
13 12 0.24
15 17 0.33
16 2 0.04
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:55094 original size:39 final size:39
Alignment explanation
Indices: 55012--55098 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
55002 TTGGTCACCC
* * *
55012 TTTTTTTTTGCTCAATTTTTTTTTTCACTTTTTTTTTAA
1 TTTTTTTTTGATCAATTTTTTTTTTCACATTTTTTTGAA
55051 TTTTTTTTTCGATCAA-TTTTTTTTTCGA-ATTTTTTTG-A
1 TTTTTTTTT-GATCAATTTTTTTTTTC-ACATTTTTTTGAA
55089 TTTTTTTTTG
1 TTTTTTTTTG
55099 TTACTCCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
37 1 0.02
38 10 0.23
39 26 0.60
40 6 0.14
ACGTcount: A:0.13, C:0.08, G:0.06, T:0.74
Consensus pattern (39 bp):
TTTTTTTTTGATCAATTTTTTTTTTCACATTTTTTTGAA
Found at i:58526 original size:12 final size:12
Alignment explanation
Indices: 58511--58541 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
58501 TTCTTTTTGC
58511 TTTTCAAAGGCT
1 TTTTCAAAGGCT
58523 TTTTCAAAGGCT
1 TTTTCAAAGGCT
58535 TTTTCAA
1 TTTTCAA
58542 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:58618 original size:6 final size:6
Alignment explanation
Indices: 58602--58651 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
58592 TTTCTTTTTA
*
58602 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
58651 T
1 T
58652 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:58634 original size:37 final size:37
Alignment explanation
Indices: 58591--58661 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
58581 CTTGCCTCTC
58591 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
58628 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
58662 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:58662 original size:16 final size:16
Alignment explanation
Indices: 58587--58647 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
58577 GCCTCTTGCC
*
58587 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
58603 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
58619 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
58635 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
58648 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:59616 original size:11 final size:11
Alignment explanation
Indices: 59602--59638 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
59592 TTTTTTTCCT
59602 TTTTTTTCGAA
1 TTTTTTTCGAA
*
59613 TTTTTTTTGAA
1 TTTTTTTCGAA
59624 TTTTTTTCTGAA
1 TTTTTTTC-GAA
59636 TTT
1 TTT
59639 CTTCTCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.70
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:59616 original size:12 final size:11
Alignment explanation
Indices: 59601--59638 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
59591 CTTTTTTTCC
59601 TTTTTTTTCGAA
1 TTTTTTTT-GAA
59613 TTTTTTTTGAA
1 TTTTTTTTGAA
59624 TTTTTTTCTGAA
1 TTTTTTT-TGAA
59636 TTT
1 TTT
59639 CTTCTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:59650 original size:23 final size:22
Alignment explanation
Indices: 59598--59653 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
59588 TCACTTTTTT
* *
59598 TCCTTTTTTTTCGAATTTTTTT
1 TCCTTTTTTTTCGAATTTCTTC
***
59620 TGAATTTTTTTCTGAATTTCTTC
1 TCCTTTTTTTTC-GAATTTCTTC
59643 TCCTTTTTTTT
1 TCCTTTTTTTT
59654 TTAAAATCCA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (22 bp):
TCCTTTTTTTTCGAATTTCTTC
Found at i:61393 original size:30 final size:30
Alignment explanation
Indices: 61359--61455 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
61349 TAAACTAAAA
*
61359 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
61389 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
61419 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
61448 ATGAGCTA
1 -TGAGCTA
61456 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:63484 original size:30 final size:30
Alignment explanation
Indices: 63450--63548 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
63440 TAAACTAAAA
*
63450 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
63480 TGAGCTGAGGCTAAACTCCTAAGCTGAAGTTT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAG--T
63512 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
63541 ATGAGCTA
1 -TGAGCTA
63549 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 1 0.02
30 28 0.55
32 22 0.43
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:67660 original size:23 final size:22
Alignment explanation
Indices: 67608--67660 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
67598 TCCACGTCTT
*
67608 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
67630 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
67653 TTTCTTTT
1 TTTCTTTT
67661 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:73149 original size:38 final size:38
Alignment explanation
Indices: 73098--73171 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
73088 CCGATCACAC
73098 TATCGAAGAAATCACATTGGTATAGTTAGACGTTTCAT
1 TATCGAAGAAATCACATTGGTATAGTTAGACGTTTCAT
73136 TATCGAAGAAATCACATTGGTATAGTTAGACGTTTC
1 TATCGAAGAAATCACATTGGTATAGTTAGACGTTTC
73172 GTTTTGTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (38 bp):
TATCGAAGAAATCACATTGGTATAGTTAGACGTTTCAT
Found at i:73454 original size:20 final size:20
Alignment explanation
Indices: 73408--73454 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
73398 AGCTCGTTTC
*
73408 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
73428 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
73448 CAGCTCA
1 CAGCTCA
73455 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:74963 original size:10 final size:11
Alignment explanation
Indices: 74941--74977 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
74931 CAAAAAATCG
74941 AAATTCAAAAA
1 AAATTCAAAAA
74952 AAATTCAAAAA
1 AAATTCAAAAA
* *
74963 AAAGTGAAAAA
1 AAATTCAAAAA
74974 AAAT
1 AAAT
74978 CGAGCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:74987 original size:15 final size:15
Alignment explanation
Indices: 74969--75021 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
74959 AAAAAAAGTG
74969 AAAAAAAATCGAGCA
1 AAAAAAAATCGAGCA
***
74984 AAAAAAAAGAAAG-A
1 AAAAAAAATCGAGCA
*
74998 AAAAAAAGT-GAGCA
1 AAAAAAAATCGAGCA
75012 AAAAAAAATC
1 AAAAAAAATC
75022 AAGTTTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 2 0.07
14 17 0.59
15 10 0.34
ACGTcount: A:0.74, C:0.08, G:0.13, T:0.06
Consensus pattern (15 bp):
AAAAAAAATCGAGCA
Found at i:77911 original size:20 final size:20
Alignment explanation
Indices: 77865--77911 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
77855 AGCTCGTTTC
*
77865 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
77885 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
77905 CAGCTCA
1 CAGCTCA
77912 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:88110 original size:10 final size:10
Alignment explanation
Indices: 88095--88156 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
88085 TTTGAACCAT
*
88095 TACCAATTCG
1 TACCAATTCA
*
88105 TACCAAATACCA
1 TACC-AAT-TCA
*
88117 TACCATTTCA
1 TACCAATTCA
88127 TACCAATTCCA
1 TACCAATT-CA
* *
88138 TACCATTTCG
1 TACCAATTCA
88148 TACCAATTC
1 TACCAATTC
88157 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:88140 original size:21 final size:21
Alignment explanation
Indices: 88095--88157 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
88085 TTTGAACCAT
* *
88095 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
88117 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
88138 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
88158 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:88488 original size:12 final size:12
Alignment explanation
Indices: 88471--88505 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
88461 AAAGGAGTTC
88471 GAAAAAAAAATTT
1 GAAAAAAAAA-TT
88484 GAAAAAAAAATT
1 GAAAAAAAAATT
88496 GAAAAAAAAA
1 GAAAAAAAAA
88506 ATTGCATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:88506 original size:13 final size:13
Alignment explanation
Indices: 88471--88509 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
88461 AAAGGAGTTC
*
88471 GAAAAAAAAATTT
1 GAAAAAAAAAATT
88484 G-AAAAAAAAATT
1 GAAAAAAAAAATT
88496 GAAAAAAAAAATT
1 GAAAAAAAAAATT
88509 G
1 G
88510 CATACGGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:91055 original size:20 final size:20
Alignment explanation
Indices: 91032--91078 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
91022 GGGTTAAGAT
*
91032 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
91052 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
91072 TGAGCTG
1 TGAGCTG
91079 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:92801 original size:48 final size:48
Alignment explanation
Indices: 92746--92851 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
92736 TTGTCTTTTC
*
92746 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
92794 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
92842 TTTCTTTTTC
1 TTTCTTTTTC
92852 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:95060 original size:30 final size:29
Alignment explanation
Indices: 94960--95062 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
94950 CGAGTTTAAA
* *
94960 CTAAAGTGAGCTAAGTTTTAGCTCGTGAG
1 CTAAATTGAGCTAAGGTTTAGCTCGTGAG
* * * * * *
94989 CTAAAGTTGAGCTGAGGCTAAACTCCTAAG
1 CTAAA-TTGAGCTAAGGTTTAGCTCGTGAG
*
95019 CTGAAGTTGAGCTAAGGTTTAGCTCGTGAG
1 CT-AAATTGAGCTAAGGTTTAGCTCGTGAG
95049 CTAAATATGAGCTA
1 CTAAAT-TGAGCTA
95063 GGAGTGAGCT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
29 8 0.15
30 45 0.82
31 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (29 bp):
CTAAATTGAGCTAAGGTTTAGCTCGTGAG
Found at i:97232 original size:12 final size:12
Alignment explanation
Indices: 97217--97247 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
97207 TTCTTTTTGC
97217 TTTTCAAAGGCT
1 TTTTCAAAGGCT
97229 TTTTCAAAGGCT
1 TTTTCAAAGGCT
97241 TTTTCAA
1 TTTTCAA
97248 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:97324 original size:6 final size:6
Alignment explanation
Indices: 97308--97357 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
97298 TTTCTTTTTA
*
97308 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
97357 T
1 T
97358 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:97340 original size:37 final size:37
Alignment explanation
Indices: 97297--97367 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
97287 CTTGCCTCTC
97297 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
97334 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
97368 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:97368 original size:16 final size:16
Alignment explanation
Indices: 97293--97353 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
97283 GCCTCTTGCC
*
97293 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
97309 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
97325 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
97341 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
97354 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:98286 original size:12 final size:12
Alignment explanation
Indices: 98271--98322 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
98261 CGATTTTTCG
*
98271 ATTTTTTTTAAA
1 ATTTTTTTTTAA
**
98283 ATTTTTTTTTCG
1 ATTTTTTTTTAA
*
98295 ATTTTTTTTTCA
1 ATTTTTTTTTAA
*
98307 ATTTTTTTTCAA
1 ATTTTTTTTTAA
98319 ATTT
1 ATTT
98323 CCTCTTCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (12 bp):
ATTTTTTTTTAA
Found at i:98291 original size:24 final size:24
Alignment explanation
Indices: 98264--98315 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
98254 TATACTTCGA
98264 TTTTTCGATTTTTTTTAAAATTTT
1 TTTTTCGATTTTTTTTAAAATTTT
**
98288 TTTTTCGATTTTTTTTTCAATTTT
1 TTTTTCGATTTTTTTTAAAATTTT
98312 TTTT
1 TTTT
98316 CAAATTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTCGATTTTTTTTAAAATTTT
Found at i:98317 original size:11 final size:11
Alignment explanation
Indices: 98264--98318 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
98254 TATACTTCGA
*
98264 TTTTTCGATTT
1 TTTTTCAATTT
*
98275 TTTTTAAAATTTT
1 TTTTT-CAA-TTT
*
98288 TTTTTCGATTTT
1 TTTTTC-AATTT
98300 TTTTTCAATTT
1 TTTTTCAATTT
98311 TTTTTCAA
1 TTTTTCAA
98319 ATTTCCTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 17 0.47
12 10 0.28
13 9 0.25
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTTCAATTT
Found at i:100037 original size:30 final size:30
Alignment explanation
Indices: 100003--100099 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
99993 TAAACTAAAA
*
100003 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * **
100033 TGAGCTGAGGCTAAACTCCTAAGCGGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
100063 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
100092 ATGAGCTA
1 -TGAGCTA
100100 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:100728 original size:10 final size:9
Alignment explanation
Indices: 100715--100749 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
100705 CTTTTCACTT
100715 TTTTTTGTTC
1 TTTTTT-TTC
*
100725 TTTTTTTAC
1 TTTTTTTTC
100734 TTTTTTTTC
1 TTTTTTTTC
100743 TTTTTTT
1 TTTTTTT
100750 GCTCACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:100735 original size:21 final size:20
Alignment explanation
Indices: 100706--100768 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
100696 CTCACAAGAC
*
100706 TTTTCACTTTTTTTTGTTCTT
1 TTTTCACTTTTTTTTCTT-TT
*
100727 TTTTTACTTTTTTTTCTTTT
1 TTTTCACTTTTTTTTCTTTT
100747 TTTGCTCACTTCTTTTTT-TTTT
1 TTT--TCACTT-TTTTTTCTTTT
100769 GAATTTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.14
21 16 0.44
22 9 0.25
23 6 0.17
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTCACTTTTTTTTCTTTT
Found at i:102319 original size:20 final size:20
Alignment explanation
Indices: 102296--102342 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
102286 GGGTTAAGAT
*
102296 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
102316 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
102336 TGAGCTG
1 TGAGCTG
102343 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:102909 original size:16 final size:17
Alignment explanation
Indices: 102877--102930 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
102867 AGAAAAGAGC
* *
102877 GAAAATACAAAAGAAAA
1 GAAAATTCAAAAAAAAA
*
102894 GAAAATTGAAAAAAAAA
1 GAAAATTCAAAAAAAAA
*
102911 GAAAATTCAAAAAAAGA
1 GAAAATTCAAAAAAAAA
102928 GAA
1 GAA
102931 TGAAAAGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (17 bp):
GAAAATTCAAAAAAAAA
Found at i:109791 original size:27 final size:27
Alignment explanation
Indices: 109760--109832 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
109750 TCTTCTTCAA
109760 CATCTTTTTCTTTTTCAATTTT-TTCT
1 CATCTTTTTCTTTTTCAATTTTCTTCT
* *
109786 CAATCTCAATTTCTTTTTCAATTTTCTTTT
1 C-ATCT--TTTTCTTTTTCAATTTTCTTCT
* *
109816 CTTCATTTTCTTTTTCA
1 CATCTTTTTCTTTTTCA
109833 CTACAATGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 15 0.39
29 18 0.47
30 4 0.11
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (27 bp):
CATCTTTTTCTTTTTCAATTTTCTTCT
Found at i:109796 original size:17 final size:18
Alignment explanation
Indices: 109774--109807 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109764 TTTTTCTTTT
109774 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
109791 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
109808 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:110736 original size:11 final size:12
Alignment explanation
Indices: 110722--110793 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 12
110712 CTTTTTTTCC
110722 TTTTTTTCG-AT
1 TTTTTTTCGAAT
110733 TTTTTTT-GAAT
1 TTTTTTTCGAAT
110744 TTTTTTTCTGAATCAATTT
1 TTTTTTTC-G----AA--T
110763 TTTTTTTCGAAT
1 TTTTTTTCGAAT
*
110775 TTTTTTT-GATT
1 TTTTTTTCGAAT
110786 TTTTTTTC
1 TTTTTTTC
110794 ACGTTTCGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 19
0.71 0.01 0.27
Matches are distributed among these distances:
10 1 0.02
11 26 0.52
12 8 0.16
13 1 0.02
14 2 0.04
17 2 0.04
18 1 0.02
19 9 0.18
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:112233 original size:20 final size:20
Alignment explanation
Indices: 112179--112233 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
112169 AACTTAAGCC
112179 AAGCTCAAA-CGAGCTAAAGT
1 AAGCT-AAATCGAGCTAAAGT
** * *
112199 AAGCTAAATTAAGCTCATGT
1 AAGCTAAATCGAGCTAAAGT
112219 AAGCTAAATCGAGCT
1 AAGCTAAATCGAGCT
112234 GGGAAAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (20 bp):
AAGCTAAATCGAGCTAAAGT
Found at i:113935 original size:10 final size:10
Alignment explanation
Indices: 113920--113981 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
113910 TTTGAACCAT
*
113920 TACCAATTCG
1 TACCAATTCA
*
113930 TACCAAATACCA
1 TACC-AAT-TCA
*
113942 TACCATTTCA
1 TACCAATTCA
113952 TACCAATTCCA
1 TACCAATT-CA
* *
113963 TACCATTTCG
1 TACCAATTCA
113973 TACCAATTC
1 TACCAATTC
113982 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:113965 original size:21 final size:21
Alignment explanation
Indices: 113920--113982 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
113910 TTTGAACCAT
* *
113920 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
113942 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
113963 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
113983 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:121313 original size:64 final size:67
Alignment explanation
Indices: 121208--121361 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
121198 CATCATGTGT
* * * * *
121208 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
121270 ATGTAG
62 ATGTAG
* * *
121276 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
121341 AG
66 AG
121343 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
121362 AACTGTGATA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 20 0.27
65 7 0.09
66 4 0.05
67 30 0.41
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:121618 original size:24 final size:23
Alignment explanation
Indices: 121564--121619 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
121554 GGATAACTAA
* *
121564 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
121587 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
121611 GAAATGGTA
1 GAAATGGTA
121620 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:126024 original size:1 final size:1
Alignment explanation
Indices: 126018--126045 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
126008 CTCCAGACTC
126018 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
126046 ACGGATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:126144 original size:13 final size:13
Alignment explanation
Indices: 126093--126145 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 13
126083 GTATGCAATT
126093 TTTTTTTTTTCAAAA
1 TTTTTTTTTTC--AA
*
126108 TATTTTTTTTAATTAA
1 T-TTTTTTTT--TCAA
126124 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
126137 TTTTTTTTT
1 TTTTTTTTT
126146 GAATCTACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 12 0.36
15 9 0.27
16 11 0.33
18 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:126145 original size:17 final size:16
Alignment explanation
Indices: 126093--126138 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
126083 GTATGCAATT
126093 TTTTTTTTTTCAA--AA
1 TTTTTTTTTT-AATTAA
*
126108 TATTTTTTTTAATTAA
1 TTTTTTTTTTAATTAA
126124 TTTTTTTTTTCAATT
1 TTTTTTTTTT-AATT
126139 TTTTTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 2 0.08
15 9 0.35
16 11 0.42
17 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTTTTTAATTAA
Found at i:126475 original size:24 final size:23
Alignment explanation
Indices: 126421--126476 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
126411 GGATAACTAA
* *
126421 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
126444 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
126468 GAAATGGTA
1 GAAATGGTA
126477 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:129652 original size:24 final size:23
Alignment explanation
Indices: 129598--129653 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
129588 GGATAACTAA
* *
129598 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
129621 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
129645 GAAATGGTA
1 GAAATGGTA
129654 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:134096 original size:1 final size:1
Alignment explanation
Indices: 134090--134116 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
134080 CTCCAGACTC
134090 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
134117 ACGGATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:134197 original size:14 final size:14
Alignment explanation
Indices: 134180--134216 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
134170 TTTTTTGCAA
134180 TTTTTTTTTCTTCT
1 TTTTTTTTTCTTCT
134194 TTTTTTTTTCTTCT
1 TTTTTTTTTCTTCT
134208 TTTTTTTTT
1 TTTTTTTTT
134217 TCGAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTCT
Found at i:139364 original size:15 final size:14
Alignment explanation
Indices: 139328--139382 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
139318 TCTATTAATT
139328 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
139342 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
139356 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
139371 GAAAGAAAAGAA
1 GAGA-AAAAGAA
139383 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:142570 original size:43 final size:43
Alignment explanation
Indices: 142522--142610 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
142512 TAATCTGGAC
142522 ATTTTTAATTCAGCTTATTAGTACATGCCTTTAATATGTCCAT
1 ATTTTTAATTCAGCTTATTAGTACATGCCTTTAATATGTCCAT
142565 ATTTTTAATTCAGCTTATTAGTACATGCCTTTAATATGTCCAT
1 ATTTTTAATTCAGCTTATTAGTACATGCCTTTAATATGTCCAT
142608 ATT
1 ATT
142611 AAGTCATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (43 bp):
ATTTTTAATTCAGCTTATTAGTACATGCCTTTAATATGTCCAT
Found at i:144645 original size:10 final size:10
Alignment explanation
Indices: 144630--144667 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
144620 GCTCGTTTCC
*
144630 AGCTCACTCG
1 AGCTCAATCG
144640 AGCTCAAGTC-
1 AGCTCAA-TCG
144650 AGCTCAATCG
1 AGCTCAATCG
144660 AGCTCAAT
1 AGCTCAAT
144668 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:144673 original size:20 final size:20
Alignment explanation
Indices: 144629--144666 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
144619 AGCTCGTTTC
*
144629 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
144649 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
144667 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:146354 original size:13 final size:13
Alignment explanation
Indices: 146320--146383 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 13
146310 TTGGAGTAAC
146320 AAAAAAAAA-TCA
1 AAAAAAAAATTCA
146332 AAAAAAAAATTCGA
1 AAAAAAAAATTC-A
*
146346 AAAAAAAATTGATTGA
1 AAAAAAAA---ATTCA
*
146362 AAAAAAAAATTTA
1 AAAAAAAAATTCA
146375 AAAAAAAAA
1 AAAAAAAAA
146384 GAGGTGACCA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 9 0.20
13 15 0.33
14 9 0.20
16 9 0.20
17 3 0.07
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:147317 original size:18 final size:18
Alignment explanation
Indices: 147296--147330 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
147286 AGAAAAGAAA
147296 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
147314 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
147331 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:148989 original size:10 final size:10
Alignment explanation
Indices: 148974--149011 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
148964 GCTCGTTTCC
*
148974 AGCTCACTCG
1 AGCTCAATCG
148984 AGCTCAAGTC-
1 AGCTCAA-TCG
148994 AGCTCAATCG
1 AGCTCAATCG
149004 AGCTCAAT
1 AGCTCAAT
149012 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:149017 original size:20 final size:20
Alignment explanation
Indices: 148973--149010 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
148963 AGCTCGTTTC
*
148973 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
148993 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
149011 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:151991 original size:10 final size:10
Alignment explanation
Indices: 151976--152040 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
151966 AGTTTTTCCC
151976 AGCTCAATTT
1 AGCTCAATTT
*
151986 AGCTCACA-TG
1 AGCTCA-ATTT
*
151996 AGCTTAATTT
1 AGCTCAATTT
*
152006 AGCTC-GTTT
1 AGCTCAATTT
152015 GAGCTCAATTT
1 -AGCTCAATTT
* *
152026 AGCTTACTTT
1 AGCTCAATTT
152036 AGCTC
1 AGCTC
152041 GTTTGAGCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
9 4 0.10
10 34 0.81
11 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:151999 original size:20 final size:20
Alignment explanation
Indices: 151976--152029 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
151966 AGTTTTTCCC
151976 AGCTCAATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
151996 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
152016 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
152030 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:152010 original size:30 final size:30
Alignment explanation
Indices: 151976--152049 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
151966 AGTTTTTCCC
151976 AGCTCAATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTC-ATTTGAGCTCA-ATTGAGCTTAATTT
* * *
152006 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCATTTGAGCTCAATTGAGCTTAATTT
*
152036 AGCTCGTTTGAGCT
1 AGCTCATTTGAGCT
152050 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (30 bp):
AGCTCATTTGAGCTCAATTGAGCTTAATTT
Found at i:152039 original size:20 final size:20
Alignment explanation
Indices: 151976--152040 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
151966 AGTTTTTCCC
* * *
151976 AGCTCAATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
151996 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
152015 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
152036 AGCTC
1 AGCTC
152041 GTTTGAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 29 0.81
21 4 0.11
22 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:154064 original size:27 final size:26
Alignment explanation
Indices: 154034--154092 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
154024 AAAAAAATTC
*
154034 AAAAAAAAGTGAAAAAAA-TCGAGCAAA
1 AAAAAAAAG-AAAAAAAAGT-GAGCAAA
154061 AAAAAAAAGAAAAAAAAGGTGAGCAAA
1 AAAAAAAAGAAAAAAAA-GTGAGCAAA
154088 AAAAA
1 AAAAA
154093 TCAAGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.24
27 21 0.72
28 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAAGTGAGCAAA
Found at i:155131 original size:6 final size:6
Alignment explanation
Indices: 155119--155224 Score: 63
Period size: 6 Copynumber: 17.7 Consensus size: 6
155109 AAAGAAATTG
* * ****
155119 AAAGAA AACG-A AAAGAA AACGAA AAAGAA AAAGAA ATTTCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
155166 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATG-A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AAAGAA
155215 AAAGAA AAAG
1 AAAGAA AAAG
155225 CGAAAAAAGA
Statistics
Matches: 70, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
5 8 0.11
6 56 0.80
7 2 0.03
8 4 0.06
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:155135 original size:11 final size:11
Alignment explanation
Indices: 155119--155154 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
155109 AAAGAAATTG
155119 AAAGAAAACGA
1 AAAGAAAACGA
155130 AAAGAAAACGAA
1 AAAGAAAACG-A
*
155142 AAAGAAAAAGA
1 AAAGAAAACGA
155153 AA
1 AA
155155 TTTCAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAGAAAACGA
Found at i:155146 original size:12 final size:12
Alignment explanation
Indices: 155119--155236 Score: 64
Period size: 12 Copynumber: 9.6 Consensus size: 12
155109 AAAGAAATTG
155119 AAAGAAAACG-A
1 AAAGAAAACGAA
155130 AAAGAAAACGAA
1 AAAGAAAACGAA
*
155142 AAAGAAAAAGAA
1 AAAGAAAACGAA
***
155154 ATTTCAAAA-GAA
1 A-AAGAAAACGAA
*
155166 AAAGAAATCGAA
1 AAAGAAAACGAA
* *
155178 AAAGTGAGA-GAA
1 AAAG-AAAACGAA
*
155190 AAAGAAAATGAAGA
1 AAAGAAAACG-A-A
*
155204 AAAGAAAATG-A
1 AAAGAAAACGAA
155215 AAAGAAAAAGCGAAA
1 AAAG-AAAA-CG-AA
155230 AAAGAAA
1 AAAGAAA
155237 TTGAAAGAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
11 20 0.24
12 36 0.44
13 7 0.09
14 14 0.17
15 5 0.06
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (12 bp):
AAAGAAAACGAA
Found at i:155208 original size:14 final size:14
Alignment explanation
Indices: 155189--155215 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
155179 AAGTGAGAGA
155189 AAAAGAAAATGAAG
1 AAAAGAAAATGAAG
155203 AAAAGAAAATGAA
1 AAAAGAAAATGAA
155216 AAGAAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (14 bp):
AAAAGAAAATGAAG
Found at i:155223 original size:26 final size:25
Alignment explanation
Indices: 155189--155242 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
155179 AAGTGAGAGA
*
155189 AAAAGAAAA-TGAAGAAAAGAAAATG
1 AAAAGAAAAGCGAA-AAAAGAAAATG
*
155214 AAAAGAAAAAGCGAAAAAAGAAATTG
1 AAAAG-AAAAGCGAAAAAAGAAAATG
155240 AAA
1 AAA
155243 GAGAGCTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 17 0.68
27 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (25 bp):
AAAAGAAAAGCGAAAAAAGAAAATG
Found at i:155275 original size:32 final size:32
Alignment explanation
Indices: 155239--155300 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
155229 AAAAGAAATT
155239 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAA
*
155271 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
155301 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 16 0.59
33 10 0.37
34 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.26, T:0.13
Consensus pattern (32 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAA
Done.