Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold337
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: 762055
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:1363 original size:48 final size:48
Alignment explanation
Indices: 1308--1403 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
1298 GATTAAGATT
1308 AGGAATATTTAATTTCAAGCTTTAAAGCCCTGTAAATTTCTATTGATG
1 AGGAATATTTAATTTCAAGCTTTAAAGCCCTGTAAATTTCTATTGATG
*
1356 AGGAATATTTAATTTCTAGCTTTAAAGCCCTGTAAATTTCTATTGATG
1 AGGAATATTTAATTTCAAGCTTTAAAGCCCTGTAAATTTCTATTGATG
1404 GATGGATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (48 bp):
AGGAATATTTAATTTCAAGCTTTAAAGCCCTGTAAATTTCTATTGATG
Found at i:4331 original size:32 final size:36
Alignment explanation
Indices: 4248--4334 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
4238 CTAAGTGATT
***
4248 GAGAGGTTCTATCTTAGCTTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
4284 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATA-GGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
*
4318 -AG-GTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
4335 TTGAAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 14 0.30
33 2 0.04
34 3 0.06
35 8 0.17
36 20 0.43
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
Found at i:5154 original size:13 final size:13
Alignment explanation
Indices: 5138--5168 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5128 ACAATTCATC
5138 ATGTATCGATACA
1 ATGTATCGATACA
*
5151 ATGTGTCGATACA
1 ATGTATCGATACA
5164 ATGTA
1 ATGTA
5169 CCATGTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5163 original size:33 final size:33
Alignment explanation
Indices: 5116--5184 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
5106 CCGTTACAAG
*
5116 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATGTATCGATA
* * *
5149 CAATGTGTCGATACAATGTACCATGTATTGATA
1 CAATGTATCAATACAATGTACCATGTATCGATA
5182 CAA
1 CAA
5185 ACAGTGATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATGTATCGATA
Found at i:5239 original size:20 final size:20
Alignment explanation
Indices: 5212--5267 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
5202 ACTGCCAGTT
5212 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
5231 TCTATGTATCGATACAA-TGA
1 TC-ATGTATCGATACAATTGA
*
5251 TCATGTATTGATACAAT
1 TCATGTATCGATACAAT
5268 GTATCAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:5258 original size:19 final size:19
Alignment explanation
Indices: 5212--5273 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
5202 ACTGCCAGTT
5212 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
5231 TCTATGTATCGATACAATGA
1 TC-ATGTATCGATACAATGA
*
5251 TCATGTATTGATACAATGTA
1 TCATGTATCGATACAATG-A
5271 TCA
1 TCA
5274 ATACAAAGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:7766 original size:13 final size:13
Alignment explanation
Indices: 7748--7774 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7738 ATAGTAACCC
7748 ATGTATCGATACA
1 ATGTATCGATACA
7761 ATGTATCGATACA
1 ATGTATCGATACA
7774 A
1 A
7775 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:16961 original size:52 final size:52
Alignment explanation
Indices: 16813--16941 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
16803 CGAAATATGA
*
16813 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATTGATACATCTAGGC
* * *
16865 AAATTTGCCTGTACGTATCGATACATTTCATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATTGATACATCTAGGC
16917 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
16942 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATTGATACATCTAGGC
Found at i:17063 original size:32 final size:32
Alignment explanation
Indices: 17019--17087 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
17009 AGCTTCGTAG
17019 CGATACACTGTATCGATACAAAACTTATGTAT
1 CGATACACTGTATCGATACAAAACTTATGTAT
* * *
17051 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACACTGTATCGATACAAAACTTATGTAT
17083 CGATA
1 CGATA
17088 TAAATCATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACACTGTATCGATACAAAACTTATGTAT
Found at i:17083 original size:19 final size:19
Alignment explanation
Indices: 17027--17087 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
17017 AGCGATACAC
*
17027 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
17046 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
17059 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
17078 TGTATCGATA
1 TGTATCGATA
17088 TAAATCATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 5 0.15
18 1 0.03
19 18 0.55
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:17610 original size:13 final size:13
Alignment explanation
Indices: 17592--17622 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17582 ACAATTCATC
17592 ATGTATCGATACA
1 ATGTATCGATACA
*
17605 ATGTATCGATATA
1 ATGTATCGATACA
17618 ATGTA
1 ATGTA
17623 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17614 original size:33 final size:33
Alignment explanation
Indices: 17570--17638 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
17560 CCGTTACAAG
* *
17570 CAATGTGTCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
*
17603 CAATGTATCGATATAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
17636 CAA
1 CAA
17639 ACAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:17711 original size:19 final size:18
Alignment explanation
Indices: 17666--17723 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
17656 ACTGCCAGTT
17666 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
17685 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
17704 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
17723 T
1 T
17724 ATCGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:17725 original size:13 final size:13
Alignment explanation
Indices: 17707--17733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17697 TACAATGATC
17707 ATGTATCGATACA
1 ATGTATCGATACA
17720 ATGTATCGATACA
1 ATGTATCGATACA
17733 A
1 A
17734 AGCATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17749 original size:33 final size:32
Alignment explanation
Indices: 17688--17752 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
17678 ACAATTGTCC
*
17688 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATCATGTATCGATACA
*
17720 ATGTATCGATACAAAGCATGATGTATCGATACA
1 ATGTATCGATACAAAG-ATCATGTATCGATACA
17753 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATCATGTATCGATACA
Found at i:20449 original size:11 final size:12
Alignment explanation
Indices: 20426--20468 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 12
20416 TTTGACATAA
20426 AAATTTTTAATT
1 AAATTTTTAATT
20438 AAATTTTTATTATT
1 AAATTTTTA--ATT
20452 AATATTTTTAATT
1 AA-ATTTTTAATT
20465 AAAT
1 AAAT
20469 AAATCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.39
13 5 0.18
14 5 0.18
15 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AAATTTTTAATT
Found at i:20469 original size:14 final size:14
Alignment explanation
Indices: 20423--20469 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
20413 TTATTTGACA
*
20423 TAAAAATTTTTAAT
1 TAAATATTTTTAAT
*
20437 TAAAT-TTTTATTAT
1 TAAATATTTT-TAAT
20451 T-AATATTTTTAAT
1 TAAATATTTTTAAT
20464 TAAATA
1 TAAATA
20470 AATCAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATATTTTTAAT
Found at i:21015 original size:22 final size:22
Alignment explanation
Indices: 20973--21015 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20963 GACAATTTTA
*
20973 AATGTTTTTTAAGTAATAAATC
1 AATGTTTTTAAAGTAATAAATC
20995 AATGTTTTTCAAAGTAA-AAAT
1 AATGTTTTT-AAAGTAATAAAT
21016 ACTTCGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
AATGTTTTTAAAGTAATAAATC
Found at i:21150 original size:33 final size:33
Alignment explanation
Indices: 21107--21171 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
21097 CACGCTCAGA
*
21107 TGTATCGATACTAATTGCTAAGTATCGATACAT
1 TGTATCGATACAAATTGCTAAGTATCGATACAT
* **
21140 TGTATTGATACAAATTGCTTTGTATCGATACA
1 TGTATCGATACAAATTGCTAAGTATCGATACA
21172 CCATGAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTAAGTATCGATACAT
Found at i:22849 original size:3 final size:3
Alignment explanation
Indices: 22834--22863 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
22824 CGTTCAAAGC
*
22834 GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
22864 AAGCAAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:23353 original size:21 final size:21
Alignment explanation
Indices: 23329--23390 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
23319 TAATCTTCTT
*
23329 GAAAAGAAAGTAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
* *
23350 GAAAAGAAAATTAATGAGTTA
1 GAAAAGAAAATAAATGAATTA
*
23371 CAAGAAGAAAATAAAT-AATT
1 GAA-AAGAAAATAAATGAATT
23391 GACTAAGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 23 0.68
22 11 0.32
ACGTcount: A:0.61, C:0.02, G:0.16, T:0.21
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:23928 original size:20 final size:20
Alignment explanation
Indices: 23903--23943 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23893 GAGACAAAAG
23903 CCTATTTACGAAATTAAGAT
1 CCTATTTACGAAATTAAGAT
*
23923 CCTATTTATGAAATTAAGAT
1 CCTATTTACGAAATTAAGAT
23943 C
1 C
23944 AAAAGATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (20 bp):
CCTATTTACGAAATTAAGAT
Found at i:24672 original size:68 final size:68
Alignment explanation
Indices: 24563--24701 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
24553 GGTTCTCTTT
24563 TTAAGTACCAAAGATGAAGATTTAGAAATATTTATCACATATTGCAACATTGTTCAAAATGAAAA
1 TTAAGTACCAAAGATGAAGATTTAGAAATATTTATCACATATTGCAACATTGTTCAAAATGAAAA
24628 AGG
66 AGG
*
24631 TTAAGTACCAAAGATGAATATTTAGAAATATTTATCACATATTGCAACATTGTTCAAAATGAAAA
1 TTAAGTACCAAAGATGAAGATTTAGAAATATTTATCACATATTGCAACATTGTTCAAAATGAAAA
24696 AGG
66 AGG
24699 TTA
1 TTA
24702 CTCTTTGTCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (68 bp):
TTAAGTACCAAAGATGAAGATTTAGAAATATTTATCACATATTGCAACATTGTTCAAAATGAAAA
AGG
Found at i:29983 original size:50 final size:51
Alignment explanation
Indices: 29909--30050 Score: 225
Period size: 50 Copynumber: 2.8 Consensus size: 51
29899 AAAAATCATA
* *
29909 TTTTTATCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTTT
1 TTTTTACCCAGATG-ATCGATACATTTTTCAATGTATCGATACATTCTGTCT
29961 TTTTTACCCAGATG-TCGATACATTTTTCAATGTATCGATACATTCTGTCT
1 TTTTTACCCAGATGATCGATACATTTTTCAATGTATCGATACATTCTGTCT
*
30011 TTTTT-CCCAGATGTATTGATACATTTTTCAATGTATCGAT
1 TTTTTACCCAGATG-ATCGATACATTTTTCAATGTATCGAT
30051 GCATCTAGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
49 8 0.09
50 40 0.47
51 24 0.28
52 13 0.15
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (51 bp):
TTTTTACCCAGATGATCGATACATTTTTCAATGTATCGATACATTCTGTCT
Found at i:32449 original size:34 final size:34
Alignment explanation
Indices: 32406--32474 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
32396 GAGATACATT
32406 TTGATCGTCCCTCTTTCCCTTTTGTTACTTTGTG
1 TTGATCGTCCCTCTTTCCCTTTTGTTACTTTGTG
32440 TTGATCGTCCCTCTTTCCCTTTTGTTACTTTGTG
1 TTGATCGTCCCTCTTTCCCTTTTGTTACTTTGTG
32474 T
1 T
32475 GAATTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.06, C:0.26, G:0.14, T:0.54
Consensus pattern (34 bp):
TTGATCGTCCCTCTTTCCCTTTTGTTACTTTGTG
Found at i:37026 original size:22 final size:22
Alignment explanation
Indices: 37001--37044 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36991 GCAAAAGCAC
37001 AAAAAATG-AAAAGAAAAATAA
1 AAAAAATGCAAAAGAAAAATAA
* *
37022 AAAAAGTGCAAAAGTAAAATAA
1 AAAAAATGCAAAAGAAAAATAA
37044 A
1 A
37045 GAAAGGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAAAATGCAAAAGAAAAATAA
Found at i:38735 original size:83 final size:81
Alignment explanation
Indices: 38449--39532 Score: 873
Period size: 83 Copynumber: 13.0 Consensus size: 81
38439 GTGGCATTCT
* * * * *
38449 TTTTTAAGTCCACAACTCCAT-GCACCCTTTTAAGCCCACAACTCCATGGTAACCTTTT-AAGTC
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGG-CACCTTTTAAAGTC
* *
38512 CATAACTGCGTGGCAACC
65 CACAACTCCGTGGC-ACC
* *
38530 -TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACACTTTT-AAGTC
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCAC-CTTTTAAAGTC
38593 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
38610 CTTTTAAGTCCACAACTTCGTGGCACCGTTTTAATGTCCACAACTTCATGGCACCATTTTAAAGT
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA-GTCCACAACTTCGTGGCACC-TTTTAAAGT
*
38675 CCACAACTCCATGGCACC
64 CCACAACTCCGTGGCACC
*
38693 ATTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 -TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCA-CCTTTTAAAGT
*
38758 CCACAACTCCGTGGCATCA
64 CCACAACTCCGTGGCA-CC
* * * * *
38777 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAAC-TCTGTGGCACCCTTTCAAGT
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTC-GTGGCACCTTTTAAAGT
*
38841 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
* * * *
38859 -TTTTAAGTCCATAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACCAATTTT-AAG
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTCGTGGCACC--TTTTAAAG
38922 TCCACAACTCCGTGGCAACC
63 TCCACAACTCCGTGGC-ACC
* * *
38942 -TTTCAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAAC-TCTGTGGCAACCTTTTAAGGT
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTC-GTGGC-ACCTTTTAAAGT
39005 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * *
39023 CTTTTAAGTCCACAACTCCATGGCACCATTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAAGT
1 TTTTTAAGTCCACAACTCCGTGGCACC-CTTTTAAGTCCACAACTTCGTGGCA-CCTTTTAAAGT
39088 CCACAACTCCGTGGCA-C
64 CCACAACTCCGTGGCACC
* * *
39105 TCTTTTAAGGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCAA
1 T-TTTTAA-GTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTCGTGGCA-CCTTTT-AA
* * *
39170 AGCCCACACAAGTCAGTGGCACCC
61 AG-TC-CACAACTCCGTGGCA-CC
** * * ** * * * *
39194 TTTCAAAGCCCACAAATGAGTGGCATCCTTTCAAAGTCCACAA-GTCGGTGGCACCCTTTCAAAG
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTTC-GTGGCA-CCTTTTAAAG
* * *
39258 CCCACAAGTCAGTGGCATCC
63 TCCACAACTCCGTGGCA-CC
** * * * ** * * * *
39278 TTTCAAAGTCCATAAGTCGGTGGCAATCTTTTCAAAGCCCATAA-GTCGGTGGCATCTTTTTAAA
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACTTC-GTGGCA-CCTTTTAAA
* * *
39342 GCCCACAAATCAGTGGCATCC
62 GTCCACAACTCCGTGGCA-CC
** * * * * * * *
39363 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAG
1 TTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTTC-GTGGCA-CCTTTTAAAG
* * *
39427 TCCATAATTCGGTGGCATCC
63 TCCACAACTCCGTGGCA-CC
* * * * * * ** *
39447 TTTTCAAAGCCCACATAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAATGAGTGGCATCCTTTCA
1 TTTT-TAAGTCCAC--AACTCCGTGGCACCCTTTT--AAGTCCACAACTTCGTGGCA-CCTTTTA
* *
39511 AAGTCCACAAGTCGGTGGCACC
60 AAGTCCACAACTCCGTGGCACC
39533 CTTTCAAAGC
Statistics
Matches: 857, Mismatches: 105, Indels: 77
0.82 0.10 0.07
Matches are distributed among these distances:
80 23 0.03
81 132 0.15
82 99 0.12
83 210 0.25
84 181 0.21
85 87 0.10
86 13 0.02
87 106 0.12
88 4 0.00
89 2 0.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (81 bp):
TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTAAAGTCC
ACAACTCCGTGGCACC
Found at i:39166 original size:28 final size:28
Alignment explanation
Indices: 38449--39705 Score: 1045
Period size: 28 Copynumber: 44.9 Consensus size: 28
38439 GTGGCATTCT
* *
38449 TTTTTAAGTCCACAACTCCAT-GCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * *
38476 TTTT-AAGCCCACAACTCCATGGTAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * *
38503 TTTT-AAGTCCATAACTGCGTGGCAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
*
38530 TTTT-AAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
*
38557 TTTT-AAGTCCACAACTCCGTGGCACAC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
38584 TTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38611 TTTT-AAGTCCACAACTTCGTGGCACCG
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * *
38638 TTTTAATGTCCACAACTTCATGGCACCA
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38666 TTTTAAAGTCCACAACTCCATGGCACCA
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38694 TTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38722 TTTT-AAGTCCACAACTTCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38749 TTTTAAAGTCCACAACTCCGTGGCATCA
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38777 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
*
38805 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38833 -TTTCAAGTCCACAACTCTGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38859 TTTT-AAGTCCATAACTTCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38886 TTTTAAAGTCCACAACTCCATGGCACCAA
1 TTTTAAAGTCCACAACTCCGTGGCACC-C
*
38915 TTTT-AAGTCCACAACTCCGTGGCAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38942 -TTTCAAGTCCACAACTCCGTGGCAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
38969 TTTT-AAGTCCACAACTCTGTGGCAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
*
38996 TTTTAAGGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
39024 TTTT-AAGTCCACAACTCCATGGCACCA
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
39051 TTTTTAAGTCCACAACTTCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
*
39079 TTTTAAAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
39107 TTTTAAGGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* *
39135 TTTTAAAGTCCACAACTCCGTGGCATCT
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * *
39163 TTTTCAAAGCCCACACAAGTCAGTGGCACCC
1 TTTT-AAAG-TC-CACAACTCCGTGGCACCC
* * * ** *
39194 TTTCAAAGCCCACAAATGAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * *
39222 TTTCAAAGTCCACAAGTCGGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
39250 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * **
39278 TTTCAAAGTCCATAAGTCGGTGGCAATC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * * *
39306 TTTTCAAAGCCCATAAGTCGGTGGCATCT
1 TTTT-AAAGTCCACAACTCCGTGGCACCC
* * * *
39335 TTTTAAAGCCCACAAATCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * *
39363 TTTCAAAGCCCACAAGTCGGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
39391 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
39419 TTTCAAAGTCCATAATTCGGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * *
39447 TTTTCAAAGCCCACATAAGTCAGTGGCA-CC
1 TTTT-AAAGTCCAC--AACTCCGTGGCACCC
* * ** *
39477 TTTTCAAAGCCCACAAATGAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCC
* * *
39506 TTTCAAAGTCCACAAGTCGGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
39534 TTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 TTTTAAAG-TC-CACAACTCCGTGGC-ACCC
* * * *
39565 TCTTCAAAGCCCACAAGTCAGTGGCATCCC
1 T-TTTAAAGTCCACAACTCCGTGGCA-CCC
* * * *
39595 TTTCAAAGCCCACACAAATCAGTGGCACCC
1 TTTTAAAG-TC-CACAACTCCGTGGCACCC
** * * *
39625 TTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCC
** * **
39653 TTCCAAAG-CTCACAAGTCAATGGCACCC
1 TTTTAAAGTC-CACAACTCCGTGGCACCC
* * *
39681 TTTTAAAGCCCACAAGTCAGTGGCA
1 TTTTAAAGTCCACAACTCCGTGGCA
39706 TACCCCTTCA
Statistics
Matches: 1076, Mismatches: 126, Indels: 55
0.86 0.10 0.04
Matches are distributed among these distances:
26 37 0.03
27 265 0.25
28 599 0.56
29 58 0.05
30 63 0.06
31 47 0.04
32 7 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCGTGGCACCC
Found at i:39920 original size:48 final size:48
Alignment explanation
Indices: 39814--40079 Score: 322
Period size: 48 Copynumber: 5.6 Consensus size: 48
39804 TTCAAGTCCG
* * * *
39814 ATGTCGCTAGCCTTGAATCAGCACATTGTCCACCTTT--ATTAGCTCA
1 ATGTCGCTGGCCTTGAATAAGCACATTGTCCACTTTTCCCTTAGCTCA
* *
39860 ATGTTGCTGGCCTTGAATAAGCACATTGTCAACTTTTCCCTTAGCTCA
1 ATGTCGCTGGCCTTGAATAAGCACATTGTCCACTTTTCCCTTAGCTCA
* *
39908 ATGTCGCTGGCCTTGAATTAGAACATTGTCCACTTTTCCCTTAGCTCA
1 ATGTCGCTGGCCTTGAATAAGCACATTGTCCACTTTTCCCTTAGCTCA
* * * *
39956 ATGTCGTTGGCCTTGAATCAA-CACAATGTCCACTTTTCCTTTAGCTTA
1 ATGTCGCTGGCCTTGAAT-AAGCACATTGTCCACTTTTCCCTTAGCTCA
* ** * * *
40004 ATGTTGCTAACCTTAAATCAGCACATTGTCCACTTTTCCCTTAGCTCG
1 ATGTCGCTGGCCTTGAATAAGCACATTGTCCACTTTTCCCTTAGCTCA
* *
40052 ATGTCGTTGGCCTTGAATTAGCACATTG
1 ATGTCGCTGGCCTTGAATAAGCACATTG
40080 GCACTCCTCC
Statistics
Matches: 184, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
46 32 0.17
47 1 0.01
48 150 0.82
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (48 bp):
ATGTCGCTGGCCTTGAATAAGCACATTGTCCACTTTTCCCTTAGCTCA
Found at i:40072 original size:144 final size:142
Alignment explanation
Indices: 39814--40079 Score: 379
Period size: 144 Copynumber: 1.9 Consensus size: 142
39804 TTCAAGTCCG
* * ** *
39814 ATGTCGCTAGCCTTGAATCAGCACATTGTCCACCTTTATTAGCTCAATGTTGCTGGCCTTGAATA
1 ATGTCGCTAGCCTTGAATCAACACAATGTCCACCTTTATTAGCTCAATGTTGCTAACCTTAAATA
39879 AGCACATTGTCAACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATTAGAACATTGTCCACTTT
66 AGCACATTGTCAACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATTAGAACATTGTCCACTTT
39944 TCCCTTAGCTCA
131 TCCCTTAGCTCA
* * * * *
39956 ATGTCGTTGGCCTTGAATCAACACAATGTCCACTTTTCCTTTAGCTTAATGTTGCTAACCTTAAA
1 ATGTCGCTAGCCTTGAATCAACACAATGTCCACCTTT--ATTAGCTCAATGTTGCTAACCTTAAA
* * * * *
40021 TCAGCACATTGTCCACTTTTCCCTTAGCTCGATGTCGTTGGCCTTGAATTAGCACATTG
64 TAAGCACATTGTCAACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATTAGAACATTG
40080 GCACTCCTCC
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
142 32 0.30
144 75 0.70
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (142 bp):
ATGTCGCTAGCCTTGAATCAACACAATGTCCACCTTTATTAGCTCAATGTTGCTAACCTTAAATA
AGCACATTGTCAACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATTAGAACATTGTCCACTTT
TCCCTTAGCTCA
Found at i:40724 original size:20 final size:20
Alignment explanation
Indices: 40699--40770 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
40689 TACCCAGATA
40699 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * *
40719 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATG
* *
40739 TATCGATACATTCTTCAATT
1 TATCGATACATTTTTCAATG
*
40759 TATCGATGCATT
1 TATCGATACATT
40771 CTCTTTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:41712 original size:17 final size:16
Alignment explanation
Indices: 41661--41712 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
41651 GTTAGGTATG
*
41661 AAAGAAAAAAAGAAGAT
1 AAAGAAAAAAA-AAGAA
* *
41678 GAAGAAGAAAGAAAGAA
1 AAAGAA-AAAAAAAGAA
41695 AAAGAAAAAAAAATGAA
1 AAAGAAAAAAAAA-GAA
41712 A
1 A
41713 TGGAGTAGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAAAAAGAA
Found at i:48301 original size:13 final size:13
Alignment explanation
Indices: 48283--48309 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48273 TACAAAACTT
48283 ATGTATCGATACA
1 ATGTATCGATACA
48296 ATGTATCGATACA
1 ATGTATCGATACA
48309 A
1 A
48310 ATTGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:49124 original size:32 final size:33
Alignment explanation
Indices: 49064--49125 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
49054 CCCCAGAAAG
* *
49064 TATCGATACATGTTGCTTAGTATCGATACATTA
1 TATCGATACATGTTGCATAGTATAGATACATTA
49097 TATCGATACATGTT-CATAGTATAGATACA
1 TATCGATACATGTTGCATAGTATAGATACA
49126 CCTTGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TATCGATACATGTTGCATAGTATAGATACATTA
Found at i:49210 original size:20 final size:20
Alignment explanation
Indices: 49185--49239 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
49175 GTATCAATAC
*
49185 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATAA
*
49205 ATTGTATCGATACATGGTAA
1 ATTGTATCGATACATGATAA
*
49225 AATGTATCGATACAT
1 ATTGTATCGATACAT
49240 TAAGCCCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGATAA
Found at i:50812 original size:15 final size:15
Alignment explanation
Indices: 50792--50821 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50782 AGTCAACCAT
50792 CAATGATGATGAAGA
1 CAATGATGATGAAGA
50807 CAATGATGATGAAGA
1 CAATGATGATGAAGA
50822 AGTTGACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (15 bp):
CAATGATGATGAAGA
Found at i:55438 original size:21 final size:20
Alignment explanation
Indices: 55414--55461 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
55404 CAAATCTTTT
*
55414 TCAAAATTCAT-CTTTTTTGCA
1 TCAAAATTC-TCCATTTTT-CA
*
55435 TCAAAACTCTCCATTTTTCA
1 TCAAAATTCTCCATTTTTCA
55455 TCAAAAT
1 TCAAAAT
55462 CTTCAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATTCTCCATTTTTCA
Found at i:57850 original size:20 final size:20
Alignment explanation
Indices: 57825--57985 Score: 155
Period size: 20 Copynumber: 7.6 Consensus size: 20
57815 TCACAATTTA
*
57825 TATCGATACATTGTTTATTG
1 TATCGATACATTGTTCATTG
*
57845 TATCGATACATTGTTCATTA
1 TATCGATACATTGTTCATTG
*
57865 TATCGATACATTCTGGGTTTACCCAGATG
1 TATCGATACA-T-T--G-TT---CA-TTG
57894 TATCGATACATT-TTGCATTG
1 TATCGATACATTGTT-CATTG
*
57914 TATCGATACATTGCTCATTG
1 TATCGATACATTGTTCATTG
*
57934 TATCGATACATT-TTACAATG
1 TATCGATACATTGTT-CATTG
*
57954 TATCGATACATTGCTCATTG
1 TATCGATACATTGTTCATTG
57974 TATCGATACATT
1 TATCGATACATT
57986 CAGGCATTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
19 1 0.01
20 91 0.77
21 5 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 11 0.09
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGTTCATTG
Found at i:60380 original size:51 final size:50
Alignment explanation
Indices: 60296--60438 Score: 157
Period size: 51 Copynumber: 2.9 Consensus size: 50
60286 TCCCGGTTCC
* *
60296 ATTTCCAAAACATCAATTT-T-TC-ATCGGGAATACTCCAACCCTGACTTT
1 ATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCC-GACTTT
* * ** *
60344 ATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAAC-CCGACTTT
* * *
60395 ATTTCCAAAACATCAATTTTTTACAATCGGGGATACTCAAACCC
1 ATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCC
60439 CGTTATTTCA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
48 15 0.19
49 1 0.01
50 3 0.04
51 56 0.73
52 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (50 bp):
ATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCCGACTTT
Found at i:60465 original size:28 final size:27
Alignment explanation
Indices: 60423--60495 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
60413 TTTTACAATC
*
60423 GGGGATACTCAAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
*
60449 TTGGGGATACTCCAACCCTGTTATTTTCA
1 --GGGGATACTCCAACCCCGTTATTTTCA
* *
60478 AGGGATACGCCAACCCCG
1 GGGGATACTCCAACCCCG
60496 ATTTTTACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 15 0.38
28 19 0.49
29 5 0.13
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:61725 original size:49 final size:47
Alignment explanation
Indices: 61653--61746 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 47
61643 TTTGAGATGA
61653 GAAAAGTGCCAATGTGCCAATTCAAGGCCAGC-GACATTGGGCTAAGG
1 GAAAAGTGCCAATGTGCCAATTCAAGGCCAGCAG-CATTGGGCTAAGG
** *
61700 GAAAAGTGGACCAATGTGCTGATTCAAGGCCAGCAGTATTGGGCTAA
1 GAAAAGT-G-CCAATGTGCCAATTCAAGGCCAGCAGCATTGGGCTAA
61747 TAAAGGTGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 7 0.17
48 1 0.02
49 32 0.78
50 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (47 bp):
GAAAAGTGCCAATGTGCCAATTCAAGGCCAGCAGCATTGGGCTAAGG
Found at i:61943 original size:28 final size:28
Alignment explanation
Indices: 61889--62358 Score: 566
Period size: 28 Copynumber: 16.5 Consensus size: 28
61879 TTACCATTGG
* *
61889 CTTGTAGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
61918 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
61946 -TTGGTGGGCTTTGAAAGGGTGCCATTGA
1 CTT-GTGGGCTTTGAAAGGGTGCCACTGA
* * *
61974 CTGGTGGGCTTTGAAAGGATGTCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
62002 CTTGTGGGCCTTGAAAAGAGTTGTCCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTG-CCACTGA
* * *
62033 CTCGTGGGCTTTAAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
62061 CTTGTGGACTTTGAAAAGAGTTGCCACCG-
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* *
62090 GTTCGTGGGCTTTGAAAGGATGCCACTGA
1 CTT-GTGGGCTTTGAAAGGGTGCCACTGA
* *
62119 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
62148 CTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
62176 CTTCTGGGCTTTGAAAGGATACCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
62204 CTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* ** *
62232 CTTTTGGTTTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
62260 CTTCTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
62288 CTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
62316 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
62344 CTTGTGGGCTTTGAA
1 CTTGTGGGCTTTGAA
62359 TAGATGAATG
Statistics
Matches: 380, Mismatches: 51, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
27 2 0.01
28 282 0.74
29 57 0.15
30 24 0.06
31 15 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
CTTGTGGGCTTTGAAAGGGTGCCACTGA
Found at i:63595 original size:11 final size:10
Alignment explanation
Indices: 63579--63645 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 10
63569 GACCCCTTTC
63579 TATTTTTTTGT
1 TATTTTTTT-T
63590 TATTTTTTTCT
1 TATTTTTTT-T
*
63601 TGGTTTTTTTT
1 T-ATTTTTTTT
* *
63612 TGTTTTTTTC
1 TATTTTTTTT
63622 TATTTATTTATT
1 TATTT-TTT-TT
63634 TATTTATTTTT
1 TATTT-TTTTT
63645 T
1 T
63646 TGGGTATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
10 12 0.25
11 19 0.40
12 17 0.35
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:66928 original size:20 final size:20
Alignment explanation
Indices: 66871--66928 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
66861 CTGCCAAGGA
* *
66871 AATGTATCAATACATTATTC
1 AATGTATCGATACATTGTTC
*
66891 AATGTATCGATACTTTGTTC
1 AATGTATCGATACATTGTTC
66911 AATGTATCGATACATTGT
1 AATGTATCGATACATTGT
66929 ATCGATACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTGTTC
Found at i:66930 original size:33 final size:33
Alignment explanation
Indices: 66893--66958 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
66883 CATTATTCAA
* *
66893 TGTATCGATACTTTGTTCAATGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
**
66926 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
66959 CTAGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:66931 original size:13 final size:13
Alignment explanation
Indices: 66913--66940 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
66903 CTTTGTTCAA
66913 TGTATCGATACAT
1 TGTATCGATACAT
66926 TGTATCGATACAT
1 TGTATCGATACAT
66939 TG
1 TG
66941 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74939 original size:13 final size:13
Alignment explanation
Indices: 74921--74948 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74911 TACATAAACT
74921 ATTGTATCGATAC
1 ATTGTATCGATAC
74934 ATTGTATCGATAC
1 ATTGTATCGATAC
74947 AT
1 AT
74949 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:74944 original size:33 final size:32
Alignment explanation
Indices: 74902--74966 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
74892 TTTCAACGAT
74902 TTGTATCGATACATAAACTATTGTATCGATACA
1 TTGTATCGATACATAAA-TATTGTATCGATACA
*
74935 TTGTATCGATACATAAATTTTGTATCGATACA
1 TTGTATCGATACATAAATATTGTATCGATACA
74967 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATAAATATTGTATCGATACA
Found at i:75136 original size:52 final size:52
Alignment explanation
Indices: 75008--75136 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
74998 CATTGATCTT
* * *
75008 TGTATCGATACATGCAGGAAAATTCGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
75060 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
75112 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
75137 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
Found at i:86659 original size:21 final size:20
Alignment explanation
Indices: 86630--86672 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
86620 GGCTAGTGTG
* *
86630 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCAACCT
*
86651 GGGAGTGCCGGTCGCAACCT
1 GGGACTGCCGGTCGCAACCT
86671 GG
1 GG
86673 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCAACCT
Found at i:87087 original size:13 final size:13
Alignment explanation
Indices: 87069--87107 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
87059 ATAATCCCCC
*
87069 TGTATCGATACAG
1 TGTATCGATACAA
87082 TGTATCGATACAA
1 TGTATCGATACAA
87095 TGTATCGATACAA
1 TGTATCGATACAA
87108 GAAAAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93265 original size:13 final size:13
Alignment explanation
Indices: 93247--93272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93237 TACAAGCCAA
93247 TGTATCGATACAT
1 TGTATCGATACAT
93260 TGTATCGATACAT
1 TGTATCGATACAT
93273 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:94155 original size:20 final size:20
Alignment explanation
Indices: 94130--94397 Score: 110
Period size: 20 Copynumber: 12.3 Consensus size: 20
94120 AAAAAAAGAC
94130 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* * *
94150 AGAATGTATTGATACAGTCA
1 AGAATGTATCGATACATTGA
*
94170 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
94190 AAAATGTATCGATACGTCTGGGTAAAAAGA
1 AGAATGTATCGATAC--AT---T-----GA
* *
94220 TAGAATGTATCAATACATTAA
1 -AGAATGTATCGATACATTGA
* *
94241 AGAATGTATCGATACAGTCA
1 AGAATGTATCGATACATTGA
* *
94261 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
94281 AAAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
*
94311 TAGAATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
* **
94332 CGAATGTATCGATACATCCA
1 AGAATGTATCGATACATTGA
* *
94352 TA-CATGTACCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
94372 CGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
94392 AGAATG
1 AGAATG
94398 ATCCTCTACC
Statistics
Matches: 183, Mismatches: 37, Indels: 56
0.66 0.13 0.20
Matches are distributed among these distances:
19 2 0.01
20 137 0.75
21 5 0.03
22 2 0.01
25 2 0.01
26 2 0.01
29 2 0.01
30 4 0.02
31 27 0.15
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:94237 original size:91 final size:91
Alignment explanation
Indices: 94082--94388 Score: 472
Period size: 91 Copynumber: 3.4 Consensus size: 91
94072 TTTTAACTAG
* * ** * *
94082 ATGTATCGATACATTGAAAAATATATCGATGCATCTGGAAAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
*
94147 TGAAGAATGTATTGATACAGTCATAC
66 TGAAGAATGTATCGATACAGTCATAC
*
94173 ATGTATCGATACATTGAAAAATGTATCGATACGTCTGGGTAAAAAGATAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
*
94238 TAAAGAATGTATCGATACAGTCATAC
66 TGAAGAATGTATCGATACAGTCATAC
*
94264 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
*
94329 TGACGAATGTATCGATACA-TCCATAC
66 TGAAGAATGTATCGATACAGT-CATAC
* **
94355 ATGTACCGATACATTGACGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACAT
94389 TGAAGAATGA
Statistics
Matches: 198, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 1 0.01
91 197 0.99
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
TGAAGAATGTATCGATACAGTCATAC
Found at i:94249 original size:51 final size:51
Alignment explanation
Indices: 94173--94346 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
94163 ACAGTCATAC
*
94173 ATGTATCGATACATTGAAAAATGTATCGATACGTCTGGGTAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGTAAAAAGATAGA
*
94224 ATGTATCAATACATT-AAAGAATGTATCGATACAGTC-----------ATA-C
1 ATGTATCAATACATTGAAA-AATGTATCGATAC-GTCTGGGTAAAAAGATAGA
*
94264 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGTAAAAAGATAGA
**
94315 ATGTATCAATACATTGACGAATGTATCGATAC
1 ATGTATCAATACATTGAAAAATGTATCGATAC
94347 ATCCATACAT
Statistics
Matches: 102, Mismatches: 6, Indels: 30
0.74 0.04 0.22
Matches are distributed among these distances:
39 2 0.02
40 28 0.27
41 6 0.06
50 6 0.06
51 57 0.56
52 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (51 bp):
ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGTAAAAAGATAGA
Found at i:94858 original size:61 final size:61
Alignment explanation
Indices: 94757--94890 Score: 214
Period size: 61 Copynumber: 2.2 Consensus size: 61
94747 ACATTAACGT
* * *
94757 TCTTCGCATCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCAC
* * *
94818 TTTTCTCATCTTTAAGCCCAATATCGCTGGTCTTGAATCAGCATATTGGCACCTTTATCAC
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCAC
94879 TCTTCTCATCTT
1 TCTTCTCATCTT
94891 CATCATCTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (61 bp):
TCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCAC
Found at i:95668 original size:51 final size:51
Alignment explanation
Indices: 95608--95743 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 51
95598 TGCCAAGAAA
* * * * * *
95608 ATGTATCGATAGATT-TATCATTTTATCGATATATCTGGGAATTTTATCGAG
1 ATGTATCGATACATTGT-TCAATGTATCGATACATCTAGGAATTTTACCGAG
*
95659 ATGTATCGATACATTGTTTAATGTATCGATACATCTAGGAATTTTACCGAG
1 ATGTATCGATACATTGTTCAATGTATCGATACATCTAGGAATTTTACCGAG
*
95710 ATGTATTGATACATTGTTCAATGTATCGATACAT
1 ATGTATCGATACATTGTTCAATGTATCGATACAT
95744 GCAGGCAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
51 74 0.99
52 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (51 bp):
ATGTATCGATACATTGTTCAATGTATCGATACATCTAGGAATTTTACCGAG
Found at i:99921 original size:106 final size:107
Alignment explanation
Indices: 99795--100002 Score: 244
Period size: 107 Copynumber: 2.0 Consensus size: 107
99785 ACAAGTTCAT
* ** * * ** *
99795 TAAGGTCATTTAGGTTATTTTTGGCATAAA-TGAACTTTTTAGGGTTA-TTTTAGTAATTTTT-C
1 TAAGGTCATTTAGGTCATTTTCAGCA-AAACTAAACTTTTTAGGGTCACTTAAACT-ATTTTTAC
* *
99857 ATTAAAACTAAGTCTTTTAGGTCATGTAAGTACTTTCATGTTAC
64 ATTAAAACCAAGTCTTTTAGGTCATGTAAGCACTTTCATGTTAC
* *
99901 TAAGGTCATTTTA-GTCATTTTCATCAAAACTAAACTTTTTAGGGTCACTTAAACTTTTTTTACA
1 TAAGGTCA-TTTAGGTCATTTTCAGCAAAACTAAACTTTTTAGGGTCACTTAAACTATTTTTACA
*
99965 TTAAAACCGAGTCTTTTAGGTCATGTAAGCACTTTCAT
65 TTAAAACCAAGTCTTTTAGGTCATGTAAGCACTTTCAT
100003 ATTGACACGT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
105 3 0.04
106 37 0.44
107 45 0.53
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (107 bp):
TAAGGTCATTTAGGTCATTTTCAGCAAAACTAAACTTTTTAGGGTCACTTAAACTATTTTTACAT
TAAAACCAAGTCTTTTAGGTCATGTAAGCACTTTCATGTTAC
Found at i:101804 original size:17 final size:17
Alignment explanation
Indices: 101784--101825 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
101774 TTTTATATTT
*
101784 TTTATTTAGAATATATA
1 TTTATTTAGAATAAATA
101801 TTTAATTT-GAATAAATA
1 TTT-ATTTAGAATAAATA
101818 TTTATTTA
1 TTTATTTA
101826 AGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTATTTAGAATAAATA
Found at i:102046 original size:42 final size:42
Alignment explanation
Indices: 101985--102085 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
101975 AATATAAATA
*
101985 ATATTA-TAAATAAAT-TTTTAATA-AG-AAAATTTATTTTG
1 ATATTATTAAATAATTATTTTAATATAGTAAAATTTATTTTG
* * * *
102023 ATTTTTAGTTAAATAATTATTTTACTATAGTTAATTTTATTTTG
1 A-TATTA-TTAAATAATTATTTTAATATAGTAAAATTTATTTTG
*
102067 ATATTATTACATAATTATT
1 ATATTATTAAATAATTATT
102086 CTATTCAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.02
39 4 0.08
41 8 0.16
42 19 0.38
43 6 0.12
44 12 0.24
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (42 bp):
ATATTATTAAATAATTATTTTAATATAGTAAAATTTATTTTG
Found at i:103280 original size:4 final size:4
Alignment explanation
Indices: 103271--103299 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
103261 AAATAATAAT
103271 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
103300 TATGATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:108211 original size:34 final size:34
Alignment explanation
Indices: 108128--108211 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 34
108118 GTGATCGATA
* * *
108128 GTGGTTTAGTGGGAGAGGGAGATGGAGTTCAATG
1 GTGGTTCAGTGGGAGAGGAAGATAGAGTTCAATG
* * *
108162 GTGGCTC-GATAGGAGAGGAAGATAGAGATT-GATG
1 GTGGTTCAG-TGGGAGAGGAAGATAGAG-TTCAATG
108196 GTGGTTCAGTGGGAGA
1 GTGGTTCAGTGGGAGA
108212 ATGAGATGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
33 1 0.03
34 35 0.90
35 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (34 bp):
GTGGTTCAGTGGGAGAGGAAGATAGAGTTCAATG
Found at i:111045 original size:20 final size:20
Alignment explanation
Indices: 110992--111046 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
110982 AAATTCCCAG
**
110992 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
111012 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
111032 ATGTATCGATACATT
1 ATGTATCGATACATT
111047 TCCTTAGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:111984 original size:49 final size:49
Alignment explanation
Indices: 111822--112597 Score: 501
Period size: 49 Copynumber: 16.4 Consensus size: 49
111812 CAAAGAATGA
* * * * * * *
111822 CAATGTGCTGATTCATGGCCAGCAACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
111869 CAATGTGCTGAGAT-AAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGA-TTCAAGGCCAACGACATTGGTCTTA--AA-GATGAAGGTGC
* * * * * * *
111921 CGATATGCTGATTCAAGGCGAATGATATTGGACTTAAAGATGAAAGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * *
111970 CAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA---TGAAGGTGC
* **
112022 CAATGTGTTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
*
112071 CAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
112120 CAATATGCTGATTCAAGGCCAGCGATATGGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
112159 CAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * ** *
112207 CAATATGCTGATTCAAGGCCAGCGATTTTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
112246 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
112294 TAATATGCTGATTCAATGCCAGCGATATTGAG-C-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTG-GTCTTAAAGATGAAGGTGC
* * * *
112333 CAATGTGCTGATTCACGGCCAACGACATTAGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * *** * * *
112381 CAATATACTGATGCAAGGCTGGCGACCTTAGTCTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT---GAAGGTGC
* * * *
112433 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* ** * *
112482 CAATGTGCTGATTCAAGGTCGGCGACATTAGTCTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
112531 CAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
*
112580 CAATGTGTTGATTCAAGG
1 CAATGTGCTGATTCAAGG
112598 TCGGCGACAT
Statistics
Matches: 574, Mismatches: 107, Indels: 94
0.74 0.14 0.12
Matches are distributed among these distances:
38 1 0.00
39 94 0.16
40 3 0.01
43 1 0.00
47 29 0.05
48 101 0.18
49 229 0.40
50 5 0.01
51 1 0.00
52 110 0.19
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
Found at i:111998 original size:101 final size:98
Alignment explanation
Indices: 111822--112597 Score: 397
Period size: 87 Copynumber: 8.2 Consensus size: 98
111812 CAAAGAATGA
* * * * * * * *
111822 CAATGTGCTGATTCATGGCCAGCAACATTAGACTTGAAGAAG-AA-TGCCAATGTGCTGAGAT-A
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGA-TTCA
* *
111884 AGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
65 AGGCCAACGACATTGGTCTTA-GAA-GTT-AAGGTGC
* * * * **
111921 CGATATGCTGATTCAAGGCGAATGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* * * *
111986 GGCCAGCAACATTGGTTTTAAAGACGGTTAAGGTGC
66 GGCCAACGACATTGGTCTT--AGA-AGTTAAGGTGC
* * * *
112022 CAATGTGTTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* *
112087 AGCCAACGACATTGGTCTTA-AAGATGAAGGTGC
66 GGCCAACGACATTGGTCTTAGAAG-TTAAGGTGC
* * ** * * *
112120 CAATATGCTGATTCAAGGCCAGCGATATGGGGC-T-----T----GTGCCAATATGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* **
112175 GGCCAGCGACATTGGTCTTAG-AGACAAGGTGC
66 GGCCAACGACATTGGTCTTAGAAGTTAAGGTGC
** * ***
112207 CAATATGCTGATTCAAGGCC-A-G----C-GA-TT-TTG-GGCTTGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* **
112262 GGCCAGCGACATTGGTCTTA-AAGACAAGGTGC
66 GGCCAACGACATTGGTCTTAGAAGTTAAGGTGC
* * * *** *
112294 TAATATGCTGATTCAATGCCAGCG--AT---A-TT---GA-GCTTGTGCCAATGTGCTGATTCAC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* **
112349 GGCCAACGACATTAGTCTTAG-AGACAAGGTGC
66 GGCCAACGACATTGGTCTTAGAAGTTAAGGTGC
* * *** * * * * *
112381 CAATATACTGATGCAAGGCTGGCGACCTTAGTCTTAAAGATGACGAAGGCGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGA--AA-GTGCCAATGTGCTGATT
* * * *
112446 CAAGGCCAGCGATATTGGACTTA-AAGATGAAGGTGC
63 CAAGGCCAACGACATTGGTCTTAGAAG-TTAAGGTGC
* * ** * * * * *
112482 CAATGTGCTGATTCAAGGTCGGCGACATTAGTCTTAAAGATGAAGGTGTCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
* * * * *
112547 GGTCAGCGATATTGGACTTA-AAGATGAAGGTGC
66 GGCCAACGACATTGGTCTTAGAAG-TTAAGGTGC
* *
112580 CAATGTGTTGATTCAAGG
1 CAATATGCTGATTCAAGG
112598 TCGGCGACAT
Statistics
Matches: 549, Mismatches: 90, Indels: 77
0.77 0.13 0.11
Matches are distributed among these distances:
80 2 0.00
85 1 0.00
87 165 0.30
88 38 0.07
89 5 0.01
92 1 0.00
93 2 0.00
96 2 0.00
97 3 0.01
98 102 0.19
99 33 0.06
100 38 0.07
101 151 0.28
102 5 0.01
103 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (98 bp):
CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
GGCCAACGACATTGGTCTTAGAAGTTAAGGTGC
Found at i:112171 original size:39 final size:39
Alignment explanation
Indices: 112116--112353 Score: 170
Period size: 39 Copynumber: 5.6 Consensus size: 39
112106 AAAGATGAAG
112116 GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
* * **
112155 GTGCCAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATA-TGG-----G-G-C-TT
* *
112203 GTGCCAATATGCTGATTCAAGGCCAGCGATTTTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
* * * *
112242 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
* * * *
112281 AAAGACAAGGTGCTAATATGCTGATTCAATGCCAGCGATATTGAGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
* *
112329 GTGCCAATGTGCTGATTCACGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
112354 ACGACATTAG
Statistics
Matches: 157, Mismatches: 24, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
39 85 0.54
40 4 0.03
41 1 0.01
42 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 61 0.39
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATGGGGCTT
Found at i:112229 original size:87 final size:87
Alignment explanation
Indices: 112067--112399 Score: 504
Period size: 87 Copynumber: 3.8 Consensus size: 87
112057 AAAGATGAAG
* *
112067 GTGCCAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
*
112132 TCAAGGCCAGCGATATGGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * *
112155 GTGCCAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
112220 CAAGGCCAGCGATTTTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
112242 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
112307 CAATGCCAGCGATATTGAGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * *
112329 GTGCCAATGTGCTGATTCACGGCCAACGACATTAGTCTTAGAGACAAGGTGCCAATATACTGATG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
112394 CAAGGC
66 CAAGGC
112400 TGGCGACCTT
Statistics
Matches: 222, Mismatches: 23, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
87 183 0.82
88 39 0.18
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:112832 original size:33 final size:32
Alignment explanation
Indices: 112701--112888 Score: 162
Period size: 34 Copynumber: 5.7 Consensus size: 32
112691 TATTGGGCTT
* * *
112701 AAAGGTGCCATGGAGTTGTGGACTTATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
112733 AAAGGGATGCCACGAAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA--GAA
* *
112769 AAGGGTGCCACGGAGTCGTGGACTTAAAA-AGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGA-A
* *
112801 AAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
112835 AAAAGTGTCACGGAGTTCTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
* *
112868 AAAGATGCCACGGACTTGTGG
1 AAAGGTGCCACGGAGTTGTGG
112889 GCTTTTGAAG
Statistics
Matches: 122, Mismatches: 25, Indels: 17
0.74 0.15 0.10
Matches are distributed among these distances:
31 1 0.01
32 27 0.22
33 25 0.20
34 61 0.50
35 3 0.02
36 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.19
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:112906 original size:28 final size:28
Alignment explanation
Indices: 112873--112933 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
112863 AGGAAAAAGA
112873 TGCCACGGACTTGTGGGCTTTTGAAGGT
1 TGCCACGGACTTGTGGGCTTTTGAAGGT
*
112901 TGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACGGACTTGTGGGCTTTTGAAGGT
112929 TGCCA
1 TGCCA
112934 TGCTTTATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (28 bp):
TGCCACGGACTTGTGGGCTTTTGAAGGT
Found at i:113155 original size:20 final size:20
Alignment explanation
Indices: 113102--113156 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
113092 AAATTCCCAG
**
113102 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
*
113122 ATGTATTGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
113142 ATGTATCGATACATT
1 ATGTATCGATACATT
113157 TCCTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:123332 original size:12 final size:12
Alignment explanation
Indices: 123311--123343 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
123301 CATGCATGAA
*
123311 ATGAAGGTATGC
1 ATGAAAGTATGC
123323 ATGAAAGTATGC
1 ATGAAAGTATGC
123335 ATGAAAGTA
1 ATGAAAGTA
123344 AAAGCATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (12 bp):
ATGAAAGTATGC
Found at i:123558 original size:14 final size:14
Alignment explanation
Indices: 123530--123577 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
123520 CATTAATTCG
123530 ATTTTTT-TTTATT
1 ATTTTTTATTTATT
123543 ATCTTTTTATTT-TT
1 AT-TTTTTATTTATT
123557 ATTTATTTATTTATTT
1 ATTT-TTTATTTA-TT
123573 ATTTT
1 ATTTT
123578 GTGTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.13
14 16 0.53
15 4 0.13
16 6 0.20
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTATTTATT
Found at i:123562 original size:18 final size:16
Alignment explanation
Indices: 123531--123572 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
123521 ATTAATTCGA
123531 TTTT-TTTTTATTATCT
1 TTTTATTTTTATTAT-T
123547 TTTTATTTTTATTTATT
1 TTTTATTTTTA-TTATT
123564 TATTTATTT
1 T-TTTATTT
123573 ATTTTGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 11 0.48
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTATTATT
Found at i:123566 original size:22 final size:21
Alignment explanation
Indices: 123530--123577 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
123520 CATTAATTCG
*
123530 ATTTTTTTTTATTATCTT-TTT
1 ATTTTTATTTATTAT-TTATTT
123551 ATTTTTATTTATTTATTTATTT
1 ATTTTTATTTA-TTATTTATTT
123573 ATTTT
1 ATTTT
123578 GTGTTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTTTATTTATTATTTATTT
Found at i:124287 original size:42 final size:42
Alignment explanation
Indices: 124250--124607 Score: 310
Period size: 42 Copynumber: 8.5 Consensus size: 42
124240 CAGTCTCCCA
124250 GGTCAAAG-CGACAGGCAGACTGAAGGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCTAG
* * * ** * *
124292 GGTCAAAGCCGACAAGTAGATTTTAGATGAGG-CAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCTAG
* ** *
124334 GGTCAAAGCTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCTAG
* * ** * *
124377 GGTTAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTTTAA
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCTAG
* ** * * *
124420 GGTCAAAGCCGACAAGCAGACTTTAGGTGAGGCAA-TCTCCAA
1 GGTCAAAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCTAG
* * *
124462 GGTCAAAGTCGATAGGCAGATTGAAGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCTAG
* ** * *
124504 GGTCAAAGCCGACAAGCAGACTTTAGATAAGG-CAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCTAG
* * *
124546 GGTCAAAGTCGACAGGCAGACTAAAGGTAGGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCTAG
* *
124588 GGTCGAAGCCGATAGGCAGA
1 GGTCAAAGCCGACAGGCAGA
124608 TTTTAGATAA
Statistics
Matches: 248, Mismatches: 60, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
41 8 0.03
42 153 0.62
43 87 0.35
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCTAG
Found at i:124378 original size:85 final size:84
Alignment explanation
Indices: 124229--124390 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 84
124219 ACAGGCAGAC
** *
124229 TTTAAATGAGGCAGTCTCCCAGGTCAAAGCGACAGGCAGACTGAAGGGTAGGAAAGTCTCTAGGG
1 TTTAAATGAGGCAGTCTCCCAGGTCAAAGCGACAAACAGACTGAAGGGTAAGAAAGTCTCTAGGG
124294 TCAAAGCCGACAAGTAGAT
66 TCAAAGCCGACAAGTAGAT
* *
124313 TTTAGATGAGGCAGTCT-CTAGGGTCAAAGCTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
1 TTTAAATGAGGCAGTCTCCCA-GGTCAAAGC-GACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
*
124377 GGTTAAAGCCGACA
64 GGTCAAAGCCGACA
124391 GGCAGACTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
83 2 0.03
84 25 0.36
85 43 0.61
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (84 bp):
TTTAAATGAGGCAGTCTCCCAGGTCAAAGCGACAAACAGACTGAAGGGTAAGAAAGTCTCTAGGG
TCAAAGCCGACAAGTAGAT
Found at i:124404 original size:128 final size:127
Alignment explanation
Indices: 124250--124567 Score: 365
Period size: 128 Copynumber: 2.5 Consensus size: 127
124240 CAGTCTCCCA
* * *
124250 GGTCAAAG-CGACAGGCAGACTGAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGTAGATT
1 GGTCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
* * *
124314 TTAGATGAGGCAGTCTCTAGGGTCAAAG-CTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
66 TTAGATGAGGCAATCTCCAAGGTCAAAGTC-GACAAACAGACTGAA-GGTAAGAAAGTCTCTAG
* ** * *
124377 GGTTAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTTTAAGGTCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
* * ** * *
124442 TTAGGTGAGGCAATCTCCAAGGTCAAAGTCGATAGGCAGATTGAAGGTAGGAAAGTCTCTAG
66 TTAGATGAGGCAATCTCCAAGGTCAAAGTCGACAAACAGACTGAAGGTAAGAAAGTCTCTAG
* ** * * * *
124504 GGTCAAAGCCGACAAGCAGACTTTA-GATAAGG-CAGTCTCTAGGGTCAAAGTCGACAGGCAGAC
1 GGTCAAAGCCGACAGGCAGACTAAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGAC
124567 T
65 T
124568 AAAGGTAGGA
Statistics
Matches: 159, Mismatches: 29, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
126 29 0.18
127 45 0.28
128 84 0.53
129 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (127 bp):
GGTCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
TTAGATGAGGCAATCTCCAAGGTCAAAGTCGACAAACAGACTGAAGGTAAGAAAGTCTCTAG
Found at i:124601 original size:126 final size:128
Alignment explanation
Indices: 124250--124609 Score: 332
Period size: 128 Copynumber: 2.8 Consensus size: 128
124240 CAGTCTCCCA
* * * ** * * *
124250 GGTCAAAG-CGACAGGCAGACTGAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGTAGATT
1 GGTCAAAGCCGACAAGCAGACTAAAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACT
** * * * * * * * ** *
124314 TTAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
66 AAAGGTGAGGAAATCTCCAAGGTCAAAGCCGATAGGCAGATTGAAGGGTAAGAAAGTCTCTAG
* * * *
124377 GGTTAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTTTAAGGTCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGACAAGCAGACTAAAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACT
** * * *
124442 TTAGGTGAGGCAATCTCCAAGGTCAAAGTCGATAGGCAGATTGAA-GGTAGGAAAGTCTCTAG
66 AAAGGTGAGGAAATCTCCAAGGTCAAAGCCGATAGGCAGATTGAAGGGTAAGAAAGTCTCTAG
** *** * * *
124504 GGTCAAAGCCGACAAGCAGACTTTA-GATAAGGCAGTCTCTAGGGTCAAAGTCGACAGGCAGACT
1 GGTCAAAGCCGACAAGCAGACTAAAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACT
* *
124568 AAAGGT-AGGAAAGTCTCCAGGGTCGAAGCCGATAGGCAGATT
66 AAAGGTGAGGAAA-TCTCCAAGGTCAAAGCCGATAGGCAGATT
124610 TTAGATAAAG
Statistics
Matches: 194, Mismatches: 37, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
125 5 0.03
126 61 0.31
127 44 0.23
128 84 0.43
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (128 bp):
GGTCAAAGCCGACAAGCAGACTAAAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACT
AAAGGTGAGGAAATCTCCAAGGTCAAAGCCGATAGGCAGATTGAAGGGTAAGAAAGTCTCTAG
Found at i:124625 original size:42 final size:41
Alignment explanation
Indices: 124208--124631 Score: 203
Period size: 42 Copynumber: 10.0 Consensus size: 41
124198 AAAGTCTTCA
* * * * * *
124208 GGTCAAGGCCAACAGGCAGACTTTAAATGAGGCAGTCTCCCA-
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAG-AGTCT-CTAG
** *
124250 GGTCAAAG-CGACAGGCAGACTGAAGGGTAGGAA-AGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTTTA-GATA--AAGAGTCTCTAG
* * * * *
124292 GGTCAAAGCCGACAAGTAGATTTTAGATGAGGCAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAG-AGTCTCTAG
* ** ** * *
124334 GGTCAAAGCTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTTTA-GATAA-AGAGTCTCTAG
* ** * * * *
124377 GGTTAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTTTAA
1 GGTCAAAGCCGACAGGCAGACTTTA-GAT-AAAGAGTCTCTAG
* * * * * * *
124420 GGTCAAAGCCGACAAGCAGACTTTAGGTGAGGCAATCTCCAA
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAG-AGTCTCTAG
* * * *
124462 GGTCAAAGTCGATAGGCAGA-TTGAAGGTAGGAA-AGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTT-TAGATA--AAGAGTCTCTAG
* *
124504 GGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAG-AGTCTCTAG
* ** * *
124546 GGTCAAAGTCGACAGGCAGACTAAAGGTAGGAA-AGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTTTAGATA--AAGAGTCTCTAG
* * *
124588 GGTCGAAGCCGATAGGCAGATTTTAGATAAAGTAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAG-AGTCTCTAG
124630 GG
1 GG
124632 AAGAGTAAGA
Statistics
Matches: 287, Mismatches: 74, Indels: 42
0.71 0.18 0.10
Matches are distributed among these distances:
40 4 0.01
41 18 0.06
42 181 0.63
43 79 0.28
44 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (41 bp):
GGTCAAAGCCGACAGGCAGACTTTAGATAAAGAGTCTCTAG
Found at i:124625 original size:84 final size:84
Alignment explanation
Indices: 124325--124631 Score: 344
Period size: 84 Copynumber: 3.6 Consensus size: 84
124315 TAGATGAGGC
* * ** * ** * *
124325 AGTCTCTAGGGTCAAAGCTGACAAACAGACTGAAGGGTAAGAAAGTCTCTAGGGTTAAAGCCGAC
1 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTA-GATAAGGCAGTCTCTAGGGTCAAAGTCGAC
**
124390 AGGCAGACTAAAGGGTAAAAA
65 AGGCAGACTAAA-GGTAGGAA
* * * * * * * *
124411 AGTCTTTAAGGTCAAAGCCGACAAGCAGACTTTAGGTGAGGCAATCTCCAAGGTCAAAGTCGATA
1 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGTCGACA
* *
124476 GGCAGATTGAAGGTAGGAA
66 GGCAGACTAAAGGTAGGAA
124495 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGTCGACA
1 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGTCGACA
124560 GGCAGACTAAAGGTAGGAA
66 GGCAGACTAAAGGTAGGAA
* * * * * * *
124579 AGTCTCCAGGGTCGAAGCCGATAGGCAGATTTTAGATAAAGTAGTCTCTAGGG
1 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGG
124632 AAGAGTAAGA
Statistics
Matches: 185, Mismatches: 36, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
84 126 0.68
85 31 0.17
86 28 0.15
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (84 bp):
AGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGTCGACA
GGCAGACTAAAGGTAGGAA
Found at i:124722 original size:107 final size:106
Alignment explanation
Indices: 124537--124738 Score: 269
Period size: 107 Copynumber: 1.9 Consensus size: 106
124527 TAGATAAGGC
* * * ** * *
124537 AGTCTCTAGGGTCAAAGTCGACAGGCAGACTAAAGGTAGGAAAGTCTCCAGGGTCGAAGCCGATA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAAAAGTCTACAGGGTCAAAGCCGATA
* * *
124602 GGCAGATTTTAGATAAAGTAGTCTCTAGGGAAGAGTAAGAA
66 GGCAAACTTTAGATAAAGCAGTCTCTAGGGAAGAGTAAGAA
* *
124643 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAAAAAGTCTACAGGGTCAAAGTCGAT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAAGGTAAAAAAGTCTACAGGGTCAAAGCCGAT
* *
124708 AGGCAAACTTTAGATGAGGCAGTCTCTAGGG
65 AGGCAAACTTTAGATAAAGCAGTCTCTAGGG
124739 TCAAAGCCGA
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 28 0.35
107 53 0.65
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.19
Consensus pattern (106 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAAAAGTCTACAGGGTCAAAGCCGATA
GGCAAACTTTAGATAAAGCAGTCTCTAGGGAAGAGTAAGAA
Found at i:124774 original size:42 final size:42
Alignment explanation
Indices: 124631--125223 Score: 329
Period size: 42 Copynumber: 14.0 Consensus size: 42
124621 AGTCTCTAGG
* * *
124631 GAAGAGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT
1 GAAG-GTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
** * * *
124674 GAAGGGTAAAAAAGTCTAC-AGGGTCAAAGTCGATAGGCAAACT
1 GAA-GGTAGGAAAGTCT-CTAGGGTCAAAGCCGACAGGCAGACT
** * * *
124717 TTAGATGAGG-CAGTCTCTAGGGTCAAAGCCGATAGGCAGACT
1 GAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * * * *
124759 GAAGGCAGGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACT
1 GAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
** * * ** * ** *
124801 TCAGATGAGGCAA-TCTCTATAGTCAAAGCCGATAGATAGATT
1 GAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* *
124843 GAAGGTAGGAAAGTCTTTAGGGTCAAAGCCAACAGGCAGACT
1 GAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
** * * * * * *
124885 TTAGATAAGG-CAGTCTCTAAGGTAAAAGCTGATAGGCAGACT
1 GAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * *
124927 GAAGGGTAAGAAAGTCTCTAGGGTCAAAGCGGACAGGCAAACT
1 GAA-GGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * * * ** *
124970 GAAAGGTAAGAATGTCTTTAAGGTCAAAGCTAACACGCAGACT
1 G-AAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * * * * *
125013 AAAGGTAGAAAAGTCTCCAAGGTCAAAGTCGACAAGCAGACT
1 GAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * * ** * *
125055 -AAGGGCAAGAAAGTCTTTAGGGTCAAAGCTTACAGGTAGATTT
1 GAA-GGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGA-CT
* * * *
125098 G-AGATGAAGAAAGTCTCTAGGGTCAAAGCTGACAGGTAGACTT
1 GAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC-T
* * * * *
125141 TAA-ATGAGG-CAGTCTCCAGGGTCAAAGTCGACAGGCAGACT
1 GAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* * * * * *
125182 AAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGATAGGTAGACT
1 GAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
125224 TTAGATAAGG
Statistics
Matches: 413, Mismatches: 118, Indels: 39
0.72 0.21 0.07
Matches are distributed among these distances:
41 16 0.04
42 247 0.60
43 145 0.35
44 5 0.01
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (42 bp):
GAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
Found at i:124818 original size:84 final size:84
Alignment explanation
Indices: 124652--126212 Score: 473
Period size: 84 Copynumber: 18.4 Consensus size: 84
124642 AAGTCTCCAA
** * * *
124652 GGTCAAAGCCGACAGGCAGACTGAAGGGTAAAAAAGTCTACAGGGTCAAAG-TCGATAGGCAAAC
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGAC
*
124716 TTTAGATGAGGCAGTCTCTAG
64 TTTAGATGAGGCAATCTCTAG
* * * *
124737 GGTCAAAGCCGATAGGCAGACTGAAGGCAGGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* *
124802 CAGATGAGGCAATCTCTAT
66 TAGATGAGGCAATCTCTAG
* * ** * ** **
124821 AGTCAAAGCCGATAGATAGATTGAAGGTAGGAAAGTCTTTAGGGTCAAAGCCAACAGGCAGACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * *
124886 TAGATAAGGCAGTCTCTAA
66 TAGATGAGGCAATCTCTAG
* * * * * * *
124905 GGTAAAAGCTGATAGGCAGACTGAAGGGTAAGAAAGTCTCTAGGGTCAAAGCGGACAGGCAAAC-
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
* * * * * *
124969 TGAAAGGTAAG-AATGTCTTTAA
65 TTAGATG-AGGCAA--TCTCTAG
** * * * * *
124991 GGTCAAAGCTAACACGCAGACTAAAGGTAGAAAAGTCTCCAAGGTCAAAG-TCGACAAGCAGAC-
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACT
* * * * *
125054 TAAG-GGCAAGAAAGTCTTTAG
65 TTAGATG-AGGCAA-TCTCTAG
** * * * * * *
125075 GGTCAAAGCTTACAGGTAGATTTG-AGATGAAGAAAGTCTCTAGGGTCAAAGCTGACAGGTAGAC
1 GGTCAAAGCCGACAGGCAGA-CTGAAGGT-AGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGAC
* * *
125139 TTTAAATGAGGCAGTCTCCAG
64 TTTAGATGAGGCAATCTCTAG
* * * * * * *
125160 GGTCAAAGTCGACAGGCAGACTAAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGATAGGTAGACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * *
125225 TAGATAAGGTAGTCTCTAGGGAAG
66 TAGATGAGGCAATCTCT-----AG
* ** * * * * * ** * * *
125249 GGTAAGAAAGTTTCC-A-AGTTTAAATTTAA--TAGG-CAGACTTGA-GATGAAGGTAGTCT-CC
1 GGT--CAAAG---CCGACAG-GCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAA---AG-CTGAC
** * * *
125307 AAGGTCA-A-AGTCGAT-AAGCAGA-CTTTA-
56 -AGG-CAGACTTTAGATGAGGCA-ATCTCTAG
* * * * ** * * * *
125334 GAT--AAG--G-TAGTCTCGAGGGAAAGGTAAGAAAGTTTCCAAGGTTAAAG-TCGACAGGCAGA
1 GGTCAAAGCCGACAGGC-AGACTG-AAGGTAGGAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGA
* * *
125393 CTTGAGATGAGGAAAGCCTCTAG
63 CTTTAGATGAGGCAA-TCTCTAG
* ** * * * * * *
125416 GGTCAAAGACGACAGGCAGACTTTAGATGAGG-CAGTCTCCAGGGTTAAAG-TCGATAAGTAGA-
1 GGTCAAAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGAC
* * * *
125478 --TAGAAGTGTAAGAAAGTCTCCAT
64 TTTAG-A-TG-AGGCAA-TCTCTAG
* * * * * * * * *
125501 GGTCAAAGCCGATAGGCAAACTGAAGGGTAAGAACGTCTCTAGGGTTAAAGCCGACAAGCAAACT
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
** * * * *
125566 GAAGGT-AGGAAAGTCTCCAA
65 TTAGATGAGGCAA-TCTCTAG
* * * * * * *
125586 GGTCAAAGTCGACAAGTAGACTGAGGGCAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGA-TT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * *
125650 TGAGATTAGGAAAGTCTCTAA
66 T-AGATGAGGCAA-TCTCTAG
* * ** ** * ** * * *
125671 GGTCAAAGCCGACAAGTAGACTTTATATGGGTCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTA
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * ** * *
125736 AAGGT-AGTAAAGTCTCCAA
66 TAGATGAGGCAA-TCTCTAG
* ** * * * * *
125755 GGTCAAAGCCGATAGGCAGACTTTAGATGAGG-CAGTCTCTAGGATCAAAGCTGATAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
** * * * *
125819 GAAGGT-AGGAAAGTCTCCAA
65 TTAGATGAGGCAA-TCTCTAG
* * * * * * * * *
125839 GGTCAAAGCCGACAGGCAAATTTG-AGATTAGGAAAGTCTCTAAGGTCAAAGCCGACAAGTAGAA
1 GGTCAAAGCCGACAGGCAGA-CTGAAG-GTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGAC
*
125903 TTTAGATGAGGCAGTCTCTAG
64 TTTAGATGAGGCAATCTCTAG
* * *
125924 GGTCAAAGCCGACAGGCAAACTAAAGGTAGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * *
125989 TAGATAAGGTAGTCTCTAG
66 TAGATGAGGCAATCTCTAG
* * * * * * *
126008 GGTCAAAGCCAATAGGCAGACTGAAGGTAGGAAAGTCTCTAAGGTCAAAG-TCAACAAGTAGACT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACT
* * * *
126072 TGAGATAAGGCAGTCTCTAA
65 TTAGATGAGGCAATCTCTAG
* * * * * * * *
126092 GGTCAAAGCCGATAGGCAAACTAAATGTAAGAAAGTATCCAGGGTCAAAGCCGACAAGCAGACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
* * * *
126157 TAGGTGAGGTAGTCT-TCAA
66 TAGATGAGGCAATCTCT-AG
* * *
126176 GGTCAAAG-TGACAGGTAGACTGAAGGGTAAGAAAGTC
1 GGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTC
126213 CATATGGTTT
Statistics
Matches: 1106, Mismatches: 295, Indels: 151
0.71 0.19 0.10
Matches are distributed among these distances:
76 1 0.00
77 6 0.01
78 6 0.01
79 7 0.01
80 6 0.01
81 11 0.01
82 8 0.01
83 15 0.01
84 562 0.51
85 362 0.33
86 67 0.06
87 5 0.00
89 11 0.01
90 5 0.00
91 13 0.01
92 8 0.01
93 11 0.01
94 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (84 bp):
GGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
TAGATGAGGCAATCTCTAG
Found at i:124852 original size:275 final size:275
Alignment explanation
Indices: 124356--124903 Score: 727
Period size: 275 Copynumber: 2.0 Consensus size: 275
124346 CAAACAGACT
* * * * **
124356 GAAGGGTAAGAAAGTCTCTAGGGTTAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTTTAAG
1 GAAGAGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTACAAG
* * * *
124421 GTCAAAGCCGACAAGCAGACTTTAGGTGAGGCAATCTCCAAGGTCAAAGTCGATAGGCAGATTGA
66 GTCAAAGCCGACAAGCAAACTTTAGATGAGGCAATCTCCAAGGTCAAAGCCGATAGGCAGACTGA
* * * * * *
124486 AGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATAAGGCAGTCTCTAGGGTCA
131 AGGCAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTCAGATAAGGCAATCTCTAGAGTCA
* * * * * *
124551 AAGTCGACAGGCAGACTAAAGGTAGGAAAGTCTCCAGGGTCGAAGCCGATAGGCAGATTTTAGAT
196 AAGCCGACAGACAGACTAAAGGTAGGAAAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTTAGAT
*
124616 AAAGTAGTCTCTAGG
261 AAAGCAGTCTCTAGG
* *
124631 GAAGAGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAAAAAGTCTACAGG
1 GAAGAGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTACAAG
* * * * * *
124696 GTCAAAGTCGATAGGCAAACTTTAGATGAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTGA
66 GTCAAAGCCGACAAGCAAACTTTAGATGAGGCAATCTCCAAGGTCAAAGCCGATAGGCAGACTGA
* * *
124761 AGGCAGGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTTCAGATGAGGCAATCTCTATAGTCA
131 AGGCAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTCAGATAAGGCAATCTCTAGAGTCA
* * * * **
124826 AAGCCGATAGATAGATTGAAGGTAGGAAAGTCTTTAGGGTCAAAGCCAACAGGCAGACTTTAGAT
196 AAGCCGACAGACAGACTAAAGGTAGGAAAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTTAGAT
*
124891 AAGGCAGTCTCTA
261 AAAGCAGTCTCTA
124904 AGGTAAAAGC
Statistics
Matches: 232, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
275 232 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (275 bp):
GAAGAGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGGTAAAAAAGTCTACAAG
GTCAAAGCCGACAAGCAAACTTTAGATGAGGCAATCTCCAAGGTCAAAGCCGATAGGCAGACTGA
AGGCAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTCAGATAAGGCAATCTCTAGAGTCA
AAGCCGACAGACAGACTAAAGGTAGGAAAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTTAGAT
AAAGCAGTCTCTAGG
Found at i:125026 original size:85 final size:83
Alignment explanation
Indices: 124844--125210 Score: 253
Period size: 85 Copynumber: 4.3 Consensus size: 83
124834 AGATAGATTG
* * ** * * *
124844 AAGGTAG-GAAAGTCTTTAGGGTCAAAGCCAACAGGCAGACTTTAGATAAGGCAGTCTCTAAGGT
1 AAGGTAGAGAAAGTCTCTAGGGTCAAAG-CGACAGGCAGACTAAAGGTAA-GAAGTCTTTAAGGT
* * *
124908 AAAAGCTGATAGGCAGACTGA
64 CAAAGCTAACAGGCAGACT-A
* *
124929 AGGGTA-AGAAAGTCTCTAGGGTCAAAGCGGACAGGCAAACTGAAAGGTAAGAATGTCTTTAAGG
1 AAGGTAGAGAAAGTCTCTAGGGTCAAAGC-GACAGGCAGACT-AAAGGTAAGAA-GTCTTTAAGG
*
124993 TCAAAGCTAACACGCAGACTA
63 TCAAAGCTAACAGGCAGACTA
* * * * * *
125014 AAGGTAGA-AAAGTCTCCAAGGTCAAAGTCGACAAGCAGACTAAGGGCAAGAAAGTCTTTAGGGT
1 AAGGTAGAGAAAGTCTCTAGGGTCAAAG-CGACAGGCAGACTAAAGGTAAG-AAGTCTTTAAGGT
* * * *
125078 CAAAGCTTACAGGTAGATTT
64 CAAAGCTAACAGGCAGACTA
* * * * * * ** *
125098 GAGAT-GAAGAAAGTCTCTAGGGTCAAAGCTGACAGGTAGACTTTAAATG-AGGCAGTCTCCAGG
1 AAGGTAG-AGAAAGTCTCTAGGGTCAAAGC-GACAGGCAGAC--TAAAGGTAAGAAGTCTTTAAG
*
125161 GTCAAAG-TCGACAGGCAGACTA
62 GTCAAAGCT-AACAGGCAGACTA
* *
125183 AAGGTAGA-AAAGTCTCCAAGGTCAAAGC
1 AAGGTAGAGAAAGTCTCTAGGGTCAAAGC
125211 CGATAGGTAG
Statistics
Matches: 222, Mismatches: 46, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
83 1 0.00
84 57 0.26
85 125 0.56
86 35 0.16
87 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (83 bp):
AAGGTAGAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAAAGGTAAGAAGTCTTTAAGGTCA
AAGCTAACAGGCAGACTA
Found at i:125219 original size:127 final size:124
Alignment explanation
Indices: 124642--125245 Score: 393
Period size: 127 Copynumber: 4.8 Consensus size: 124
124632 AAGAGTAAGA
*
124642 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAAAAAGTCTAC-AGGGTCAAAGTCG
1 AAGTCTCCAAGGTCAAAG-CGACAGGCAGACT-AAGGGT-AAAAAGTCT-CTAGGGTCAAAGCCG
* * ** * * *
124706 ATAGGCAAACTTT-AGATG-AGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTGAAGGCAGG
62 ATAGGTAGA-TTTGAGATGAAGAAAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGCAGG
* * * ** **
124768 AAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTTCA-GATGAGGCAA-TCTCTATAGTCAAAGCC
1 -AAGTCTCCAAGGTCAAAGC-GACAGGCAGAC-TAAGGGT-A-AAAAGTCTCTAGGGTCAAAGCC
* * * * ** **
124831 GATAGATAGA-TTGA-AGGTAGGAAAGTCTTTAGGGTCAAAGCCAACAGGCAGACTTTAGATAAG
61 GATAGGTAGATTTGAGATG-AAGAAAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAG-GCAG
124894 G
124 G
* * * * *
124895 CAGTCTCTAAGGTAAAAGCTGATAGGCAGACTGAAGGGTAAGAAAGTCTCTAGGGTCAAAGCGGA
1 AAGTCTCCAAGGTCAAAGC-GACAGGCAGACT-AAGGGTAA-AAAGTCTCTAGGGTCAAAGCCGA
* * ** * * * * * * * * *
124960 CAGGCA-AACTGAAAGGTAAGAATGTCTTTAAGGTCAAAGCTAACACGCAGACTAAAGGTAGAA
63 TAGGTAGATTTGAGATG-AAGAAAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGCAG-G
* * * ** *
125023 AAGTCTCCAAGGTCAAAGTCGACAAGCAGACTAAGGGCAAGAAAGTCTTTAGGGTCAAAGCTTAC
1 AAGTCTCCAAGGTCAAAG-CGACAGGCAGACTAAGGGTAA-AAAGTCTCTAGGGTCAAAGCCGAT
** * *
125088 AGGTAGATTTGAGATGAAGAAAGTCTCTAGGGTCAAAGCTGACAGGTAGACTTTAAATG-AGG
64 AGGTAGATTTGAGATGAAGAAAGTCTCTAGGGTCAAAGCCAACAGGCAGAC--TAAAGGCAGG
* * * * *
125150 CAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGAT
1 AAGTCTCCAAGGTCAAAG-CGACAGGCAGACTAAGGGTA-AAAAGTCTCTAGGGTCAAAGCCGAT
**
125215 AGGTAGACTTT-AGAT-AAGGTAGTCTCTAGGG
64 AGGTAGA-TTTGAGATGAAGAAAGTCTCTAGGG
125246 AAGGGTAAGA
Statistics
Matches: 372, Mismatches: 84, Indels: 43
0.75 0.17 0.09
Matches are distributed among these distances:
124 4 0.01
125 3 0.01
126 99 0.27
127 185 0.50
128 75 0.20
129 6 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (124 bp):
AAGTCTCCAAGGTCAAAGCGACAGGCAGACTAAGGGTAAAAAGTCTCTAGGGTCAAAGCCGATAG
GTAGATTTGAGATGAAGAAAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGCAGG
Found at i:125379 original size:107 final size:107
Alignment explanation
Indices: 125155--125459 Score: 353
Period size: 107 Copynumber: 2.9 Consensus size: 107
125145 TGAGGCAGTC
* * * ** * * * *
125155 TCCAGGGTCAAAGTCGACAGGCAGACTAAAGGT-AGAAAAGTCTCCAAGGTCAAAGCCGATAGGT
1 TCCAAGGTTAAAGTCAACAGGCAGACTTGAGATGAGGAAAGTCTCCAAGGTCAAAGACGATAGGC
* *
125219 AGACTTTAGATAAGGTAGTCTCTAGGGAAGGGTAAGAAAGTT
66 AGACTTTAGATAAGGTAGTCTCCAGGGAAAGGTAAGAAAGTT
* * * * * * *
125261 TCCAAGTTTAAATTTAATAGGCAGACTTGAGATGAAGG-TAGTCTCCAAGGTCAAAGTCGATAAG
1 TCCAAGGTTAAAGTCAACAGGCAGACTTGAGATG-AGGAAAGTCTCCAAGGTCAAAGACGATAGG
*
125325 CAGACTTTAGATAAGGTAGTCTCGAGGGAAAGGTAAGAAAGTT
65 CAGACTTTAGATAAGGTAGTCTCCAGGGAAAGGTAAGAAAGTT
* * * * *
125368 TCCAAGGTTAAAGTCGACAGGCAGACTTGAGATGAGGAAAGCCTCTAGGGTCAAAGACGACAGGC
1 TCCAAGGTTAAAGTCAACAGGCAGACTTGAGATGAGGAAAGTCTCCAAGGTCAAAGACGATAGGC
* *
125433 AGACTTTAGATGAGGCAGTCTCCAGGG
66 AGACTTTAGATAAGGTAGTCTCCAGGG
125460 TTAAAGTCGA
Statistics
Matches: 164, Mismatches: 32, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
106 26 0.16
107 136 0.83
108 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (107 bp):
TCCAAGGTTAAAGTCAACAGGCAGACTTGAGATGAGGAAAGTCTCCAAGGTCAAAGACGATAGGC
AGACTTTAGATAAGGTAGTCTCCAGGGAAAGGTAAGAAAGTT
Found at i:125600 original size:42 final size:42
Alignment explanation
Indices: 125354--126212 Score: 475
Period size: 42 Copynumber: 20.3 Consensus size: 42
125344 TCTCGAGGGA
* * * *
125354 AAGGTAAGAAAGTTTCCAAGGTTAAAGTCGACAGGCAGACTTG
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TG
* * * * * *
125397 -AGATGAGGAAAGCCTCTAGGGTCAAAGACGACAGGCAGACTT
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * * * * *
125439 TAGATGAGG-CAGTCTCCAGGGTTAAAGTCGATAAGTAGA-TAG
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-G
* * * *
125481 AAGTGTAAGAAAGTCTCCATGGTCAAAGCCGATAGGCAAACTG
1 AAG-GTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * * *
125524 AAGGGTAAGAACGTCTCTAGGGTTAAAGCCGACAAGCAAACTG
1 AA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * *
125567 AAGGTAGGAAAGTCTCCAAGGTCAAAGTCGACAAGTAGACTG
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * *
125609 AGGGCAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGATTTG
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTG
* * * * *
125652 -AGATTAGGAAAGTCTCTAAGGTCAAAGCCGACAAGTAGACTT
1 AAG-GTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* ** * ** * * *
125694 TATATGGGTCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTA
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * *
125736 AAGGTAGTAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTT
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * *
125778 TAGATGAGG-CAGTCT-CTAGGATCAAAGCTGATAGGCAGACTG
1 AAGGT-AGGAAAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTG
* *
125820 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTTG
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTG
* * * * * *
125863 -AGATTAGGAAAGTCTCTAAGGTCAAAGCCGACAAGTAGAATT
1 AAG-GTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * * *
125905 TAGATGAGG-CAGTCTCTAGGGTCAAAGCCGACAGGCAAACTA
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * *
125947 AAGGTAGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * * *
125989 TAGATAAGG-TAGTCTCTAGGGTCAAAGCCAATAGGCAGACTG
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * *
126031 AAGGTAGGAAAGTCTCTAAGGTCAAAGTCAACAAGTAGACTTG
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TG
* * * * * *
126074 -AGATAAGG-CAGTCTCTAAGGTCAAAGCCGATAGGCAAACTA
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * * *
126115 AATGTAAGAAAGTATCCAGGGTCAAAGCCGACAAGCAGACTT
1 AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
* * * * *
126157 TAGGTGAGG-TAGTCTTCAAGGTCAAAG-TGACAGGTAGACTG
1 AAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
*
126198 AAGGGTAAGAAAGTC
1 AA-GGTAGGAAAGTC
126213 CATATGGTTT
Statistics
Matches: 619, Mismatches: 169, Indels: 57
0.73 0.20 0.07
Matches are distributed among these distances:
41 29 0.05
42 405 0.65
43 183 0.30
44 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (42 bp):
AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG
Found at i:125669 original size:127 final size:127
Alignment explanation
Indices: 125356--126212 Score: 544
Period size: 127 Copynumber: 6.8 Consensus size: 127
125346 TCGAGGGAAA
* * * * *
125356 GGTAAGAAAGTTTCCAAGGTTAAAGTCGACAGGCAGACTTGAGATGAGGAAAGCCTCTAGGGTCA
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATGAGGAAAGTCTCTAGGGTCA
* ** * * * * * *
125421 AAGACGACAGGCAGACTTTAGATGAGG-CAGTCTCCAGGGTTAAAGTCGATAAGTAGA-TAGAAG
66 AAGCCGACAGGCAGACTGAAGGT-AGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT-G-AG
* * * ** * * *
125484 TGTAAGAAAGTCTCCATGGTCAAAGCCGATAGGCA-AACTGA-AGGGTAAGAACGTCTCTAGGGT
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGA-TG-AGGAAAGTCTCTAGGGT
* * * * * *
125547 TAAAGCCGACAAGCAAACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGTCGACAAGTAGACTGAG
64 CAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTGAG
* * * *
125611 GGCAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCA
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATGAGGAAAGTCTCTAGGGTCA
* * ** ** * ** * * * *
125676 AAGCCGACAAGTAGACTTTATATGGGTCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAA
66 AAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTGAG
* * *
125738 GGT-AGTAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTT-AGATGAGG-CAGTCTCTAGGAT
1 GGTAAG-AAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-TTTGAGATGAGGAAAGTCTCTAGGGT
* * * * * *
125800 CAAAGCTGATAGGCAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTTGAG
64 CAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGA-CTGAG
** * * * * *
125865 ATTAGGAAAGTCTCTAAGGTCAAAGCCGACAAGTAGAATTT-AGATGAGG-CAGTCTCTAGGGTC
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAG-ATTTGAGATGAGGAAAGTCTCTAGGGTC
* * * * * *
125928 AAAGCCGACAGGCAAACTAAAGGTAGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTA-
65 AAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGAC-TGAG
* ** * * * * * * *
125991 GATAAGGTAGTCTCTAGGGTCAAAGCCAATAGGCAGA-CTGA-AGGTAGGAAAGTCTCTAAGGTC
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATG-AGGAAAGTCTCTAGGGTC
* * * * * * * * * * * * *
126054 AAAGTCAACAAGTAGACTTG-AGATAAGG-CAGTCTCTAAGGTCAAAGCCGATAGGCAAACTAAA
65 AAAGCCGACAGGCAGAC-TGAAGGT-AGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTGAG
* * * * * * *
126117 TGTAAGAAAGTATCCAGGGTCAAAGCCGACAAGCAGACTTT-AGGTGAGG-TAGTCT-TCAAGGT
1 GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-TTTGAGATGAGGAAAGTCTCT-AGGGT
* * *
126179 CAAAG-TGACAGGTAGACTGAAGGGTAAGAAAGTC
64 CAAAGCCGACAGGCAGACTGAA-GGTAGGAAAGTC
126213 CATATGGTTT
Statistics
Matches: 563, Mismatches: 141, Indels: 52
0.74 0.19 0.07
Matches are distributed among these distances:
124 5 0.01
125 20 0.04
126 185 0.33
127 252 0.45
128 99 0.18
129 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (127 bp):
GGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATGAGGAAAGTCTCTAGGGTCA
AAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTGAG
Found at i:125805 original size:169 final size:167
Alignment explanation
Indices: 125536--125987 Score: 401
Period size: 169 Copynumber: 2.7 Consensus size: 167
125526 GGGTAAGAAC
* * *
125536 GTCTCTAGGGTTAAAGCCGACAAGCAAACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGTCGACAA
1 GTCTCTAGGGTCAAAGCCGACAAGCAAACTAAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAA
* * * *
125601 GTAGACTGAGGGCAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGATTTG-AGATTAGGAAAGT
66 GCAGACTGAGGG-AAGAAAGTCTCCAGGATCAAAGCCGACAGGCAGA-CTGAAG-GTAGGAAAGT
*
125665 CTCTAAGGTCAAAGCCGACAAGTAGACTTTATATGGGTCA
128 CTCCAAGGTCAAAGCCGACAAGTAGACTTTATATGGGTCA
* * * * *
125705 GTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGTAAAGTCTCCAAGGTCAAAGCCGATAG
1 GTCTCTAGGGTCAAAGCCGACAAGCAAACTAAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAA
* * ** * * *
125770 GCAGACTTTAGATG-AGGCAGTCTCTAGGATCAAAGCTGATAGGCAGACTGAAGGTAGGAAAGTC
66 GCAGAC-TGAG-GGAAGAAAGTCTCCAGGATCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTC
* * * * * **
125834 TCCAAGGTCAAAGCCGACAGGCA-AATTTGAGATTAGGAAA
129 TCCAAGGTCAAAGCCGACAAGTAGACTTT-ATA-TGGGTCA
* * ** * * * *
125874 GTCTCTAAGGTCAAAGCCGACAAGTAGAA-TTTAGATGAGG-CAGTCTCTAGGGTCAAAGCCGAC
1 GTCTCTAGGGTCAAAGCCGACAAGCA-AACTAAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGAC
* * * * * * *
125937 AGGCAAACTAAAGGTAGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
64 AAGCAGACTGAGGGAAG-AAAGTCTCCAGGATCAAAGCCGACAGGCAGACT
125988 TTAGATAAGG
Statistics
Matches: 226, Mismatches: 48, Indels: 18
0.77 0.16 0.06
Matches are distributed among these distances:
167 5 0.02
168 38 0.17
169 176 0.78
170 6 0.03
171 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (167 bp):
GTCTCTAGGGTCAAAGCCGACAAGCAAACTAAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAA
GCAGACTGAGGGAAGAAAGTCTCCAGGATCAAAGCCGACAGGCAGACTGAAGGTAGGAAAGTCTC
CAAGGTCAAAGCCGACAAGTAGACTTTATATGGGTCA
Found at i:125845 original size:211 final size:211
Alignment explanation
Indices: 125616--126103 Score: 755
Period size: 211 Copynumber: 2.3 Consensus size: 211
125606 CTGAGGGCAA
*
125616 GAAAGTCTCCAGGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
1 GAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
* * * *
125681 GACAAGTAGACTTTATATG-GGTCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGTA
66 GACAAGTAGAATTTAGATGAGG-CAGTCTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGTAGAA
* * **
125745 AAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATGAGGCAGTCTCTAGGATCAAAGCTGAT
130 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGATCAAAGCCAAT
125810 AGGCAGACTGAAGGTAG
195 AGGCAGACTGAAGGTAG
*
125827 GAAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
1 GAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
125892 GACAAGTAGAATTTAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGTAGAAA
66 GACAAGTAGAATTTAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGTAGAAA
* * * *
125957 AGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATAAGGTAGTCTCTAGGGTCAAAGCCAATA
131 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGATCAAAGCCAATA
126022 GGCAGACTGAAGGTAG
196 GGCAGACTGAAGGTAG
* * * * * * * *
126038 GAAAGTCTCTAAGGTCAAAGTCAACAAGTAGACTTGAGATAAGG-CAGTCTCTAAGGTCAAAGCC
1 GAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
126102 GA
66 GA
126104 TAGGCAAACT
Statistics
Matches: 253, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
210 21 0.08
211 230 0.91
212 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (211 bp):
GAAAGTCTCCAAGGTCAAAGCCGACAGGCAGATTTGAGATTAGGAAAGTCTCTAAGGTCAAAGCC
GACAAGTAGAATTTAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAAACTAAAGGTAGAAA
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGATCAAAGCCAATA
GGCAGACTGAAGGTAG
Found at i:128177 original size:20 final size:20
Alignment explanation
Indices: 128135--128188 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
128125 AAGTACCCAG
* * *
128135 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACATGTATCA
*
128155 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
*
128175 ATGTATAGATACAT
1 ATGTATCGATACAT
128189 TCTGTCTTTT
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:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:133961 original size:13 final size:13
Alignment explanation
Indices: 133943--133968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
133933 CAATTTTTGG
133943 TGTATCGATACAT
1 TGTATCGATACAT
133956 TGTATCGATACAT
1 TGTATCGATACAT
133969 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133980 original size:32 final size:33
Alignment explanation
Indices: 133923--133986 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
133913 TACAAGCCAA
**
133923 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
133956 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
133987 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:133993 original size:19 final size:18
Alignment explanation
Indices: 133923--133993 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
133913 TACAAGCCAA
133923 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
133943 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
133956 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
133975 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
133994 CTATTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:137020 original size:79 final size:78
Alignment explanation
Indices: 136855--137055 Score: 226
Period size: 79 Copynumber: 2.5 Consensus size: 78
136845 GATAATAACA
* * * *
136855 GGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCAGTTGTGAGAAATCGATGATT
1 GGGTTGGAGT-ATCCCTTGAAAATAACGGGGTTGGAGTATCCCCAGTTATGAGAAATCAATGATT
*
136920 AGAAAAAAAAATCG
65 AGAAAAAAAAACCG
*
136934 GGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCCA-TTATGAGAAATCAAT-AT
1 GGGTTGGAGTATCCCTT-GAAAATAACGGGGTTGGAGTATCC-CCAGTTATGAGAAATCAATGA-
* ** * *
136997 TTTGGGAATAAAGCCG
63 TTAGAAAAAAAAACCG
* *
137013 GGGTTGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCC
1 GGGTTGGAGTAT-CCCTTGAAAATAACGGGGTTGGAGTATCCC
137056 GATGAAATAA
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
78 8 0.08
79 88 0.85
80 8 0.08
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTTGAAAATAACGGGGTTGGAGTATCCCCAGTTATGAGAAATCAATGATTA
GAAAAAAAAACCG
Found at i:137051 original size:28 final size:27
Alignment explanation
Indices: 137011--137081 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
137001 GGAATAAAGC
* *
137011 CGGGGTTGGAGTATCCCCTTGGAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAATAA
*
137039 CGGGGTTGGAGTATCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCATGAAATAA
*
137066 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
137082 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:137126 original size:107 final size:105
Alignment explanation
Indices: 136932--137348 Score: 309
Period size: 107 Copynumber: 3.9 Consensus size: 105
136922 AAAAAAAAAT
* * * * * *
136932 CGGGATTGGAGTATCCC-TTCGAAAATAACGGGGTTGGAGTATCCTCC-ATTATGAGAAATCAAT
1 CGGGATTGGAGTATCCCGAT-G-AAATAACGAGGTTGGAGTATCC-CCGATTGTGAAAAATTAGT
* * * *
136995 A-TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAGTAA
63 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC-T-GAAATAA
* * *
137039 CGGGGTTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATT
1 CGGGATTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATT
** *
137104 TTTGGAAATAAAATTGGAGTTGGAGTATCCCC-G-ATTAA
66 TTTGGAAATAAAACCGGAGTTGGAGTATCCCCTGAAATAA
* * * ** * *
137142 AGGAAAATTGGCGT-T-TTGA--AAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAGTT
1 CGG--GATTGGAGTATCCCGATGAAAT--AACGAGG-TTGGAGTATCCCCGATTGT-GAAAAATT
* *
137203 AGTGTTTTAGCG--ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAA
60 AGTATTTTTG-GAAATAAAACCGGAGTTGGAGTATCCCCT--GAAATAA
* * * *
137250 CGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTG
1 CGGGATTGGAGTAT-CCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-
* * *
137314 TTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
63 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
137349 GATTATAGAA
Statistics
Matches: 242, Mismatches: 45, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
101 4 0.02
103 14 0.06
104 43 0.18
105 21 0.09
106 43 0.18
107 73 0.30
108 17 0.07
109 25 0.10
110 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (105 bp):
CGGGATTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATT
TTTGGAAATAAAACCGGAGTTGGAGTATCCCCTGAAATAA
Found at i:137139 original size:52 final size:52
Alignment explanation
Indices: 137070--137239 Score: 150
Period size: 52 Copynumber: 3.3 Consensus size: 52
137060 AAATAACGAG
* **
137070 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAACAGGA
** * ** *
137122 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAA-CAGGA
* * * * *
137175 -TTGGAGTATCCCCGATTGTGGAAAAGTTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAACAGGA
137226 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
137240 TCAGAAATAA
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
51 4 0.04
52 73 0.78
53 16 0.17
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAACAGGA
Found at i:137266 original size:28 final size:27
Alignment explanation
Indices: 137226--137294 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
137216 TAAAACCGGA
137226 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
137254 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
137281 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
137295 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:137381 original size:51 final size:53
Alignment explanation
Indices: 137285--137403 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
137275 AACGGGGTTG
* * *
137285 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
137339 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
137390 GAATATCCCCGATT
1 GAGTATCCCCGATT
137404 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:139796 original size:13 final size:13
Alignment explanation
Indices: 139778--139803 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139768 ACAAAGATCC
139778 ATGTATCGATACA
1 ATGTATCGATACA
139791 ATGTATCGATACA
1 ATGTATCGATACA
139804 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:139799 original size:33 final size:33
Alignment explanation
Indices: 139757--139823 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
139747 AAAATTTCCA
***
139757 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
139790 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
139823 A
1 A
139824 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:139867 original size:19 final size:18
Alignment explanation
Indices: 139843--139910 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
139833 CAGTAGCTAA
139843 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
139862 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
139877 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
139894 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
139911 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:139883 original size:13 final size:13
Alignment explanation
Indices: 139865--139889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139855 ACAATACTTA
139865 TGTATCGATACAT
1 TGTATCGATACAT
139878 TGTATCGATACA
1 TGTATCGATACA
139890 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:139887 original size:32 final size:32
Alignment explanation
Indices: 139846--139908 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
139836 TAGCTAATTA
*
139846 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
139878 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
139909 AATCGTTGAA
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:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:144384 original size:34 final size:34
Alignment explanation
Indices: 144341--144406 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
144331 TACCTCAATA
144341 AGATCGACTACTAGGACTAAGCTAATTGACTTGG
1 AGATCGACTACTAGGACTAAGCTAATTGACTTGG
*
144375 AGATCGACTACTAGGACTAAGCTGATTGACTT
1 AGATCGACTACTAGGACTAAGCTAATTGACTT
144407 ACTCCAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (34 bp):
AGATCGACTACTAGGACTAAGCTAATTGACTTGG
Found at i:148926 original size:28 final size:28
Alignment explanation
Indices: 148886--149632 Score: 835
Period size: 28 Copynumber: 26.1 Consensus size: 28
148876 CGTTCGTCTC
* *
148886 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
148914 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
148943 TTCAAAGCCCACAAGTCATTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
148971 TTCAAAACCCATAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
148999 TTCAAAGCCCACAAATCAGTGGTAGTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
149028 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * **
149056 TTCAAAACCCACAAGTCAATGGCATATT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
**
149084 TTCAAAGTGCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
149113 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
149141 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
149170 TTCAAAGCCCACAAGTCAATGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
149199 TTCAAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
149227 TTCAAAGCCCACAAGTCAG-GGACACTTT
1 TTCAAAGCCCACAAGTCAGTGG-CACCTT
* * *
149255 TTCAAAGCCCATAAGTCAATGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
149283 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
149312 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
149340 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
149369 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
149398 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
149427 TTCAAA-CCTACAAGTTAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
149455 TT-AAAGCCCATAAGTCAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
149482 TTCAAAGTCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
149510 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* * *
149539 TTCAAAGCCCACAAGCCAATGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CTT
*
149569 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
* *
149601 TTCAAAGCCCACACAAGTTAATGGCACCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
149631 TT
1 TT
149633 TTTTTAAAAA
Statistics
Matches: 620, Mismatches: 75, Indels: 46
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.02
28 307 0.50
29 240 0.39
30 27 0.04
31 2 0.00
32 26 0.04
33 2 0.00
34 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:148974 original size:57 final size:58
Alignment explanation
Indices: 148886--149613 Score: 903
Period size: 57 Copynumber: 12.7 Consensus size: 58
148876 CGTTCGTCTC
* * *
148886 TTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
148943 TTCAAAGCCCACAAGTCATTGGCA-TCCTTTCAAAACCCATAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
148999 TTCAAAGCCCACAAATCAGTGGTAGTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * **
149056 TTCAAAACCCACAAGTCAATGGCA-TATTTTCAAAGTGCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
149113 TTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
149170 TTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
149227 TTCAAAGCCCACAAGTCAG-GGACACT-TTTTCAAAGCCCATAAGTCAATGGCAC-CAT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
149283 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
149340 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
149398 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA-CCTACAAGTTAGTGGCA-TCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT-CTT
* * * * * *
149455 TT-AAAGCCCATAAGTCAGTGGAAC-CCTTTCAAAGTCCACAAGTCAATGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
149510 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGCCAATGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGG-CACTCTT
*
149569 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACA
149614 CAAGTTAATG
Statistics
Matches: 582, Mismatches: 68, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
55 12 0.02
56 151 0.26
57 313 0.54
58 64 0.11
59 15 0.03
61 8 0.01
62 19 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:149240 original size:199 final size:199
Alignment explanation
Indices: 148886--149613 Score: 959
Period size: 199 Copynumber: 3.6 Consensus size: 199
148876 CGTTCGTCTC
* * * *
148886 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGC
* * * * * *
148951 CCACAAGTCATTGGCA-TCCTTTCAAAACCCATAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAA
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG
* * * *
149014 TCAGTGGTAGTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAACCCACAAGTCAATGGC
131 TCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGC
*
149079 ATATT
196 ACA-T
** *
149084 TTCAAAGTGCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAG
* * *
149148 CCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAA
65 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
149213 GTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAG-GGACA-CTTTTTCAAAGCCCATAAGTCAAT
130 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGG-CATC-CTTTCAAAGCCCATAAGTCAAT
149275 GGCACCAT
193 GGCA-CAT
* *
149283 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAG
149347 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
65 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
149412 GTCAGTGGCACTCTTTTCAAA-CCTACAAGTTAGTGGCATCCTTTTAAAGCCCATAAGTCAGTGG
130 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAATGG
* *
149476 AACCCT
195 CA-CAT
* * *
149482 TTCAAAGTCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGC
* * * *
149547 CCACAAGCCAATGGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCA
66 CCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCA
149612 CA
127 CA
149614 CAAGTTAATG
Statistics
Matches: 469, Mismatches: 46, Indels: 25
0.87 0.09 0.05
Matches are distributed among these distances:
198 75 0.16
199 310 0.66
200 56 0.12
202 9 0.02
203 19 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (199 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGC
CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG
TCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGC
ACAT
Found at i:166972 original size:12 final size:12
Alignment explanation
Indices: 166951--166983 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
166941 CATGCATGGA
*
166951 ATGAAGGTATGC
1 ATGAAAGTATGC
166963 ATGAAAGTATGC
1 ATGAAAGTATGC
166975 ATGAAAGTA
1 ATGAAAGTA
166984 AAAGCATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (12 bp):
ATGAAAGTATGC
Found at i:167235 original size:16 final size:16
Alignment explanation
Indices: 167176--167254 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 16
167166 ATCTTTTTTA
* *
167176 TTATTTATTATTTATT
1 TTATTTATTAATTAAT
167192 ATTATTTATTAATT--T
1 -TTATTTATTAATTAAT
* * *
167207 TT-TGTGTTTATTAAT
1 TTATTTATTAATTAAT
167222 TT-TTTAATTAATTAAT
1 TTATTT-ATTAATTAAT
*
167238 TTATTTTTTAATTAAT
1 TTATTTATTAATTAAT
167254 T
1 T
167255 AATTATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 7 0.14
14 2 0.04
15 6 0.12
16 20 0.40
17 15 0.30
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTATTAATTAAT
Found at i:167271 original size:20 final size:20
Alignment explanation
Indices: 167220--167258 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
167210 GTGTTTATTA
167220 ATTTTTTAATTAATTAATTT
1 ATTTTTTAATTAATTAATTT
167240 ATTTTTTAATTAATTAATT
1 ATTTTTTAATTAATTAATT
167259 ATTGTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTTTAATTAATTAATTT
Found at i:168605 original size:79 final size:80
Alignment explanation
Indices: 168498--168693 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 80
168488 AAAGGGATTG
* * * * * ** *
168498 AAGTATCCTCTCAAAGATGGTGGAGTTGGAATATCCCTAGAGATGAAAATTTTGGTGTTTTGGAA
1 AAGTATCCCCTCAGAGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTTTGAAA
* *
168563 GTAAAAATGGGGTTA
66 GTAAAAACGAGGTTA
* * *
168578 GAGTAT-CCCTCGGAGATAGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTTTGAAA
1 AAGTATCCCCTCAGAGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTTTGAAA
168642 GTAAAAACGAGGTTA
66 GTAAAAACGAGGTTA
* *
168657 AAGTATCCCCTCAGAGATGGTAGGGTTGGAGTATCCC
1 AAGTATCCCCTCAGAGATGGTGGGGTTGGAATATCCC
168694 CGAAAATAAC
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 66 0.68
80 31 0.32
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (80 bp):
AAGTATCCCCTCAGAGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTTTGAAA
GTAAAAACGAGGTTA
Found at i:168715 original size:79 final size:78
Alignment explanation
Indices: 168498--168716 Score: 210
Period size: 79 Copynumber: 2.8 Consensus size: 78
168488 AAAGGGATTG
* * * * * *
168498 AAGTATCCTCTCAAAGATGGT-GGAGTTGGAATATCCCTAGAGATGAAAATTTTGGTGTTTTGGA
1 AAGTATCC-CTCAGAGATAGTAGG-GTTGGAATATCCCGAAAGATGAAAA-TTTGATGTTTTGAA
* *
168562 AGTAAAAATGGGGTTA
63 AGTAAAAACGAGGTTA
* * * * * *
168578 GAGTATCCCTCGGAGATAGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTTTGAAAG
1 AAGTATCCCTCAGAGATAGTAGGGTTGGAATATCCCGAAAGATGAAAATTTGA-TGTTTTGAAAG
168643 TAAAAACGAGGTTA
65 TAAAAACGAGGTTA
* *
168657 AAGTATCCCCTCAGAGATGGTAGGGTTGGAGTATCCCCGAAA-AT-AACAATTTGATGTTTT
1 AAGTAT-CCCTCAGAGATAGTAGGGTTGGAATAT-CCCGAAAGATGAA-AATTTGATGTTTT
168717 CATAAATCGG
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 68 0.59
80 39 0.34
81 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (78 bp):
AAGTATCCCTCAGAGATAGTAGGGTTGGAATATCCCGAAAGATGAAAATTTGATGTTTTGAAAGT
AAAAACGAGGTTA
Found at i:168818 original size:252 final size:250
Alignment explanation
Indices: 168321--168838 Score: 567
Period size: 252 Copynumber: 2.1 Consensus size: 250
168311 CAAAAAAGCA
* * * * ** *
168321 GGGTTGGAGTGTCCTCTCGGAGATGGTGGGGTTGAGTATCCCTGGAGATGAAAATTCGGTGTTTT
1 GGGTTAGAGTATCC-CTCGGAGATAGTGGGGTTGAATATCCCTAAAGATGAAAATTCAGTGTTTT
* * ** * * * * *
168386 AGAAGTAAAAATGGGGTTGGAGTATCCCTTTAGAGATGGTAGGGATGGAGTATCCCTGGAGATGA
65 AGAAGTAAAAACGAGGTTAAAGTATCCCCTCAGAGATGGTAGGGATGGAGTATCCCCGAAAATGA
* * *
168451 AAAATTGATATTTTCATAAATTAAATTTTGGCATAAAAAAGGGATTGAAGTATCCTCTCAAAGAT
130 AAAATTGATATTTTCATAAATCAAATTTTAGCATAAAAAAGGGATAGAAGTATCCTCTCAAAGAT
** ** **
168516 GGTGGAGTTGGAATATCCCTAGAGATGAAAATTTTGGTGTTTTGGAAGTAAAAATG
195 GGTGGAGTTGGAATATCCCTAGAGACAAAAAAATTAATGTTTTGGAAGTAAAAATG
168572 GGGTTAGAGTATCCCTCGGAGATAGTGGGGTTGGAATATCCCTAAAGATGAAAAATTCAGTGTTT
1 GGGTTAGAGTATCCCTCGGAGATAGTGGGGTT-GAATATCCCTAAAGATG-AAAATTCAGTGTTT
*
168637 T-GAAAGTAAAAACGAGGTTAAAGTATCCCCTCAGAGATGGTAGGGTTGGAGTATCCCCGAAAAT
64 TAG-AAGTAAAAACGAGGTTAAAGTATCCCCTCAGAGATGGTAGGGATGGAGTATCCCCGAAAAT
* * ** ** * **
168701 -AACAATTTGATGTTTTCATAAATCGGATTTTAGTGTAAAAACAGGG-TAGGAGTAT-CTCTTTG
128 GAA-AAATTGATATTTTCATAAATCAAATTTTAGCATAAAAA-AGGGATAGAAGTATCCTC-TCA
* * * * * * *
168763 GAGATGGTGGGGTTTGAGTATCCTTGGAGACAAAAAAATTAATGTTTTTGAAGTAAAAATG
190 AAGATGGTGGAGTTGGAATATCCCTAGAGACAAAAAAATTAATGTTTTGGAAGTAAAAATG
168824 GGGTTAGAGTATCCC
1 GGGTTAGAGTATCCC
168839 CTTTTGATGT
Statistics
Matches: 219, Mismatches: 42, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
250 17 0.08
251 32 0.15
252 166 0.76
253 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (250 bp):
GGGTTAGAGTATCCCTCGGAGATAGTGGGGTTGAATATCCCTAAAGATGAAAATTCAGTGTTTTA
GAAGTAAAAACGAGGTTAAAGTATCCCCTCAGAGATGGTAGGGATGGAGTATCCCCGAAAATGAA
AAATTGATATTTTCATAAATCAAATTTTAGCATAAAAAAGGGATAGAAGTATCCTCTCAAAGATG
GTGGAGTTGGAATATCCCTAGAGACAAAAAAATTAATGTTTTGGAAGTAAAAATG
Found at i:176657 original size:51 final size:51
Alignment explanation
Indices: 176595--176708 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
176585 TTTTGCCTGC
* * *
176595 ATGTAT-GATACATTGAACAATGTATCAATACATCTCGGTAAAATTCCTAG
1 ATGTATCGATACATTAAACAATGTATCAATACATCTCGATAAAATTCCCAG
*
176645 ATGTATCGATACATTAAACAATGTATCGATACATCTCGATAAAATTCCCAG
1 ATGTATCGATACATTAAACAATGTATCAATACATCTCGATAAAATTCCCAG
176696 ATGTATCGATACA
1 ATGTATCGATACA
176709 ATGATAAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 6 0.10
51 53 0.90
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACATTAAACAATGTATCAATACATCTCGATAAAATTCCCAG
Found at i:176723 original size:51 final size:51
Alignment explanation
Indices: 176595--176729 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 51
176585 TTTTGCCTGC
* * * *
176595 ATGTAT-GATACATTGAACAATGTATCAATACATCTCGGTAAAATTCCTAG
1 ATGTATCGATACAATGAACAATGTATCGATACATCTCGATAAAATTCCCAG
* *
176645 ATGTATCGATACATTAAACAATGTATCGATACATCTCGATAAAATTCCCAG
1 ATGTATCGATACAATGAACAATGTATCGATACATCTCGATAAAATTCCCAG
*
176696 ATGTATCGATACAATGATA-AATCTATCGATACAT
1 ATGTATCGATACAATGA-ACAATGTATCGATACAT
176730 TTTCTCTTGC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
50 6 0.08
51 69 0.91
52 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATGAACAATGTATCGATACATCTCGATAAAATTCCCAG
Found at i:183040 original size:17 final size:17
Alignment explanation
Indices: 183020--183061 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
183010 TTTTATATTT
*
183020 TTTATTTAGAATATATA
1 TTTATTTAGAATAAATA
183037 TTTAATTT-GAATAAATA
1 TTT-ATTTAGAATAAATA
183054 TTTATTTA
1 TTTATTTA
183062 AGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTATTTAGAATAAATA
Found at i:183282 original size:42 final size:42
Alignment explanation
Indices: 183221--183321 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
183211 AATATAAATA
*
183221 ATATTA-TAAATAAAT-TTTTAATA-AG-AAAATTTATTTTG
1 ATATTATTAAATAATTATTTTAATATAGTAAAATTTATTTTG
* * * *
183259 ATTTTTAGTTAAATAATTATTTTACTATAGTTAATTTTATTTTG
1 A-TATTA-TTAAATAATTATTTTAATATAGTAAAATTTATTTTG
*
183303 ATATTATTACATAATTATT
1 ATATTATTAAATAATTATT
183322 CTATTCAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.02
39 4 0.08
41 8 0.16
42 19 0.38
43 6 0.12
44 12 0.24
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (42 bp):
ATATTATTAAATAATTATTTTAATATAGTAAAATTTATTTTG
Done.