Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold274
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: 1642345
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 31972 characters in sequence are not A, C, G, or T
File 1 of 10
Found at i:622 original size:13 final size:13
Alignment explanation
Indices: 604--668 Score: 130
Period size: 13 Copynumber: 5.0 Consensus size: 13
594 ATAATCACCC
604 TGTATCGATACAA
1 TGTATCGATACAA
617 TGTATCGATACAA
1 TGTATCGATACAA
630 TGTATCGATACAA
1 TGTATCGATACAA
643 TGTATCGATACAA
1 TGTATCGATACAA
656 TGTATCGATACAA
1 TGTATCGATACAA
669 AGAAAAATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4597 original size:21 final size:21
Alignment explanation
Indices: 4568--4612 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4558 AAGTTTTTAT
*
4568 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4588 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4610 TTT
1 TTT
4613 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:6847 original size:13 final size:13
Alignment explanation
Indices: 6829--6854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6819 CAATTTTTGG
6829 TGTATCGATACAT
1 TGTATCGATACAT
6842 TGTATCGATACAT
1 TGTATCGATACAT
6855 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:6866 original size:32 final size:33
Alignment explanation
Indices: 6809--6872 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
6799 TACAAGCCAA
**
6809 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
6842 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
6873 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:6879 original size:19 final size:18
Alignment explanation
Indices: 6809--6879 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
6799 TACAAGCCAA
6809 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
6829 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
6842 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
6861 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
6880 CTACTGCCAA
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:8310 original size:33 final size:33
Alignment explanation
Indices: 8268--8336 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
8258 CCGTTAGAAG
* *
8268 CAATGTATCGATATAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATAT-ACCATGTATCGATA
8301 CAATGTATCGATACAATATACCATGTATCGATA
1 CAATGTATCGATACAATATACCATGTATCGATA
8334 CAA
1 CAA
8337 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATATACCATGTATCGATA
Found at i:8326 original size:20 final size:20
Alignment explanation
Indices: 8298--8336 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8288 TCATGTATCG
8298 ATACAATGTATCGATACAAT
1 ATACAATGTATCGATACAAT
*
8318 ATACCATGTATCGATACAA
1 ATACAATGTATCGATACAA
8337 ACAGTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (20 bp):
ATACAATGTATCGATACAAT
Found at i:8334 original size:13 final size:13
Alignment explanation
Indices: 8290--8317 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8280 ATAATTCATC
8290 ATGTATCGATACA
1 ATGTATCGATACA
8303 ATGTATCGATACA
1 ATGTATCGATACA
8316 AT
1 AT
8318 ATACCATGTA
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:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8390 original size:20 final size:21
Alignment explanation
Indices: 8365--8419 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
8355 CTGCTAGTTT
8365 TATGTATCGATACAATTG-TC
1 TATGTATCGATACAATTGATC
8385 TATGTATCGATACAA-TGATC
1 TATGTATCGATACAATTGATC
*
8405 -ATGTATTGATACAAT
1 TATGTATCGATACAAT
8420 GTATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
TATGTATCGATACAATTGATC
Found at i:8410 original size:19 final size:19
Alignment explanation
Indices: 8365--8421 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
8355 CTGCTAGTTT
8365 TATGTATCGATACAATTGTC
1 TATGTATCGATACAA-TGTC
8385 TATGTATCGATACAATGATC
1 TATGTATCGATACAATG-TC
*
8405 -ATGTATTGATACAATGT
1 TATGTATCGATACAATGT
8422 ATCGATACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 17 0.49
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TATGTATCGATACAATGTC
Found at i:9128 original size:17 final size:17
Alignment explanation
Indices: 9106--9140 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9096 TGTAGAAAAT
*
9106 ATATTGCATTCTTGTAG
1 ATATTGCATTCATGTAG
9123 ATATTGCATTCATGTAG
1 ATATTGCATTCATGTAG
9140 A
1 A
9141 AAAAATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (17 bp):
ATATTGCATTCATGTAG
Found at i:11959 original size:20 final size:20
Alignment explanation
Indices: 11934--11991 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
11924 TCCCGTGTGA
11934 ATGTATCGATACAATTTTTT
1 ATGTATCGATACAATTTTTT
11954 ATGTATCGATACAATTTTTT
1 ATGTATCGATACAATTTTTT
11974 ATGTATCGATACATATTT
1 ATGTATCGATACA-ATTT
11992 GAAAATATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (20 bp):
ATGTATCGATACAATTTTTT
Found at i:12055 original size:13 final size:13
Alignment explanation
Indices: 12037--12062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12027 AATTTTCTGA
12037 TGTATCGATACAT
1 TGTATCGATACAT
12050 TGTATCGATACAT
1 TGTATCGATACAT
12063 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:14513 original size:21 final size:20
Alignment explanation
Indices: 14467--14513 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
14457 TTTGAAGCTG
*
14467 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
14487 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
14508 ATTTTG
1 ATTTTG
14514 CAAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:14657 original size:13 final size:13
Alignment explanation
Indices: 14635--14673 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
14625 ATAATCCCCC
*
14635 TGTATTGATACAG
1 TGTATTGATACAA
*
14648 TGTATCGATACAA
1 TGTATTGATACAA
14661 TGTATTGATACAA
1 TGTATTGATACAA
14674 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:20861 original size:13 final size:13
Alignment explanation
Indices: 20843--20868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20833 AATGTTTTGA
20843 TGTATCGATACAT
1 TGTATCGATACAT
20856 TGTATCGATACAT
1 TGTATCGATACAT
20869 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:23502 original size:14 final size:14
Alignment explanation
Indices: 23483--23511 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23473 CCATATTGTT
23483 GAGGAGTTCTAGAA
1 GAGGAGTTCTAGAA
23497 GAGGAGTTCTAGAA
1 GAGGAGTTCTAGAA
23511 G
1 G
23512 CTAAAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.38, T:0.21
Consensus pattern (14 bp):
GAGGAGTTCTAGAA
Found at i:28929 original size:6 final size:6
Alignment explanation
Indices: 28918--28992 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
28908 CCAAGCGACC
* *
28918 CTTTTT CTTTTT -TTTTT CTTTCCTT CTTCTT C-TTTC CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTT--TT CTTTTT CTTTTT CTTTTT CTTTTT
** *
28965 CTTTTTT CCCTTT -ATTTT CTTTTT CTTT
1 C-TTTTT CTTTTT CTTTTT CTTTTT CTTT
28993 ACTGGTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
5 16 0.30
6 26 0.49
7 6 0.11
8 5 0.09
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:28966 original size:19 final size:22
Alignment explanation
Indices: 28944--28992 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
28934 TCTTTCCTTC
28944 TTCTTCTTT-CCTTT-TTTT-T
1 TTCTTCTTTCCCTTTATTTTCT
*
28963 TTCTTTTTTCCCTTTATTTTCT
1 TTCTTCTTTCCCTTTATTTTCT
28985 TT-TTCTTT
1 TTCTTCTTT
28993 ACTGGTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 5 0.20
21 9 0.36
22 3 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTCTTTCCCTTTATTTTCT
Found at i:29964 original size:28 final size:28
Alignment explanation
Indices: 29933--30053 Score: 80
Period size: 28 Copynumber: 4.3 Consensus size: 28
29923 CCTAGTTGCT
*
29933 AACTAGTGTACATTTTGACTTAAGTGCC
1 AACTAGTGTACACTTTGACTTAAGTGCC
* *** *
29961 AACTAATGTGGGCTTTGACTTAGGTGCC
1 AACTAGTGTACACTTTGACTTAAGTGCC
* *** *
29989 AACTAGTATGGGCTTTGACTTAGGTGCC
1 AACTAGTGTACACTTTGACTTAAGTGCC
* *** * * *
30017 AGCTAGTGTGGGCTTGGAGTAAAGTGCC
1 AACTAGTGTACACTTTGACTTAAGTGCC
30045 AACTAGTGT
1 AACTAGTGT
30054 GGGCTTCGAC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 78 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (28 bp):
AACTAGTGTACACTTTGACTTAAGTGCC
Found at i:30054 original size:28 final size:28
Alignment explanation
Indices: 29946--30088 Score: 162
Period size: 28 Copynumber: 5.1 Consensus size: 28
29936 TAGTGTACAT
*
29946 TTTGACTTAAGTGCCAACTAATGTGGGC
1 TTTGACTTAAGTGCCAACTAGTGTGGGC
* *
29974 TTTGACTTAGGTGCCAACTAGTATGGGC
1 TTTGACTTAAGTGCCAACTAGTGTGGGC
* *
30002 TTTGACTTAGGTGCCAGCTAGTGTGGGC
1 TTTGACTTAAGTGCCAACTAGTGTGGGC
* * *
30030 TTGGAGTAAAGTGCCAACTAGTGTGGGC
1 TTTGACTTAAGTGCCAACTAGTGTGGGC
* * * *
30058 TTCGACTCATA-TGCCAATTAATGTGGGC
1 TTTGACTTA-AGTGCCAACTAGTGTGGGC
30086 TTT
1 TTT
30089 AATGCGAATG
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 97 0.99
29 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (28 bp):
TTTGACTTAAGTGCCAACTAGTGTGGGC
Found at i:30127 original size:28 final size:28
Alignment explanation
Indices: 30096--30183 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 28
30086 TTTAATGCGA
30096 ATGCCAGCTAATGTGGGCTTCAACTTTT
1 ATGCCAGCTAATGTGGGCTTCAACTTTT
* ***
30124 ATGCCAGCT-A-GT----TTTAA-TGCGA
1 ATGCCAGCTAATGTGGGCTTCAACT-TTT
30146 ATGCCAGCTAATGTGGGCTTCAACTTTT
1 ATGCCAGCTAATGTGGGCTTCAACTTTT
30174 ATGCCAGCTA
1 ATGCCAGCTA
30184 GTTTGGCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
21 1 0.02
22 13 0.30
23 1 0.02
24 2 0.05
26 2 0.05
27 1 0.02
28 23 0.52
29 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
ATGCCAGCTAATGTGGGCTTCAACTTTT
Found at i:30161 original size:50 final size:50
Alignment explanation
Indices: 30086--30187 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
30076 TAATGTGGGC
30086 TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT
1 TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT
30136 TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT
1 TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT
30186 TT
1 TT
30188 GGCTTACTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (50 bp):
TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT
Found at i:30294 original size:136 final size:138
Alignment explanation
Indices: 30136--30438 Score: 326
Period size: 137 Copynumber: 2.2 Consensus size: 138
30126 GCCAGCTAGT
* ** * * *
30136 TTTAATGCGAATGCCAGCTAATGTGGGCTTCAACTTTTATGCCAGCTAGT-TTGGCTTACTTAGG
1 TTTAATGCGAATGCCAACTAATGTGGGCTTCAACTCGTATGCCAACTAGTGTGGGCTTACTTAAG
* * * * *
30200 TGCCAGCTAGCGTGAGCTT-AGACTTAGATACCAGCT-ATTTGGGTTTCGATTCATATGCTAACT
66 TGCCAACTAGCGTGAGCTTCA-ACTTAGATACCAGATAATGTGGGCTTCGATTCATATGCCAACT
*
30263 AATGTGGGC
130 AATGTAGGC
* * * * * *
30272 TTTAATGTGAATGCGAACTAATGTGGGCTTCGACTCGTGTGTCAACTAGTGTGGGCTTGCTTAAG
1 TTTAATGCGAATGCCAACTAATGTGGGCTTCAACTCGTATGCCAACTAGTGTGGGCTTACTTAAG
* * * * * *
30337 TGCCAACTGGTGTGGGCTTCAACTTAGATGCTAGATAATGTGGGCTTCGATTCATGTGCCAACTA
66 TGCCAACTAGCGTGAGCTTCAACTTAGATACCAGATAATGTGGGCTTCGATTCATATGCCAACTA
30402 ATGTAGGC
131 ATGTAGGC
* * *
30410 TTTAATGCGAA-GCCAGCAAATGTAGGCTT
1 TTTAATGCGAATGCCAACTAATGTGGGCTT
30439 TGACTTGGGT
Statistics
Matches: 135, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
136 41 0.30
137 52 0.39
138 42 0.31
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (138 bp):
TTTAATGCGAATGCCAACTAATGTGGGCTTCAACTCGTATGCCAACTAGTGTGGGCTTACTTAAG
TGCCAACTAGCGTGAGCTTCAACTTAGATACCAGATAATGTGGGCTTCGATTCATATGCCAACTA
ATGTAGGC
Found at i:30403 original size:28 final size:28
Alignment explanation
Indices: 30239--30411 Score: 97
Period size: 28 Copynumber: 6.2 Consensus size: 28
30229 ACCAGCTATT
* * *
30239 TGGGTTTCGATTCATATGCTAACTAATG
1 TGGGCTTCGATTCATGTGCCAACTAATG
** * * *
30267 TGGGCTTTAATGTGA-ATGCGAACTAATG
1 TGGGCTTCGAT-TCATGTGCCAACTAATG
* * * *
30295 TGGGCTTCGACTCGTGTGTCAACTAGTG
1 TGGGCTTCGATTCATGTGCCAACTAATG
* * **
30323 TGGGCTT-GCTT-AAGTGCCAACTGGTG
1 TGGGCTTCGATTCATGTGCCAACTAATG
* *
30349 TGGGCTTCAACTT-A-GATGCTAGA-TAATG
1 TGGGCTTCGA-TTCATG-TGCCA-ACTAATG
30377 TGGGCTTCGATTCATGTGCCAACTAATG
1 TGGGCTTCGATTCATGTGCCAACTAATG
*
30405 TAGGCTT
1 TGGGCTT
30412 TAATGCGAAG
Statistics
Matches: 108, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
26 18 0.17
27 7 0.06
28 79 0.73
29 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (28 bp):
TGGGCTTCGATTCATGTGCCAACTAATG
Found at i:30468 original size:28 final size:28
Alignment explanation
Indices: 30428--30481 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
30418 GAAGCCAGCA
* *
30428 AATGTAGGCTTTGACTTGGGTGCTAGCT
1 AATGTAGGCTTTGACTCGGGTCCTAGCT
*
30456 AATGTAGGTTTTGACTCGGGTCCTAG
1 AATGTAGGCTTTGACTCGGGTCCTAG
30482 GTGATTCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (28 bp):
AATGTAGGCTTTGACTCGGGTCCTAGCT
Found at i:31762 original size:25 final size:25
Alignment explanation
Indices: 31734--31781 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31724 CATTTGAGTT
*
31734 TTATTCCT-TTTTTTTTGTTTTTTTA
1 TTATT-CTGTTTTTTTTCTTTTTTTA
*
31759 TTATTTTGTTTTTTTTCTTTTTT
1 TTATTCTGTTTTTTTTCTTTTTT
31782 ATATCTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.06, C:0.06, G:0.04, T:0.83
Consensus pattern (25 bp):
TTATTCTGTTTTTTTTCTTTTTTTA
Found at i:34096 original size:13 final size:13
Alignment explanation
Indices: 34067--34112 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
34057 TGACCAGAGC
*
34067 TTGA-ATTTGAATC
1 TTGACATTTG-ATA
34080 TTGACATTTGATA
1 TTGACATTTGATA
34093 TTGACATTTGATA
1 TTGACATTTGATA
34106 TTGACAT
1 TTGACAT
34113 GAATTCTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 26 0.84
14 5 0.16
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (13 bp):
TTGACATTTGATA
Found at i:34612 original size:20 final size:21
Alignment explanation
Indices: 34568--34619 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
34558 TTCTACAATT
*
34568 TGTATCGATACAAATAGTAAA
1 TGTATCAATACAAATAGTAAA
* *
34589 TGTATCAATACATA-AGTGAA
1 TGTATCAATACAAATAGTAAA
*
34609 TGTATCTATAC
1 TGTATCAATAC
34620 GCGCCTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (21 bp):
TGTATCAATACAAATAGTAAA
Found at i:42247 original size:18 final size:18
Alignment explanation
Indices: 42224--42259 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42214 TCTCTTAAGC
*
42224 TTTTTTTTCTTTTT-CTT
1 TTTTTTTTTTTTTTGCTT
42241 TTTTTTTTTTTTTTGCTT
1 TTTTTTTTTTTTTTGCTT
42259 T
1 T
42260 CAACAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTTTTTTGCTT
Found at i:42252 original size:15 final size:15
Alignment explanation
Indices: 42223--42251 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42213 TTCTCTTAAG
42223 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
42238 CTTTTTTTT-TTTTT
1 CTTTTTTTTCTTTTT
42252 TTTGCTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:45006 original size:165 final size:170
Alignment explanation
Indices: 44647--45125 Score: 501
Period size: 175 Copynumber: 2.8 Consensus size: 170
44637 GGCGTAAATT
* ** * *
44647 TGTAAATATTGAAAAATTTTGTTCATAGGCCAAAGGTGGTTGGCGGAATCTTTCTTATAATTTTT
1 TGTAAATATTG-AAAATTTTGTTCA-AGGCCAAAGATACTTGGCCGAATCTTTCTTGTAATTTTT
* * * * *
44712 GGATTTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAA--TTGTGTTTTAATTATGTAGGG
64 GGATCTAATTTTTGTGTGGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAGGG
*
44775 ACCAATTTATAATTTTAGAAAGTTTAGAGATAAGTTTAGAGATTTAAG
129 ACCAATTTATAATTTTAGAAA---TAGAGATAAG--T-GAGAATTAAG
* *
44823 TGTAAATATTGAAAATTTTGTTCCAAGGCCAAAAATACTTGGCTGAATCTTTCTTGTAATTTTTG
1 TGTAAATATTGAAAATTTTGTT-CAAGGCCAAAGATACTTGGCCGAATCTTTCTTGTAATTTTTG
* * *
44888 GATCCAATTTTTGTGTGGATTTCAATATGTTTGATATTTAATTTTGTGTTTTAATTATACAGGGA
65 GATCTAATTTTTGTGTGGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAGGGA
* *
44953 CCAATTTTTAATTTTA-AAA-AG-TAT-AG-GA-AATTAAG
130 CCAATTTATAATTTTAGAAATAGAGATAAGTGAGAATTAAG
* * * * *
44988 TGTAAATATTGGAAATTTTGTTTCAAGGCCAAAGTTACTTGGCCGAATCTTCCTTGTGA-CTTTG
1 TGTAAATATTGAAAATTTTG-TTCAAGGCCAAAGATACTTGGCCGAATCTTTCTTGTAATTTTTG
* * * * * * *
45052 ATATGTGATTTTTG-GTGATGATTTTAATATATTTGATACTTAATTTTGTGTTTTAATTACATAA
65 -GATCTAATTTTTGTGTG--GATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAG
45116 GGACCAATTT
127 GGACCAATTT
45126 GGAAATTCAA
Statistics
Matches: 262, Mismatches: 34, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
164 7 0.03
165 65 0.25
166 53 0.20
170 2 0.01
171 2 0.01
172 2 0.01
175 80 0.31
176 16 0.06
177 35 0.13
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (170 bp):
TGTAAATATTGAAAATTTTGTTCAAGGCCAAAGATACTTGGCCGAATCTTTCTTGTAATTTTTGG
ATCTAATTTTTGTGTGGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAGGGAC
CAATTTATAATTTTAGAAATAGAGATAAGTGAGAATTAAG
Found at i:45172 original size:166 final size:165
Alignment explanation
Indices: 44820--45186 Score: 373
Period size: 166 Copynumber: 2.2 Consensus size: 165
44810 TTAGAGATTT
* * * *
44820 AAGTGTAAATATTGAAAATTTTGTTCCAAGGCCAAAAATACTTGGCTGAATCTTTCTTGTAATTT
1 AAGTATAAATATTGAAAATTTTGTTCCAAGGCCAAAAATACTTGGCCGAATCTTCCTTGTAATCT
* * * *
44885 TTGGATCCAATTTTTGTGTGGATTTCAATATGTTTGATATTTAATTTTGTGTTTTAATTATACAG
66 TTGGATCCAATTTTTGTGTGGATTTCAATATATTTGATACTTAATTTTGTGTTTTAATTACACAA
** * * *
44950 GGACCAATTTTTAATTTTAAAAAGTATAGGAAATT
131 GGACCAATTTGGAAATTCAAAAAGTATAGGAAATC
* * * ** *
44985 AAGTGTAAATATTGGAAATTTTGTTTCAAGGCCAAAGTTACTTGGCCGAATCTTCCTTGTGA-CT
1 AAGTATAAATATTGAAAATTTTGTTCCAAGGCCAAAAATACTTGGCCGAATCTTCCTTGTAATCT
* *** *
45049 TTGATATGTGATTTTTG-GTGATGATTTTAATATATTTGATACTTAATTTTGTGTTTTAATTACA
66 TTG-GATCCAATTTTTGTGTG--GATTTCAATATATTTGATACTTAATTTTGTGTTTTAATTACA
* * **
45113 TAAGGACCAATTTGGAAATTCAAAAA-TTTAGG-GGTC
128 CAAGGACCAATTTGGAAATTCAAAAAGTATAGGAAATC
* * * *
45149 AATTCATAAATAATTGAAAATTTTATTCTAAAGCCAAA
1 AAGT-ATAAAT-ATTGAAAATTTTGTTCCAAGGCCAAA
45187 CAAGGGTAGC
Statistics
Matches: 164, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
164 11 0.07
165 74 0.45
166 79 0.48
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (165 bp):
AAGTATAAATATTGAAAATTTTGTTCCAAGGCCAAAAATACTTGGCCGAATCTTCCTTGTAATCT
TTGGATCCAATTTTTGTGTGGATTTCAATATATTTGATACTTAATTTTGTGTTTTAATTACACAA
GGACCAATTTGGAAATTCAAAAAGTATAGGAAATC
Found at i:45833 original size:156 final size:156
Alignment explanation
Indices: 45592--45987 Score: 494
Period size: 156 Copynumber: 2.5 Consensus size: 156
45582 ATACGTAGAG
* * * * * * * * * *
45592 GCATTATCATAATTTCCTTGGATTCGTGTCCTAAGTTGTCACCAGGATGCTTTTATGTCGAAGGT
1 GCATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCATCGGGATGCTTTTATGCCGAAGGT
*
45657 CTGCATTTAGGATAGGTTTATCCCATTTATGATCATTTTAGTGTCCATTAAGGTTA-TCAAGATA
66 GTGCATTTAGGATAGGTTTATCCCATTTATGATCATTTTAGTGTCCATTAAGGTTACT-AAGATA
* * * *
45721 TTTTCATGTCGAAGGTATATCGC-AGTA
130 CTTTCATGTCGAAGGCATACCCCAAG-A
* * *
45748 GCATTTTCATAATTTTCTTAGAATCGAGT-TCTAGGTTTTCATGGGGATGCTTTTATACCGAAGG
1 GCATTTTCATAATTTTCTTAGAATCGAGTCT-TAGGTTGTCATCGGGATGCTTTTATGCCGAAGG
* * *
45812 TGTGTATTGT-GGATAGGTTTATCCCATTTATGATTATTTTAGTGTCCATTAGGGTTACTAAGAT
65 TGTGCATT-TAGGATAGGTTTATCCCATTTATGATCATTTTAGTGTCCATTAAGGTTACTAAGAT
* *
45876 ACTTTCATGTTGAAGGCATACCCCAAGG
129 ACTTTCATGTCGAAGGCATACCCCAAGA
* *
45904 GCATTTTCATAATTTTTTTAGAATCGAGTCTTAGGTTGTCATCTGGATGCTTTTATGCCGAAGGT
1 GCATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCATCGGGATGCTTTTATGCCGAAGGT
*
45969 GTACATTTAGGATAGGTTT
66 GTGCATTTAGGATAGGTTT
45988 TGTCACAATG
Statistics
Matches: 204, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
155 1 0.00
156 198 0.97
157 5 0.02
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (156 bp):
GCATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCATCGGGATGCTTTTATGCCGAAGGT
GTGCATTTAGGATAGGTTTATCCCATTTATGATCATTTTAGTGTCCATTAAGGTTACTAAGATAC
TTTCATGTCGAAGGCATACCCCAAGA
Found at i:47179 original size:148 final size:147
Alignment explanation
Indices: 47026--47313 Score: 364
Period size: 148 Copynumber: 2.0 Consensus size: 147
47016 TACCCCTATA
* * *
47026 GGTATACCTTCGACATAAAAGTATC-CAGTAACCCTAAAGGACTTAAAAAGGAAAAGCGAACCAA
1 GGTATACCTTCGACATAAAAGTATCTCAGTAACCCTAAA-GACTTAAAAAAGAAAAACGAAACAA
* * * *
47090 TGCCTAATACGTATCCTTGACATAGAAGTGACTC-ATTGACAAATTAAAACTCGGTTTTAGAAAA
65 CGCCTAATACGTA-CCTCGACATAAAAGCGACTCGA-TGACAAATTAAAACTCGGTTTTAGAAAA
47154 ATTACAAAAATGCGCTTGTG
128 ATTACAAAAATGCGCTTGTG
* * * * * *
47174 GGTATACCTTTGACATGAAAGTATCTCGGTAACCTTAAAGACTTAAAAAAGAAAAATGAAACTAC
1 GGTATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAGACTTAAAAAAGAAAAACGAAACAAC
* ** * *
47239 GCCTAATATGTACCTCGACATAAAAGCGACTCGATGACAAATTAGGATTTGGTTTTAGAAAAATT
66 GCCTAATACGTACCTCGACATAAAAGCGACTCGATGACAAATTAAAACTCGGTTTTAGAAAAATT
*
47304 ATAAAAATGC
131 ACAAAAATGC
47314 CCCTAAGAGG
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
147 53 0.45
148 55 0.46
149 11 0.09
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (147 bp):
GGTATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAGACTTAAAAAAGAAAAACGAAACAAC
GCCTAATACGTACCTCGACATAAAAGCGACTCGATGACAAATTAAAACTCGGTTTTAGAAAAATT
ACAAAAATGCGCTTGTG
Found at i:47326 original size:148 final size:148
Alignment explanation
Indices: 47004--47342 Score: 357
Period size: 148 Copynumber: 2.3 Consensus size: 148
46994 GTTTCGGCAG
* * *
47004 AAATTATGAAAATACCCCTATAGGTATACCTTCGACATAAAAGTATCCAGTAACCCTAAAGGACT
1 AAATTATAAAAATGCCCCTAGAGGTATACCTTCGACATAAAAGTATCCAGTAACCCTAAAGGACT
* * * * * * *
47069 TAAAAAGGAAAAGCGAACCAATGCCTAATACGTATCCTTGACATAGAAGTGACTCATTGACAAAT
66 TAAAAAAGAAAAACGAAACAACGCCTAATACGTATCCTCGACATAAAAGCGACTCATTGACAAAT
47134 TAAAACTCGGTTTTAGAA
131 TAAAACTCGGTTTTAGAA
* * * * * * * *
47152 AAATTACAAAAATG-CGCTTGTGGGTATACCTTTGACATGAAAGTATCTCGGTAACCTTAAA-GA
1 AAATTATAAAAATGCCCCTAG-AGGTATACCTTCGACATAAAAGTATC-CAGTAACCCTAAAGGA
* * *
47215 CTTAAAAAAGAAAAATGAAACTACGCCTAATATGTA-CCTCGACATAAAAGCGACTCGA-TGACA
64 CTTAAAAAAGAAAAACGAAACAACGCCTAATACGTATCCTCGACATAAAAGCGACTC-ATTGACA
** * *
47278 AATTAGGATTTGGTTTTAGAA
128 AATTAAAACTCGGTTTTAGAA
* *
47299 AAATTATAAAAATGCCCCTAAGAGGTAT--CTTCAACGTAAAAGTA
1 AAATTATAAAAATGCCCCT-AGAGGTATACCTTCGACATAAAAGTA
47343 CTCGATATCT
Statistics
Matches: 153, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
146 12 0.08
147 55 0.36
148 74 0.48
149 12 0.08
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (148 bp):
AAATTATAAAAATGCCCCTAGAGGTATACCTTCGACATAAAAGTATCCAGTAACCCTAAAGGACT
TAAAAAAGAAAAACGAAACAACGCCTAATACGTATCCTCGACATAAAAGCGACTCATTGACAAAT
TAAAACTCGGTTTTAGAA
Found at i:49639 original size:163 final size:163
Alignment explanation
Indices: 49291--49639 Score: 384
Period size: 163 Copynumber: 2.1 Consensus size: 163
49281 GATTTTCTTG
* * * * *
49291 AAACTAATTTACTATGAATTAAATGATGATAATGGATGA-ATTTTAAAAATTATAAACCAAGAAA
1 AAACTAATTTAATATGAGTT--A-GATGATATTTGATGACTTTTTAAAAATTATAAACCAAGAAA
*
49355 AATCTCCCCAAAAATAATTACGGAGTAGAAAACTCCGTATTTTGAAAACAAAAAAATTTCAAGGA
63 AATCTCCCCAAAAATAATTACGGAGTAGAAAACTCCGTATTTCGAAAACAAAAAAATTTCAAGGA
* * *
49420 AAAAAGAAAAATTAATGAAATTAAAGGAATCTTTTG
128 AAAAAGAAAAACTAATGAAAATAAAGGAATCTTTTA
* *
49456 AAACTAATTTATTGTGAGTTAGATGATATTTGATGACTTTTTAAAAATTATAAACCAAGAAAAAT
1 AAACTAATTTAATATGAGTTAGATGATATTTGATGACTTTTTAAAAATTATAAACCAAGAAAAAT
**** * * * * * *
49521 C-CACTTGTAAATATTTATGTAGTAGAAAACTCTGTATTTCGGAAACAGGAAAAATTT-AAGGAA
66 CTC-CCCAAAAATAATTACGGAGTAGAAAACTCCGTATTTCGAAAACA-AAAAAATTTCAAGGAA
* *
49584 AAAATG-AAAACTCATGAAAATAAATGAAT-TTTTCA
129 AAAA-GAAAAACTAATGAAAATAAAGGAATCTTTT-A
*
49619 AAACTGATTTAATATGAGTTA
1 AAACTAATTTAATATGAGTTA
49640 AATAATAATA
Statistics
Matches: 154, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
162 18 0.12
163 110 0.71
164 9 0.06
165 17 0.11
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (163 bp):
AAACTAATTTAATATGAGTTAGATGATATTTGATGACTTTTTAAAAATTATAAACCAAGAAAAAT
CTCCCCAAAAATAATTACGGAGTAGAAAACTCCGTATTTCGAAAACAAAAAAATTTCAAGGAAAA
AAGAAAAACTAATGAAAATAAAGGAATCTTTTA
Found at i:50926 original size:85 final size:85
Alignment explanation
Indices: 50837--51078 Score: 272
Period size: 85 Copynumber: 2.8 Consensus size: 85
50827 GTTACCTGGG
*
50837 ACTAAACCGATAGGTAAACAAAGGATAAAGAAGTTGATCAAAATTGAACCAACAAGTCAACAAAG
1 ACTAAACCGATAGGTAAACAAAGGATAAAGAAGTTGATCAAGATTGAACCAACAAGTCAACAAAG
50902 GATAAAAAGATTTAAC-CGAA
66 GATAAAAAGATTT-ACTCGAA
* * * * * * * *
50922 ACTAAATCGATAGGTAAATAAAAGATAAAGAAGTTGACCGAGATTGAATCAAAAAGTTAACAAAT
1 ACTAAACCGATAGGTAAACAAAGGATAAAGAAGTTGATCAAGATTGAACCAACAAGTCAACAAA-
* **
50987 GG-TAAAACGATTTACTCGGG
65 GGATAAAAAGATTTACTCGAA
* * * * * * * *
51007 ACTAAGCTGACAGGTAAACAAAGGATAAAGAAGTTGATTAGGATTAAACCGACAAGTCAACAAAA
1 ACTAAACCGATAGGTAAACAAAGGATAAAGAAGTTGATCAAGATTGAACCAACAAGTCAACAAAG
51072 GATAAAA
66 GATAAAA
51079 GGTGATACTT
Statistics
Matches: 126, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
84 3 0.02
85 121 0.96
86 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (85 bp):
ACTAAACCGATAGGTAAACAAAGGATAAAGAAGTTGATCAAGATTGAACCAACAAGTCAACAAAG
GATAAAAAGATTTACTCGAA
Found at i:51398 original size:40 final size:39
Alignment explanation
Indices: 51310--51521 Score: 131
Period size: 40 Copynumber: 5.3 Consensus size: 39
51300 TCAACCAATG
* * * * *
51310 AAAAGGTTGGCTAGGG-AGAAACTAATAAAGCTAATGAGT
1 AAAAGGTTGACTAGGGTA-AAACTGATAAAGCCAATAATT
* * * *
51349 AGTAGGGTTGACCAGGGTAAAACTGATAAAGTCAACTAATT
1 A-AAAGGTTGACTAGGGTAAAACTGATAAAGCCAA-TAATT
* * * * * *
51390 AAAAGGTTGGCTAGGGCAAAATTGTTAAAGCCAATGAGT
1 AAAAGGTTGACTAGGGTAAAACTGATAAAGCCAATAATT
* * *
51429 AGAAAGGTTGACTAGGGTGAAA-TCGATAGAGTCAACTAATT
1 A-AAAGGTTGACTAGGGTAAAACT-GATAAAGCCAA-TAATT
* * * * *
51470 AAGAGGTTGGCTAGGGTGAAACCGATAAAGCCAATAGGTT
1 AAAAGGTTGACTAGGGTAAAACTGATAAAGCCAATA-ATT
51510 AAAAGGGTTGAC
1 AAAA-GGTTGAC
51522 CAAGGCGATA
Statistics
Matches: 129, Mismatches: 35, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
39 8 0.06
40 106 0.82
41 15 0.12
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.22
Consensus pattern (39 bp):
AAAAGGTTGACTAGGGTAAAACTGATAAAGCCAATAATT
Found at i:51399 original size:80 final size:80
Alignment explanation
Indices: 51273--51523 Score: 260
Period size: 80 Copynumber: 3.1 Consensus size: 80
51263 AACATATTAA
* * * * * * *
51273 AAGGGTTGACCACGGCAAAAC-CAT-AGGTCAACCAATGAAAAGGTTGGCTAGGGAGAAACTAAT
1 AAGGGTTGACCAGGGTAAAACTGATAAAGTCAACTAATTAAAAGGTTGGCTAGGGAGAAACTGAT
*
51336 AAAGCTAATGAGTAG
66 AAAGCCAATGAGTAG
* * *
51351 TAGGGTTGACCAGGGTAAAACTGATAAAGTCAACTAATTAAAAGGTTGGCTAGGGCA-AAATTGT
1 AAGGGTTGACCAGGGTAAAACTGATAAAGTCAACTAATTAAAAGGTTGGCTAGGG-AGAAACTGA
51415 TAAAGCCAATGAGTAG
65 TAAAGCCAATGAGTAG
* * * * * * *
51431 AAAGGTTGACTAGGGTGAAA-TCGATAGAGTCAACTAATTAAGAGGTTGGCTAGGGTGAAACCGA
1 AAGGGTTGACCAGGGTAAAACT-GATAAAGTCAACTAATTAAAAGGTTGGCTAGGGAGAAACTGA
*
51495 TAAAGCCAAT-AGGTTAA
65 TAAAGCCAATGA-G-TAG
51512 AAGGGTTGACCA
1 AAGGGTTGACCA
51524 AGGCGATAAC
Statistics
Matches: 142, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 18 0.13
79 4 0.03
80 107 0.75
81 13 0.09
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (80 bp):
AAGGGTTGACCAGGGTAAAACTGATAAAGTCAACTAATTAAAAGGTTGGCTAGGGAGAAACTGAT
AAAGCCAATGAGTAG
Found at i:51585 original size:46 final size:46
Alignment explanation
Indices: 51528--51747 Score: 246
Period size: 46 Copynumber: 4.8 Consensus size: 46
51518 TGACCAAGGC
* * * * *
51528 GATAACCGATACAGTTAAATAAGAACGAAGAGGGTTTGACTAGGGT
1 GATAACTGATACAGTCAAATAAGAATGAAAAGAGTTTGACTAGGGT
* * *
51574 GGTAACTGATACAATCAAATAAGAAAGAAAAGAGTTTGACTA-GGT
1 GATAACTGATACAGTCAAATAAGAATGAAAAGAGTTTGACTAGGGT
*
51619 GATAA-TCGATACAGTCAAATGAGAATGAAAAGAGTTTGACTAGGGT
1 GATAACT-GATACAGTCAAATAAGAATGAAAAGAGTTTGACTAGGGT
* ** * * * *
51665 GGTAACCAATGCAATCAAATAAGAATGAAAAGGGTTTGATTAGGGT
1 GATAACTGATACAGTCAAATAAGAATGAAAAGAGTTTGACTAGGGT
* * *
51711 GATAACTGATATAGTTAAATGAGAATGAAAAGAGTTT
1 GATAACTGATACAGTCAAATAAGAATGAAAAGAGTTT
51748 AAGAATGAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 39 0.27
46 103 0.72
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (46 bp):
GATAACTGATACAGTCAAATAAGAATGAAAAGAGTTTGACTAGGGT
Found at i:51656 original size:91 final size:91
Alignment explanation
Indices: 51528--51747 Score: 298
Period size: 91 Copynumber: 2.4 Consensus size: 91
51518 TGACCAAGGC
* * * * **
51528 GATAACCGATACAGTTAAATAAGAACGAAGAGGGTTTGACTAGGGTGGTAACTGATACAATCAAA
1 GATAA-CGATACAGTTAAATGAGAATGAAAAGAGTTTGACTAGGGTGGTAACCAATACAATCAAA
51593 TAAGAAAGAAAAGAGTTTGACTA-GGT
65 TAAGAAAGAAAAGAGTTTGACTAGGGT
* *
51619 GATAATCGATACAGTCAAATGAGAATGAAAAGAGTTTGACTAGGGTGGTAACCAATGCAATCAAA
1 GATAA-CGATACAGTTAAATGAGAATGAAAAGAGTTTGACTAGGGTGGTAACCAATACAATCAAA
* * *
51684 TAAGAATGAAAAGGGTTTGATTAGGGT
65 TAAGAAAGAAAAGAGTTTGACTAGGGT
*
51711 GATAACTGATATAGTTAAATGAGAATGAAAAGAGTTT
1 GATAAC-GATACAGTTAAATGAGAATGAAAAGAGTTT
51748 AAGAATGAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
91 77 0.68
92 36 0.32
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (91 bp):
GATAACGATACAGTTAAATGAGAATGAAAAGAGTTTGACTAGGGTGGTAACCAATACAATCAAAT
AAGAAAGAAAAGAGTTTGACTAGGGT
Found at i:51754 original size:17 final size:17
Alignment explanation
Indices: 51732--51764 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
51722 TAGTTAAATG
51732 AGAATGAAAAGAGTTTA
1 AGAATGAAAAGAGTTTA
51749 AGAATGAAAAGAGTTT
1 AGAATGAAAAGAGTTT
51765 GACCATGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AGAATGAAAAGAGTTTA
Found at i:51790 original size:63 final size:63
Alignment explanation
Indices: 51684--51812 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
51674 TGCAATCAAA
* ** * *
51684 TAAGAATGAAAAGGGTTTGATTAGGGTGATAACTGATATAGTTAAATGAGAATGAAAAGAGTT
1 TAAGAATGAAAAGAGTTTGACCAGGGTGATAACTGATACAGTTAAACGAGAATGAAAAGAGTT
* * *
51747 TAAGAATGAAAAGAGTTTGACCATGGTGGTAACCT-ATACAGTTAAACGAGAATGAAAAGGGTT
1 TAAGAATGAAAAGAGTTTGACCAGGGTGATAA-CTGATACAGTTAAACGAGAATGAAAAGAGTT
51810 TAA
1 TAA
51813 CCAGGGTCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 55 0.96
64 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.26, T:0.26
Consensus pattern (63 bp):
TAAGAATGAAAAGAGTTTGACCAGGGTGATAACTGATACAGTTAAACGAGAATGAAAAGAGTT
Found at i:51832 original size:46 final size:46
Alignment explanation
Indices: 51749--52033 Score: 331
Period size: 46 Copynumber: 6.2 Consensus size: 46
51739 AAAGAGTTTA
* * * * *
51749 AGAATGAAAAGAGTTTGACCATGGTGGTAACCTATACAGTTAAACG
1 AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
* * ** *
51795 AGAATGAAAAGGGTTTAACCAGGGTCATAACTAATACAGTCAAACA
1 AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
* * * *
51841 AGAATGAAAAGGGTTTGACTAGGGTGGTAACCGATATAGTCAAATG
1 AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
* * * *
51887 A-AATTGAAAAGGGTTTGACCAAGGTGATAGCCGATATAGTCAAACA
1 AGAA-TGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
* * * *
51933 AGAAT-AAAAGGCTTTGACCAGGGTGGTAACCAATACAGTCAAATG
1 AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
* *
51978 AGAATGAAAAGGGTTTGACCAAGGTGATAACCGATACAATCAAACG
1 AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
52024 AGAATGAAAA
1 AGAATGAAAA
52034 AGTTTGTTTG
Statistics
Matches: 198, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
45 39 0.20
46 157 0.79
47 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
AGAATGAAAAGGGTTTGACCAGGGTGATAACCGATACAGTCAAACG
Found at i:51845 original size:109 final size:109
Alignment explanation
Indices: 51640--51856 Score: 272
Period size: 109 Copynumber: 2.0 Consensus size: 109
51630 CAGTCAAATG
* * * * *
51640 AGAATGAAAAGAGTTTGACTAGGGTGGTAACCAATGCAATCAAATAAGAATGAAAAGGGTTTGAT
1 AGAATGAAAAGAGTTTGACCAGGGTGGTAACCAATACAATCAAACAAGAATGAAAAGGGTTTAAC
* * * * * **
51705 TAGGGTGATAACTGATATAGTTAAATGAGAATGAAAAGAGTTTA
66 CAGGGTCATAACTAATACAGTCAAACAAGAATGAAAAGAGTTTA
* * * * *
51749 AGAATGAAAAGAGTTTGACCATGGTGGTAACCTATACAGTTAAACGAGAATGAAAAGGGTTTAAC
1 AGAATGAAAAGAGTTTGACCAGGGTGGTAACCAATACAATCAAACAAGAATGAAAAGGGTTTAAC
*
51814 CAGGGTCATAACTAATACAGTCAAACAAGAATGAAAAGGGTTT
66 CAGGGTCATAACTAATACAGTCAAACAAGAATGAAAAGAGTTT
51857 GACTAGGGTG
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
109 90 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (109 bp):
AGAATGAAAAGAGTTTGACCAGGGTGGTAACCAATACAATCAAACAAGAATGAAAAGGGTTTAAC
CAGGGTCATAACTAATACAGTCAAACAAGAATGAAAAGAGTTTA
Found at i:51928 original size:92 final size:92
Alignment explanation
Indices: 51748--52033 Score: 387
Period size: 92 Copynumber: 3.1 Consensus size: 92
51738 AAAAGAGTTT
* * * * * *
51748 AAGAATGAAAAGAGTTTGACCATGGTGGTAACCTATACAGTTAAACGAGAATGAAAAGGGTTTAA
1 AAGAATGAAAAGGGTTTGACCAGGGTGGTAACCAATACAGTCAAATGAGAATGAAAAGGGTTTGA
* * **
51813 CCAGGGTCATAACTAATACAGTCAAAC
66 CCAAGGTGATAACCGATACAGTCAAAC
* * *
51840 AAGAATGAAAAGGGTTTGACTAGGGTGGTAACCGATATAGTCAAATGA-AATTGAAAAGGGTTTG
1 AAGAATGAAAAGGGTTTGACCAGGGTGGTAACCAATACAGTCAAATGAGAA-TGAAAAGGGTTTG
* *
51904 ACCAAGGTGATAGCCGATATAGTCAAAC
65 ACCAAGGTGATAACCGATACAGTCAAAC
*
51932 AAGAAT-AAAAGGCTTTGACCAGGGTGGTAACCAATACAGTCAAATGAGAATGAAAAGGGTTTGA
1 AAGAATGAAAAGGGTTTGACCAGGGTGGTAACCAATACAGTCAAATGAGAATGAAAAGGGTTTGA
*
51996 CCAAGGTGATAACCGATACAATCAAAC
66 CCAAGGTGATAACCGATACAGTCAAAC
*
52023 GAGAATGAAAA
1 AAGAATGAAAA
52034 AGTTTGTTTG
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
91 82 0.49
92 87 0.51
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (92 bp):
AAGAATGAAAAGGGTTTGACCAGGGTGGTAACCAATACAGTCAAATGAGAATGAAAAGGGTTTGA
CCAAGGTGATAACCGATACAGTCAAAC
Found at i:54902 original size:14 final size:14
Alignment explanation
Indices: 54879--54912 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
54869 ACTAAATTTC
54879 TTTTTTTTTGTTT-
1 TTTTTTTTTGTTTA
54892 TTTTATTTTTGTTTA
1 TTTT-TTTTTGTTTA
54907 TTTTTT
1 TTTTTT
54913 GAAAATCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTGTTTA
Found at i:58295 original size:19 final size:19
Alignment explanation
Indices: 58271--58356 Score: 94
Period size: 19 Copynumber: 4.8 Consensus size: 19
58261 AATTTAACTC
*
58271 AATATGTATCAATACCAAG
1 AATATGTATCGATACCAAG
58290 AATATGTATCGATA-C---
1 AATATGTATCGATACCAAG
58305 -A-ATGTATCGATACCAAG
1 AATATGTATCGATACCAAG
* *
58322 AACATGTATCGATACTAAG
1 AATATGTATCGATACCAAG
58341 TAATATGTATCGATAC
1 -AATATGTATCGATAC
58357 ATCTAGGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
13 11 0.19
14 2 0.04
18 2 0.04
19 28 0.49
20 14 0.25
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (19 bp):
AATATGTATCGATACCAAG
Found at i:58311 original size:13 final size:13
Alignment explanation
Indices: 58293--58317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58283 TACCAAGAAT
58293 ATGTATCGATACA
1 ATGTATCGATACA
58306 ATGTATCGATAC
1 ATGTATCGATAC
58318 CAAGAACATG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:58318 original size:32 final size:32
Alignment explanation
Indices: 58274--58336 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
58264 TTAACTCAAT
*
58274 ATGTATCAATACCAAGAATATGTATCGATACA
1 ATGTATCAATACCAAGAACATGTATCGATACA
*
58306 ATGTATCGATACCAAGAACATGTATCGATAC
1 ATGTATCAATACCAAGAACATGTATCGATAC
58337 TAAGTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
ATGTATCAATACCAAGAACATGTATCGATACA
Found at i:59078 original size:149 final size:149
Alignment explanation
Indices: 58917--59231 Score: 335
Period size: 149 Copynumber: 2.1 Consensus size: 149
58907 GTTTCAAGAG
* ** * ***
58917 AAATTACAAAAATACCCTTACAAGTATACCTTCAACATGAAAGTATCTTGGTAACCCTAATGGAC
1 AAATTACAAAAATACCCTTACAAGTATACCTTCAACATAAAAGTATCCCGATAACCCTAAAAAAC
* * ** * * * *
58982 TTAACAAGGAAAAGTAAACCAATGCTTAATACGTACCTTCGGCATATAAGTGAC-CTAATGAGAA
66 TTAAAAAGGAAAAGCAAACCAACACCTAATACATACCTTCGGCATAGAAGTGACTC-AATGACAA
*
59046 ATTAGGCCTTGGTTTTAGAA
130 ATTAGGCCTTGGTTCTAGAA
* *** * **
59066 AAATTACAAAAATGCCCTTATGGGTATACGTTTGACATAAAAGTATCCCGATAACCCTAAAAAAC
1 AAATTACAAAAATACCCTTACAAGTATACCTTCAACATAAAAGTATCCCGATAACCCTAAAAAAC
* * ** *
59131 TTAAAAAGGAAAAGCGAACCTACACCTAATACATACCTTCGGCATAGAAGTGACTCGGTGACACA
66 TTAAAAAGGAAAAGCAAACCAACACCTAATACATACCTTCGGCATAGAAGTGACTCAATGACAAA
*
59196 TTAGGGCTTGGTTCTAGAA
131 TTAGGCCTTGGTTCTAGAA
**
59215 AAATTATGAAAATACCC
1 AAATTACAAAAATACCC
59232 CTAGGGGCAT
Statistics
Matches: 133, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
149 132 0.99
150 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (149 bp):
AAATTACAAAAATACCCTTACAAGTATACCTTCAACATAAAAGTATCCCGATAACCCTAAAAAAC
TTAAAAAGGAAAAGCAAACCAACACCTAATACATACCTTCGGCATAGAAGTGACTCAATGACAAA
TTAGGCCTTGGTTCTAGAA
Found at i:61424 original size:19 final size:18
Alignment explanation
Indices: 61388--61434 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
61378 AGCCATTTTT
61388 TTAAAAAAAAAAGAAAAA
1 TTAAAAAAAAAAGAAAAA
*
61406 TTAAAGAAAAAAATCAAAAAA
1 TTAAA-AAAAAAA--GAAAAA
61427 TTAAAAAA
1 TTAAAAAA
61435 TTGAATGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 7 0.28
20 3 0.12
21 10 0.40
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (18 bp):
TTAAAAAAAAAAGAAAAA
Found at i:61784 original size:14 final size:14
Alignment explanation
Indices: 61753--61799 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
61743 AGTTTCTTTG
61753 TGAAAA-AAAAAGAA
1 TGAAAAGAAAAA-AA
61767 -GAAAAGAAAAAAA
1 TGAAAAGAAAAAAA
61780 TGAAAAGAAAGAAAA
1 TGAAAAGAAA-AAAA
61795 T-AAAA
1 TGAAAA
61800 TCAAGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.23
14 18 0.60
15 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
TGAAAAGAAAAAAA
Found at i:61790 original size:18 final size:17
Alignment explanation
Indices: 61756--61799 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
61746 TTCTTTGTGA
*
61756 AAAAAAAAGAAGAAAAG
1 AAAAAAAAGAAAAAAAG
*
61773 AAAAAAATGAAAAGAAAG
1 AAAAAAAAGAAAA-AAAG
61791 AAAATAAAA
1 AAAA-AAAA
61800 TCAAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 8 0.36
19 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:62125 original size:11 final size:10
Alignment explanation
Indices: 62094--62161 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
62084 ATGATGGGGC
62094 AAAAAAAAGA
1 AAAAAAAAGA
62104 TAAAAATAAA-A
1 -AAAAA-AAAGA
62115 AAGAAACAAA-A
1 AA-AAA-AAAGA
*
62126 ACGAAAAAAGA
1 A-AAAAAAAGA
62137 AAAAAAAA-A
1 AAAAAAAAGA
*
62146 GAAAAAAAGA
1 AAAAAAAAGA
62156 AAAAAA
1 AAAAAA
62162 TAATGTAGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
9 8 0.17
10 17 0.36
11 19 0.40
12 3 0.06
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:62125 original size:25 final size:25
Alignment explanation
Indices: 62096--62160 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
62086 GATGGGGCAA
* * *
62096 AAAAAAGATAAAAATAAAAAAGAAAC
1 AAAAACGA-AAAAAGAAAAAAAAAAC
*
62122 AAAAACGAAAAAAGAAAAAAAAAAGA
1 AAAAACGAAAAAAGAAAAAAAAAA-C
*
62148 AAAAAAGAAAAAA
1 AAAAACGAAAAAA
62161 ATAATGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (25 bp):
AAAAACGAAAAAAGAAAAAAAAAAC
Found at i:62126 original size:18 final size:17
Alignment explanation
Indices: 62094--62161 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
62084 ATGATGGGGC
* * *
62094 AAAAAAAAGATAAAAAT
1 AAAAAAAAAAAAAAAAG
* *
62111 AAAAAAGAAACAAAAACG
1 AAAAAA-AAAAAAAAAAG
62129 AAAAAAGAAAAAAAAAAG
1 AAAAAA-AAAAAAAAAAG
62147 AAAAAAAGAAAAAAA
1 AAAAAAA-AAAAAAA
62162 TAATGTAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 7 0.17
18 35 0.83
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:62133 original size:19 final size:17
Alignment explanation
Indices: 62105--62161 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
62095 AAAAAAAGAT
*
62105 AAAAATAAAAAAGAAACA
1 AAAAAGAAAAAAGAAA-A
*
62123 AAAACGAAAAAAGAAAAA
1 AAAAAGAAAAAAG-AAAA
62141 AAAAAGAAAAAAAGAAAA
1 AAAAAG-AAAAAAGAAAA
62159 AAA
1 AAA
62162 TAATGTAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.86, C:0.04, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAA
Found at i:63343 original size:60 final size:60
Alignment explanation
Indices: 63260--63432 Score: 161
Period size: 60 Copynumber: 2.9 Consensus size: 60
63250 CTCTTGCTTG
* *
63260 ACTATATTTGGTCAAGTCCTTTTTCATTTGATTATATTC-GATCAAATTTTTACCTACTTA
1 ACTATATCTGGTCAAGTCCTTTTTCATTTGACTATATTCAG-TCAAATTTTTACCTACTTA
* * * * * * *
63320 ACTATATCTGGTTAAGTCTTTTTTCATTTGACTGTGTTCAGTTAAATTTTTACTTACTTG
1 ACTATATCTGGTCAAGTCCTTTTTCATTTGACTATATTCAGTCAAATTTTTACCTACTTA
* ** * * *
63380 ACTATATATTCAATCAAGT-CTTTCTTCATTTGACTGTATTGAGTCAATTTTTT
1 ACTATAT-CT-GGTCAAGTCCTTT-TTCATTTGACTATATTCAGTCAAATTTTT
63433 CTCGCCTGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
60 56 0.62
61 5 0.05
62 30 0.33
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (60 bp):
ACTATATCTGGTCAAGTCCTTTTTCATTTGACTATATTCAGTCAAATTTTTACCTACTTA
Found at i:63467 original size:59 final size:62
Alignment explanation
Indices: 63333--63473 Score: 180
Period size: 59 Copynumber: 2.3 Consensus size: 62
63323 ATATCTGGTT
* * *
63333 AAGTCTTTTTTCATTTGACTGTGTTCAGTTAAATTTTTACTTACTTGACTATATATTCAATC
1 AAGTCTTTTTTCATTTGACTGTATTCAGTTAAATTTTTACTCACCTGACTATATATTCAATC
* * * * * *
63395 AAGTCTTTCTTCATTTGACTGTATTGAG-TCAATTTTTTCTCGCCTGA-T-TATATTCGATC
1 AAGTCTTTTTTCATTTGACTGTATTCAGTTAAATTTTTACTCACCTGACTATATATTCAATC
63454 AAGTCTTTTTTCATTTGACT
1 AAGTCTTTTTTCATTTGACT
63474 ATATCGGTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 29 0.42
60 1 0.01
61 14 0.20
62 25 0.36
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (62 bp):
AAGTCTTTTTTCATTTGACTGTATTCAGTTAAATTTTTACTCACCTGACTATATATTCAATC
Found at i:63547 original size:44 final size:45
Alignment explanation
Indices: 63511--64033 Score: 429
Period size: 44 Copynumber: 12.0 Consensus size: 45
63501 TTCCACACTT
63511 TTTGACGTGATGGTT-TAGCCTTGGTCAAACTCCTTTCA-TTTTCA
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTT-A
* * * ** * **
63555 TTGGACGTGCTGGTTC-AGCCCTAATCAAACCCCTTT--CTTTCG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * *
63597 CTTGATGTGATGGTTCTA-CCTTAGTCAAGCTCCTTTCA-TTTTCA
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTT-A
* * * * * *
63641 TTTGACGTAATGGTT-TAGCCCTAGTCAAACTCTTTTCACTCTTG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * * *
63685 TTTGACATGATGGTTCTA-CCCTGGTCAAGCTTCTTTCA-TTTATG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTT-TA
* * *
63729 TTTGACGTGATGGTTC-AGCCTTAGTCAAACTCCTTTCACTCTTG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * * *
63773 TTTGACATGATGGTTCTA-CCTTGGT-AAACTTCTTCCGCTTTCA
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * * *
63816 TTTAACGTGATGGTTCTA-CCTTGGTTAAACTCTTTTTACTTTCA
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * * *
63860 TTTGACATGATGATTCT-GCCCTGGTTAAACT-CTTTCACTTTTG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
** *
63903 TTTGACGTGATGGTTCT-GCCTTGGTCAAACTCCTTTCGTTTTTG
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
* * * *
63947 TTTGACATGATGGTTCT-GCCTTGATCAAACTTCTTTCACTTTCA
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
*
63991 TTTGACGTAATGGTTCT-GCCTTGGTCAAACT-CTTTCCACTTTT
1 TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTT-CACTTTT
64034 GTTTAACATA
Statistics
Matches: 383, Mismatches: 79, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.07
43 86 0.22
44 263 0.69
45 8 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (45 bp):
TTTGACGTGATGGTTCTAGCCTTGGTCAAACTCCTTTCACTTTTA
Found at i:64072 original size:88 final size:87
Alignment explanation
Indices: 63511--64069 Score: 488
Period size: 88 Copynumber: 6.4 Consensus size: 87
63501 TTCCACACTT
* * * * * * *
63511 TTTGACGTGATGGTT-TAGCCTTGGTCAAACTCCTTTCATTTTCATTGGACGTGCTGGTTCAGCC
1 TTTGACATGATGGTTCT-GCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCC
* ** * *
63575 CTAATCAAACCCCTTT--CTTTCG
65 TTGGTCAAA-CTCTTTCACTTTTG
* ** * * * * * * *
63597 CTTGATGTGATGGTTCTACCTTAGTCAAGCTCCTTTCATTTTCATTTGACGTAATGGTT-TAGCC
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCT-GCC
* * *
63661 CTAGTCAAACTCTTTTCACTCTTG
65 TTGGTCAAACTC-TTTCACTTTTG
* * *
63685 TTTGACATGATGGTTCTACCCTGGTCAAGCTTCTTTCA-TTT-ATGTTTGACGTGATGGTTCAGC
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCA--TTTGACGTGATGGTTCTGC
* *
63748 CTTAGTCAAACTCCTTTCACTCTTG
64 CTTGGTCAAACT-CTTTCACTTTTG
* * * * * *
63773 TTTGACATGATGGTTCTACCTTGGT-AAACTTCTTCCGCTTTCATTTAACGTGATGGTTCTACCT
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCT
* * **
63837 TGGTTAAACTCTTTTTACTTTCA
66 TGGTCAAACTC-TTTCACTTTTG
* * **
63860 TTTGACATGATGATTCTGCCCTGGTTAAAC-TCTTTCACTTTTGTTTGACGTGATGGTTCTGCCT
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCT
**
63924 TGGTCAAACTCCTTTCGTTTTTG
66 TGGTCAAACT-CTTTCACTTTTG
* * *
63947 TTTGACATGATGGTTCTGCCTTGATCAAACTTCTTTCACTTTCATTTGACGTAATGGTTCTGCCT
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCT
64012 TGGTCAAACTCTTTCCACTTTTG
66 TGGTCAAACTCTTT-CACTTTTG
* * * *
64035 TTTAACATAATGGTTTTGCCCTAGTCAAAC-TCTTT
1 TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTT
64070 TCATCCTCGT
Statistics
Matches: 392, Mismatches: 65, Indels: 31
0.80 0.13 0.06
Matches are distributed among these distances:
85 2 0.01
86 65 0.17
87 146 0.37
88 177 0.45
89 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.42
Consensus pattern (87 bp):
TTTGACATGATGGTTCTGCCCTGGTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCT
TGGTCAAACTCTTTCACTTTTG
Found at i:64092 original size:88 final size:88
Alignment explanation
Indices: 63664--64094 Score: 270
Period size: 87 Copynumber: 4.9 Consensus size: 88
63654 TTTAGCCCTA
* * * * * * * *
63664 GTCAAACTCTTTTCACTCTTGTTTGACATGATGGTTCTACCCT-GGTCAAGCTTCTTTCA-T-TT
1 GTCAAACTCCTTTCACTTTTGTTTAACATAATGGTTCT-GCCTAGATCAAACTTCTTTCACTCTC
** * *
63726 ATGTTTGACGTGATGGTTCAGCCTTA
65 A--TTCAACGTGATGGTTCTGCCTTG
* * * * * * * * *
63752 GTCAAACTCCTTTCACTCTTGTTTGACATGATGGTTCTACCTTGGT-AAACTTCTTCCGCTTTCA
1 GTCAAACTCCTTTCACTTTTGTTTAACATAATGGTTCTGCCTAGATCAAACTTCTTTCACTCTCA
* *
63816 TTTAACGTGATGGTTCTACCTTG
66 TTCAACGTGATGGTTCTGCCTTG
* * * ** * * * * * * *
63839 GTTAAACTCTTTTTACTTTCATTTGACATGATGATTCTGCCCT-GGTTAAAC-TCTTTCACTTTT
1 GTCAAACTCCTTTCACTTTTGTTTAACATAATGGTTCTG-CCTAGATCAAACTTCTTTCACTCTC
* **
63902 GTTTGACGTGATGGTTCTGCCTTG
65 ATTCAACGTGATGGTTCTGCCTTG
** * * * *
63926 GTCAAACTCCTTTCGTTTTTGTTTGACATGATGGTTCTGCCTTGATCAAACTTCTTTCACTTTCA
1 GTCAAACTCCTTTCACTTTTGTTTAACATAATGGTTCTGCCTAGATCAAACTTCTTTCACTCTCA
** *
63991 TTTGACGTAATGGTTCTGCCTTG
66 TTCAACGTGATGGTTCTGCCTTG
*
64014 GTCAAACT-CTTTCCACTTTTGTTTAACATAATGGTTTTGCCCTAG-TCAAAC-TCTTTTCA-TC
1 GTCAAACTCCTTT-CACTTTTGTTTAACATAATGGTTCTG-CCTAGATCAAACTTC-TTTCACT-
* *
64075 CTCGTTCAATGTGATGGTTC
62 CTCATTCAACGTGATGGTTC
64095 AGCCCTAGTT
Statistics
Matches: 283, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
86 3 0.01
87 139 0.49
88 135 0.48
89 6 0.02
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (88 bp):
GTCAAACTCCTTTCACTTTTGTTTAACATAATGGTTCTGCCTAGATCAAACTTCTTTCACTCTCA
TTCAACGTGATGGTTCTGCCTTG
Found at i:65938 original size:11 final size:11
Alignment explanation
Indices: 65922--65951 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65912 AAAATCAACT
65922 AAGAAAAAAAA
1 AAGAAAAAAAA
65933 AAGAAAAAAAA
1 AAGAAAAAAAA
*
65944 AGGAAAAA
1 AAGAAAAA
65952 TGATGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:70494 original size:2 final size:2
Alignment explanation
Indices: 70487--70521 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
70477 GTGTATGATG
70487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70522 GAATGCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72046 original size:22 final size:22
Alignment explanation
Indices: 72018--72064 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
72008 ATATGGTAGG
72018 AGTGGGATGCATGTTCCTTTTT
1 AGTGGGATGCATGTTCCTTTTT
72040 AGTGGGATGCATGTTCCTTTTT
1 AGTGGGATGCATGTTCCTTTTT
72062 AGT
1 AGT
72065 TGATCAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.45
Consensus pattern (22 bp):
AGTGGGATGCATGTTCCTTTTT
Found at i:74789 original size:157 final size:157
Alignment explanation
Indices: 74619--75471 Score: 678
Period size: 157 Copynumber: 5.4 Consensus size: 157
74609 AAAATGATTG
* * * * * ** *
74619 TAAATGGGGTGAACCCATCCTAAATACACATCTTTGGCATAAAAGCATCCCGATGACAATTTAAA
1 TAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGATGACAACCTAAG
* * * * *
74684 ACTCAGTTCTAAAAAAAATATGAAAATGCCCTTATGAGTATACCTACGACATGAAAGTATTAGGG
66 ACTCAGTTCTAAAAAAATTATGAAAATACCCCTATGAGTATACCTTCGACATGAAAGTATTATGG
74749 TAACCCTAAAAGACTTAAAAAGGATCA
131 TAACCCTAAAAGACTTAAAAAGGATCA
* * * * * *
74776 TGAGTGGGATGAACCTAAACC-AAATACCCACCTTCGACATAAAAGCATCTCGATAACAACCTAA
1 TAAATGGGATGAACCT-ATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGATGACAACCTAA
** * * * ** * * *
74840 GACTTGGTACTAGAAAATTTACAAAAATGCCCCTATG-GCCATGCCTTCGACATGAAAGTATCT-
65 GACTCAGTTCTAAAAAAATTATGAAAATACCCCTATGAG-TATACCTTCGACATGAAAGTAT-TA
* * * *
74903 TGATAACCTTAAAACACTTAAAAATGATCA
128 TGGTAACCCTAAAAGACTTAAAAAGGATCA
* * ** *
74933 TGAATGGGACGAACCTAAT-CTAAATACCCACCTTCAACATAAAA--AT-CCTAGTGACAACCTA
1 TAAATGGGATGAACCT-ATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGA-TGACAACCTA
* * * * * * *
74994 GGACTCAATAT-TAGAAAAAATTATGAAAGTACCCTTATGGGTATATCTTTGACATGAAAGTATC
64 AGACTCAGT-TCTA-AAAAAATTATGAAAATACCCCTATGAGTATACCTTCGACATGAAAGTAT-
*
75058 TCA--GTAACTCT-AAAGAACTTAAAAAGGATCA
126 T-ATGGTAACCCTAAAAG-ACTTAAAAAGGATCA
* * * ** * * **
75089 TAAATGAGATGAACTTATCCTAAATAGCCATTTTTGGCACAAAAGCATCCTAATGACAACCTAAG
1 TAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGATGACAACCTAAG
* ****
75154 ACTC-GATTCTAAAAAAATTATGAAAATACCCCTAT-AGTTATACCTTCGATATGAAAGTACCCC
66 ACTCAG-TTCTAAAAAAATTATGAAAATACCCCTATGAG-TATACCTTCGACATGAAAGTATTAT
** ** * * * *
75217 AATATTCCTAAAGGACTAAAAAATGATTA
129 GGTAACCCTAAAAGACTTAAAAAGGATCA
* * * **
75246 TAAATAGGAT-AATCCTATCCTAAATACCCACCTTCGGCATAAAAAG-ATCTCGATAACAAATTA
1 TAAATGGGATGAA-CCTATCCTAAATACCCACCTTCGGCAT-AAAAGCATCCCGATGACAACCTA
* * * ** *
75309 AGACT-A-TTTTAGAAAAATTATGAAAATACCCCTATGAGTATACTTTTAACATGAAAGTATTTT
64 AGACTCAGTTCTAAAAAAATTATGAAAATACCCCTATGAGTATACCTTCGACATGAAAGTA-TTA
* *
75372 TGGTAACCCTAAAAAACTTTAAAAAAAGATCA
128 TGGTAACCCTAAAAGAC-TT-AAAAAGGATCA
* * *
75404 TAAATGGGATGAACCTATCCTAAATACCCATCTTCAGCATAAAAGCATCCCGATGATAACCTAAG
1 TAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGATGACAACCTAAG
75469 ACT
66 ACT
75472 TATAAAAAAT
Statistics
Matches: 534, Mismatches: 132, Indels: 59
0.74 0.18 0.08
Matches are distributed among these distances:
154 2 0.00
155 67 0.13
156 104 0.19
157 265 0.50
158 92 0.17
159 4 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.26
Consensus pattern (157 bp):
TAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCATCCCGATGACAACCTAAG
ACTCAGTTCTAAAAAAATTATGAAAATACCCCTATGAGTATACCTTCGACATGAAAGTATTATGG
TAACCCTAAAAGACTTAAAAAGGATCA
Found at i:75150 original size:313 final size:309
Alignment explanation
Indices: 74695--75472 Score: 737
Period size: 313 Copynumber: 2.5 Consensus size: 309
74685 CTCAGTTCTA
* * **
74695 AAAAAAATATGAAAATGCCCTTATGAGTATACCTACGACATGAAAGTATTAGGGTAACCCTAAAA
1 AAAAAATTATGAAAATACCCTTATGAGTATA-CTTTGACATGAAAGTATTA--GTAACCCTAAAA
* * * * * *
74760 GACTTAAAAAGGATCATGAGTGGGATGAACCTAAACC-AAATACCCACCTTCGACATAAAAGCAT
63 -ACTTAAAAAGGATCATAAATGGGATGAA-CTTATCCTAAATACCCATCTTCGGCATAAAAGCAT
* * * * * * *
74824 -CTCGATAACAACCTAAGACTTGGTACTAGAAAATTTACAAAAATGCCCCTATGGCCATGCCTTC
126 CCT-GATGACAACCTAAGACTTGATACTAAAAAAATTACAAAAATACCCCTATAGCCATACCTTC
* *** * * *
74888 GACATGAAAGTATCTTGATA-ACCTTAAAACACTTAAAAATGATCATGAATGGGACGAA-CCTAA
190 GACATGAAAGTACCCCAATATACC-TAAAACACTAAAAAATGATCATAAATAGGA-GAATCCT-A
* * *
74951 T-CTAAATACCCACCTTCAACAT-AAAA-ATCCTAG-TGACAACCTAGGACTCAATATTAG
252 TCCTAAATACCCACCTTCAACATAAAAAGAT-CTAGATAACAAACTAAGACT--ATATTAG
* * *
75008 AAAAAATTATGAAAGTACCCTTATGGGTATATCTTTGACATGAAAGTATCTCAGTAACTCTAAAG
1 AAAAAATTATGAAAATACCCTTATGAGTATA-CTTTGACATGAAAGTAT-T-AGTAACCCTAAA-
* * * * *
75073 AACTTAAAAAGGATCATAAATGAGATGAACTTATCCTAAATAGCCATTTTTGGCACAAAAGCATC
62 AACTTAAAAAGGATCATAAATGGGATGAACTTATCCTAAATACCCATCTTCGGCATAAAAGCATC
* * * ** **
75138 CTAATGACAACCTAAGACTCGATTCTAAAAAAATTATGAAAATACCCCTATAGTTATACCTTCGA
127 CTGATGACAACCTAAGACTTGATACTAAAAAAATTACAAAAATACCCCTATAGCCATACCTTCGA
* * ** * *
75203 TATGAAAGTACCCCAATATTCCTAAAGGACTAAAAAATGATTATAAATAGGATAATCCTATCCTA
192 CATGAAAGTACCCCAATATACCTAAAACACTAAAAAATGATCATAAATAGGAGAATCCTATCCTA
** * * *
75268 AATACCCACCTTCGGCATAAAAAGATCTCGATAACAAATTAAGACTATTTTAG
257 AATACCCACCTTCAACATAAAAAGATCTAGATAACAAACTAAGACTATATTAG
* * *
75321 -AAAAATTATGAAAATACCCCTATGAGTATACTTTTAACATGAAAGTATTTTTGGTAACCCTAAA
1 AAAAAATTATGAAAATACCCTTATGAGTATAC-TTTGACATGAAAGTA---TTAGTAACCCT-AA
* * *
75385 AAACTTTAAAAAAAGATCATAAATGGGATGAACCTATCCTAAATACCCATCTTCAGCATAAAAGC
61 AAAC-TT-AAAAAGGATCATAAATGGGATGAACTTATCCTAAATACCCATCTTCGGCATAAAAGC
* *
75450 ATCCCGATGATAACCTAAGACTT
124 ATCCTGATGACAACCTAAGACTT
75473 ATAAAAAATA
Statistics
Matches: 375, Mismatches: 72, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
311 1 0.00
312 50 0.13
313 222 0.59
314 19 0.05
315 83 0.22
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (309 bp):
AAAAAATTATGAAAATACCCTTATGAGTATACTTTGACATGAAAGTATTAGTAACCCTAAAAACT
TAAAAAGGATCATAAATGGGATGAACTTATCCTAAATACCCATCTTCGGCATAAAAGCATCCTGA
TGACAACCTAAGACTTGATACTAAAAAAATTACAAAAATACCCCTATAGCCATACCTTCGACATG
AAAGTACCCCAATATACCTAAAACACTAAAAAATGATCATAAATAGGAGAATCCTATCCTAAATA
CCCACCTTCAACATAAAAAGATCTAGATAACAAACTAAGACTATATTAG
Found at i:76775 original size:24 final size:24
Alignment explanation
Indices: 76731--76776 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
76721 GTGAAATTTG
*
76731 ATTTTTTTTTCTTAGTGTTTTCGT
1 ATTTTTTTTTCTTACTGTTTTCGT
* *
76755 ATTTTTTTTTCTTTCTTTTTTC
1 ATTTTTTTTTCTTACTGTTTTC
76777 TATGGAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.76
Consensus pattern (24 bp):
ATTTTTTTTTCTTACTGTTTTCGT
Found at i:78786 original size:15 final size:15
Alignment explanation
Indices: 78759--78796 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
78749 TCAAGCTAAT
*
78759 TTGAT-TTTTTGAAA
1 TTGATGTTTATGAAA
78773 TTGATGTTTATGAAA
1 TTGATGTTTATGAAA
78788 TTGATGTTT
1 TTGATGTTT
78797 TTATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (15 bp):
TTGATGTTTATGAAA
Found at i:84411 original size:2 final size:2
Alignment explanation
Indices: 84404--84439 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
84394 GCTTACTAGA
84404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84440 GAAATCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85027 original size:27 final size:26
Alignment explanation
Indices: 84966--85058 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 26
84956 ACAAAATAAT
* * *
84966 TTATATATTTATTTTTTATTTAAAATA
1 TTATATATTTA-ATTATATTTAATATA
*
84993 TTTTTATATTATAATTATATTTAATATA
1 -TTATATATT-TAATTATATTTAATATA
*
85021 TTATATATTTAATTAAATTTTAATATA
1 TTATATATTTAATTATA-TTTAATATA
85048 TTA-ATTATTTA
1 TTATA-TATTTA
85059 TGTTATATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.14
27 26 0.46
28 20 0.36
29 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATATATTTAATTATATTTAATATA
Found at i:85036 original size:20 final size:20
Alignment explanation
Indices: 84997--85054 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
84987 AAAATATTTT
*
84997 TATATTATA-ATTATATTTAA
1 TATATTATATATT-TAATTAA
85017 TATATTATATATTTAATTAA
1 TATATTATATATTTAATTAA
*
85037 -ATTTTA-ATATATTAATTA
1 TATATTATATAT-TTAATTA
85055 TTTATGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 12 0.35
20 15 0.44
21 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTATATATTTAATTAA
Found at i:85633 original size:10 final size:10
Alignment explanation
Indices: 85618--85793 Score: 70
Period size: 10 Copynumber: 15.9 Consensus size: 10
85608 TCCCTGATTG
85618 TAATAATATT
1 TAATAATATT
85628 TAATAATATATT
1 TAAT-A-ATATT
*
85640 TCAATATTTAATT
1 T-AATA-AT-ATT
*
85653 TGATAATATT
1 TAATAATATT
*
85663 TAATGCTATATT
1 TAAT--AATATT
*
85675 TAATAGTATAT
1 TAATAATAT-T
*
85686 TAAAAATATAT
1 TAATAATAT-T
85697 TAATATAATATT
1 T-A-ATAATATT
85709 TAATAATATAT
1 TAATAATAT-T
85720 TAA-AATTATTT
1 TAATAA-TA-TT
*
85731 TAAAAATA-T
1 TAATAATATT
* *
85740 TATTTAAT-CT
1 TA-ATAATATT
85750 TAATAAATAATAT
1 TAAT-AAT-AT-T
85763 TAATAACATATT
1 TAAT-A-ATATT
*
85775 AAATAATATT
1 TAATAATATT
85785 TAATAATAT
1 TAATAATAT
85794 AGTAAATGTT
Statistics
Matches: 130, Mismatches: 16, Indels: 40
0.70 0.09 0.22
Matches are distributed among these distances:
9 4 0.03
10 44 0.34
11 27 0.21
12 31 0.24
13 22 0.17
14 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (10 bp):
TAATAATATT
Found at i:85645 original size:13 final size:13
Alignment explanation
Indices: 85618--85747 Score: 56
Period size: 12 Copynumber: 11.1 Consensus size: 13
85608 TCCCTGATTG
85618 TAATAATATTTAA
1 TAATAATATTTAA
85631 TAAT-ATATTTCAA
1 TAATAATATTT-AA
* *
85644 T-AT-TTAATT--
1 TAATAATATTTAA
*
85653 TGATAATATTTAA
1 TAATAATATTTAA
**
85666 TGCT-ATATTTAA
1 TAATAATATTTAA
*
85678 TAGT-ATA-TTAA
1 TAATAATATTTAA
*
85689 AAAT-ATA-TTAA
1 TAATAATATTTAA
85700 T-ATAATATTTAA
1 TAATAATATTTAA
85712 TAAT-ATA-TTAA
1 TAATAATATTTAA
*
85723 -AATTAT-TTTAA
1 TAATAATATTTAA
* *
85734 AAATATTATTTAA
1 TAATAATATTTAA
85747 T
1 T
85748 CTTAATAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
9 1 0.01
10 7 0.08
11 30 0.33
12 37 0.40
13 17 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:85695 original size:11 final size:11
Alignment explanation
Indices: 85681--85739 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
85671 TATTTAATAG
85681 TATATTAAAAA
1 TATATTAAAAA
85692 TATATTAATATAA
1 TATATTAA-A-AA
*
85705 TAT-TTAATAA
1 TATATTAAAAA
*
85715 TATATTAAAAT
1 TATATTAAAAA
*
85726 TATTTTAAAAA
1 TATATTAAAAA
85737 TAT
1 TAT
85740 TATTTAATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 5 0.12
11 25 0.62
12 5 0.12
13 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATTAAAAA
Found at i:85708 original size:34 final size:35
Alignment explanation
Indices: 85670--85830 Score: 116
Period size: 34 Copynumber: 4.5 Consensus size: 35
85660 ATTTAATGCT
* *
85670 ATATTTAATAGTATATTAAAAATATATT-AATATA
1 ATATTTAATAATATATTAAAAATATATTAAAAATA
* *
85704 ATATTTAATAATATATTAAAATTATTTTAAAAATA
1 ATATTTAATAATATATTAAAAATATATTAAAAATA
* *
85739 TTATTTAATCTTAATAAATAATATTAATAACATATT--AAATA
1 --A--T-AT-TTAAT-AAT-ATATTAAAAATATATTAAAAATA
* * * *
85780 ATATTTAATAATATAGT--AAATGTTTTAGAAATA
1 ATATTTAATAATATATTAAAAATATATTAAAAATA
*
85813 TTATTTAATAATATATTA
1 ATATTTAATAATATATTA
85831 GATTTTTATT
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
31 5 0.05
33 24 0.24
34 28 0.28
35 10 0.10
36 2 0.02
37 2 0.02
39 2 0.02
40 2 0.02
41 10 0.10
42 3 0.03
43 12 0.12
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
ATATTTAATAATATATTAAAAATATATTAAAAATA
Found at i:85741 original size:20 final size:22
Alignment explanation
Indices: 85682--85741 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
85672 ATTTAATAGT
* *
85682 ATATTAAAAATATATTAATATA
1 ATATTTAAAATATATTAAAATA
*
85704 ATATTTAATAATATATTAAAATT
1 ATATTTAA-AATATATTAAAATA
85727 AT-TTTAAAA-ATATTA
1 ATATTTAAAATATATTA
85742 TTTAATCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 12 0.35
23 14 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATTTAAAATATATTAAAATA
Found at i:85790 original size:22 final size:22
Alignment explanation
Indices: 85619--85800 Score: 101
Period size: 22 Copynumber: 8.1 Consensus size: 22
85609 CCCTGATTGT
*
85619 AATAATATTTAATAATATATTTC
1 AATAATATTTAATAATATA-TTA
* *
85642 AATATTTAATTTGATAATAT-TT-
1 AATA-AT-ATTTAATAATATATTA
* *
85664 AATGCTATATTTAATAGTATATTA
1 AAT--AATATTTAATAATATATTA
*
85688 AA-AATATATTAAT-ATAATATTT
1 AATAATAT-TTAATAAT-ATATTA
*
85710 AATAATATATTAA-AATTATTTTA
1 AATAATAT-TTAATAA-TATATTA
* * *
85733 AA-AATA-TTATTTAATCTTAATA
1 AATAATATTTA-ATAAT-ATATTA
*
85755 AATAATA-TTAATAACATATTA
1 AATAATATTTAATAATATATTA
*
85776 AATAATATTTAATAATATAGTA
1 AATAATATTTAATAATATATTA
85798 AAT
1 AAT
85801 GTTTTAGAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
20 3 0.02
21 17 0.14
22 54 0.44
23 33 0.27
24 4 0.03
25 11 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATAATATTTAATAATATATTA
Found at i:90194 original size:9 final size:9
Alignment explanation
Indices: 90180--90218 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
90170 TCAACCATCA
90180 AAGATGATG
1 AAGATGATG
90189 AAGATGATG
1 AAGATGATG
*
90198 ATGATGATG
1 AAGATGATG
*
90207 ATGATGATG
1 AAGATGATG
90216 AAG
1 AAG
90219 TTGACTCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (9 bp):
AAGATGATG
Found at i:90197 original size:3 final size:3
Alignment explanation
Indices: 90182--90216 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
90172 AACCATCAAA
*
90182 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
90217 AGTTGACTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:92304 original size:13 final size:13
Alignment explanation
Indices: 92264--92316 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
92254 CCGTTACAAG
92264 CAATGTATCGATA
1 CAATGTATCGATA
92277 CAA--T-TC-AT-
1 CAATGTATCGATA
92285 C-ATGTATCGATA
1 CAATGTATCGATA
92297 CAATGTATCGATA
1 CAATGTATCGATA
*
92310 CATTGTA
1 CAATGTA
92317 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:92304 original size:33 final size:33
Alignment explanation
Indices: 92264--92332 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
92254 CCGTTACAAG
*
92264 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
92297 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
92330 CAA
1 CAA
92333 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:92419 original size:13 final size:13
Alignment explanation
Indices: 92401--92425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92391 AACAATGAAT
92401 ATGTATCGATACG
1 ATGTATCGATACG
92414 ATGTATCGATAC
1 ATGTATCGATAC
92426 AAAGCATAAT
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:0.20, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACG
Found at i:92442 original size:33 final size:32
Alignment explanation
Indices: 92382--92445 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
92372 ACAATTGTCC
*
92382 ATGTATCGAAACAATGAATATGTATCGATACG
1 ATGTATCGAAACAAAGAATATGTATCGATACG
* *
92414 ATGTATCGATACAAAGCATAATGTATCGATAC
1 ATGTATCGAAACAAAGAAT-ATGTATCGATAC
92446 ATCTGGGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGAAACAAAGAATATGTATCGATACG
Found at i:92965 original size:8 final size:8
Alignment explanation
Indices: 92952--92982 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
92942 TCTGGTATCA
92952 AAGTTTTC
1 AAGTTTTC
92960 AAGTTTTC
1 AAGTTTTC
92968 AAGTTTTC
1 AAGTTTTC
92976 AAGTTTT
1 AAGTTTT
92983 GGTTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (8 bp):
AAGTTTTC
Found at i:93049 original size:22 final size:22
Alignment explanation
Indices: 92987--93042 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
92977 AGTTTTGGTT
* *
92987 TTTCTCTCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAGAA
*
93009 TTTCTCCCCCTTAATCAAAGCA
1 TTTCTCCCCCTTAATCAAAGAA
93031 TTTCTCCCCCTT
1 TTTCTCCCCCTT
93043 TGTCAAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGAA
Found at i:101226 original size:19 final size:20
Alignment explanation
Indices: 101182--101235 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
101172 TCGCCAATTT
**
101182 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
101202 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
101221 CATGTATCGATACAA
1 CATGTATCGATACAA
101236 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:105903 original size:13 final size:13
Alignment explanation
Indices: 105885--105910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105875 TACACAAAGT
105885 ATGTATCGATACA
1 ATGTATCGATACA
105898 ATGTATCGATACA
1 ATGTATCGATACA
105911 CAAAAAATTG
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:105908 original size:32 final size:33
Alignment explanation
Indices: 105867--105930 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
105857 TAGCCAAACT
**
105867 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
105899 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
105931 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:109996 original size:15 final size:15
Alignment explanation
Indices: 109976--110014 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
109966 TAAAAATGTC
*
109976 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
109991 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
110006 CCAAATGAA
1 CAAAATGAA
110015 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:114641 original size:13 final size:13
Alignment explanation
Indices: 114623--114648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114613 TACACAAAGT
114623 ATGTATCGATACA
1 ATGTATCGATACA
114636 ATGTATCGATACA
1 ATGTATCGATACA
114649 CAAAAAATTG
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:114646 original size:32 final size:33
Alignment explanation
Indices: 114605--114668 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
114595 TAGCCAAACT
**
114605 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
114637 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
114669 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:116545 original size:21 final size:22
Alignment explanation
Indices: 116489--116545 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
116479 AAACAAAAAA
116489 AGGGGAG-AAA-TTTTATTAAG
1 AGGGGAGAAAATTTTTATTAAG
*
116509 AGGGAAGAAAATTTTTATTAAG
1 AGGGGAGAAAATTTTTATTAAG
116531 -GGGGAGAAAATTTTT
1 AGGGGAGAAAATTTTT
116546 TTCTTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 17 0.52
22 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGGGGAGAAAATTTTTATTAAG
Found at i:117181 original size:20 final size:21
Alignment explanation
Indices: 117150--117188 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
117140 AGGTTAAAAC
117150 CCTAGAAAGTATCGATACAAG
1 CCTAGAAAGTATCGATACAAG
117171 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
117189 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAAG
Found at i:128396 original size:52 final size:52
Alignment explanation
Indices: 128316--128435 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
128306 AAAAGTTACT
* *
128316 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
128368 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
128420 TGCATGTATCGATACA
1 TGCATGTATCGATACA
128436 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:128448 original size:52 final size:52
Alignment explanation
Indices: 128316--128455 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
128306 AAAAGTTACT
* *
128316 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
128368 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
128420 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
128456 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:128462 original size:13 final size:13
Alignment explanation
Indices: 128444--128468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128434 CAAAGATCGG
128444 TGTATCGATACAA
1 TGTATCGATACAA
128457 TGTATCGATACA
1 TGTATCGATACA
128469 TTTTAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:128546 original size:33 final size:33
Alignment explanation
Indices: 128509--128575 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
128499 AGTAGCTTAA
128509 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
128542 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
128575 A
1 A
128576 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:128549 original size:13 final size:13
Alignment explanation
Indices: 128531--128555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128521 CAAAAAAATA
128531 TGTATCGATACAT
1 TGTATCGATACAT
128544 TGTATCGATACA
1 TGTATCGATACA
128556 ACATTTTATG
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:129566 original size:49 final size:49
Alignment explanation
Indices: 129448--129821 Score: 469
Period size: 49 Copynumber: 7.7 Consensus size: 49
129438 AAAAGGATGT
* * *
129448 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* * *
129500 CGATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
129549 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
** * * *
129598 CAATACGCTGATTCAAGGCTAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
*
129646 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
129689 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
129737 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
129786 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
129822 GAAGGGTTGC
Statistics
Matches: 279, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.01
43 37 0.13
48 84 0.30
49 120 0.43
51 1 0.00
52 35 0.13
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:129660 original size:97 final size:97
Alignment explanation
Indices: 129448--129826 Score: 493
Period size: 97 Copynumber: 3.9 Consensus size: 97
129438 AAAAGGATGT
* * * * *
129448 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGTTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
129513 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGAA-GTGC
* *
129549 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGCCAATACGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* *
129614 GGCTAGCTATA-TGGACTTAATGGTGCAAGTGC
66 GGCCAGCTATATTGGACTTAAAGGTG-AAGTGC
* *
129646 CAATGTGCTGAGTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* *
129705 GGCCAGCTACATTGGACTTAAAGGTGAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGAAGTGC
* * *
129737 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
129802 GGCCAGCTATATTGGGCTTAGAAGG
66 GGCCAGCTATATTGGACTTA-AAGG
129827 GTTGCCACCG
Statistics
Matches: 246, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
91 68 0.28
92 14 0.06
96 1 0.00
97 89 0.36
98 36 0.15
101 38 0.15
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (97 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGAAGTGC
Found at i:129769 original size:140 final size:142
Alignment explanation
Indices: 129439--129826 Score: 496
Period size: 140 Copynumber: 2.7 Consensus size: 142
129429 AGATGAGGAA
* * * * *
129439 AAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
129504 ATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A-GAAGGTGCCAATGTGCTGAGTCAAGGCC
129569 AGCTACATTGGACTTAAAGAT
122 AGCTACATTGGACTTAAAGAT
* ** * * * *
129590 AAATGTGCCAATACGCTGATTCAAGGCTAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATATG
* *
129653 CTGAGTCAAGGCCAGCTATATTGGACTTA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
65 CTGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
*
129717 TGGACTTAAAGGT
130 TGGACTTAAAGAT
*
129730 -GAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGC
*
129794 TGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
66 TGATTCAAGGCCAGCTATATTGGACTTAGAAGG
129827 GTTGCCACCG
Statistics
Matches: 207, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
139 31 0.15
140 95 0.46
141 4 0.02
142 1 0.00
146 35 0.17
147 2 0.01
148 1 0.00
149 10 0.05
150 24 0.12
151 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (142 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGAT
Found at i:129865 original size:33 final size:33
Alignment explanation
Indices: 129821--130058 Score: 367
Period size: 33 Copynumber: 7.2 Consensus size: 33
129811 TATTGGGCTT
129821 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
129854 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
129886 GGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
129918 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
129952 AGGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
129985 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
130019 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
130052 A-AAGGGT
1 AGAAGGGT
130059 GAAAGATGCC
Statistics
Matches: 190, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
32 45 0.24
33 107 0.56
34 35 0.18
35 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:129898 original size:65 final size:67
Alignment explanation
Indices: 129822--130057 Score: 374
Period size: 67 Copynumber: 3.6 Consensus size: 67
129812 ATTGGGCTTA
*
129822 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT-
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
129885 GG
66 GG
*
129887 GAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
129951 GAG
66 G-G
* *
129954 GAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
*
130018 GA
66 GG
*
130020 GAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
130058 TGAAAGATGC
Statistics
Matches: 159, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
64 6 0.04
65 54 0.34
66 35 0.22
67 64 0.40
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (67 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
GG
Found at i:130170 original size:34 final size:34
Alignment explanation
Indices: 130060--130540 Score: 512
Period size: 34 Copynumber: 14.4 Consensus size: 34
130050 AGAAAGGGTG
* * *
130060 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
130093 CAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
130129 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
130163 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
130197 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
130231 AAAGAATGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
130264 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
130297 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
130328 ---G-GTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
130356 GAAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAA-AA-GGAA
*
130392 AAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAAAAGGAA
130427 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
** *
130463 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
130498 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
130531 AAA-A-TGCCAC
1 AAAGAGTGCCAC
130541 TAAGTCGTGG
Statistics
Matches: 394, Mismatches: 33, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.05
28 1 0.00
31 26 0.07
32 3 0.01
33 83 0.21
34 132 0.34
35 40 0.10
36 29 0.07
37 60 0.15
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:130407 original size:195 final size:198
Alignment explanation
Indices: 130128--130492 Score: 546
Period size: 195 Copynumber: 1.9 Consensus size: 198
130118 TAAAAGGGAA
*
130128 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTACAA
* *
130193 GGAAAAAGAGTGCCACGGAGTTGTGGGCT-TAGAAGGAAAAAGAATGCCACGGAGTTGTGGGC-T
65 GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG-ATGCCACGGAGTTGTGGGCTT
* **
130256 T-AGAA-GG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGTAGTCGTG
129 TGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGTAGTCGTG
130318 GACTT
194 GACTT
* * *
130323 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAG-GTGCCACGGAGTTGTGGGCTTTAACA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-ACA
*
130386 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCT
64 A-GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGATGCCACGGAGTTGTGGGCT
130451 TTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAA
128 TTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAA
130493 AAGAAAAAGT
Statistics
Matches: 152, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
192 19 0.12
193 7 0.05
194 3 0.02
195 76 0.50
196 13 0.09
197 3 0.02
198 2 0.01
199 29 0.19
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (198 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAG
GAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTTG
AAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGTAGTCGTGGA
CTT
Found at i:130429 original size:35 final size:34
Alignment explanation
Indices: 130323--130527 Score: 254
Period size: 37 Copynumber: 5.9 Consensus size: 34
130313 TCGTGGACTT
* *
130323 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
130357 ---AAGGTGCCACGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
130390 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
130425 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
**
130461 AAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
130496 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
130528 GAAAAAATGC
Statistics
Matches: 150, Mismatches: 12, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
31 25 0.17
32 2 0.01
33 1 0.01
34 21 0.14
35 42 0.28
36 16 0.11
37 43 0.29
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:130566 original size:30 final size:30
Alignment explanation
Indices: 130531--130587 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
130521 CTTTAAAGAA
130531 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
130561 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
130588 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:134558 original size:21 final size:20
Alignment explanation
Indices: 134533--134586 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
134523 TTACAAGCCA
134533 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
134553 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
*
134573 ATGTATTGATACAA
1 ATGTATCGATACAA
134587 ATAAGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.37
20 5 0.17
21 14 0.47
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:134686 original size:13 final size:13
Alignment explanation
Indices: 134668--134692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134658 ACATTTGGTC
134668 ATGTATCGATACA
1 ATGTATCGATACA
134681 ATGTATCGATAC
1 ATGTATCGATAC
134693 TGTGCATTCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:140174 original size:184 final size:185
Alignment explanation
Indices: 139860--140232 Score: 730
Period size: 184 Copynumber: 2.0 Consensus size: 185
139850 TTTGAACTAT
139860 TTTACAAAAAGTGATGAATTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAAATAAAACCCAAGTA
1 TTTACAAAAAGTGATGAATTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAAATAAAACCCAAGTA
139925 TATCTTGAATAATCATCCACAATAACAAATCCATATCTTTTACCACCTAGACTTTGCGTTCTAGT
66 TATCTTGAATAATCATCCACAATAACAAATCCATATCTTTTACCACCTAGACTTTGCGTTCTAGT
139990 TGGACCAAAAAGATCCATGCGAACTAGTTGCAGAACTCTAGATGTCGTGACAATG
131 TGGACCAAAAAGATCCATGCGAACTAGTTGCAGAACTCTAGATGTCGTGACAATG
140045 TTTA-AAAAAGTGATGAATTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAAATAAAACCCAAGTA
1 TTTACAAAAAGTGATGAATTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAAATAAAACCCAAGTA
140109 TATCTTGAATAATCATCCACAATAACAAATCCATATCTTTTACCACCTAGACTTTGCGTTCTAGT
66 TATCTTGAATAATCATCCACAATAACAAATCCATATCTTTTACCACCTAGACTTTGCGTTCTAGT
*
140174 TGGACCAAAAAGATCCATGTGAACTAGTTGCAGAACTCTAGATGTCGTGACAATG
131 TGGACCAAAAAGATCCATGCGAACTAGTTGCAGAACTCTAGATGTCGTGACAATG
140229 TTTA
1 TTTA
140233 TAGGTTTAAA
Statistics
Matches: 187, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
184 183 0.98
185 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (185 bp):
TTTACAAAAAGTGATGAATTTTTCTAAAGCTTCATCTTTAGTGCTTAAAAAATAAAACCCAAGTA
TATCTTGAATAATCATCCACAATAACAAATCCATATCTTTTACCACCTAGACTTTGCGTTCTAGT
TGGACCAAAAAGATCCATGCGAACTAGTTGCAGAACTCTAGATGTCGTGACAATG
Found at i:143470 original size:21 final size:20
Alignment explanation
Indices: 143445--143498 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
143435 TTACAAGCCA
143445 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
143465 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
143485 ATGTATCGATACAA
1 ATGTATCGATACAA
143499 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:143586 original size:20 final size:21
Alignment explanation
Indices: 143539--143591 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
143529 GCCAATCACC
*
143539 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
143560 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
143580 TGTATCGATACA
1 TGTATCGATACA
143592 ATATATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:144763 original size:13 final size:13
Alignment explanation
Indices: 144745--144769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144735 CATGGCACAT
144745 TGTATCGATACAA
1 TGTATCGATACAA
144758 TGTATCGATACA
1 TGTATCGATACA
144770 TTGCTTCTAA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148695 original size:13 final size:13
Alignment explanation
Indices: 148677--148701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148667 TAATTCATCA
148677 TGTATCGATACAT
1 TGTATCGATACAT
148690 TGTATCGATACA
1 TGTATCGATACA
148702 ATGTGCCATG
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:148780 original size:20 final size:19
Alignment explanation
Indices: 148755--148804 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
148745 TAGTTTCCTG
**
148755 TATCGATACAATTGTGCATA
1 TATCGATACAA-TGAACATA
*
148775 TATCGATACAATGAACATG
1 TATCGATACAATGAACATA
148794 TATCGATACAA
1 TATCGATACAA
148805 AGCATAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATA
Found at i:157455 original size:13 final size:13
Alignment explanation
Indices: 157437--157461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157427 CAATTCATCA
157437 TGTATCGATACAT
1 TGTATCGATACAT
157450 TGTATCGATACA
1 TGTATCGATACA
157462 ATGTGTCATG
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:157459 original size:33 final size:33
Alignment explanation
Indices: 157417--157479 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
157407 TTTGAAGCAA
157417 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ATCATGTATCGATACAT
*
157450 TGTATCGATACAATGTGTCATGTATCGATA
1 TGTATCGATACAATGTATCATGTATCGATA
157480 GAAACAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTATCATGTATCGATACAT
Done.