Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001701.1 Hibiscus syriacus cultivar Beakdansim tig00003403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 790467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:4331 original size:19 final size:19
Alignment explanation
Indices: 4307--4351 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4297 ACCGGTTTTT
* *
4307 AACCGGTTTGATCGGTCTG
1 AACCGGTTTGATCGGCCCG
*
4326 AACCGGGTTGATCGGCCCG
1 AACCGGTTTGATCGGCCCG
4345 AACCGGT
1 AACCGGT
4352 CTGACCAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (19 bp):
AACCGGTTTGATCGGCCCG
Found at i:4556 original size:6 final size:6
Alignment explanation
Indices: 4545--4575 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4535 CAGTCAAACC
4545 CTTTGA CTTTGA CTTTGA CTTTGA CTTTGA C
1 CTTTGA CTTTGA CTTTGA CTTTGA CTTTGA C
4576 CAAGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
CTTTGA
Found at i:5511 original size:117 final size:117
Alignment explanation
Indices: 5319--5594 Score: 471
Period size: 117 Copynumber: 2.4 Consensus size: 117
5309 TCCTTTGTTG
* * * *
5319 TGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGGAACCTACATATTT
1 TGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACATTT
* *
5384 TGGTGATTGGAGTGATTGGATGGGAAAGTTATTACTGTAGGCTCCTCGGCTT
66 TGGTGATTGGAGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCGGCTT
*
5436 TGTGCTCAGGGTAAGTCCTTACTGGTGTGCAAGTGGGTGTATAGTTCTGAGGAACCTACACATTT
1 TGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACATTT
5501 TGGTGATTGGAGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCGGCTT
66 TGGTGATTGGAGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCGGCTT
* *
5553 TGTGCTCAGGGTAATTCCTTACTGGTGTGGAGGTGGGTGTAT
1 TGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTAT
5595 GGTTATGGAA
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 149 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (117 bp):
TGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACATTT
TGGTGATTGGAGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCGGCTT
Found at i:6929 original size:3 final size:3
Alignment explanation
Indices: 6916--6949 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
6906 CCTAAATAGG
6916 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6950 ACTAAACATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8046 original size:21 final size:21
Alignment explanation
Indices: 8017--8063 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8007 TTGTAAGAAA
*
8017 GGATGGATCCTCTAAGTGAAG
1 GGATCGATCCTCTAAGTGAAG
*
8038 GGATCGATCCTTTAAGTGAAG
1 GGATCGATCCTCTAAGTGAAG
8059 GGATC
1 GGATC
8064 ATCATTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.26
Consensus pattern (21 bp):
GGATCGATCCTCTAAGTGAAG
Found at i:8389 original size:13 final size:13
Alignment explanation
Indices: 8373--8397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8363 TTAATTCAAC
8373 AATATATATATAA
1 AATATATATATAA
8386 AATATATATATA
1 AATATATATATA
8398 TAGTTTAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATATATATAA
Found at i:10066 original size:26 final size:26
Alignment explanation
Indices: 10030--10081 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10020 AACTCGATCT
10030 CACGATCACAAGATTAAGAGCCTTGC
1 CACGATCACAAGATTAAGAGCCTTGC
10056 CACGATCACAAGATTAAGAGCCTTGC
1 CACGATCACAAGATTAAGAGCCTTGC
10082 GCTCTACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (26 bp):
CACGATCACAAGATTAAGAGCCTTGC
Found at i:10913 original size:371 final size:371
Alignment explanation
Indices: 10219--10963 Score: 1157
Period size: 371 Copynumber: 2.0 Consensus size: 371
10209 ATGTTTTATA
10219 TTTAGTTTTATTAGATGATGACTTGTGTCACCATTTAATTAAAGAATTAAATTTAATGAATTAAA
1 TTTAGTTTTATTAGATGATGACTTGTGTCACCATTTAATTAAAGAATTAAATTTAATGAATTAAA
*** * **
10284 TTAAAATTATGGGTAACTTGATGGAATATACAAGTATAGGGGATCAAAAGTATAATTATACTATT
66 TTAAAATTATGACCAAATTGATGGAATATACAAGTATAGACGATCAAAAGTATAATTATACTATT
* *
10349 TTTGTAAGGGTCAACTACATAAATGAACATCTAACCATGGGCTTGGTCTCGAAATGCCACCATTT
131 TTTGTAAGGGTCAACTACATAAATGAACATCCAACCATGGGCTTGGTCTCAAAATGCCACCATTT
** *
10414 TTAAATTTACGTCAATATGACCACTGAATTATATAAATAGTTTCAATATAGCCACGTGTCGTTAA
196 TTAAATTTACGTCAATATGACCACTGAACAATATAAATAGTTTCAATATAGCCACATGTCGTTAA
* * * * * *
10479 CATTTAACGAAATTGTTTATGTGGCATATAATAAAATTGATATAATTAAGGTGTGATTCCTTGTA
261 CATTTAACGAAAGTGTTTATGTGCCAGATAATAAAATTGATATAATTAAGGCGCGAGTCCTTGTA
* * *
10544 AAGTTACGTATTCGCGGCGCTAGAACTCTGTTTTGTTTTCTTCCAT
326 AAGTTACGTATTCGCGGCACTAGAACCCTGCTTTGTTTTCTTCCAT
* * * *
10590 TTTAGTTTTCTTAGATGATGACTTGTGTCACTATTTGATTAGAGAATTAAATTTAATGAATTAAA
1 TTTAGTTTTATTAGATGATGACTTGTGTCACCATTTAATTAAAGAATTAAATTTAATGAATTAAA
* *
10655 TTAAAATTATGACCAAATTGATGGAATATATAAGTATAGACGATCAAAAGTGTAATTATACTATT
66 TTAAAATTATGACCAAATTGATGGAATATACAAGTATAGACGATCAAAAGTATAATTATACTATT
* * *
10720 TTTGTTAGGGTCAACTACATAAATGACCATCCAACTATGGGCTTGGTCTCAAAATGCCACCATTT
131 TTTGTAAGGGTCAACTACATAAATGAACATCCAACCATGGGCTTGGTCTCAAAATGCCACCATTT
** * *
10785 TTAAATTTGTGTCAATATGACCACTGAACAATATAAATGGTTTCAATATAGTCACATGTCGTTAA
196 TTAAATTTACGTCAATATGACCACTGAACAATATAAATAGTTTCAATATAGCCACATGTCGTTAA
* *
10850 CATTTAACGAAAGTGTTTATGTGCCAGATAATAAAATTGGTATAATTGAGGCGCGAGTCCTTGTA
261 CATTTAACGAAAGTGTTTATGTGCCAGATAATAAAATTGATATAATTAAGGCGCGAGTCCTTGTA
* *
10915 AAGTTACGTATTTGTGGCACTAGAACCCTGCTTTGTTTTCTTCCAT
326 AAGTTACGTATTCGCGGCACTAGAACCCTGCTTTGTTTTCTTCCAT
10961 TTT
1 TTT
10964 GGTCACTATT
Statistics
Matches: 337, Mismatches: 37, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
371 337 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (371 bp):
TTTAGTTTTATTAGATGATGACTTGTGTCACCATTTAATTAAAGAATTAAATTTAATGAATTAAA
TTAAAATTATGACCAAATTGATGGAATATACAAGTATAGACGATCAAAAGTATAATTATACTATT
TTTGTAAGGGTCAACTACATAAATGAACATCCAACCATGGGCTTGGTCTCAAAATGCCACCATTT
TTAAATTTACGTCAATATGACCACTGAACAATATAAATAGTTTCAATATAGCCACATGTCGTTAA
CATTTAACGAAAGTGTTTATGTGCCAGATAATAAAATTGATATAATTAAGGCGCGAGTCCTTGTA
AAGTTACGTATTCGCGGCACTAGAACCCTGCTTTGTTTTCTTCCAT
Found at i:12967 original size:3 final size:3
Alignment explanation
Indices: 12961--13072 Score: 170
Period size: 3 Copynumber: 37.3 Consensus size: 3
12951 TAATTGGTAC
* * * * * *
12961 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATC ATC ATC ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13009 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13057 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
13073 CTACTACTAT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:17167 original size:14 final size:15
Alignment explanation
Indices: 17148--17187 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
17138 TTTCTGTCTA
*
17148 TATGCAGAGATTT-T
1 TATGCAGGGATTTAT
17162 TATGCAGGGATTTAT
1 TATGCAGGGATTTAT
17177 T-TGCAGGGATT
1 TATGCAGGGATT
17188 AATTCCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (15 bp):
TATGCAGGGATTTAT
Found at i:20859 original size:51 final size:51
Alignment explanation
Indices: 20803--20917 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
20793 GCTCACTGCC
* ** * *
20803 CCGCGCTATATGCTGATTTGGC-GCCACGTGGGGTATAGCGCGCCCCTTGTAT
1 CCGCGCTATACGCTGACATGGCTGACACGT-GGGTATAGCGCGCCCCCTGT-T
*
20855 -CGCGCTATACGCTGACATGGCTTACACGTGGGTATAGCGCGCCCCCTGTT
1 CCGCGCTATACGCTGACATGGCTGACACGTGGGTATAGCGCGCCCCCTGTT
20905 CCGCGCTATACGC
1 CCGCGCTATACGC
20918 CACGTAGGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.02
51 49 0.89
52 5 0.09
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (51 bp):
CCGCGCTATACGCTGACATGGCTGACACGTGGGTATAGCGCGCCCCCTGTT
Found at i:20922 original size:39 final size:40
Alignment explanation
Indices: 20879--20956 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
20869 ACATGGCTTA
* *
20879 CACGT-GGGTATAGCG-CGCCCCCTGTTCCGCGCTATACGC
1 CACGTAGGGTATAGCGTCG-CCCCTGCTCAGCGCTATACGC
20918 CACGTAGGGGTATAGCGTCGCCCCTGCTCAGCGCTATAC
1 CACGTA-GGGTATAGCGTCGCCCCTGCTCAGCGCTATAC
20957 CTTGGTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 5 0.15
41 27 0.79
42 2 0.06
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (40 bp):
CACGTAGGGTATAGCGTCGCCCCTGCTCAGCGCTATACGC
Found at i:24581 original size:35 final size:34
Alignment explanation
Indices: 24496--24582 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
24486 ATTTGGTATT
*
24496 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
24530 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
24568 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
24583 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:25180 original size:18 final size:18
Alignment explanation
Indices: 25157--25196 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25147 TGGAAAGGCG
*
25157 GCGGCATCATATATGGCT
1 GCGGCATCATAAATGGCT
*
25175 GCGGCATCATAAATGGTT
1 GCGGCATCATAAATGGCT
25193 GCGG
1 GCGG
25197 TGGCTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (18 bp):
GCGGCATCATAAATGGCT
Found at i:27185 original size:51 final size:51
Alignment explanation
Indices: 27096--27195 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 51
27086 ATAGCGTGGA
** *
27096 ACAGGGGGCGCGCTACACCCACGTGTAAGCCATGTCAGCGTATAACGCGAT
1 ACAGGGGGCGCGCTACACCCACGTGTAAGCCAAATCAGCATATAACGCGAT
** *
27147 ACAGGGGGCGCGCTATGC-CCCACGTG-GCGCCAAATCAGCATATAGCGCG
1 ACAGGGGGCGCGCTA--CACCCACGTGTAAGCCAAATCAGCATATAACGCG
27196 GGGCAGGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
51 32 0.78
52 8 0.20
53 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (51 bp):
ACAGGGGGCGCGCTACACCCACGTGTAAGCCAAATCAGCATATAACGCGAT
Found at i:30784 original size:2 final size:2
Alignment explanation
Indices: 30777--30809 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30767 AAACAGAGAA
30777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30810 AAGAGAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31972 original size:21 final size:21
Alignment explanation
Indices: 31936--32000 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
31926 GGAATATTTG
*
31936 TATAAATATATATATGATTTAA
1 TATAAAT-TATTTATGATTTAA
*
31958 TATAAATTATTTATGA-TAAA
1 TATAAATTATTTATGATTTAA
* *
31978 TTTCAATTAATTTATGATATTAA
1 TATAAATT-ATTTATGAT-TTAA
32001 ACTTAGTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.26
21 16 0.46
22 7 0.20
23 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATAAATTATTTATGATTTAA
Found at i:32051 original size:2 final size:2
Alignment explanation
Indices: 32044--32069 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32034 CGTTTCCTTA
32044 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
32070 TCGAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33645 original size:21 final size:21
Alignment explanation
Indices: 33621--33662 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33611 AAAAAATTAC
*
33621 AAAA-TAATATATATAATTTAT
1 AAAAGTAAAATAT-TAATTTAT
*
33642 AAAAGTAAAATATTTATTTAT
1 AAAAGTAAAATATTAATTTAT
33663 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAGTAAAATATTAATTTAT
Found at i:33856 original size:14 final size:15
Alignment explanation
Indices: 33837--33870 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
33827 ATGACTTAAG
33837 ATAATAAT-AAAATA
1 ATAATAATGAAAATA
33851 ATAATAATGAAAATA
1 ATAATAATGAAAATA
33866 A-AATA
1 ATAATA
33871 CTAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAATAATGAAAATA
Found at i:35280 original size:3 final size:3
Alignment explanation
Indices: 35265--35321 Score: 51
Period size: 3 Copynumber: 17.7 Consensus size: 3
35255 TATTTATTTA
* *
35265 AAT AAT AAC AAT AAT AAT GTAT AAT AAT AAT AAT AAAT AAAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT
*
35314 AAA AAT AA
1 AAT AAT AA
35322 AAGCAAACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 33 0.72
4 13 0.28
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:35304 original size:16 final size:16
Alignment explanation
Indices: 35263--35321 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
35253 AATATTTATT
*
35263 TAAATAATAACAATAA
1 TAAATAATAATAATAA
35279 TAATGTATAATAATAATAA
1 TAA---ATAATAATAATAA
35298 TAAATAAATAAATAATAA
1 TAAAT-AAT-AATAATAA
35316 -AAATAA
1 TAAATAA
35322 AAGCAAACTG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 7 0.19
17 7 0.19
18 8 0.22
19 15 0.41
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TAAATAATAATAATAA
Found at i:35568 original size:45 final size:45
Alignment explanation
Indices: 35503--35935 Score: 578
Period size: 45 Copynumber: 9.5 Consensus size: 45
35493 ATCATCTTGA
* * * *
35503 ACTGTAGGTCTTACAGATGACCCGGAGGCTTTGAAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* *
35548 ACTGAAGGGCTTACAAATGACCCGAAGGTTTTGGAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* *
35593 ACTAAAGGGCTTACAGATGACCCGAAGGTTTTGCAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* * *
35638 ACTGAAGGGCTTACATATGACCCAAAGGTTTTGGAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* * * *
35683 ACTGAAGAGTTTACAGATGACCCGAATGTTTTGGAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* *
35728 ACTGAAGGGCTTGCAGATGACCTGAAGGTTTTGAAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
* * * *
35773 ACTGAAGGACTTACAGATGACCCGAATGTTTTGGAAACTTCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
*
35818 ACTGAAGGACTTACAGATGACCCGAAGGTTTTGGAAAACATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGGTTTT-GAAAACATCATGC
* * * *
35864 ACTTAAGGACTTACAAATGACCCGAAGGTTTTTTTTGAAAATATCATGC
1 ACTGAAGGGCTTACAGATGACCCGAAGG----TTTTGAAAACATCATGC
*
35913 ACTGAAGGTCTTACAGATGACCC
1 ACTGAAGGGCTTACAGATGACCC
35936 TGAGGCTTTA
Statistics
Matches: 344, Mismatches: 39, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 271 0.79
46 37 0.11
49 32 0.09
50 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (45 bp):
ACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGC
Found at i:35755 original size:135 final size:134
Alignment explanation
Indices: 35503--36056 Score: 627
Period size: 135 Copynumber: 4.2 Consensus size: 134
35493 ATCATCTTGA
* * * * *
35503 ACTGTAGGTCTTACAGATGACCCGGAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
1 ACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAACATCATGCACTGAA-GGCTTACAGATGA
*
35568 CCCGAAGGTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGCAAACAT
65 CCCGAAGGTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
35633 CATGC
130 CATGC
* * * *
35638 ACTGAAGGGCTTACATATGACCCAAAGGTTTTGGAAACATCATGCACTGAAGAGTTTACAGATGA
1 ACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAACATCATGCACTGAAG-GCTTACAGATGA
* * * *
35703 CCCGAATGTTTTGGAAACATCATGCACTGAAGGGCTTGCAGATGACCTGAAGGTTTTGAAAACAT
65 CCCGAAGGTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
35768 CATGC
130 CATGC
* * *
35773 ACTGAAGGACTTACAGATGACCCGAATGTTTTGGAAACTTCATGCACTGAAGGACTTACAGATGA
1 ACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAACATCATGCACTGAAGG-CTTACAGATGA
* * *
35838 CCCGAAGGTTTTGGAAAACATCATGCACTTAAGGACTTACAAATGACCCGAAGGTTTTTTTTGAA
65 CCCGAAGGTTTTGG-AAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG----TTTTGAA
*
35903 AATATCATGC
125 AACATCATGC
* * * *
35913 ACTGAAGGTCTTACAGATGACCCTG-AGGCTTT--AAA-AACGT-CA---AA-----A-AGCT--
1 ACTGAAGGTCTTACAGATGACCC-GAAGGTTTTGGAAACATCATGCACTGAAGGCTTACAGATGA
* * * *
35962 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAAC
65 CCCG-AAG-GTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
36027 ATCATGC
128 ATCATGC
*
36034 ACTGAAGGGCTTACAGATGACCC
1 ACTGAAGGTCTTACAGATGACCC
36057 TGAGTCTTTA
Statistics
Matches: 367, Mismatches: 42, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
121 38 0.10
124 4 0.01
125 38 0.10
126 8 0.02
127 1 0.00
133 2 0.01
134 2 0.01
135 189 0.51
136 36 0.10
137 2 0.01
138 3 0.01
140 43 0.12
141 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (134 bp):
ACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAACATCATGCACTGAAGGCTTACAGATGAC
CCGAAGGTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
ATGC
Found at i:36069 original size:121 final size:118
Alignment explanation
Indices: 35838--36128 Score: 379
Period size: 117 Copynumber: 2.4 Consensus size: 118
35828 TTACAGATGA
* * * * *
35838 CCCG-AAGGTTTTGGAAAACATCATGCACTTAAGGACTTACAAATGACCCGAAGGTTTTTTTTGA
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGG---TTTTTGA
* *
35902 AAATATCATGCACTGAAGGTCTTACAGATGACCCTGAGGCTTTAAAAACGTCAAAAAGCT
63 AAACATCATGCACTGAAGGGCTTACAGATGACCCTGAGGCTTT-AAAA--TCAAAAA-CT
*
35962 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG-TTTTGAAAA
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGTTTTTGAAAA
*
36026 CATCATGCACTGAAGGGCTTACAGATGACCCTGAGTCTTTAAAATCAAAAACT
66 CATCATGCACTGAAGGGCTTACAGATGACCCTGAGGCTTTAAAATCAAAAACT
* * * * *
36079 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTACGGATGACCC
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
36129 TGAGGCTTTA
Statistics
Matches: 152, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
117 47 0.31
118 7 0.05
120 4 0.03
121 46 0.30
124 4 0.03
125 44 0.29
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (118 bp):
CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGTTTTTGAAAA
CATCATGCACTGAAGGGCTTACAGATGACCCTGAGGCTTTAAAATCAAAAACT
Found at i:36138 original size:72 final size:73
Alignment explanation
Indices: 36017--36197 Score: 292
Period size: 72 Copynumber: 2.5 Consensus size: 73
36007 GACCCAAAGG
* * *
36017 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTGAGTCTTTAAAATCAAAAA-CTCC
1 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCC
36081 CGAAGGCT
66 CGAAGGCT
* *
36089 TTTTGAAAACATCCTGCACTGTAGGTCTTACGGATGACCCTGAGGCTTTAAAATCAAAAAGCTCC
1 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCC
36154 CGAAGGCT
66 CGAAGGCT
**
36162 TTTTGAAAACATCATGTGCTGTAGGTCTTACAGATG
1 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
36198 TGGGAAATAG
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 55 0.56
73 44 0.44
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (73 bp):
TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCC
CGAAGGCT
Found at i:36162 original size:117 final size:119
Alignment explanation
Indices: 35838--36162 Score: 300
Period size: 117 Copynumber: 2.7 Consensus size: 119
35828 TTACAGATGA
* * * * * * *
35838 CCCG-AAGGTTTTGGAAAACATCATGCACTTAAGGACTTACAAATGACCCGAAGGTTTTTTTTGA
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG----CTTTGA
* ** * *
35902 AAATATCATGCACTGAAGGTCTTACAGATGACCCTGAGGCTTTAAAAACGTCAAAAAGCT
62 AAACAAAAAGCACCGAAGG-CTTACAGATGACCCTGAGGCTTTAAAAAC-TCAAAAAGCT
*
35962 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAAC
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAAC
** * * *
36027 ATCATGCACTGAAGGGCTTACAGATGACCCTGAGTCTTT-AAAA-TCAAAAA-CT
66 AAAAAGCACCGAA-GGCTTACAGATGACCCTGAGGCTTTAAAAACTCAAAAAGCT
* * * * * **
36079 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTACGGATGACCCTGAGGCTTT-AAAAT
1 CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAA-
*
36143 CAAAAAGCTCCCGAAGGCTT
65 CAAAAAGC-ACCGAAGGCTT
36163 TTTGAAAACA
Statistics
Matches: 176, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
116 4 0.02
117 63 0.36
118 11 0.06
120 4 0.02
121 44 0.25
122 2 0.01
124 4 0.02
125 44 0.25
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (119 bp):
CCCGAAAGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAAC
AAAAAGCACCGAAGGCTTACAGATGACCCTGAGGCTTTAAAAACTCAAAAAGCT
Found at i:37312 original size:54 final size:54
Alignment explanation
Indices: 37223--37326 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
37213 TACTGGTTCT
* * *
37223 TAAAACACTTGACAACACATTCATCATTTCTTGTGGCTTCTGCTCAGATGCTCA
1 TAAAACACTTGACAACACATTCATCATCTCATGTGGCTTCTGCCCAGATGCTCA
* *
37277 TAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCCCAGATG
1 TAAAACACTTGACAACACATTCATCATCTCATGTGGCTTCTGCCCAGATG
37327 TTTGGTCAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (54 bp):
TAAAACACTTGACAACACATTCATCATCTCATGTGGCTTCTGCCCAGATGCTCA
Found at i:40664 original size:32 final size:32
Alignment explanation
Indices: 40628--40689 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
40618 GAAGAAATGA
* *
40628 TTGTTATGCTCATTTTATAGAGATACTTCTCG
1 TTGTTATGCTCATCTCATAGAGATACTTCTCG
* *
40660 TTGTTATGTTCATCTCGTAGAGATACTTCT
1 TTGTTATGCTCATCTCATAGAGATACTTCT
40690 TGTTTCCAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (32 bp):
TTGTTATGCTCATCTCATAGAGATACTTCTCG
Found at i:41271 original size:14 final size:14
Alignment explanation
Indices: 41252--41291 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
41242 CTTAATTCAA
41252 TTTTTCTTCTTT-TT
1 TTTTTCTT-TTTCTT
41266 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
41280 TTTTTCATTTTT
1 TTTTTC-TTTTT
41292 TCCTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:41275 original size:8 final size:8
Alignment explanation
Indices: 41252--41299 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
41242 CTTAATTCAA
41252 TTTTTCTTC
1 TTTTT-TTC
*
41261 TTTTTTTT
1 TTTTTTTC
41269 TTCTTTTTC
1 TT-TTTTTC
41278 TTTTTTTC
1 TTTTTTTC
*
41286 ATTTTTTCC
1 -TTTTTTTC
41295 TTTTT
1 TTTTT
41300 CCCTTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 15 0.44
9 19 0.56
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:41292 original size:17 final size:16
Alignment explanation
Indices: 41251--41299 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
41241 TCTTAATTCA
41251 ATTTTTCTTCTTTTTTT
1 ATTTTT-TTCTTTTTTT
*
41268 TTTCTTTTTCTTTTTTT
1 ATT-TTTTTCTTTTTTT
*
41285 CATTTTTTCCTTTTT
1 -ATTTTTTTCTTTTT
41300 CCCTTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (16 bp):
ATTTTTTTCTTTTTTT
Found at i:41306 original size:16 final size:15
Alignment explanation
Indices: 41264--41316 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
41254 TTTCTTCTTT
* *
41264 TTTTTTTCTTTTTCT
1 TTTTTTCCTTTTTCC
*
41279 TTTTTTCATTTTTTCC
1 TTTTTTC-CTTTTTCC
*
41295 TTTTTCCCTTTTTCCC
1 TTTTTTCCTTTTT-CC
41311 TTTTTT
1 TTTTTT
41317 TTAATCATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCCTTTTTCC
Found at i:41306 original size:23 final size:23
Alignment explanation
Indices: 41264--41308 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
41254 TTTCTTCTTT
* **
41264 TTTTTTTCTTTTTCTTTTTTTCA
1 TTTTTTCCTTTTTCCCTTTTTCA
41287 TTTTTTCCTTTTTCCCTTTTTC
1 TTTTTTCCTTTTTCCCTTTTTC
41309 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCCTTTTTCCCTTTTTCA
Found at i:41314 original size:23 final size:23
Alignment explanation
Indices: 41265--41315 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
41255 TTCTTCTTTT
* ** *
41265 TTTTTTCTTTTTCTTTTTTTCAT
1 TTTTTCCTTTTTCCCTTTTTCAC
*
41288 TTTTTCCTTTTTCCCTTTTTCCC
1 TTTTTCCTTTTTCCCTTTTTCAC
41311 TTTTT
1 TTTTT
41316 TTTAATCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCCTTTTTCCCTTTTTCAC
Found at i:43655 original size:27 final size:26
Alignment explanation
Indices: 43611--43666 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
43601 AAAATAGTTC
*
43611 AAAAATGAAAATATAAATACAAACGT
1 AAAAATGAAAATACAAATACAAACGT
* * *
43637 AAAAATGCAAAATGCAAATGCAAATGT
1 AAAAATG-AAAATACAAATACAAACGT
43664 AAA
1 AAA
43667 TATGTGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (26 bp):
AAAAATGAAAATACAAATACAAACGT
Found at i:45848 original size:26 final size:25
Alignment explanation
Indices: 45784--45849 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
45774 ATTTAATACT
45784 TGAAAATAA-AATA-A-AAATATTA
1 TGAAAATAATAATATATAAATATTA
* *
45806 -AAAAATAATATACATATAAATATTA
1 TGAAAATAATA-ATATATAAATATTA
45831 TGAAAATAATAAGTATATA
1 TGAAAATAATAA-TATATA
45850 TAAAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 2 0.06
24 1 0.03
25 9 0.26
26 14 0.41
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (25 bp):
TGAAAATAATAATATATAAATATTA
Found at i:46516 original size:29 final size:29
Alignment explanation
Indices: 46453--46510 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
46443 TTTCTTAATA
46453 TTAAAAAATAAATAAATATTAATAAAACG
1 TTAAAAAATAAATAAATATTAATAAAACG
* *
46482 TTAAAAAATAATATATATAATTTATAAAA
1 TTAAAAAATAA-ATAAAT-ATTAATAAAA
46511 GTAAAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 5 0.20
31 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
TTAAAAAATAAATAAATATTAATAAAACG
Found at i:46519 original size:22 final size:21
Alignment explanation
Indices: 46485--46536 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
46475 TAAAACGTTA
*
46485 AAAAATAATATATATAATTTAT
1 AAAAATAAAATATAT-ATTTAT
* *
46507 AAAAGTAAAATATCTATTTATTT
1 AAAAATAAAATATATATTTA--T
46530 AAAAATA
1 AAAAATA
46537 TCAGAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATAAAATATATATTTAT
Found at i:48057 original size:112 final size:112
Alignment explanation
Indices: 47839--48301 Score: 730
Period size: 112 Copynumber: 4.1 Consensus size: 112
47829 TATAGCCTAT
* * * *
47839 AAAGTATCGATACTTTATAAAAATGTATTGATACATAATAATATAACAGGT-AAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
47903 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
66 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
*
47950 AAAGTATCGATATTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * *
48015 ACCAGTTTCATTATGACAAAACCAGTAAAGAGCTATCTGATATGTTG
66 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
* * * *
48062 AAAGTATTGATACTTTATAAAAATATATCGATACTTTATAATATAACAGATAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * * *
48127 ACCAGTTTCATTATGACTAAATCGGTAAAAAGCTACCGGATATGTTG
66 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
*
48174 AAAGTATCAATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * *
48239 ATCAGTTTTATTATGACAAAATCGGTAAAGAGCTACCAGATATGTTG
66 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
*
48286 AAAGTATTGATACTTT
1 AAAGTATCGATACTTT
48302 TTGTACATAT
Statistics
Matches: 320, Mismatches: 31, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
111 46 0.14
112 274 0.86
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTG
Found at i:48900 original size:12 final size:12
Alignment explanation
Indices: 48883--48915 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
48873 TTTTCAGAAT
48883 CGGACCGGTTAG
1 CGGACCGGTTAG
48895 CGGACCGGTTAG
1 CGGACCGGTTAG
*
48907 CGAACCGGT
1 CGGACCGGT
48916 CATGCTACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.15
Consensus pattern (12 bp):
CGGACCGGTTAG
Found at i:50728 original size:22 final size:22
Alignment explanation
Indices: 50703--50764 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
50693 CACTCTCTAC
*
50703 GGCGACATCCGTCCCCATCTCT
1 GGCGAAATCCGTCCCCATCTCT
50725 GGCGAAATCCGTCCCCATCTCT
1 GGCGAAATCCGTCCCCATCTCT
* **
50747 GGAGAAATATGTCCCCAT
1 GGCGAAATCCGTCCCCAT
50765 ATCCGGTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (22 bp):
GGCGAAATCCGTCCCCATCTCT
Found at i:51145 original size:20 final size:20
Alignment explanation
Indices: 51120--51158 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51110 TTTGAAACGT
51120 AAATTCGCAACACAAAAATG
1 AAATTCGCAACACAAAAATG
*
51140 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACAAAAAT
51159 TGCAACGCAA
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:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACACAAAAATG
Found at i:52749 original size:42 final size:42
Alignment explanation
Indices: 52680--52775 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
52670 CCCCCCACTT
* * * * *
52680 CGAGAGCCATCACCTGATTGAGCCGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTAATCGAGCCGATTATACACCTCCACAC
* *
52722 CGAGATCCATCACCTAATCGAGTCGATTATACACCTCCACAC
1 CGAGAGCCATCACCTAATCGAGCCGATTATACACCTCCACAC
* *
52764 CGAAAGTCATCA
1 CGAGAGCCATCA
52776 TCTATTCCAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (42 bp):
CGAGAGCCATCACCTAATCGAGCCGATTATACACCTCCACAC
Found at i:52945 original size:21 final size:21
Alignment explanation
Indices: 52893--52945 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
52883 GTTAGGGGAG
**
52893 TTACGTGATGAGGTCAGTGTT
1 TTACGTGATGAGGTCAGTACT
* *
52914 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
*
52935 TTACGTTATGA
1 TTACGTGATGA
52946 TAATGGTGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.38
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:53001 original size:63 final size:63
Alignment explanation
Indices: 52898--53016 Score: 141
Period size: 63 Copynumber: 1.9 Consensus size: 63
52888 GGGAGTTACG
* * * ** *
52898 TGATGAGGTCAGTGTTTTGCGTGATGAGGTCGGTACTTTACGTTATGATAATGGTGCATGGCA
1 TGATGAGGTCACTGTTTTACGTGATGAGGTCGATACTTTACGCGATGACAATGGTGCATGGCA
* **
52961 TGATGAGGT-ACTGTCTTTACGTGGTGAGGTCGATGTTTTACGCGATGACAATGGTG
1 TGATGAGGTCACTGT-TTTACGTGATGAGGTCGATACTTTACGCGATGACAATGGTG
53017 TTTTACGTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
62 4 0.09
63 42 0.91
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.34
Consensus pattern (63 bp):
TGATGAGGTCACTGTTTTACGTGATGAGGTCGATACTTTACGCGATGACAATGGTGCATGGCA
Found at i:53342 original size:21 final size:21
Alignment explanation
Indices: 53316--53432 Score: 112
Period size: 21 Copynumber: 5.6 Consensus size: 21
53306 TTCACCTATC
*
53316 ATCGTTCAAGAGGCTCCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
*
53337 ATCGTTCAAAAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
53357 CATCGTTCAAGAAGCCCTTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
53379 ACCGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
53399 CATCGTTCAAGAGGTCTCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
53421 ACCGTTCAAGAG
1 ATCGTTCAAGAG
53433 CCCGATTCAC
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.04
21 72 0.94
22 2 0.03
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:53427 original size:63 final size:62
Alignment explanation
Indices: 53318--53435 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 62
53308 CACCTATCAT
* * *
53318 CGTTCAAGAGGCTCCTCCTATCGTTCAAAAGGCCCCTCTCATCGTTCAAGAAGCCCTTCCCAC
1 CGTTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCCCACCGTTCAAG-AGCCCTTCCCAC
* * *
53381 CGTTCAAGAGGCCCCT-CTCATCGTTCAAGAGGTCTCTCCCACCGTTCAAGAGCCC
1 CGTTCAAGAGGCCCCTCCT-ATCGTTCAAAAGGCCCCTCCCACCGTTCAAGAGCCC
53436 GATTCACATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 7 0.15
63 41 0.85
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (62 bp):
CGTTCAAGAGGCCCCTCCTATCGTTCAAAAGGCCCCTCCCACCGTTCAAGAGCCCTTCCCAC
Found at i:53430 original size:42 final size:41
Alignment explanation
Indices: 53314--53432 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 41
53304 GATTCACCTA
* * *
53314 TCATCGTTCAAGAGGCTCCTCCTATCGTTCAAAAGGCCCCTC
1 TCATCGTTCAAGAGGCT-CTCCCACCGTTCAAGAGGCCCCTC
* *
53356 TCATCGTTCAAGAAGCCCTTCCCACCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCTC-TCCCACCGTTCAAGAGGCCCCTC
53398 TCATCGTTCAAGAGGTCTCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGG-CTCTCCCACCGTTCAAGAG
53433 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.96
43 2 0.03
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (41 bp):
TCATCGTTCAAGAGGCTCTCCCACCGTTCAAGAGGCCCCTC
Found at i:57234 original size:24 final size:24
Alignment explanation
Indices: 57207--57260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
57197 CTGAAACATC
57207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
57231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
57255 ATCAAA
1 ATCAAA
57261 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:58037 original size:14 final size:15
Alignment explanation
Indices: 58001--58038 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
57991 TAAATCATTG
58001 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
58016 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
58031 AAAAATTA
1 AAAAATTA
58039 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:58199 original size:18 final size:18
Alignment explanation
Indices: 58176--58210 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58166 CAAAACATTT
58176 ATGTTGCGAAAATAAAAG
1 ATGTTGCGAAAATAAAAG
*
58194 ATGTTGCGAAATTAAAA
1 ATGTTGCGAAAATAAAA
58211 TTCGTGTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (18 bp):
ATGTTGCGAAAATAAAAG
Found at i:58339 original size:40 final size:40
Alignment explanation
Indices: 58269--58365 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 40
58259 GCGAAAAAAA
*
58269 AAATTCGCGCTGCGAATTCAGAAATCGAGTTACGAA-TT-G
1 AAATTCGCGTTGCG-ATTCAGAAATCGAGTTACGAATTTGG
**
58308 AAATTCCGCGTTGCGATTGCAGAAA-CTGAGTTGTGAATTTGGG
1 AAATT-CGCGTTGCGATT-CAGAAATC-GAGTTACGAATTT-GG
58351 AAATTCGCGTTGCGA
1 AAATTCGCGTTGCGA
58366 ATTTGGAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
39 9 0.18
40 22 0.45
41 2 0.04
42 10 0.20
43 6 0.12
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (40 bp):
AAATTCGCGTTGCGATTCAGAAATCGAGTTACGAATTTGG
Found at i:58384 original size:20 final size:22
Alignment explanation
Indices: 58337--58410 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 22
58327 CAGAAACTGA
*
58337 GTTGTGAATTTGGGAAATTCGC
1 GTTGCGAATTTGGGAAATTCGC
*
58359 GTTGCGAATTT-GGAAATT-GT
1 GTTGCGAATTTGGGAAATTCGC
*
58379 GTTGCGAAATT---AAAGTTCGC
1 GTTGCGAATTTGGGAAA-TTCGC
*
58399 GTTACGAATTTG
1 GTTGCGAATTTG
58411 TTGATCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 21 0.49
21 7 0.16
22 10 0.23
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.36
Consensus pattern (22 bp):
GTTGCGAATTTGGGAAATTCGC
Found at i:63519 original size:81 final size:81
Alignment explanation
Indices: 63373--63866 Score: 742
Period size: 81 Copynumber: 6.1 Consensus size: 81
63363 TGTTAAGCAT
* * * *
63373 TTAACCTTTTACTAAAAGGCATTTAACCTTTCA---AATTGCCAATATTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
*
63435 ATGCACAGCTAGGCCA
66 ATGCACAACTAGGCCA
* *
63451 TTAATCTTTGACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
*
63516 ATGCACAGCTAGGCCA
66 ATGCACAACTAGGCCA
* * *
63532 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGTAATATTGACATATTTCTGTCAA
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
63597 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
*
63613 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACCGGCAATATTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
* *
63678 ATGCACATCAAGGCCA
66 ATGCACAACTAGGCCA
* * * * *
63694 TTAATCGTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGTAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
* *
63759 ATGCACAACTATGTCA
66 ATGCACAACTAGGCCA
* ** *
63775 TTAATCTTTTAGTCAAAGGCATTTAACCTTTCATCTAACTACCAATATTGACACATTTCTGCCAG
1 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
63840 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
63856 TTAATCTTTTA
1 TTAATCTTTTA
63867 TTTTAGAACA
Statistics
Matches: 376, Mismatches: 37, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
78 30 0.08
81 346 0.92
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAA
ATGCACAACTAGGCCA
Found at i:64118 original size:57 final size:56
Alignment explanation
Indices: 64033--64213 Score: 202
Period size: 57 Copynumber: 3.2 Consensus size: 56
64023 TTCATATAAT
* * * *
64033 TTCTTAGTTTTTTCACATAAAGTTCCCATACGGAAATTCATAAACAAATTATGAAC
1 TTCTTAATTTTTGCACATAAAGTGCCCATACGGAAATTCATAAACATATTATGAAC
* * * *
64089 TTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTATAAAC
1 TTCTTAA-TTTTTGCACATAAAGTGCCCATACGGAAATTCATAAACATATTATGAAC
* * * * * * *
64146 TT-TTGAGTTTTGCACATATATTGCCCATAAGGAATTTCATAAACATATTATGAAT
1 TTCTTAATTTTTGCACATAAAGTGCCCATACGGAAATTCATAAACATATTATGAAC
*
64201 TTCTTAGTTTTTG
1 TTCTTAATTTTTG
64214 AACTAATTCG
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
55 41 0.41
56 16 0.16
57 44 0.44
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (56 bp):
TTCTTAATTTTTGCACATAAAGTGCCCATACGGAAATTCATAAACATATTATGAAC
Found at i:64210 original size:55 final size:55
Alignment explanation
Indices: 64030--64211 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 55
64020 AAATTCATAT
* *
64030 AATTTCTTAGTTTTTTCACATAAAGTT-CCCATACGGAAATTCATAAACAAATTATG
1 AATTTCTTAG-TTTTGCACATAAA-TTGCCCATACGGAAATTCATAAACATATTATG
* * * * * * *
64086 AACTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTATA
1 AATTTCTT-A-GTTTTGCACATAAATTGCCCATACGGAAATTCATAAACATATTATG
* * * *
64143 AACTTT-TGAGTTTTGCACATATATTGCCCATAAGGAATTTCATAAACATATTATG
1 AA-TTTCTTAGTTTTGCACATAAATTGCCCATACGGAAATTCATAAACATATTATG
64198 AATTTCTTAGTTTT
1 AATTTCTTAGTTTT
64212 TGAACTAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
54 3 0.03
55 46 0.46
56 9 0.09
57 40 0.40
58 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (55 bp):
AATTTCTTAGTTTTGCACATAAATTGCCCATACGGAAATTCATAAACATATTATG
Found at i:64419 original size:46 final size:46
Alignment explanation
Indices: 64367--64576 Score: 330
Period size: 46 Copynumber: 4.6 Consensus size: 46
64357 TTATTCGTTA
* *
64367 ATTTCATTTATGGTATCCTTTCATGCCTTAATGTATCCTTTCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
* * * **
64413 ATTTCATTTATGGCATCCTTTCATGTCTTAATACATCCTTTAACGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
* *
64459 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
*
64505 ATTTCATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
64551 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
64577 ATTTTATTTA
Statistics
Matches: 148, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
Found at i:64432 original size:26 final size:26
Alignment explanation
Indices: 64401--64602 Score: 170
Period size: 26 Copynumber: 8.5 Consensus size: 26
64391 GCCTTAATGT
*
64401 ATCCTTTCATACATTTCATTTATGGC
1 ATCCTTTCATGCATTTCATTTATGGC
* *
64427 ATCCTTTCATG----TC-TTAAT-AC
1 ATCCTTTCATGCATTTCATTTATGGC
* *
64447 ATCCTTTAACGCATTTCATTTATGGC
1 ATCCTTTCATGCATTTCATTTATGGC
* *
64473 ATCATTTCATGC----C-TTAAT-GC
1 ATCCTTTCATGCATTTCATTTATGGC
64493 ATCCTTTCATGCATTTCATTTATGGC
1 ATCCTTTCATGCATTTCATTTATGGC
* *
64519 ATTCTTTCATGC----C-TTAAT-GC
1 ATCCTTTCATGCATTTCATTTATGGC
*
64539 ATCCTTTCATACATTTCATTTATGGC
1 ATCCTTTCATGCATTTCATTTATGGC
* *
64565 ATCCTTTCATGCATTTTATTTATGTC
1 ATCCTTTCATGCATTTCATTTATGGC
64591 ATCCTTTCATGC
1 ATCCTTTCATGC
64603 CTATATATAT
Statistics
Matches: 137, Mismatches: 21, Indels: 36
0.71 0.11 0.19
Matches are distributed among these distances:
20 35 0.26
21 12 0.09
22 4 0.03
24 4 0.03
25 12 0.09
26 70 0.51
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.46
Consensus pattern (26 bp):
ATCCTTTCATGCATTTCATTTATGGC
Found at i:64500 original size:20 final size:20
Alignment explanation
Indices: 64471--64548 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
64461 TTCATTTATG
*
64471 GCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
64491 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
*
64516 GGCATTCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
64537 GCATCCTTTCAT
1 GCATCCTTTCAT
64549 ACATTTCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 24 0.51
21 4 0.09
22 1 0.02
24 1 0.02
25 4 0.09
26 13 0.28
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:64611 original size:2 final size:2
Alignment explanation
Indices: 64604--64636 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64594 CTTTCATGCC
64604 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 T
64637 GGATTCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65086 original size:22 final size:22
Alignment explanation
Indices: 65060--65121 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
65050 TACCCTTACC
65060 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
65082 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
*
65104 ATGGTATTGATACT-CTAT
1 ATGGTATCGATACTACTAT
65122 TACGGTACCG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGGTATCGATACTACTATACT
Found at i:67663 original size:22 final size:21
Alignment explanation
Indices: 67619--67672 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
67609 TCTACGGGTT
*
67619 CTTCGGGACAACTCATAGGTC
1 CTTCGGGACAACTCACAGGTC
*
67640 CTTCGGGACATATTCACAGGTC
1 CTTCGGGACA-ACTCACAGGTC
67662 CTTCGGGACAA
1 CTTCGGGACAA
67673 AATTTCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (21 bp):
CTTCGGGACAACTCACAGGTC
Found at i:68480 original size:12 final size:12
Alignment explanation
Indices: 68463--68492 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
68453 ACTGTAGCAT
*
68463 TGTTCACGGTAC
1 TGTTCACGGCAC
68475 TGTTCACGGCAC
1 TGTTCACGGCAC
68487 TGTTCA
1 TGTTCA
68493 TGAAAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (12 bp):
TGTTCACGGCAC
Found at i:75099 original size:14 final size:14
Alignment explanation
Indices: 75080--75109 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
75070 ACGGATACTT
75080 TTTTATATAATAAA
1 TTTTATATAATAAA
75094 TTTTATATAATAAA
1 TTTTATATAATAAA
75108 TT
1 TT
75110 AACAGGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTATATAATAAA
Found at i:75782 original size:15 final size:15
Alignment explanation
Indices: 75762--75794 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
75752 CACTCGCTCC
*
75762 CATAAGAGTTTAATG
1 CATAAGAGCTTAATG
75777 CATAAGAGCTTAATG
1 CATAAGAGCTTAATG
75792 CAT
1 CAT
75795 CGGTGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (15 bp):
CATAAGAGCTTAATG
Found at i:75929 original size:6 final size:6
Alignment explanation
Indices: 75918--75949 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
75908 CAACTCTATC
*
75918 GAATTG GAATTG GAATTG GAATTG GGATTG GA
1 GAATTG GAATTG GAATTG GAATTG GAATTG GA
75950 CTTGTTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (6 bp):
GAATTG
Found at i:80929 original size:24 final size:24
Alignment explanation
Indices: 80891--80951 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
80881 GTTCGTGAAC
* **
80891 GTTCGGTTATGTTCGTTTTGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
80915 GTTTGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
80939 GTTCGTTTATGTT
1 GTTCGTTTATGTT
80952 TATTCATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.08, C:0.08, G:0.25, T:0.59
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:80962 original size:24 final size:24
Alignment explanation
Indices: 80891--80965 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
80881 GTTCGTGAAC
* * **
80891 GTTCGGTTATGTTCGTTTTGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
* * *
80915 GTTTGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
* *
80939 GTTCGTTTATGTTTATTCATTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
80963 GTT
1 GTT
80966 TAACCCAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.11, C:0.08, G:0.21, T:0.60
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCAGTTAT
Found at i:80962 original size:38 final size:38
Alignment explanation
Indices: 80890--80965 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
80880 TGTTCGTGAA
* **
80890 CGTTCGGTTATGTTCGTTTTGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTCGTTTTGTTATATTCATTTATGTT
80928 CGTTCGGTTATGTTCGTTTATGTT-TATTCATTTATGTT
1 CGTTCGGTTATGTTCGTTT-TGTTATATTCATTTATGTT
80966 TAACCCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 30 0.88
39 4 0.12
ACGTcount: A:0.11, C:0.09, G:0.21, T:0.59
Consensus pattern (38 bp):
CGTTCGGTTATGTTCGTTTTGTTATATTCATTTATGTT
Found at i:81756 original size:11 final size:11
Alignment explanation
Indices: 81740--81791 Score: 86
Period size: 11 Copynumber: 4.6 Consensus size: 11
81730 TGGGGCAATG
81740 TCGAGCTTGAA
1 TCGAGCTTGAA
81751 TCGAGCTTAGAA
1 TCGAGCTT-GAA
*
81763 TTGAGCTTGAA
1 TCGAGCTTGAA
81774 TCGAGCTTGAA
1 TCGAGCTTGAA
81785 TCGAGCT
1 TCGAGCT
81792 CAAGTCTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:81772 original size:23 final size:22
Alignment explanation
Indices: 81740--81791 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
81730 TGGGGCAATG
81740 TCGAGCTTGAATCGAGCTTAGAA
1 TCGAGCTTGAATCGAGCTT-GAA
*
81763 TTGAGCTTGAATCGAGCTTGAA
1 TCGAGCTTGAATCGAGCTTGAA
81785 TCGAGCT
1 TCGAGCT
81792 CAAGTCTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (22 bp):
TCGAGCTTGAATCGAGCTTGAA
Found at i:82049 original size:16 final size:16
Alignment explanation
Indices: 82024--82088 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
82014 CCAACGTTTA
82024 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
82040 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
82056 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
**
82072 TGCGCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
82088 T
1 T
82089 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.14, G:0.25, T:0.54
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:82363 original size:23 final size:23
Alignment explanation
Indices: 82337--82382 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
82327 GATGACGAGT
*
82337 TTACATGAGATATTATTTT-TTTA
1 TTACATG-CATATTATTTTATTTA
*
82360 TTACGTGCATATTATTTTATTTA
1 TTACATGCATATTATTTTATTTA
82383 AAAAAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (23 bp):
TTACATGCATATTATTTTATTTA
Found at i:82514 original size:89 final size:91
Alignment explanation
Indices: 82388--82585 Score: 294
Period size: 89 Copynumber: 2.2 Consensus size: 91
82378 ATTTAAAAAA
*
82388 AAACTCATCACCTCGAGGTGACGAGTTCCTTTAAAATATTATTATATTTTTCAGTAATATACTTA
1 AAACTCATCACCTAGAGGTGACGAGTTCCTTTAAAATATTATTATATTTTTCAGTAATATACTTA
*
82453 AAATTAG-AATTAAAAAAAGGCGTTG
66 AAATTAGAAATGAAAAAAAGGCGTTG
* * *
82478 AAACTCTTCCCCTAGAGGTGATGA-TTCCTTTAAAATATTATTATATTTTTCAGTAATATACTTA
1 AAACTCATCACCTAGAGGTGACGAGTTCCTTTAAAATATTATTATATTTTTCAGTAATATACTTA
**
82542 AAATTAGAAATGAAAAAAA-ATGTTG
66 AAATTAGAAATGAAAAAAAGGCGTTG
* *
82567 GAACTCGTCACCTAGAGGT
1 AAACTCATCACCTAGAGGT
82586 TTATAACTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 67 0.69
90 30 0.31
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (91 bp):
AAACTCATCACCTAGAGGTGACGAGTTCCTTTAAAATATTATTATATTTTTCAGTAATATACTTA
AAATTAGAAATGAAAAAAAGGCGTTG
Found at i:86480 original size:43 final size:43
Alignment explanation
Indices: 86416--86551 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
86406 AGTTAACAGA
*
86416 ATCAACATATT-CTGAGAAACAGGAAGACCTTAGACCGAAAGCC
1 ATCAACATATTAC-GAGGAACAGGAAGACCTTAGACCGAAAGCC
* ** * *
86459 ATCAATATATTACGAGGAACAGGTGGACCATAGACTGAAAGCC
1 ATCAACATATTACGAGGAACAGGAAGACCTTAGACCGAAAGCC
* *
86502 ATCAACATATCATGAGGAACAGGAAGACCTTAGACCGAAAGCC
1 ATCAACATATTACGAGGAACAGGAAGACCTTAGACCGAAAGCC
86545 ATCAACA
1 ATCAACA
86552 CAAGAAAGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 78 0.99
44 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (43 bp):
ATCAACATATTACGAGGAACAGGAAGACCTTAGACCGAAAGCC
Found at i:92799 original size:13 final size:13
Alignment explanation
Indices: 92778--92816 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
92768 TAAAAGGGAA
92778 AAATAAAATGAAAT
1 AAAT-AAATGAAAT
92792 AAATAAATGAAAT
1 AAATAAATGAAAT
92805 AAATAAATGAAA
1 AAATAAATGAAA
92817 ATTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (13 bp):
AAATAAATGAAAT
Found at i:94023 original size:26 final size:25
Alignment explanation
Indices: 93992--94115 Score: 126
Period size: 26 Copynumber: 5.0 Consensus size: 25
93982 ATTATATATT
93992 ATATATGTTTTCAAAAACCATTTTA
1 ATATATGTTTTCAAAAACCATTTTA
* * *
94017 ATAATATGTTTTCAAAAACTA-TATC
1 AT-ATATGTTTTCAAAAACCATTTTA
* *
94042 ATATATGTTTTCAAAAATCGTTTTA
1 ATATATGTTTTCAAAAACCATTTTA
* * * *
94067 ATAATATGCTTTCAAAAACTA-TATC
1 AT-ATATGTTTTCAAAAACCATTTTA
*
94092 ATATATGTTTTCAAAAACCGTTTT
1 ATATATGTTTTCAAAAACCATTTT
94116 TTAAAAAGTA
Statistics
Matches: 77, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
24 30 0.39
25 16 0.21
26 31 0.40
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (25 bp):
ATATATGTTTTCAAAAACCATTTTA
Found at i:94052 original size:24 final size:24
Alignment explanation
Indices: 93986--94109 Score: 133
Period size: 24 Copynumber: 5.0 Consensus size: 24
93976 TCATATATTA
*
93986 TATATTATATATGTTTTCAAAAAC
1 TATATAATATATGTTTTCAAAAAC
* *
94010 CATTTTAATAATATGTTTTCAAAAAC
1 TA-TATAAT-ATATGTTTTCAAAAAC
*
94036 TATATCATATATGTTTTCAAAAATC
1 TATATAATATATGTTTTCAAAAA-C
* *
94061 GT-TTTAATAATATGCTTTCAAAAAC
1 -TATATAAT-ATATGTTTTCAAAAAC
*
94086 TATATCATATATGTTTTCAAAAAC
1 TATATAATATATGTTTTCAAAAAC
94110 CGTTTTTTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
24 32 0.39
25 18 0.22
26 32 0.39
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (24 bp):
TATATAATATATGTTTTCAAAAAC
Found at i:94066 original size:50 final size:50
Alignment explanation
Indices: 93986--94115 Score: 224
Period size: 50 Copynumber: 2.6 Consensus size: 50
93976 TCATATATTA
* * *
93986 TATATTATATATGTTTTCAAAAACCATTTTAATAATATGTTTTCAAAAAC
1 TATATCATATATGTTTTCAAAAACCGTTTTAATAATATGCTTTCAAAAAC
*
94036 TATATCATATATGTTTTCAAAAATCGTTTTAATAATATGCTTTCAAAAAC
1 TATATCATATATGTTTTCAAAAACCGTTTTAATAATATGCTTTCAAAAAC
94086 TATATCATATATGTTTTCAAAAACCGTTTT
1 TATATCATATATGTTTTCAAAAACCGTTTT
94116 TTAAAAAGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (50 bp):
TATATCATATATGTTTTCAAAAACCGTTTTAATAATATGCTTTCAAAAAC
Found at i:94171 original size:36 final size:35
Alignment explanation
Indices: 94076--94171 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 35
94066 AATAATATGC
94076 TTTCAAAAACTATATCATATATGTTTTCAAAAACCGTT
1 TTTCAAAAACTATAT-ATATATGTTTTCAAAAA-C-TT
* *
94114 TTTTAAAAAGTATATATTATATGTTTTCAAAAA-TAT
1 TTTCAAAAACTATATA-TATATGTTTTCAAAAACT-T
94150 TTTCAAAAACTATACTATATAT
1 TTTCAAAAACTATA-TATATAT
94172 ATTCAAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 1 0.02
36 18 0.35
37 3 0.06
38 29 0.57
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (35 bp):
TTTCAAAAACTATATATATATGTTTTCAAAAACTT
Found at i:94198 original size:24 final size:22
Alignment explanation
Indices: 94146--94190 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
94136 GTTTTCAAAA
*
94146 ATATTTTCAAAAACTATACTAT
1 ATATATTCAAAAACTATACTAT
94168 ATATATTCAAAAACTATA-TAT
1 ATATATTCAAAAACTATACTAT
94189 AT
1 AT
94191 TGTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATATTCAAAAACTATACTAT
Found at i:106214 original size:19 final size:20
Alignment explanation
Indices: 106192--106229 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
106182 AAATAATCCC
106192 TAAAAAATAA-AAAAAATGT
1 TAAAAAATAAGAAAAAATGT
*
106211 TAAATAATAAGAAAAAATG
1 TAAAAAATAAGAAAAAATG
106230 CAAAGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAAAAATAAGAAAAAATGT
Found at i:106292 original size:20 final size:21
Alignment explanation
Indices: 106253--106313 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
106243 TTAGGGTTAT
*
106253 AATAAAAGGGAAAAATTAAATTA
1 AATAAAA--GAAAAATTAAAATA
*
106276 AATAAAATAAAAA-TAAAATA
1 AATAAAAGAAAAATTAAAATA
*
106296 AATAAAAGAAAATTTAAA
1 AATAAAAGAAAAATTAAA
106314 TTAGAAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.52
21 9 0.27
23 7 0.21
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (21 bp):
AATAAAAGAAAAATTAAAATA
Found at i:107230 original size:38 final size:38
Alignment explanation
Indices: 107181--107328 Score: 226
Period size: 38 Copynumber: 3.9 Consensus size: 38
107171 TAATAATATG
* ** *
107181 TTTTCAAAAACTATAT-TATATACATTTTCAAAAACCGT
1 TTTTTAAAAACTATATAT-TATATGTTTTCAAAAACCAT
*
107219 TTTTTAAAAACTATATATTTTATGTTTTCAAAAACCAT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAACCAT
107257 TTTTTAAAAACTATATATTATATGTTTTCAAAAACCAT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAACCAT
*
107295 TTTTTAAAAACTATATATTTTATGTTTTCAAAAA
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAA
107329 TATTTTCGAA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 101 0.99
39 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (38 bp):
TTTTTAAAAACTATATATTATATGTTTTCAAAAACCAT
Found at i:107267 original size:76 final size:76
Alignment explanation
Indices: 107181--107345 Score: 246
Period size: 76 Copynumber: 2.2 Consensus size: 76
107171 TAATAATATG
*
107181 TTTTCAAAAACTATAT-TATATACATTTTCAAAAACCGTTTTTTAAAAACTATATATTTTATGTT
1 TTTTCAAAAACTATATAT-TATACATTTTCAAAAACCATTTTTTAAAAACTATATATTTTATGTT
107245 TTCAAAAACCAT
65 TTCAAAAACCAT
* **
107257 TTTTTAAAAACTATATATTATATGTTTTCAAAAACCATTTTTTAAAAACTATATATTTTATGTTT
1 TTTTCAAAAACTATATATTATACATTTTCAAAAACCATTTTTTAAAAACTATATATTTTATGTTT
*
107322 TCAAAAA-TA-
66 TCAAAAACCAT
*
107331 TTTTCGAAAACTATA
1 TTTTCAAAAACTATA
107346 CTATATATCT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 13 0.16
75 1 0.01
76 66 0.81
77 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (76 bp):
TTTTCAAAAACTATATATTATACATTTTCAAAAACCATTTTTTAAAAACTATATATTTTATGTTT
TCAAAAACCAT
Found at i:108262 original size:15 final size:15
Alignment explanation
Indices: 108242--108272 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108232 CGTTAAAATG
108242 TTGTATCAGATCGTA
1 TTGTATCAGATCGTA
*
108257 TTGTATTAGATCGTA
1 TTGTATCAGATCGTA
108272 T
1 T
108273 CAGATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (15 bp):
TTGTATCAGATCGTA
Found at i:108375 original size:10 final size:10
Alignment explanation
Indices: 108360--108386 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
108350 ATTGGATGAT
108360 TTTGAATTAA
1 TTTGAATTAA
108370 TTTGAATTAA
1 TTTGAATTAA
108380 TTTGAAT
1 TTTGAAT
108387 AGAGTCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (10 bp):
TTTGAATTAA
Found at i:109970 original size:65 final size:65
Alignment explanation
Indices: 109838--109997 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
109828 TGCACTAAGA
* * * * *
109838 GTGCATCGATGCATGAAGTGCATTTGAT-ATTTCAAAATAGCCTGAGTGCATCGATGCATGTCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGTCTT
* *
109902 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-AACTTGAGTGCATCGATGTATGT-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAACCTGAGTGCATCGATGCATGTCT
109965 GT
65 -T
109967 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
109998 CAATTTATTC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 26 0.30
65 57 0.66
66 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAACCTGAGTGCATCGATGCATGTCTT
Found at i:116593 original size:22 final size:21
Alignment explanation
Indices: 116553--116592 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
116543 GAGTTTATTT
116553 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
116574 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
116593 ACAACTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:118586 original size:64 final size:63
Alignment explanation
Indices: 118518--118676 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 63
118508 TTGGACCCTT
* * * *
118518 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGGGTATTCGATG-TTTCA-AAATAGCCT
1 AGTGCATCGATGCA-TAA-AGTGCATCGATGCATCAAAGGTATTCGATGTTTTCATAAA-AACCT
118581 G
63 G
*** *
118582 AGTGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAAAACCTG
1 AGTGCATCGATGCA--TAAAGTGCATCGATGCATCAAAGGTATTCGATGTTTTCATAAAAACCTG
*
118647 AGTGCATCGATGCATAAAATGCATTCGATG
1 AGTGCATCGATGCATAAAGTGCA-TCGATG
118677 TTCAATTTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
63 5 0.06
64 45 0.58
65 25 0.32
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAGTGCATCGATGCATCAAAGGTATTCGATGTTTTCATAAAAACCTG
Found at i:120562 original size:3 final size:3
Alignment explanation
Indices: 120556--120593 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
120546 GTAGTAGTAG
120556 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
120594 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:120598 original size:3 final size:3
Alignment explanation
Indices: 120592--120616 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
120582 ATAATAATAA
120592 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
120617 TTTGAAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:121270 original size:28 final size:28
Alignment explanation
Indices: 121238--121406 Score: 86
Period size: 28 Copynumber: 5.5 Consensus size: 28
121228 ACAAAATTCA
*
121238 TTTCAAGGGAAACGACTCAAAGATAATG
1 TTTCAAGAGAAACGACTCAAAGATAATG
** * *
121266 TTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTTA
1 TTTCAAGAGAAAC-GACTC-A-A-AG--ATAA--TG
*
121302 TTTCAAGGGAAACGACTCAAAGATAATG
1 TTTCAAGAGAAACGACTCAAAGATAATG
* * *
121330 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAA-CGACTC-A-A-AG--ATAA--TG
**
121366 TTTTGAGAGAAACGACTCAAAGATAATG
1 TTTCAAGAGAAACGACTCAAAGATAATG
*
121394 TATCAAGAGAAAC
1 TTTCAAGAGAAAC
121407 TATCTCAAGA
Statistics
Matches: 103, Mismatches: 22, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
28 36 0.35
29 7 0.07
30 8 0.08
31 2 0.02
32 8 0.08
33 2 0.02
34 8 0.08
35 7 0.07
36 25 0.24
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (28 bp):
TTTCAAGAGAAACGACTCAAAGATAATG
Found at i:121286 original size:64 final size:64
Alignment explanation
Indices: 121106--121420 Score: 389
Period size: 64 Copynumber: 4.9 Consensus size: 64
121096 TAGGGATAAT
* * * * * *
121106 ATTTCAAGGGAAACAAACTCAAAGATGATGCTTCAAGGGAAGCTTTCTCAAGAGAGAAAAAATTC
1 ATTTCAAGGGAAAC-GACTCAAAGATAATGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTC
* * * * * * * *
121171 GTTTCATGGGAAACAATCTCAAAGGTGATTATTTGAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 ATTTCAAGGGAAACGA-CTCAAAGAT-AATGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAATT
121236 C
64 C
*
121237 ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTT
1 ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTC
*
121301 ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAA-TTGTCTCAAGAGAGACAAAATTT
1 ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAACTT-TCTCAAGAGAGACAAAATTC
* ** * * *
121365 GTTTTGAGAGAAACGACTCAAAGATAATGTATCAAGAGAAACTATCTCAAGAGAGA
1 ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAACTTTCTCAAGAGAGA
121421 TATAACTGTT
Statistics
Matches: 219, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
63 2 0.01
64 145 0.66
65 29 0.13
66 43 0.20
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (64 bp):
ATTTCAAGGGAAACGACTCAAAGATAATGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTC
Found at i:121483 original size:37 final size:36
Alignment explanation
Indices: 121436--121533 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 36
121426 CTGTTTTGAG
* *
121436 AAAATTGTCTCAAGCAAGACAAAAGA-TGTTTTTAATA
1 AAAACTGTCTCAAGCGAGACAAAA-ATTGTTTTTAA-A
*
121473 AAAACTGTCTCAAGCGAGACAAAAATTGTTTTTAAG
1 AAAACTGTCTCAAGCGAGACAAAAATTGTTTTTAAA
*
121509 AAAACTTATCTCAAGCGAGACAAAA
1 AAAAC-TGTCTCAAGCGAGACAAAA
121534 TTTTGTTTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
36 6 0.11
37 49 0.89
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (36 bp):
AAAACTGTCTCAAGCGAGACAAAAATTGTTTTTAAA
Found at i:121890 original size:16 final size:16
Alignment explanation
Indices: 121869--121902 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
121859 TTCATATGTC
*
121869 ATGTATGTATGTGTTG
1 ATGTATGTATATGTTG
121885 ATGTATGTATATGTTG
1 ATGTATGTATATGTTG
121901 AT
1 AT
121903 CTGTGAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (16 bp):
ATGTATGTATATGTTG
Found at i:126382 original size:22 final size:23
Alignment explanation
Indices: 126350--126399 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
126340 AATCATTTAA
126350 AAAAACAATTA-AATATT-ATTTT
1 AAAAACAATTATAAT-TTAATTTT
* *
126372 AAAAACTATTATACTTTAATTTT
1 AAAAACAATTATAATTTAATTTT
126395 AAAAA
1 AAAAA
126400 ATTGGATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAACAATTATAATTTAATTTT
Found at i:128882 original size:3 final size:3
Alignment explanation
Indices: 128874--128925 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
128864 CATATGTATA
128874 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
128922 AAT A
1 AAT A
128926 TTTTTGTAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:129567 original size:17 final size:18
Alignment explanation
Indices: 129535--129571 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
129525 CCGATATTAA
129535 TATTATGTAATATTTTAT
1 TATTATGTAATATTTTAT
*
129553 TATTAT-TATTATTTTAT
1 TATTATGTAATATTTTAT
129570 TA
1 TA
129572 GACTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTATGTAATATTTTAT
Found at i:135201 original size:2 final size:2
Alignment explanation
Indices: 135194--135238 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
135184 AGATTCACAA
*
135194 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
135236 CT C
1 CT C
135239 CATTCACTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:136146 original size:2 final size:2
Alignment explanation
Indices: 136139--136163 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
136129 TAAAATCCAA
136139 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
136164 CACGTGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:140597 original size:58 final size:58
Alignment explanation
Indices: 140507--140621 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
140497 ACCAGAAATG
* *
140507 GCATCATTGTATATCAACTGCATGTTACTTCTATCTAAAGAAAGGCAATTCTTTGTTT
1 GCATCATTGAATATCAACTGCATGCTACTTCTATCTAAAGAAAGGCAATTCTTTGTTT
140565 GCATCATTGAATATCAACTGCATGCTACTTCTATCTAAAGAAAGGCAATTCTTTGTT
1 GCATCATTGAATATCAACTGCATGCTACTTCTATCTAAAGAAAGGCAATTCTTTGTT
140622 GGCTTGCCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (58 bp):
GCATCATTGAATATCAACTGCATGCTACTTCTATCTAAAGAAAGGCAATTCTTTGTTT
Found at i:147526 original size:7 final size:7
Alignment explanation
Indices: 147514--147564 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
147504 ATCTTTTTAA
147514 GCCTAAT
1 GCCTAAT
147521 GCCTAAT
1 GCCTAAT
147528 GCCTAAT
1 GCCTAAT
147535 GCCTAAT
1 GCCTAAT
147542 GCCTAAT
1 GCCTAAT
147549 GCCTAAT
1 GCCTAAT
147556 GCCTAAT
1 GCCTAAT
147563 GC
1 GC
147565 TAACTCTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (7 bp):
GCCTAAT
Found at i:147874 original size:7 final size:7
Alignment explanation
Indices: 147862--147930 Score: 129
Period size: 7 Copynumber: 9.9 Consensus size: 7
147852 ATCTTTTTAA
147862 GCCTAAT
1 GCCTAAT
147869 GCCTAAT
1 GCCTAAT
147876 GCCTAAT
1 GCCTAAT
147883 GCCTAAT
1 GCCTAAT
147890 GCCTAAT
1 GCCTAAT
147897 GCCTAAT
1 GCCTAAT
147904 GCCTAAT
1 GCCTAAT
147911 GCCTAAT
1 GCCTAAT
*
147918 GCCCAAT
1 GCCTAAT
147925 GCCTAA
1 GCCTAA
147931 CGCTAACTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.26
Consensus pattern (7 bp):
GCCTAAT
Found at i:148625 original size:16 final size:16
Alignment explanation
Indices: 148594--148634 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
148584 GGTAATTTTG
148594 TTATAATT-TT-TTTA
1 TTATAATTATTATTTA
*
148608 TTATACTTATTATTTA
1 TTATAATTATTATTTA
148624 TTATAATTATT
1 TTATAATTATT
148635 TGAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATAATTATTATTTA
Found at i:149445 original size:3 final size:3
Alignment explanation
Indices: 149439--149508 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
149429 ATCACCATCA
* * *
149439 TCG TCG TCG TTG TCG TCG TCG TCG TCG TCG TCA TCG TCG TCG TCG TCA
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG
* *
149487 TCG TTG TCA TCG TCG TCG TCG T
1 TCG TCG TCG TCG TCG TCG TCG T
149509 GAGCAGCTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.04, C:0.30, G:0.29, T:0.37
Consensus pattern (3 bp):
TCG
Found at i:151286 original size:17 final size:17
Alignment explanation
Indices: 151259--151302 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
151249 AATTAAATAC
*
151259 AATAC-TAAATAATTTA
1 AATACTTAAATAAATTA
151275 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
151292 AATA-TTAAATA
1 AATACTTAAATA
151303 TTAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:151299 original size:24 final size:24
Alignment explanation
Indices: 151272--151320 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
151262 ACTAAATAAT
*
151272 TTAAATACTTAAATA-AATTAAATA
1 TTAAATA-TTAAATATAATAAAATA
151296 TTAAATATTAAATATAATAAAATA
1 TTAAATATTAAATATAATAAAATA
151320 T
1 T
151321 ACCTTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAATATTAAATATAATAAAATA
Found at i:151300 original size:7 final size:7
Alignment explanation
Indices: 151272--151310 Score: 51
Period size: 7 Copynumber: 5.1 Consensus size: 7
151262 ACTAAATAAT
151272 TTAAATA
1 TTAAATA
151279 CTTAAATAAA
1 -TTAAAT--A
151289 TTAAATA
1 TTAAATA
151296 TTAAATA
1 TTAAATA
151303 TTAAATA
1 TTAAATA
151310 T
1 T
151311 AATAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 16 0.55
8 6 0.21
9 6 0.21
10 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAATA
Found at i:152619 original size:36 final size:32
Alignment explanation
Indices: 152573--152670 Score: 118
Period size: 29 Copynumber: 3.1 Consensus size: 32
152563 TGTATCTGTT
152573 GGTAATGCTCATTGAATATTGATATTGGAAAATTA
1 GGTAATGCTCATTGAATATTGATA---GAAAATTA
152608 GGTAAATGCTCATTGAATA-T--TAGAAAATTA
1 GGT-AATGCTCATTGAATATTGATAGAAAATTA
152638 GGTAATGCTCATTGAATATTG--A-AAAATTA
1 GGTAATGCTCATTGAATATTGATAGAAAATTA
152667 GGTA
1 GGTA
152671 TTTCCACTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
29 26 0.43
30 13 0.22
33 2 0.03
35 4 0.07
36 15 0.25
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (32 bp):
GGTAATGCTCATTGAATATTGATAGAAAATTA
Found at i:152628 original size:30 final size:30
Alignment explanation
Indices: 152590--152670 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 30
152580 CTCATTGAAT
152590 ATTG-ATATTGGAAAATTAGGTAAATGCTC
1 ATTGAATATTGGAAAATTAGGTAAATGCTC
*
152619 ATTGAATATTAGAAAATTAGGT-AATGCTC
1 ATTGAATATTGGAAAATTAGGTAAATGCTC
*
152648 ATTGAATATTGAAAAATTAGGTA
1 ATTGAATATTGGAAAATTAGGTA
152671 TTTCCACTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.66
30 16 0.34
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (30 bp):
ATTGAATATTGGAAAATTAGGTAAATGCTC
Found at i:156355 original size:21 final size:21
Alignment explanation
Indices: 156330--156376 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
156320 AATTGAATTG
156330 TTTAATGACAATTAA-ATAAGC
1 TTTAATGACAATTAATA-AAGC
156351 TTTAATGACAATTAATAAAGC
1 TTTAATGACAATTAATAAAGC
156372 TTTAA
1 TTTAA
156377 CAATTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
TTTAATGACAATTAATAAAGC
Found at i:159847 original size:31 final size:31
Alignment explanation
Indices: 159809--159871 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
159799 CCCAAGAGTT
159809 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
159840 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
159871 T
1 T
159872 TCACCGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (31 bp):
TGGGAGTTCCTAGTGAGAAGGACATATTGAA
Found at i:160470 original size:36 final size:34
Alignment explanation
Indices: 160424--160537 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 34
160414 GGGGAATGTT
160424 GGTAATGCTCATTAAATATTGATATTGGAAAATTA
1 GGTAATGCTCATT-AATATTGATATTGGAAAATTA
*
160459 GGTAAATGCTCATT--GA---ATATTGGAAAATTA
1 GGT-AATGCTCATTAATATTGATATTGGAAAATTA
*
160489 GGTAATGCTCATT--GA---ATATTGGAAAA-TA
1 GGTAATGCTCATTAATATTGATATTGGAAAATTA
160517 GGTAATGCTCATTGAATATTG
1 GGTAATGCTCATT-AATATTG
160538 GAAAGTTAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 15
0.80 0.02 0.17
Matches are distributed among these distances:
28 15 0.21
29 23 0.33
30 17 0.24
31 1 0.01
33 1 0.01
35 3 0.04
36 10 0.14
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (34 bp):
GGTAATGCTCATTAATATTGATATTGGAAAATTA
Found at i:160527 original size:28 final size:29
Alignment explanation
Indices: 160441--160549 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
160431 CTCATTAAAT
160441 ATTG-ATATTGGAAAATTAGGTAAATGCTC
1 ATTGAATATTGGAAAATTAGGT-AATGCTC
160470 ATTGAATATTGGAAAATTAGGTAATGCTC
1 ATTGAATATTGGAAAATTAGGTAATGCTC
160499 ATTGAATATTGGAAAA-TAGGTAATGCTC
1 ATTGAATATTGGAAAATTAGGTAATGCTC
*
160527 ATTGAATATTGGAAAGTTAGGTA
1 ATTGAATATTGGAAAATTAGGTA
160550 TTTTCACTAG
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
28 27 0.35
29 33 0.43
30 17 0.22
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (29 bp):
ATTGAATATTGGAAAATTAGGTAATGCTC
Found at i:160531 original size:57 final size:58
Alignment explanation
Indices: 160441--160549 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 58
160431 CTCATTAAAT
160441 ATTGATATTGGAAAATTAGGTAAATGCTCATTGAATATTGGAAAATTAGGTAATGCTC
1 ATTGATATTGGAAAATTAGGTAAATGCTCATTGAATATTGGAAAATTAGGTAATGCTC
*
160499 ATTGAATATTGGAAAA-TAGGT-AATGCTCATTGAATATTGGAAAGTTAGGTA
1 ATTG-ATATTGGAAAATTAGGTAAATGCTCATTGAATATTGGAAAATTAGGTA
160550 TTTTCACTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
57 29 0.59
58 9 0.18
59 11 0.22
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (58 bp):
ATTGATATTGGAAAATTAGGTAAATGCTCATTGAATATTGGAAAATTAGGTAATGCTC
Found at i:164608 original size:16 final size:16
Alignment explanation
Indices: 164578--164696 Score: 175
Period size: 16 Copynumber: 7.4 Consensus size: 16
164568 GGTATTACCC
* *
164578 GACCTATTTTCAACCT
1 GACCTGTTTTTAACCT
*
164594 GACTTGTTTTTAACCT
1 GACCTGTTTTTAACCT
164610 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
164626 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
164642 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
* *
164658 GACATGTTTTTAACTT
1 GACCTGTTTTTAACCT
* *
164674 GACTTGTTTTTAACTT
1 GACCTGTTTTTAACCT
164690 GACCTGT
1 GACCTGT
164697 AAATGATCCG
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 95 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (16 bp):
GACCTGTTTTTAACCT
Found at i:164990 original size:23 final size:24
Alignment explanation
Indices: 164952--165001 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
164942 ATGCAAAGGA
*
164952 AAATTAATATATTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
164976 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
164999 AAA
1 AAA
165002 GAAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:165520 original size:19 final size:19
Alignment explanation
Indices: 165478--165555 Score: 81
Period size: 19 Copynumber: 4.1 Consensus size: 19
165468 TTTATATTCG
* *
165478 CTCTAAATTTTCCAATTTC
1 CTCTAAATTCTCAAATTTC
165497 TCTCTAAATTC-CAAATTTTC
1 -CTCTAAATTCTCAAA-TTTC
165517 CTCTAAATTCTC-AATTT-
1 CTCTAAATTCTCAAATTTC
*
165534 CTCTATATTCTCAAAATTTC
1 CTCTAAATTCTC-AAATTTC
165554 CT
1 CT
165556 AATTTTCCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 11 0.22
18 3 0.06
19 20 0.40
20 16 0.32
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (19 bp):
CTCTAAATTCTCAAATTTC
Done.