Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001253.1 Kokia drynarioides strain JFW-HI SEQ_112624, 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: 64746
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Found at i:2286 original size:3 final size:3
Alignment explanation
Indices: 2280--2323 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2270 CAATTAAGTA
2280 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2324 GTTAATCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2430 original size:24 final size:22
Alignment explanation
Indices: 2370--2436 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
2360 GGCAATCATA
*
2370 AAAAAATAAAATAAAATAAAAAT
1 AAAAAAT-AAATGAAATAAAAAT
*
2393 AAAAAATAGCATGAAATAAAGATAT
1 AAAAAATA-AATGAAATAAA-A-AT
*
2418 AAAAAATAAATGAGATAAA
1 AAAAAATAAATGAAATAAA
2437 TAAAATGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.03
23 16 0.43
24 10 0.27
25 10 0.27
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAAAATAAATGAAATAAAAAT
Found at i:4647 original size:93 final size:93
Alignment explanation
Indices: 4470--4681 Score: 207
Period size: 93 Copynumber: 2.3 Consensus size: 93
4460 GGTAATGTAA
* * * *
4470 CTTCAATCCATTCCACTGTAACCTTAGGGACATTGAGATTTGTTACTCATTTTAATCCGATCTAC
1 CTTCACTCCATTCCACTGTAACCTCAGAGACATTGAGATTTGTTACTCATTTTAATCCCATCTAC
* * * *
4535 TGCAACTTTAGGAATATAGGATCT-AGT
66 TGCAACCTCAAGAAGATAGGATCTAAGT
* * *
4562 GCTTCACTCCATTCCACTGTAACCTCAGAGACATTGAGATTTGTTAC-CTGTTTTGA-CCCATTT
1 -CTTCACTCCATTCCACTGTAACCTCAGAGACATTGAGATTTGTTACTC-ATTTTAATCCCATCT
* * * *
4625 CATTGTAACCTCAAGAAGATAGGTTTTGAAGT
64 -ACTGCAACCTCAAGAAGATAGGATCT-AAGT
* *
4657 -TTCACTTCACTCCACTGTAACCTCA
1 CTTCACTCCATTCCACTGTAACCTCA
4682 AGGATGTTGA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
92 6 0.06
93 89 0.91
95 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (93 bp):
CTTCACTCCATTCCACTGTAACCTCAGAGACATTGAGATTTGTTACTCATTTTAATCCCATCTAC
TGCAACCTCAAGAAGATAGGATCTAAGT
Found at i:5090 original size:49 final size:48
Alignment explanation
Indices: 5012--5525 Score: 424
Period size: 49 Copynumber: 10.5 Consensus size: 48
5002 TGCCCTTAAT
* * * * *
5012 CTTTCCTTCACATCTCTAGGGTATTAGGTTCATTGTTGCGACCTCAAC
1 CTTTCCATCACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * ** *
5060 CTTTCCTTCCACATCTCTAGAGTATAAGGTTCGCCGTTGCGACTTCAAC
1 CTTTCCAT-CACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * * * * * * *
5109 CTTTCC--CACCATATATTGGGTACAAGATTCGTCGTTGCGGCTTTAAT
1 CTTTCCATCA-CATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * **
5156 CTTTCCCATCACATCTCTAAGGTATAAGGTTC-GCTGTTGCATCTTCAAC
1 CTTT-CCATCACATCTCTAGGGTATAAGGTTCATC-GTTGCGGCTTCAAC
* * * *
5205 CTTTCCCTCCATATCTCTAGGGTACAAGATTCATCGTTGCGGCTTCAAC
1 CTTTCCAT-CACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
*
5254 CTTTCCCATCACATCTCTAAGGTATAAGGTTCATCGTTGCGGCTTCAAC
1 CTTT-CCATCACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * * *
5303 CTTTCCCTCCACATCTCTAGGGTATCAGATTCATCGTTGCGGCTTCAAT
1 CTTTCCAT-CACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * * * *
5352 CTTTCCCATCATATCTCTAAGGTATAAGGTTCGTCATTACGGCTTCAAC
1 CTTT-CCATCACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * * * *
5401 CTTTTCC-TCAACATCTCTAGGGTATCAGGTTCACCATTGCAGCTTTAAC
1 C-TTTCCATC-ACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
* * * * * * *
5450 CTTTCCCTTCATATCTCTAGGGTATAAGATTCGTTGTTGCGGCCTCAAAT
1 CTTT-CCATCACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTC-AAC
* * *
5500 CTTTCCCTTAACATCTTTAGGGTATA
1 CTTT-CCATCACATCTCTAGGGTATA
5526 GGATTCAACT
Statistics
Matches: 374, Mismatches: 76, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.01
47 32 0.09
48 22 0.06
49 279 0.75
50 39 0.10
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (48 bp):
CTTTCCATCACATCTCTAGGGTATAAGGTTCATCGTTGCGGCTTCAAC
Found at i:5270 original size:98 final size:97
Alignment explanation
Indices: 5012--5532 Score: 500
Period size: 98 Copynumber: 5.3 Consensus size: 97
5002 TGCCCTTAAT
* * * * * * *
5012 CTTT-CCTTCACATCTCTAGGGTATTAGGTTCATTGTTGCGACCTCAACCTTT-CCTTCCACATC
1 CTTTCCCTCCACATCTCTAGGGTA-CAGATTCATCGTTGCGGCTTCAACCTTTCCCAT-CACATC
*
5075 TCT-AGAGTATAAGGTTCGCCGTTGC-GACTTCAAC
64 TCTAAG-GTATAAGGTTCGCTGTTGCAG-CTTCAAC
* * * * * *
5109 CTTTCCCACCATATAT-T-GGGTACAAGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCT
1 CTTTCCCTCCACATCTCTAGGGTAC-AGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCT
*
5172 CTAAGGTATAAGGTTCGCTGTTGCATCTTCAAC
65 CTAAGGTATAAGGTTCGCTGTTGCAGCTTCAAC
*
5205 CTTTCCCTCCATATCTCTAGGGTACAAGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCT
1 CTTTCCCTCCACATCTCTAGGGTAC-AGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCT
* *
5270 CTAAGGTATAAGGTTC-ATCGTTGCGGCTTCAAC
65 CTAAGGTATAAGGTTCGCT-GTTGCAGCTTCAAC
* *
5303 CTTTCCCTCCACATCTCTAGGGTATCAGATTCATCGTTGCGGCTTCAATCTTTCCCATCATATCT
1 CTTTCCCTCCACATCTCTAGGGTA-CAGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCT
* * *
5368 CTAAGGTATAAGGTTCG-TCATTACGGCTTCAAC
65 CTAAGGTATAAGGTTCGCT-GTTGCAGCTTCAAC
* * * * * * * * *
5401 CTTTTCCTCAACATCTCTAGGGTATCAGGTTCACCATTGCAGCTTTAACCTTTCCCTTCATATCT
1 CTTTCCCTCCACATCTCTAGGGTA-CAGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCT
* * * * * *
5466 CTAGGGTATAAGATTCGTTGTTGCGGCCTCAAAT
65 CTAAGGTATAAGGTTCGCTGTTGCAGCTTC-AAC
** * *
5500 CTTTCCCTTAACATCTTTAGGGTATAGGATTCA
1 CTTTCCCTCCACATCTCTAGGGTACA-GATTCA
5533 ACTTTTCCGT
Statistics
Matches: 363, Mismatches: 48, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
96 73 0.20
97 12 0.03
98 248 0.68
99 30 0.08
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (97 bp):
CTTTCCCTCCACATCTCTAGGGTACAGATTCATCGTTGCGGCTTCAACCTTTCCCATCACATCTC
TAAGGTATAAGGTTCGCTGTTGCAGCTTCAAC
Found at i:5349 original size:147 final size:147
Alignment explanation
Indices: 4981--5525 Score: 519
Period size: 147 Copynumber: 3.7 Consensus size: 147
4971 CCTCATCTTC
* * * * * * *
4981 AGGGTATAAGATTCGTCGTT-CTGCCCTTAATCTTT-CCTTCACATCTCTAGGGTATTAGGTTCA
1 AGGGTATAAGGTTCATCGTTGC-GGCTTTAACCTTTCCCTTCACATCTCTAGGGTATAAGATTCA
* * * * * * *
5044 TTGTTGCGACCTCAACCTTTCCTTCCACATCTCTAGAGTATAAGGTTCGCCGTTGCGACTTCAAC
65 TCGTTGCGGCCTCAACCTTTCCCTCCATATCTCTAGGGTATAAGGTTCGTCGTTGCGGCTTCAAC
* *
5109 CTTTCCCA-C-CATATAT
130 CTTTCCCATCACATCTCT
* * * * * * * * *
5125 TGGGTACAAGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCTCTAAGGTATAAGGTTC-G
1 AGGGTATAAGGTTCATCGTTGCGGCTTTAACCTTTCCCTTCACATCTCTAGGGTATAAGATTCAT
** * * * *
5189 CTGTTGCATCTTCAACCTTTCCCTCCATATCTCTAGGGTACAAGATTCATCGTTGCGGCTTCAAC
66 C-GTTGCGGCCTCAACCTTTCCCTCCATATCTCTAGGGTATAAGGTTCGTCGTTGCGGCTTCAAC
5254 CTTTCCCATCACATCTCT
130 CTTTCCCATCACATCTCT
* * * *
5272 AAGGTATAAGGTTCATCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATCAGATTCAT
1 AGGGTATAAGGTTCATCGTTGCGGCTTTAACCTTTCCCTTCACATCTCTAGGGTATAAGATTCAT
* * * * *
5337 CGTTGCGGCTTCAATCTTTCCCAT-CATATCTCTAAGGTATAAGGTTCGTCATTACGGCTTCAAC
66 CGTTGCGGCCTCAACCTTTCCC-TCCATATCTCTAGGGTATAAGGTTCGTCGTTGCGGCTTCAAC
*
5401 CTTTTCC-TCAACATCTCT
130 CTTTCCCATC-ACATCTCT
* * * * * *
5419 AGGGTATCAGGTTCACCATTGCAGCTTTAACCTTTCCCTTCATATCTCTAGGGTATAAGATTCGT
1 AGGGTATAAGGTTCATCGTTGCGGCTTTAACCTTTCCCTTCACATCTCTAGGGTATAAGATTCAT
* * ** * *
5484 TGTTGCGGCCTCAAATCTTTCCCTTAACATCTTTAGGGTATA
66 CGTTGCGGCCTC-AACCTTTCCCTCCATATCTCTAGGGTATA
5526 GGATTCAACT
Statistics
Matches: 330, Mismatches: 61, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
144 29 0.09
145 85 0.26
146 3 0.01
147 188 0.57
148 25 0.08
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (147 bp):
AGGGTATAAGGTTCATCGTTGCGGCTTTAACCTTTCCCTTCACATCTCTAGGGTATAAGATTCAT
CGTTGCGGCCTCAACCTTTCCCTCCATATCTCTAGGGTATAAGGTTCGTCGTTGCGGCTTCAACC
TTTCCCATCACATCTCT
Found at i:6391 original size:7 final size:7
Alignment explanation
Indices: 6379--6418 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
6369 CAACTTCTCC
6379 TTTTTCT
1 TTTTTCT
6386 TTTTTCT
1 TTTTTCT
6393 TTTTTCTT
1 TTTTTC-T
6401 TTCTTTCT
1 TT-TTTCT
6409 TTTTTCT
1 TTTTTCT
6416 TTT
1 TTT
6419 ATTGAGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 21 0.68
8 6 0.19
9 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:6407 original size:16 final size:15
Alignment explanation
Indices: 6379--6418 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
6369 CAACTTCTCC
6379 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
6393 TTTTTCTTTTCTTTCT
1 TTTTTCTTTT-TTTCT
6409 TTTTTCTTTT
1 TTTTTCTTTT
6419 ATTGAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 15 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:8645 original size:49 final size:50
Alignment explanation
Indices: 8378--9095 Score: 371
Period size: 49 Copynumber: 14.7 Consensus size: 50
8368 AAGTTGTTAT
* * ** * *
8378 AGCTTCAACCTTTCCTTCCGTATCTCTAAAGTATAAGG-TTCGTCGTTGC
1 AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * ** * *
8427 AGCTTCAACCTTT-CCTACCACA--ACTAGGGTACAA-GACTCACCGTTGG
1 AGCTTCAATCTTTCCCT-CCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* ** *
8474 AGCATT-AATCTTTCCCAT-CACATCTCTAAGGAATAAGG-TTCGCCGTTAC
1 AGC-TTCAATCTTTCCC-TCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * * * * *
8523 AGTTTTAACCTTTCCCTCTACA-CT-TTAGCGTACAAGATTT-A-CTGTTAC
1 AGCTTCAATCTTTCCCTCCACATCTCTAAG-GTATAAGGTTTCATC-GTTGC
* * * *
8571 GGCTTCAATCTTTCGCAT-CACATCTCTAAGGTATAAGGTTTGAT-GTTGT
1 AGCTTCAATCTTTC-CCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * ** *
8620 GGCTTCAACCTTTCCCTCCATATCTCTAGGGTATAA-CATTCATCATTGC
1 AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * *
8669 -GTCTTCAATCTTT-CCTATCACATTTCTAAGGTATAAGGTTT-GTCGTTGC
1 AG-CTTCAATCTTTCCCT-CCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * * *
8718 AGCTTCAACCTTTTCCTCTACATCTCTAGGGTATAAGG-TTCACCATTGC
1 AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* ** * * *
8767 AGCTTTAA-CATTTCCCTCCATTTCTCTAAGGTACAA-GATTCACCGTTGC
1 AGCTTCAATC-TTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * *
8816 AGCTTCAATCTTTCTCAT-CACATCTCTAACGTATAAGG-TTCATCATTAC
1 AGCTTCAATCTTTC-CCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * *
8865 GGCTTCAATCTTTCCTTCCACATCTCTATGGTATAA-GATTCGTCGTTGC
1 AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
** *
8914 AGCTTCAATCTTTCCCAT-CACATCTCTAAGGTATAAGG-TTCGCCATTGC
1 AGCTTCAATCTTTCCC-TCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* ** * * * * *
8963 AGCTTCAA-CATTTTCCTTAACATCTCTAGGGTATAAAG-TTCACCATTAC
1 AGCTTCAATC-TTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * *
9012 GGCTTCAA-CTTTTCCTTCCATATCTCTAAGGTATAA-GATTCACCGTTGC
1 AGCTTCAATC-TTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
* * * * *
9061 AACCTCAATCTTTCCCTCAACATCTTTAGGGTATA
1 AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATA
9096 GGATTCAATG
Statistics
Matches: 512, Mismatches: 118, Indels: 78
0.72 0.17 0.11
Matches are distributed among these distances:
46 1 0.00
47 32 0.06
48 54 0.11
49 407 0.79
50 18 0.04
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.35
Consensus pattern (50 bp):
AGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGGTTTCATCGTTGC
Found at i:8950 original size:98 final size:96
Alignment explanation
Indices: 8379--9101 Score: 473
Period size: 98 Copynumber: 7.4 Consensus size: 96
8369 AGTTGTTATA
* * *
8379 GCTTCAACCTTTCCTTC-CGTATCTCTAAAGTATAAGGTTCGTCGTTGCAGCTTCAACCTTT-CC
1 GCTTCAATCTTTCCTTCAC--ATCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTCCC
* * * ** *
8442 T-ACCA-CAACTAGGGTACAAGACTCACCGTTG-G
64 TCA-CATC-TCTAAGGTATAAGGTTCACCATTGCG
* * * * * * *
8474 AGCATT-AATCTTTCCCATCACATCTCTAAGGAATAAGGTTCGCCGTTACAGTTTTAACCTTTCC
1 -GC-TTCAATCTTT-CCTTCACATCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTCC
* * * * ** *
8538 CTCTACA-CT-TTAGCGTACAAGATTTACTGTTACG
63 CTC-ACATCTCTAAG-GTATAAGGTTCACCATTGCG
* * * **
8572 GCTTCAATCTTTCGCATCACATCTCTAAGGTATAAGGTTTGAT-GTTGTGGCTTCAACCTTTCCC
1 GCTTCAATCTTTC-CTTCACATCTCTAAGGTATAAGATTCG-TCGTTGCAGCTTCAACCTTTCCC
* * ** *
8636 TCCATATCTCTAGGGTATAACATTCATCATTGCG
64 T-CACATCTCTAAGGTATAAGGTTCACCATTGCG
* * * * *
8670 TCTTCAATCTTTCCTATCACATTTCTAAGGTATAAGGTTTGTCGTTGCAGCTTCAACCTTTTCCT
1 GCTTCAATCTTTCCT-TCACATCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTCCCT
* *
8735 CTACATCTCTAGGGTATAAGGTTCACCATTGCA
65 C-ACATCTCTAAGGTATAAGGTTCACCATTGCG
* * * ** *
8768 GCTTTAA-CATTTCCCTC-CATTTCTCTAAGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCT
1 GCTTCAATC-TTTCCTTCACA--TCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTC-
* * * *
8831 CATCACATCTCTAACGTATAAGGTTCATCATTACG
62 CCTCACATCTCTAAGGTATAAGGTTCACCATTGCG
* *
8866 GCTTCAATCTTTCCTTCCACATCTCTATGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCA
1 GCTTCAATCTTTCCTT-CACATCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTCCC-
* *
8931 TCACATCTCTAAGGTATAAGGTTCGCCATTGCA
64 TCACATCTCTAAGGTATAAGGTTCACCATTGCG
* * ** * * * *
8964 GCTTCAA-CATTTTCCTTAACATCTCTAGGGTATAA-AGTTCACCATTACGGCTTCAACTTTTCC
1 GCTTCAATC--TTTCCTTCACATCTCTAAGGTATAAGA-TTCGTCGTTGCAGCTTCAACCTTTCC
* * * * *
9027 TTCCATATCTCTAAGGTATAAGATTCACCGTTGCA
63 CT-CACATCTCTAAGGTATAAGGTTCACCATTGCG
* * * * * *
9062 ACCTCAATCTTTCCCTCAACATCTTTAGGGTATAGGATTC
1 GCTTCAATCTTTCCTTC-ACATCTCTAAGGTATAAGATTC
9102 AATGTTTCCT
Statistics
Matches: 502, Mismatches: 93, Indels: 62
0.76 0.14 0.09
Matches are distributed among these distances:
96 50 0.10
97 92 0.18
98 341 0.68
99 17 0.03
100 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.35
Consensus pattern (96 bp):
GCTTCAATCTTTCCTTCACATCTCTAAGGTATAAGATTCGTCGTTGCAGCTTCAACCTTTCCCTC
ACATCTCTAAGGTATAAGGTTCACCATTGCG
Found at i:9084 original size:147 final size:146
Alignment explanation
Indices: 8567--9102 Score: 455
Period size: 147 Copynumber: 3.6 Consensus size: 146
8557 AGATTTACTG
* * * * ** *
8567 TTACGGCTTCAA-TCTTTCGCAT-CACATCTCTAAGGTATAAGGTTTGA-TGTTGTGGCTTCAAC
1 TTACGGCTTCAACT-TTTC-CTTCCACATCTCTAAGGTATAA-GATTCACCGTTGCAGCTTCAAT
* * * * *
8629 CTTTCCCTCCATATCTCTAGGGTATAACATTCATCATTGC-GTCTTCAATCTTTC-CTATCACAT
63 CTTTCCCT-CACATCTCTAAGGTATAAGATTCACCATTGCAG-CTTCAATCTTTCTC-ATAACAT
* * * *** *
8692 TTCTAAGGTATAAGGTTTGTCG
125 CTCTAACGTATAAAGTTCACCA
* * * * * * *
8714 TTGCAGCTTCAACCTTTTCC-TCTACATCTCTAGGGTATAAGGTTCACCATTGCAGCTTTAA-CA
1 TTACGGCTTCAA-CTTTTCCTTCCACATCTCTAAGGTATAAGATTCACCGTTGCAGCTTCAATC-
* * *
8777 TTTCCCTC-CATTTCTCTAAGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCTCATCACATCT
64 TTTCCCTCACA--TCTCTAAGGTATAAGATTCACCATTGCAGCTTCAATCTTTCTCATAACATCT
* *
8841 CTAACGTATAAGGTTCATCA
127 CTAACGTATAAAGTTCACCA
* **
8861 TTACGGCTTCAA-TCTTTCCTTCCACATCTCTATGGTATAAGATTCGTCGTTGCAGCTTCAATCT
1 TTACGGCTTCAACT-TTTCCTTCCACATCTCTAAGGTATAAGATTCACCGTTGCAGCTTCAATCT
* * *
8925 TTCCCATCACATCTCTAAGGTATAAGGTTCGCCATTGCAGCTTCAA-CATTT-TCCTTAACATCT
65 TTCCC-TCACATCTCTAAGGTATAAGATTCACCATTGCAGCTTCAATC-TTTCT-CATAACATCT
**
8988 CTAGGGTATAAAGTTCACCA
127 CTAACGTATAAAGTTCACCA
* * *
9008 TTACGGCTTCAACTTTTCCTTCCATATCTCTAAGGTATAAGATTCACCGTTGCAACCTCAATCTT
1 TTACGGCTTCAACTTTTCCTTCCACATCTCTAAGGTATAAGATTCACCGTTGCAGCTTCAATCTT
* * *
9073 TCCCTCAACATCTTTAGGGTATAGGATTCA
66 TCCCTC-ACATCTCTAAGGTATAAGATTCA
9103 ATGTTTCCTT
Statistics
Matches: 319, Mismatches: 52, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
145 2 0.01
146 16 0.05
147 288 0.90
148 10 0.03
149 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (146 bp):
TTACGGCTTCAACTTTTCCTTCCACATCTCTAAGGTATAAGATTCACCGTTGCAGCTTCAATCTT
TCCCTCACATCTCTAAGGTATAAGATTCACCATTGCAGCTTCAATCTTTCTCATAACATCTCTAA
CGTATAAAGTTCACCA
Found at i:9101 original size:49 final size:49
Alignment explanation
Indices: 8454--9102 Score: 372
Period size: 49 Copynumber: 13.3 Consensus size: 49
8444 CCACAACTAG
* * * *
8454 GGTACAAGACTCACCGTTGGAGCATT-AATCTTTCCCATC-ACATCTCTAA
1 GGTATAAGATTCACCATTGCAGC-TTCAATCTTTCCC-TCAACATCTCTAA
* * * * * * * * * *
8503 GGAATAAGGTTCGCCGTTACAGTTTTAACCTTTCCCTCTACA-CT-TTA
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
* * ** * * *
8550 GCGTACAAGATTTACTGTTACGGCTTCAATCTTTCGCATC-ACATCTCTAA
1 G-GTATAAGATTCACCATTGCAGCTTCAATCTTTC-CCTCAACATCTCTAA
* * ** ** * * * *
8600 GGTATAAGGTTTGA-TGTTGTGGCTTCAACCTTTCCCTCCATATCTCTAG
1 GGTATAA-GATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
* * * *
8649 GGTATAACATTCATCATTGC-GTCTTCAATCTTTCCTATC-ACATTTCTAA
1 GGTATAAGATTCACCATTGCAG-CTTCAATCTTTCC-CTCAACATCTCTAA
* *** * * * * *
8698 GGTATAAGGTTTGTCGTTGCAGCTTCAACCTTTTCCTCTACATCTCTAG
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
* * * **
8747 GGTATAAGGTTCACCATTGCAGCTTTAA-CATTTCCCTCCATTTCTCTAA
1 GGTATAAGATTCACCATTGCAGCTTCAATC-TTTCCCTCAACATCTCTAA
* * *
8796 GGTACAAGATTCACCGTTGCAGCTTCAATCTTTCTCATC-ACATCTCTAA
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTC-CCTCAACATCTCTAA
* * * * * * * *
8845 CGTATAAGGTTCATCATTACGGCTTCAATCTTTCCTTCCACATCTCTAT
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
** *
8894 GGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCATC-ACATCTCTAA
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCC-TCAACATCTCTAA
* * * * *
8943 GGTATAAGGTTCGCCATTGCAGCTTCAA-CATTTTCCTTAACATCTCTAG
1 GGTATAAGATTCACCATTGCAGCTTCAATC-TTTCCCTCAACATCTCTAA
* * * * *
8992 GGTATAA-AGTTCACCATTACGGCTTCAA-CTTTTCCTTCCATATCTCTAA
1 GGTATAAGA-TTCACCATTGCAGCTTCAATC-TTTCCCTCAACATCTCTAA
* * * * *
9041 GGTATAAGATTCACCGTTGCAACCTCAATCTTTCCCTCAACATCTTTAG
1 GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
*
9090 GGTATAGGATTCA
1 GGTATAAGATTCA
9103 ATGTTTCCTT
Statistics
Matches: 463, Mismatches: 114, Indels: 46
0.74 0.18 0.07
Matches are distributed among these distances:
47 3 0.01
48 47 0.10
49 395 0.85
50 18 0.04
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (49 bp):
GGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCAACATCTCTAA
Found at i:9982 original size:21 final size:20
Alignment explanation
Indices: 9944--9982 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9934 ACCTCTCTTT
*
9944 TTTCTTTTTTTTTTATTGTC
1 TTTCTTTTTTTTTCATTGTC
9964 TTTCTTTTTTCTTTCATTG
1 TTTCTTTTTT-TTTCATTG
9983 AGTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTTTTTCATTGTC
Found at i:15430 original size:6 final size:6
Alignment explanation
Indices: 15419--15461 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
15409 TATAGCAATA
15419 TTTCTT TTTCTTT TTTCTT TTTCTCT TTT-TCT TTTCTT TTTCT
1 TTTCTT TTTC-TT TTTCTT TTTCT-T TTTCT-T TTTCTT TTTCT
15462 CATTCACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 23 0.68
7 11 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:15437 original size:13 final size:13
Alignment explanation
Indices: 15419--15459 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
15409 TATAGCAATA
15419 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
15432 TTTCTTTTTCTCTT
1 TTTCTTTTTCT-TT
15446 TTTC-TTTTCTTT
1 TTTCTTTTTCTTT
15458 TT
1 TT
15460 CTCATTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.15
13 17 0.63
14 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:15453 original size:19 final size:20
Alignment explanation
Indices: 15421--15462 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
15411 TAGCAATATT
15421 TCTTTTTCTTTTTTCTTTTTC
1 TCTTTTTC-TTTTTCTTTTTC
15442 TCTTTTTC-TTTTCTTTTTC
1 TCTTTTTCTTTTTCTTTTTC
15461 TC
1 TC
15463 ATTCACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.62
21 8 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTTCTTTTTCTTTTTC
Found at i:18426 original size:15 final size:15
Alignment explanation
Indices: 18402--18437 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18392 GCATTAAATT
* *
18402 TAAAAATGAAACAAG
1 TAAAAGTGAAACAAA
18417 TAAAAGTGAAACAAA
1 TAAAAGTGAAACAAA
18432 TAAAAG
1 TAAAAG
18438 AAAATGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.14, T:0.14
Consensus pattern (15 bp):
TAAAAGTGAAACAAA
Found at i:22875 original size:15 final size:16
Alignment explanation
Indices: 22855--22886 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22845 GATTATTATG
22855 GTAACTCCCTT-ATTT
1 GTAACTCCCTTGATTT
22870 GTAACTCCCTTGATTT
1 GTAACTCCCTTGATTT
22886 G
1 G
22887 AGGAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
GTAACTCCCTTGATTT
Found at i:27758 original size:109 final size:109
Alignment explanation
Indices: 27560--27764 Score: 259
Period size: 109 Copynumber: 1.9 Consensus size: 109
27550 AACAAAGAAT
* ** * *
27560 ATTTATCAATTTTAAATAGAATATCCAATTACTTAGTTTCAAAGAAAATTCATACCCAAGATGTT
1 ATTTATCAATTTTAAATAGAATATCCAATTACTTAGGTTCAAAGAAAAACCATACCCAACACGTT
* ** *
27625 AGGGCACAATTTTTTTAGTCCCCTAAAATAACAGGACATTGAGC
66 AGCGCACAATTTTTCAAATCCCCTAAAATAACAGGACATTGAGC
** * **
27669 ATTTATCGGTTTTAAATAGGATA-CTCAATTTTTTAGGTTCAAAGAAAAACCATACCCAACACGT
1 ATTTATCAATTTTAAATAGAATATC-CAATTACTTAGGTTCAAAGAAAAACCATACCCAACACGT
*
27733 TAGCGCACAATTTTTCAAATTCCCTAAAATAA
65 TAGCGCACAATTTTTCAAATCCCCTAAAATAA
27765 AATAACATTG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
108 1 0.01
109 79 0.99
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (109 bp):
ATTTATCAATTTTAAATAGAATATCCAATTACTTAGGTTCAAAGAAAAACCATACCCAACACGTT
AGCGCACAATTTTTCAAATCCCCTAAAATAACAGGACATTGAGC
Found at i:30230 original size:93 final size:93
Alignment explanation
Indices: 30058--30230 Score: 206
Period size: 93 Copynumber: 1.9 Consensus size: 93
30048 TGTAACTTTG
* *
30058 CTCCATTCCACTATAACCTCGGGGACATTGAGATTCGTTACTCATTTTGATCCGATCCACTGCAA
1 CTCCATTCCACTATAACCTCAGGGACATTGAGATTCGCTACTCATTTTGATCCGATCCACTGCAA
* * *
30123 CTTCAGGGATATAGGATCTGGTGCTTAA
66 CCTCAGGAAGATAGGATCTGGTGCTTAA
* * ** * * *
30151 CTCCATTCCACTGTAACCTTAGGGACATTGAGA-TCTGCTACTTGTTTTGA-CCTACTTCACTGT
1 CTCCATTCCACTATAACCTCAGGGACATTGAGATTC-GCTACTCATTTTGATCCGA-TCCACTGC
30214 AACCTCAGGAAGATAGG
64 AACCTCAGGAAGATAGG
30231 TTTTGATGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
92 5 0.08
93 61 0.92
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (93 bp):
CTCCATTCCACTATAACCTCAGGGACATTGAGATTCGCTACTCATTTTGATCCGATCCACTGCAA
CCTCAGGAAGATAGGATCTGGTGCTTAA
Found at i:31062 original size:26 final size:26
Alignment explanation
Indices: 31012--31062 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31002 CCCAGGAATG
* *
31012 TCGCTGCATGAACATGTCTAGAATTA
1 TCGCTACATGAACATGTCCAGAATTA
* *
31038 TCGCTACATGAACGTGTCCATAATT
1 TCGCTACATGAACATGTCCAGAATT
31063 GTACCAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (26 bp):
TCGCTACATGAACATGTCCAGAATTA
Found at i:31887 original size:16 final size:16
Alignment explanation
Indices: 31866--31896 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31856 TTTTGGATCC
31866 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
31882 CATTTTATCTTTATT
1 CATTTTACCTTTATT
31897 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:34024 original size:17 final size:17
Alignment explanation
Indices: 34004--34061 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
33994 ATAATTGTTC
34004 CTGCATTTTTATTGTCA
1 CTGCATTTTTATTGTCA
* *
34021 CTGCCTTTTTATTGTCG
1 CTGCATTTTTATTGTCA
* *
34038 CTGCATCTATATTGTCA
1 CTGCATTTTTATTGTCA
*
34055 TTGCATT
1 CTGCATT
34062 CTCATATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.50
Consensus pattern (17 bp):
CTGCATTTTTATTGTCA
Found at i:35136 original size:37 final size:37
Alignment explanation
Indices: 35081--35151 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
35071 TCATGTCACT
35081 GCATGAGCACTTGTAGATTGCACCCAAAACTATCGCC
1 GCATGAGCACTTGTAGATTGCACCCAAAACTATCGCC
35118 GCATGAGCACTT-TCAGATTGCACCCAAAACTATC
1 GCATGAGCACTTGT-AGATTGCACCCAAAACTATC
35152 ACCGTAGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (37 bp):
GCATGAGCACTTGTAGATTGCACCCAAAACTATCGCC
Found at i:35201 original size:37 final size:37
Alignment explanation
Indices: 35160--35258 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
35150 TCACCGTAGG
* * *
35160 AATATT-TTCAGATTACACCCAAGACTGTTGCTGTATA
1 AATATTCTTCA-ATTGCACCCAAGACTATTGCTGCATA
* *
35197 AATATTCTTCAACTTGCATCCAAAACTATTGCTGCATA
1 AATATTCTTCAA-TTGCACCCAAGACTATTGCTGCATA
*
35235 AGTATTCTTCAATTGCACCCAAGA
1 AATATTCTTCAATTGCACCCAAGA
35259 ATGTCGTTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
37 17 0.33
38 35 0.67
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
AATATTCTTCAATTGCACCCAAGACTATTGCTGCATA
Found at i:35230 original size:38 final size:37
Alignment explanation
Indices: 35097--35256 Score: 117
Period size: 37 Copynumber: 4.3 Consensus size: 37
35087 GCACTTGTAG
* * * ** *
35097 ATTGCACCCAAAACTATCGCCGCATGAGCACT-TTCA
1 ATTGCACCCAAAACTATTGCTGCATAAATATTCTTCA
** * * **
35133 GATTGCACCCAAAACTATCACCGTAGGAATATT-TTCA
1 -ATTGCACCCAAAACTATTGCTGCATAAATATTCTTCA
* * * *
35170 GATTACACCCAAGACTGTTGCTGTATAAATATTCTTCA
1 -ATTGCACCCAAAACTATTGCTGCATAAATATTCTTCA
* *
35208 ACTTGCATCCAAAACTATTGCTGCATAAGTATTCTTCA
1 A-TTGCACCCAAAACTATTGCTGCATAAATATTCTTCA
35246 ATTGCACCCAA
1 ATTGCACCCAA
35257 GAATGTCGTT
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
37 65 0.65
38 35 0.35
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (37 bp):
ATTGCACCCAAAACTATTGCTGCATAAATATTCTTCA
Found at i:36406 original size:49 final size:49
Alignment explanation
Indices: 36341--36894 Score: 447
Period size: 49 Copynumber: 11.3 Consensus size: 49
36331 CCTTTCCTTC
* * * *
36341 CACATCTCT-AGAGTATAAGGTTCGTCGTTACGACTTCAATCTTTCTCAT
1 CACATCTCTAAG-GTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
** ** *
36390 CACATCTCTAAGGTATAAGGTTCATCGTTATGGCTTCAACCTTTCCC-T
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * * * * *
36438 C-TATACTCTAGGGTACAAGATTCACCGTTGTGGCCTCAGTCTTTCCCAT
1 CACAT-CTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * *
36487 CACATCTCTAAGGTATAAGGTTCGCCATTGAGGCTTCAACCTTTCCC-T
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * * * *
36535 CCACATTTCTAGGGAATAAGATTCGTCATTGCAGCTTCAATCTTT-CCAT
1 -CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * ** * *
36584 CACATCTCTAAAGTATAAGCTTCATCGTTGCGGCTTCACTTTTTCCCAT
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * *
36633 CACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTT
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * * *
36682 CACATCTCTAGGGTATAAGATTTGCCGTTGCGACTTTAATATTTCCCAT
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * *
36731 CACATCTCTAAGGTATAAGGTTCGCAGTTGTGGCTTCAACCTTTTCCTT
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * *
36780 AACATCTCTAGGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCC-T
1 CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* * * * * * *
36828 CCATATCTCTAGGGTATAAGATTCGTCATTGCAGCCTCAATCTTTCCC-T
1 -CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
* *
36877 CAACATCTTTAGGGTATA
1 C-ACATCTCTAAGGTATA
36895 GGATTCACCA
Statistics
Matches: 406, Mismatches: 90, Indels: 18
0.79 0.18 0.04
Matches are distributed among these distances:
47 2 0.00
48 75 0.18
49 325 0.80
50 4 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.34
Consensus pattern (49 bp):
CACATCTCTAAGGTATAAGGTTCGCCGTTGCGGCTTCAATCTTTCCCAT
Found at i:36801 original size:147 final size:146
Alignment explanation
Indices: 36479--36884 Score: 514
Period size: 147 Copynumber: 2.8 Consensus size: 146
36469 GGCCTCAGTC
* * *
36479 TTTCCCATCACATCTCTAAGGTATAAGGTTCGCCATTG-AGGCTTCAACCTTTCCCTCCACATTT
1 TTTCCCATAACATCTCTAAGGTATAAGGTTCACCATTGCA-GCTTCAACCTTTCCCTCCACATCT
* * *
36543 CTAGGGAATAAGATTCGTCATTGCAGCTTCAATCTTTCCATCACATCTCTAAAGTATAAGCTTCA
65 CTAGGGTATAAGATTCGCCATTGCAGCTTCAATATTTCCATCACATCTCTAAAGTATAAGCTTCA
* *
36608 TCGTTGCGGCTTCACTT
130 GCGTTGCGGCTTCACCT
* *
36625 TTTCCCATCACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTTCACATCTC
1 TTTCCCATAACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTCCACATCTC
* * * * *
36690 TAGGGTATAAGATTTGCCGTTGC-GACTTTAATATTTCCCATCACATCTCTAAGGTATAAGGTTC
66 TAGGGTATAAGATTCGCCATTGCAG-CTTCAATATTT-CCATCACATCTCTAAAGTATAAGCTTC
*
36754 -GCAGTTGTGGCTTCAACCT
129 AGC-GTTGCGGCTTC-ACCT
* * * *
36773 TTT-CCTTAACATCTCTAGGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCATATCTC
1 TTTCCCATAACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTCCACATCTC
* * * *
36837 TAGGGTATAAGATTCGTCATTGCAGCCTCAATCTTTCCCTCAACATCT
66 TAGGGTATAAGATTCGCCATTGCAGCTTCAATATTTCCATC-ACATCT
36885 TTAGGGTATA
Statistics
Matches: 226, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
145 1 0.00
146 93 0.41
147 125 0.55
148 7 0.03
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (146 bp):
TTTCCCATAACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTCCACATCTC
TAGGGTATAAGATTCGCCATTGCAGCTTCAATATTTCCATCACATCTCTAAAGTATAAGCTTCAG
CGTTGCGGCTTCACCT
Found at i:36893 original size:147 final size:146
Alignment explanation
Indices: 36342--36894 Score: 544
Period size: 146 Copynumber: 3.8 Consensus size: 146
36332 CTTTCCTTCC
** * * * * * *
36342 ACATCTCT-AGAGTATAAGGTTCGTCGTTACGACTTCAATCTTTCTCAT-CACATCTCTAAGGTA
1 ACATCTCTAAG-GTATAAGGTTCACCATTGCGGCTTCAACCTTTC-CCTCCACATCTCTAGGGTA
* * * *** * * * * * * *
36405 TAAGGTTCATCGTTATGGCTTCAACCTTTCCCTC-TATACTCTAGGGTACAAGATTCACCGTTGT
64 TAAGATTCGTCATTGCAGCTTCAATCTTTCCCTCACAT-CTCTAAGGTATAAGCTTCAGCGTTGC
* * *
36469 GGCCTCA-GTCTTTCCCATC
128 GGCTTCACCT-TTTCCCATA
* * * *
36488 ACATCTCTAAGGTATAAGGTTCGCCATTGAGGCTTCAACCTTTCCCTCCACATTTCTAGGGAATA
1 ACATCTCTAAGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
* * *
36553 AGATTCGTCATTGCAGCTTCAATCTTTCCATCACATCTCTAAAGTATAAGCTTCATCGTTGCGGC
66 AGATTCGTCATTGCAGCTTCAATCTTTCCCTCACATCTCTAAGGTATAAGCTTCAGCGTTGCGGC
* *
36618 TTCACTTTTTCCCATC
131 TTCACCTTTTCCCATA
* *
36634 ACATCTCTAAGGTATAAGGTTCACCATTGCAGCTTCAACCTTTCCCTTCACATCTCTAGGGTATA
1 ACATCTCTAAGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
* * * * * * *
36699 AGATTTGCCGTTGC-GACTTTAATATTTCCCATCACATCTCTAAGGTATAAGGTTC-GCAGTTGT
66 AGATTCGTCATTGCAG-CTTCAATCTTTCCC-TCACATCTCTAAGGTATAAGCTTCAGC-GTTGC
*
36762 GGCTTCAACCTTTT-CCTTA
128 GGCTTC-ACCTTTTCCCATA
* *
36781 ACATCTCTAGGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCATATCTCTAGGGTATA
1 ACATCTCTAAGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
* * *
36846 AGATTCGTCATTGCAGCCTCAATCTTTCCCTCAACATCTTTAGGGTATA
66 AGATTCGTCATTGCAGCTTCAATCTTTCCCTC-ACATCTCTAAGGTATA
36895 GGATTCACCA
Statistics
Matches: 339, Mismatches: 58, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
145 3 0.01
146 192 0.57
147 137 0.40
148 7 0.02
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (146 bp):
ACATCTCTAAGGTATAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
AGATTCGTCATTGCAGCTTCAATCTTTCCCTCACATCTCTAAGGTATAAGCTTCAGCGTTGCGGC
TTCACCTTTTCCCATA
Found at i:38676 original size:3 final size:3
Alignment explanation
Indices: 38668--38715 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
38658 CTCTGCCCAA
*
38668 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38716 TTTAAGGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:39602 original size:153 final size:150
Alignment explanation
Indices: 39247--39636 Score: 550
Period size: 153 Copynumber: 2.6 Consensus size: 150
39237 TGTCTTTTAG
* * *
39247 AAAAGTTTAAAATTTT-AACGAAAGTTTTTATTATTTTTTAACTATTTCGAAATAAAAGTTTGGA
1 AAAAGTTTAAATTTTTAAAC-AAAGTTTTGATT-TTTTTTAACTATTTCGAAATAAAAGTTTCGA
* * *
39311 TTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAAAAGTTTATATTTTTAAAAATAAAAATC
64 TTTTTAAGTAAAGTAGTGATTTTCATAAAAAAACAAAAAAGTTTATATTTTTAAAAATAAAAATA
*
39376 TGATTTTTAGTTATTTTAAAGA
129 TGATTTTTAGTGATTTTAAAGA
* * * ** *
39398 AAAAGTTTAAATATTTAAATAAAATTTTGATTTTTTTCGACTATTTTGAAATAAAAGTTTCGATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTCGATT
**
39463 TTTAAGTTGAGTAGTGATTTTCACTAAAAAAACAAAGAAAGTTTATATTTTTAAAAAATAAAAAT
66 TTTAAGTAAAGTAGTGATTTTCA-TAAAAAAACAAA-AAAGTTTATATTTTT-AAAAATAAAAAT
*
39528 AT-TTTTTTAGTGATTTTAAAGAA
128 ATGATTTTTAGTGATTTTAAAG-A
*
39551 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTGATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTCGATT
*
39616 TTAAAGTAAAGTAGTGATTTT
66 TTTAAGTAAAGTAGTGATTTT
39637 GTTTTAATCA
Statistics
Matches: 208, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
150 50 0.24
151 34 0.16
152 34 0.16
153 90 0.43
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.44
Consensus pattern (150 bp):
AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTCGATT
TTTAAGTAAAGTAGTGATTTTCATAAAAAAACAAAAAAGTTTATATTTTTAAAAATAAAAATATG
ATTTTTAGTGATTTTAAAGA
Found at i:40861 original size:160 final size:159
Alignment explanation
Indices: 40679--40984 Score: 488
Period size: 161 Copynumber: 1.9 Consensus size: 159
40669 AAAATCATAA
40679 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA-CT
1 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATCT
* * * *
40743 TTTAGGCTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTAATAGAA
66 TTTAGG--TTTTTTTAGGATTCTAAAATAGAATCAATTTTAAGAATTGAAAGTAATTTAATAAAA
40808 TTATTTAAGTATCTTTACAAGTAAATCGGAG
129 TTATTTAAGTATCTTTACAAGTAAATCGGAG
*
40839 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA--T
* *
40904 TTTTTAGGTTTTTTTAGGATTCTAAAATAGAATCAATTTTAAGAATTGAAAGTAATTTACTAAAA
64 CTTTTAGGTTTTTTTAGGATTCTAAAATAGAATCAATTTTAAGAATTGAAAGTAATTTAATAAAA
**
40969 TTATTTTGGTATCTTT
129 TTATTTAAGTATCTTT
40985 TAGGGTTCTT
Statistics
Matches: 134, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
160 61 0.46
161 66 0.49
163 7 0.05
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (159 bp):
TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATCT
TTTAGGTTTTTTTAGGATTCTAAAATAGAATCAATTTTAAGAATTGAAAGTAATTTAATAAAATT
ATTTAAGTATCTTTACAAGTAAATCGGAG
Found at i:41520 original size:101 final size:101
Alignment explanation
Indices: 41345--41547 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
41335 CCTAGCCCAA
41345 ATTAGTTAGTGGCAACTCTACATTAATTTAGGTCGTTCGTGTCTAGCTTTACTTACTAGGCCCTC
1 ATTAGTTAGTGGCAACTCTACATTAATTTAGGTCGTTCGTGTCTAGCTTTACTTACTAGGCCCTC
41410 GAACTCTTACGTAGGCAACGTTATGACAACTTGGCG
66 GAACTCTTACGTAGGCAACGTTATGACAACTTGGCG
41446 ATTAGTTAGTGGCAACTCTACATTAATTTAGGTCGTTCGTGTCTAGCTTTACTTACTAGGCCCTC
1 ATTAGTTAGTGGCAACTCTACATTAATTTAGGTCGTTCGTGTCTAGCTTTACTTACTAGGCCCTC
*
41511 GAACTCTTACGTAGGCAACGTTATGACAGCTTGGCG
66 GAACTCTTACGTAGGCAACGTTATGACAACTTGGCG
41547 A
1 A
41548 CTCCATTGGG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (101 bp):
ATTAGTTAGTGGCAACTCTACATTAATTTAGGTCGTTCGTGTCTAGCTTTACTTACTAGGCCCTC
GAACTCTTACGTAGGCAACGTTATGACAACTTGGCG
Found at i:48880 original size:42 final size:42
Alignment explanation
Indices: 48821--49339 Score: 741
Period size: 42 Copynumber: 12.4 Consensus size: 42
48811 AAGGAAAGCA
*
48821 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
48863 TTCATTACATTCAGAGGCCCAGGTGTGGAGGCCCATATACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
48905 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * * *
48947 TTCATTGAATTCAGAGGCCTAGGTGTTGAAGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
48989 TTCATTGCATTAAGAGGCCCAGGTGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
49031 TTCATTGCATTTAAAGGCCAAAGTCTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
49073 TTCATTGCATTTAAAGGCCTAGGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
49115 TTCATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTC
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
49157 TTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
49199 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
49241 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
49283 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
49325 TTCATTGCATTTAGA
1 TTCATTGCATTTAGA
49340 TTACTTTTCA
Statistics
Matches: 430, Mismatches: 47, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 430 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:49345 original size:21 final size:21
Alignment explanation
Indices: 49319--49360 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
49309 GGAGGCCCAT
49319 TTACTTTTCATTGCATTTAGA
1 TTACTTTTCATTGCATTTAGA
49340 TTACTTTTCATTGCATTTAGA
1 TTACTTTTCATTGCATTTAGA
49361 GGCCCAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (21 bp):
TTACTTTTCATTGCATTTAGA
Found at i:49362 original size:105 final size:105
Alignment explanation
Indices: 49235--49444 Score: 339
Period size: 105 Copynumber: 2.0 Consensus size: 105
49225 GGAGGCCCAT
* * *
49235 TTACTTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGG
1 TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
49300 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
* * *
49340 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGTCCATTTACTTTTCATTACATTTAGAGG
1 TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
* * *
49405 TCGAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGA
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
49445 GGCCAAGGTG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (105 bp):
TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
Found at i:49376 original size:63 final size:63
Alignment explanation
Indices: 49277--49402 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
49267 GGAGGCCCAT
* * *
49277 TTACTTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
1 TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGA
* *
49340 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGTCCATTTACTTTTCATTACATTTAGA
1 TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGA
49403 GGTCGAGGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (63 bp):
TTACTTTTCATTGCATTCAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGA
Found at i:49388 original size:147 final size:147
Alignment explanation
Indices: 49193--49483 Score: 474
Period size: 147 Copynumber: 2.0 Consensus size: 147
49183 GGAGGCCCAT
* * *
49193 TTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGG
1 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
* *
49258 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTAC
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
*
49323 TTTTCATTGCATTTAGA
131 TTTTCATTACATTTAGA
* *
49340 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGTCCATTTACTTTTCATTACATTTAGAGG
1 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
* * * *
49405 TCGAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTAC
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
49470 TTTTCATTACATTT
131 TTTTCATTACATTT
49484 GGAGGCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
147 132 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (147 bp):
TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTCAGAGG
CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
TTTTCATTACATTTAGA
Found at i:49477 original size:189 final size:189
Alignment explanation
Indices: 49151--49528 Score: 621
Period size: 189 Copynumber: 2.0 Consensus size: 189
49141 GGAGGTCCAT
*
49151 TTACTCTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTGCATTTAGAGG
1 TTACTCTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGAGG
* *
49216 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTAC
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
* * *
49281 TTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
131 TTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTTAGA
* *
49340 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGTCCATTTACTTTTCATTACATTTAGAGG
1 TTACTCTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGAGG
* * * *
49405 TCGAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTAC
66 CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
** *
49470 TTTTCATTACATTTGGAGGCCTAAGTGTGGAGGCCCACTTACTTTTCATTGCATTTAGA
131 TTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTTAGA
49529 GGCCTAGGCG
Statistics
Matches: 174, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 174 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (189 bp):
TTACTCTTCATTGCATTTAGAGGCCCAAGTGAGGAGGCCCATTTACTTTTCATTACATTTAGAGG
CCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGGTGTAGAGGCCCATTTAC
TTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTTAGA
Found at i:49481 original size:84 final size:84
Alignment explanation
Indices: 49340--49552 Score: 304
Period size: 84 Copynumber: 2.5 Consensus size: 84
49330 TGCATTTAGA
49340 TTACTTTTCATTGCATTTAGAGGCCCAA-GTG-AGGAGGTCCATTTACTTTTCATTACATTTAGA
1 TTACTTTTCATTGCATTTAGAGG-CCAAGGTGTA-GAGGTCCATTTACTTTTCATTACATTTAGA
* * * *
49403 GGTCGAGGTGTGGAGGTCCAT
64 GGCCGAAGTGTGGAGGCCCAC
* *
49424 TTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTACTTTTCATTACATTTGGAGG
1 TTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGTCCATTTACTTTTCATTACATTTAGAGG
*
49489 CCTAAGTGTGGAGGCCCAC
66 CCGAAGTGTGGAGGCCCAC
* * *
49508 TTACTTTTCATTGCATTTAGAGGCCTAGGCGTAGATGTCCATTTA
1 TTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGTCCATTTA
49553 TTTATTTTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
83 4 0.03
84 111 0.96
85 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (84 bp):
TTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGTCCATTTACTTTTCATTACATTTAGAGG
CCGAAGTGTGGAGGCCCAC
Found at i:49514 original size:231 final size:231
Alignment explanation
Indices: 49109--49532 Score: 679
Period size: 231 Copynumber: 1.8 Consensus size: 231
49099 GAAGGTCCAT
* *
49109 TTACTTTTCATTGCATTTAGAGGCCCAGATGTGGAGGTCCATTTACTCTTCATTGCATTTAGAGG
1 TTACTTTTCATTGCATTTAGAGGCCCAGATGAGGAGGTCCATTTACTCTTCATTACATTTAGAGG
* *
49174 CCCAAGTGAGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTAC
66 CCCAAGTGAGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTAC
* * *
49239 TTTTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCCA
131 TTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTCAGAGGCCCA
49304 GGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
196 GGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
*
49340 TTACTTTTCATTGCATTTAGAGGCCCA-AGTGAGGAGGTCCATTTACTTTTCATTACATTTAGAG
1 TTACTTTTCATTGCATTTAGAGGCCCAGA-TGAGGAGGTCCATTTACTCTTCATTACATTTAGAG
* * * * *
49404 GTCGAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTA
65 GCCCAAGTGAGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTA
** * *
49469 CTTTTCATTACATTTGGAGGCCTAAGTGTGGAGGCCCACTTACTTTTCATTGCATTTAGAGGCC
130 CTTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTCAGAGGCC
49533 TAGGCGTAGA
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
230 1 0.01
231 174 0.99
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (231 bp):
TTACTTTTCATTGCATTTAGAGGCCCAGATGAGGAGGTCCATTTACTCTTCATTACATTTAGAGG
CCCAAGTGAGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCAAGGTGTAGAGGCCCATTTAC
TTTTCATTACATTCAGAGGCCCAAGTGTGGAGGCCCACTTACTTTTCATTGCATTCAGAGGCCCA
GGTGTGGAGGCCCATTTACTTTTCATTGCATTTAGA
Found at i:49533 original size:42 final size:42
Alignment explanation
Indices: 49340--49534 Score: 266
Period size: 42 Copynumber: 4.6 Consensus size: 42
49330 TGCATTTAGA
* * *
49340 TTACTTTTCATTGCATTTAGAGGCCCAAGTGAGGAGGTCCAT
1 TTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCAT
* * * * *
49382 TTACTTTTCATTACATTTAGAGGTCGAGGTGTGGAGGTCCAT
1 TTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCAT
*
49424 TTACTTTTCATTGCATTTAGAGGCC-AAGGTGTAGAGGCCCAT
1 TTACTTTTCATTGCATTTAGAGGCCTAA-GTGTGGAGGCCCAT
* * *
49466 TTACTTTTCATTACATTTGGAGGCCTAAGTGTGGAGGCCCAC
1 TTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCAT
49508 TTACTTTTCATTGCATTTAGAGGCCTA
1 TTACTTTTCATTGCATTTAGAGGCCTA
49535 GGCGTAGATG
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 132 0.98
43 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
TTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCAT
Found at i:50010 original size:3 final size:3
Alignment explanation
Indices: 50002--50033 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49992 AAAGGCCCAA
50002 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
50034 GGTTTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:50805 original size:151 final size:150
Alignment explanation
Indices: 50472--50952 Score: 626
Period size: 151 Copynumber: 3.3 Consensus size: 150
50462 AATAATTTTG
* *
50472 AAATAAAAGCTTTT-ATTTTTAAGTAAAATAGTGATTTT-ATTTAAAAAAG--AGAAAGTTTAGA
1 AAATAAAAG-TTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTAGA
*
50533 TTTTTAAAAATAAAAATCTA--TTT--TTCTTTT--AG-AAAAGTTTAAATTTTTAAATAAAGTT
65 TTTTTAAAAATAAAAATCTATTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTT
50591 TTGATTTTTTTAACTATTTCA
130 TTGATTTTTTTAACTATTTCA
* * * * *
50612 AAATAAAGGTTTGGATTTTTAAGTAAAGTTGTGATTTTCATTAAAAAAAGAAAGAAAATTTATAT
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTAGAT
*
50677 TTTTAAAAATAAAAATCTATTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTTAAATAAAGTTT
66 TTTTAAAAATAAAAATCTATTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTT
* * *
50742 TTATTTTTTTCAATTATTTCG
131 TGATTTTTTT-AACTATTTCA
* *
50763 AAATAAAAGTTTTTATTTTTAAGTAGAGTAGTGATTTTCATTAAAAAAA-AAAGAAAGTTTAGAT
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTAGAT
* * * * * *
50827 TTTAAAAAAGTAAAAATTTGTTTTTAGTGATTTTAAAGAAAAAAGTTTAAAATTTTAAACAAAGT
66 TTTTAAAAA-TAAAAATCTATTTTTAGTTATTTTAAAG-AAAAAGTTTAAATTTTTAAATAAAGT
50892 TTTGATTTTTTTTAACTATTTCA
129 TTTGA-TTTTTTTAACTATTTCA
* * *
50915 AAATAAAAATTTTGATTTTAAAGTAAAGTTGTGATTTT
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTAGTGATTTT
50953 GTTTTAATCA
Statistics
Matches: 292, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
139 3 0.01
140 30 0.10
141 10 0.03
143 30 0.10
145 3 0.01
147 6 0.02
149 2 0.01
150 56 0.19
151 77 0.26
152 68 0.23
153 7 0.02
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (150 bp):
AAATAAAAGTTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTAGAT
TTTTAAAAATAAAAATCTATTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTT
TGATTTTTTTAACTATTTCA
Found at i:50980 original size:152 final size:147
Alignment explanation
Indices: 50472--50981 Score: 545
Period size: 152 Copynumber: 3.4 Consensus size: 147
50462 AATAATTTTG
* * * *
50472 AAATAAAAGCTTTT-ATTTTTAAGTAAAATAGTGATTTTATTTAAAAAAGAGAAAGTTTAGATTT
1 AAATAAAAG-TTTTGATTTTTAAGTAAAGTTGTGATTTTTTTTAAAAAA-AGAAAGTTTTGATTT
* *
50536 TTAAAAATAAAAATCTA-TTTT--T-CTTTT--AG-AAAAGTTTAAATTTTTAAATAAAGTTTTG
64 TAAAAAATAAAAATCTATTTTTAGTGATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTTTG
50594 A-TTTTTTTAACTATTTCA
129 ATTTTTTTTAACTATTTCA
* * **
50612 AAATAAAGGTTTGGATTTTTAAGTAAAGTTGTGATTTTCATTAAAAAAAGAAAGAAAATTTAT-A
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTTGTGATTTTTTTTAAAAAAAGAAAG----TTT-TGA
* * *
50676 TTTTTAAAAATAAAAATCTATTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTTAAATAAAGTT
61 TTTTAAAAAATAAAAATCTATTTTTAGTGATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTT
* * * *
50741 TTTATTTTTTTCAATTATTTCG
126 TTGATTTTTTTTAACTATTTCA
* * * ** *
50763 AAATAAAAGTTTTTATTTTTAAGTAGAGTAGTGATTTTCATTAAAAAAAAAAGAAAGTTTAGATT
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTTGTGATTTT--TT-TTAAAAAAAGAAAGTTTTGATT
* * * *
50828 TTAAAAAAGTAAAAATTTGTTTTTAGTGATTTTAAAGAAAAAAGTTTAAAATTTTAAACAAAGTT
63 TTAAAAAA-TAAAAATCTATTTTTAGTGATTTTAAAG-AAAAAGTTTAAATTTTTAAATAAAGTT
50893 TTGATTTTTTTTAACTATTTCA
126 TTGATTTTTTTTAACTATTTCA
* * *
50915 AAATAAAAATTTTGATTTTAAAGTAAAGTTGTGATTTTGTTTTAATCAAAAGAAAGCTTTTGATT
1 AAATAAAAGTTTTGATTTTTAAGTAAAGTTGTGATTTT-TTTTAA-AAAAAGAAAG-TTTTGATT
50980 TT
63 TT
50982 TTTTTTAAAA
Statistics
Matches: 304, Mismatches: 44, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
139 9 0.03
140 38 0.12
143 24 0.08
144 4 0.01
146 1 0.00
147 4 0.01
149 2 0.01
150 43 0.14
151 83 0.27
152 84 0.28
154 12 0.04
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (147 bp):
AAATAAAAGTTTTGATTTTTAAGTAAAGTTGTGATTTTTTTTAAAAAAAGAAAGTTTTGATTTTA
AAAAATAAAAATCTATTTTTAGTGATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
TTTTTTTAACTATTTCA
Found at i:53680 original size:20 final size:21
Alignment explanation
Indices: 53655--53693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53645 ATCATTTTTA
*
53655 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
53675 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
53694 TGCTCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:56413 original size:18 final size:17
Alignment explanation
Indices: 56390--56424 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
56380 ATCCTGCACA
56390 GAGGTGAAGACCTACACG
1 GAGGTGAAGACCT-CACG
56408 GAGGTGAAGACCTCACG
1 GAGGTGAAGACCTCACG
56425 AAGGAGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.23, G:0.34, T:0.11
Consensus pattern (17 bp):
GAGGTGAAGACCTCACG
Found at i:57025 original size:47 final size:47
Alignment explanation
Indices: 56974--57073 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
56964 ATGAATGAGA
56974 TGTTTTAATGCATTTTTAAAAATCAGATTTCATGGAGGAAGCTCGTT
1 TGTTTTAATGCATTTTTAAAAATCAGATTTCATGGAGGAAGCTCGTT
* *
57021 TGTTTTAATGCATTTTTAGAAGTCAGATTTCATGGAGGAAGCTCGTT
1 TGTTTTAATGCATTTTTAAAAATCAGATTTCATGGAGGAAGCTCGTT
*
57068 TATTTT
1 TGTTTT
57074 GGAATCAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (47 bp):
TGTTTTAATGCATTTTTAAAAATCAGATTTCATGGAGGAAGCTCGTT
Found at i:58088 original size:30 final size:29
Alignment explanation
Indices: 58053--58110 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
58043 ATCAGAGTTC
*
58053 AAAATGAGACTTTTCAGATTCTCGGGGGTA
1 AAAATGAGAATTTT-AGATTCTCGGGGGTA
* *
58083 AAAATGATAATTTTGGATTCTCGGGGGT
1 AAAATGAGAATTTTAGATTCTCGGGGGT
58111 GAAACGGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGAGAATTTTAGATTCTCGGGGGTA
Found at i:58122 original size:28 final size:29
Alignment explanation
Indices: 58069--58125 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
58059 AGACTTTTCA
*
58069 GATTCTCGGGGGTAAAAATGATAATTTTG
1 GATTCTCGGGGGTAAAAACGATAATTTTG
* *
58098 GATTCTCGGGGGT-GAAACGGTAATTTTG
1 GATTCTCGGGGGTAAAAACGATAATTTTG
58126 AGAAAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (29 bp):
GATTCTCGGGGGTAAAAACGATAATTTTG
Found at i:58154 original size:30 final size:30
Alignment explanation
Indices: 58119--58390 Score: 97
Period size: 30 Copynumber: 9.2 Consensus size: 30
58109 GTGAAACGGT
58119 AATTTTGAGAAAATTTGGGGTTAAAAATGG
1 AATTTTGAGAAAATTTGGGGTTAAAAATGG
* * * *
58149 CATTTT-TGAAAGTTTAGGGG-TAAAAATAG
1 AATTTTGAGAAAATTT-GGGGTTAAAAATGG
**
58178 AATTTTTGA-AAGTTTTGGGGTTAAAAATGG
1 AA-TTTTGAGAAAATTTGGGGTTAAAAATGG
* ** * *
58208 AATTTTTG-G-AAGTTT-AAGTGTAAAATTAG
1 AA-TTTTGAGAAAATTTGGGGT-TAAAAATGG
**
58237 AATTTTTGA-AAGTTTTGGGGTTAAAAATGGG
1 AA-TTTTGAGAAAATTTGGGGTTAAAAAT-GG
* * * *
58268 ATTTTTG-G-AAGTTCGAGGG-TAAAAATAG
1 AATTTTGAGAAAATTTG-GGGTTAAAAATGG
** *
58296 AAGTTTTGA-AAGTTTTGAGGTTAAAAATGGG
1 AA-TTTTGAGAAAATTTGGGGTTAAAAAT-GG
* * *
58327 ATTTTTG-G-AAGTTTGAGGG-TAAAAATGA
1 AATTTTGAGAAAATTTG-GGGTTAAAAATGG
** *
58355 AATTTTTGA-AAGTTTTAGGGTTAAAAATGG
1 AA-TTTTGAGAAAATTTGGGGTTAAAAATGG
*
58385 GATTTT
1 AATTTT
58391 TGGAAGTTCG
Statistics
Matches: 176, Mismatches: 43, Indels: 47
0.66 0.16 0.18
Matches are distributed among these distances:
28 6 0.03
29 81 0.46
30 83 0.47
31 6 0.03
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
AATTTTGAGAAAATTTGGGGTTAAAAATGG
Found at i:58159 original size:29 final size:29
Alignment explanation
Indices: 58127--58423 Score: 287
Period size: 29 Copynumber: 10.1 Consensus size: 29
58117 GTAATTTTGA
* *
58127 GAAAATTTGGGGTTAAAAATGGCATTTTT
1 GAAAGTTTGGGGTTAAAAATGGAATTTTT
*
58156 GAAAGTTTAGGGG-TAAAAATAGAATTTTT
1 GAAAGTTT-GGGGTTAAAAATGGAATTTTT
58185 GAAAGTTTTGGGGTTAAAAATGGAATTTTT
1 GAAAG-TTTGGGGTTAAAAATGGAATTTTT
* ** * *
58215 GGAAGTTT-AAGTGTAAAATTAGAATTTTT
1 GAAAGTTTGGGGT-TAAAAATGGAATTTTT
*
58244 GAAAGTTTTGGGGTTAAAAATGGGATTTTT
1 GAAAG-TTTGGGGTTAAAAATGGAATTTTT
* * * *
58274 GGAAGTTCGAGGG-TAAAAATAGAAGTTTT
1 GAAAGTTTG-GGGTTAAAAATGGAATTTTT
* *
58303 GAAAGTTTTGAGGTTAAAAATGGGATTTTT
1 GAAAG-TTTGGGGTTAAAAATGGAATTTTT
* *
58333 GGAAGTTTGAGGG-TAAAAATGAAATTTTT
1 GAAAGTTTG-GGGTTAAAAATGGAATTTTT
* *
58362 GAAAGTTTTAGGGTTAAAAATGGGATTTTT
1 GAAAG-TTTGGGGTTAAAAATGGAATTTTT
* * * *
58392 GGAAGTTCGGGGCTAAAAATGAAATTTTT
1 GAAAGTTTGGGGTTAAAAATGGAATTTTT
58421 GAA
1 GAA
58424 CAATTTAGGG
Statistics
Matches: 215, Mismatches: 41, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
28 2 0.01
29 119 0.55
30 92 0.43
31 2 0.01
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (29 bp):
GAAAGTTTGGGGTTAAAAATGGAATTTTT
Found at i:58433 original size:59 final size:58
Alignment explanation
Indices: 58132--58423 Score: 399
Period size: 59 Copynumber: 4.9 Consensus size: 58
58122 TTTGAGAAAA
* *
58132 TTTGGGGTTAAAAATGGCATTTTTGAAAGTTTAGGGGTAAAAATAGAATTTTTGAAAGT
1 TTTGGGGTTAAAAATGGGATTTTTGGAAG-TTAGGGGTAAAAATAGAATTTTTGAAAGT
* * * *
58191 TTTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGTGTAAAATTAGAATTTTTGAAAGT
1 TTTGGGGTTAAAAATGGGATTTTTGGAAG-TTAGGGGTAAAAATAGAATTTTTGAAAGT
* *
58250 TTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAAGTTTTGAAAGT
1 TTTGGGGTTAAAAATGGGATTTTTGGAAGTTAG-GGGTAAAAATAGAATTTTTGAAAGT
* *
58309 TTTGAGGTTAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAAT-GAAATTTTTGAAAGT
1 TTTGGGGTTAAAAATGGGATTTTTGGAAGTTAG-GGGTAAAAATAG-AATTTTTGAAAGT
* *
58368 TTTAGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGCTAAAAAT-GAAATTTTTGAA
1 TTTGGGGTTAAAAATGGGATTTTTGGAAGTTAGGGG-TAAAAATAG-AATTTTTGAA
58424 CAATTTAGGG
Statistics
Matches: 213, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
58 6 0.03
59 207 0.97
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (58 bp):
TTTGGGGTTAAAAATGGGATTTTTGGAAGTTAGGGGTAAAAATAGAATTTTTGAAAGT
Found at i:59576 original size:11 final size:11
Alignment explanation
Indices: 59524--59582 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
59514 TTCGTATTAA
*
59524 ATAATAAATAG
1 ATAATAAATAT
*
59535 ATAATTAATGAT
1 ATAATAAAT-AT
*
59547 CAT-ATTAATAT
1 -ATAATAAATAT
59558 ATAATAAATA-
1 ATAATAAATAT
59568 ATAAGTAAATAT
1 ATAA-TAAATAT
59580 ATA
1 ATA
59583 TTAACATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.15
11 22 0.55
12 10 0.25
13 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (11 bp):
ATAATAAATAT
Found at i:60278 original size:15 final size:15
Alignment explanation
Indices: 60258--60288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60248 TCCAAGTTTG
*
60258 GTAATTGGGCCATTT
1 GTAATTGGACCATTT
60273 GTAATTGGACCATTT
1 GTAATTGGACCATTT
60288 G
1 G
60289 GATCTGTACT
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:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
GTAATTGGACCATTT
Found at i:60349 original size:17 final size:16
Alignment explanation
Indices: 60327--60399 Score: 92
Period size: 17 Copynumber: 4.4 Consensus size: 16
60317 TTGGACTTTC
*
60327 TAAATTTAATTTTATAA
1 TAAATTTAAATTTA-AA
*
60344 TAAATTTAAATTTCCAA
1 TAAATTTAAATTT-AAA
60361 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
*
60378 TAAACTTAAATTTAAA
1 TAAATTTAAATTTAAA
60394 TAAATT
1 TAAATT
60400 CAATTTCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
16 8 0.16
17 41 0.84
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:60365 original size:34 final size:33
Alignment explanation
Indices: 60327--60405 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
60317 TTGGACTTTC
* * *
60327 TAAATTTAATTTTATAATAAATTTAAATTTCCAA
1 TAAATTTAATTTTAAAATAAACTTAAATTT-AAA
*
60361 TAAATTTAAATTTAAAATAAACTTAAATTTAAA
1 TAAATTTAATTTTAAAATAAACTTAAATTTAAA
*
60394 TAAATTCAATTT
1 TAAATTTAATTT
60406 CCAATAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 12 0.31
34 27 0.69
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (33 bp):
TAAATTTAATTTTAAAATAAACTTAAATTTAAA
Found at i:61008 original size:132 final size:130
Alignment explanation
Indices: 60760--61008 Score: 354
Period size: 130 Copynumber: 1.9 Consensus size: 130
60750 CGAAAGATGG
* * *
60760 CCGTTTTATTACTTCGACCTGCTTCTCAGTACCTCATCCGGAAGCTGGGGTTTGAAGATTCGTTC
1 CCGTTTTATTACTTCGACCTGCTTCTCAATACCTCATCCGGAAGCTAGGGTTGGAAGATTCGTTC
* *
60825 ATCGCGCGTGGGTTTGATTTGGTGTTCTTCTCAGTATCTCATCAGGAAGATGGTCGGGAAGCTAA
66 ATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGTCGGGAAGCTAA
* ** * * *
60890 CCGTTTTATTACTTCGACTTGCTTCTCAATGTCTCATCGGGAAGCTAGGGTTGGATGATTTGCTT
1 CCGTTTTATTACTTCGACCTGCTTCTCAATACCTCATCCGGAAGCTAGGGTTGGAAGATTCG-TT
* * *
60955 GTATTGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATG
65 -CATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATG
61009 ACCGCGTTGT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 53 0.51
131 2 0.02
132 48 0.47
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (130 bp):
CCGTTTTATTACTTCGACCTGCTTCTCAATACCTCATCCGGAAGCTAGGGTTGGAAGATTCGTTC
ATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGTCGGGAAGCTAA
Found at i:61219 original size:218 final size:218
Alignment explanation
Indices: 60841--61454 Score: 924
Period size: 218 Copynumber: 2.8 Consensus size: 218
60831 CGTGGGTTTG
* * * * * *
60841 ATTTGGTGTTCTTCTCAGTATCTCATCAGGAAGATGGTCGGGAAGCTAACCGTTTTATTACTTCG
1 ATTTGGTCTACTTCTCCGTACCTTATCAGGAAGATGGTCAGGAAGCTAACCGTTTTATTACTTCG
* * * * * * *** * *
60906 ACTTGCTTCTCAATGTCTCATCGGGAAGCTAGGGTTGGATGATTTGCTTGTATTGAGCGTGGGTT
66 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
* *
60971 TGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCGTTGTCTGTTTCAATTCACTTC
131 TGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTTGTCTGTTTCAATTCACTTC
61036 TCTGTATCTCATCAAGAAGACGA
196 TCTGTATCTCATCAAGAAGACGA
* *
61059 ATTTGGTCTACTTCTTCGTACCTTATCAGGAAGATGGTCAAGAAGCTAACCGTTTTATTACTTCG
1 ATTTGGTCTACTTCTCCGTACCTTATCAGGAAGATGGTCAGGAAGCTAACCGTTTTATTACTTCG
* *
61124 ACTTGCTTCCCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGGGCGTGAGTT
66 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
* * *
61189 TGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATTCACTTC
131 TGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTTGTCTGTTTCAATTCACTTC
* * *
61254 TTTGTATCTCATTAGGAAGACGA
196 TCTGTATCTCATCAAGAAGACGA
* *
61277 ATTTGGTCTACTTCTCCGTACCTTATCAGGAAGATGGTCAGGAAGCTTACCATTTTATTACTTCG
1 ATTTGGTCTACTTCTCCGTACCTTATCAGGAAGATGGTCAGGAAGCTAACCGTTTTATTACTTCG
61342 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
66 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
*
61407 TGATTTGGTCTTCTTCTCAGTATCTCGTC-GAGAAGATGACTGCGTTGT
131 TGATTTGGTCTTCTTCTCAGTATCTCATCAG-GAAGATGACTGCGTTGT
61455 TTTGTGGATA
Statistics
Matches: 357, Mismatches: 38, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
217 1 0.00
218 356 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (218 bp):
ATTTGGTCTACTTCTCCGTACCTTATCAGGAAGATGGTCAGGAAGCTAACCGTTTTATTACTTCG
ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
TGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTTGTCTGTTTCAATTCACTTC
TCTGTATCTCATCAAGAAGACGA
Done.