Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold323
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: 1512004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:156548 original size:15 final size:15
Alignment explanation
Indices: 156516--156562 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
156506 AATTATTATA
*
156516 TAATTTT-ATATTTAT
1 TAATTTTAATAATT-T
156531 TAATTTTTAA-AATTT
1 TAA-TTTTAATAATTT
156546 TAATTTTAATAATTT
1 TAATTTTAATAATTT
156561 TA
1 TA
156563 TCACTATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
15 14 0.50
16 7 0.25
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTTAATAATTT
Found at i:157239 original size:20 final size:19
Alignment explanation
Indices: 157215--157287 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
157205 CACACCCAGA
157215 TGTATCGATACATATTACT
1 TGTATCGATACATATTACT
*
157234 TAGTATCGATACATGTT-CT
1 T-GTATCGATACATATTACT
* * *
157253 TGGAATCGATACATACTGAAT
1 T-GTATCGATACATA-TTACT
157274 TGTATCGATACATA
1 TGTATCGATACATA
157288 AAACTTGCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.34
20 27 0.61
21 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATATTACT
Found at i:157262 original size:19 final size:20
Alignment explanation
Indices: 157218--157267 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
157208 ACCCAGATGT
*
157218 ATCGATACATATTACTTAGT
1 ATCGATACATATTACTTAGA
* *
157238 ATCGATACATGTT-CTTGGA
1 ATCGATACATATTACTTAGA
157257 ATCGATACATA
1 ATCGATACATA
157268 CTGAATTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
ATCGATACATATTACTTAGA
Found at i:161645 original size:20 final size:20
Alignment explanation
Indices: 161620--161674 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
161610 AAAACCCTTA
161620 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
161640 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
161660 AATGTATCGATACAT
1 AAAGTATCGATACAT
161675 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:161760 original size:13 final size:13
Alignment explanation
Indices: 161742--161767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
161732 TACACCAAGT
161742 ATGTATCGATACA
1 ATGTATCGATACA
161755 ATGTATCGATACA
1 ATGTATCGATACA
161768 CAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:165853 original size:15 final size:15
Alignment explanation
Indices: 165833--165863 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
165823 TAAAAATGTC
*
165833 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
165848 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
165863 C
1 C
165864 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:167962 original size:13 final size:13
Alignment explanation
Indices: 167944--167982 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
167934 ACATTTTTCT
167944 TTGTATCGATACA
1 TTGTATCGATACA
*
167957 TTGTATTGATACA
1 TTGTATCGATACA
*
167970 CTGTATCGATACA
1 TTGTATCGATACA
167983 AGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:170539 original size:19 final size:19
Alignment explanation
Indices: 170517--170579 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
170507 TAGCCAAACT
170517 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
170536 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
170549 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
170568 TGTATCGATACA
1 TGTATCGATACA
170580 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:170553 original size:13 final size:13
Alignment explanation
Indices: 170535--170592 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
170525 TACACCAAGT
170535 ATGTATCGATACA
1 ATGTATCGATACA
170548 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
170565 GTATGTATCGATACA
1 --ATGTATCGATACA
170580 ATGTATCGATACA
1 ATGTATCGATACA
170593 CAAAAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:170558 original size:32 final size:32
Alignment explanation
Indices: 170517--170593 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
170507 TAGCCAAACT
170517 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
170549 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
170581 TGTATCGATACAC
1 TGTATCGATACAC
170594 AAAAAAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:173419 original size:13 final size:13
Alignment explanation
Indices: 173398--173429 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
173388 TCGATACATT
*
173398 ATACTTTGTATCG
1 ATACATTGTATCG
173411 ATACATTGTATCG
1 ATACATTGTATCG
173424 ATACAT
1 ATACAT
173430 GATCATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:173438 original size:19 final size:18
Alignment explanation
Indices: 173413--173470 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
173403 TTGTATCGAT
173413 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
173431 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
173451 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
173470 A
1 A
173471 AACTGGCAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.51
20 17 0.46
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:173459 original size:20 final size:20
Alignment explanation
Indices: 173414--173469 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
173404 TGTATCGATA
173414 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
173433 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
173452 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
173470 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:173619 original size:20 final size:19
Alignment explanation
Indices: 173585--173622 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
173575 ATATTTTCAA
*
173585 ATGAATGTATTGATACATT
1 ATGAATGTATCGATACATT
173604 ATGAATTGTATCGATACAT
1 ATGAA-TGTATCGATACAT
173623 AGCTACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
ATGAATGTATCGATACATT
Found at i:174649 original size:19 final size:21
Alignment explanation
Indices: 174606--174657 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
174596 TTCAATAATT
*
174606 TGTATCGATATAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
174627 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
174646 TGTATCGATACA
1 TGTATCGATACA
174658 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:174728 original size:13 final size:13
Alignment explanation
Indices: 174710--174735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174700 ATTTGTAGAA
174710 TGTATCGATACAT
1 TGTATCGATACAT
174723 TGTATCGATACAT
1 TGTATCGATACAT
174736 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:177185 original size:51 final size:51
Alignment explanation
Indices: 177105--177266 Score: 168
Period size: 51 Copynumber: 3.2 Consensus size: 51
177095 ATTTTTCATC
* * * *
177105 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAA-TTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTC-CATAA
* *
177156 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
* * * * * *
177207 TCGGGGATACTCTAACTCCGATTTTATTTTCAGAAGACTAACTTTT-CACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTTCCATAA
177258 TCGGGGATA
1 TCGGGGATA
177267 TCCCAACCTC
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
51 85 0.90
52 9 0.10
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
Found at i:177356 original size:76 final size:75
Alignment explanation
Indices: 177257--177634 Score: 413
Period size: 76 Copynumber: 5.0 Consensus size: 75
177247 ACTTTTCACA
* *
177257 ATCGGGGATA-TCCCAACCTCGTTATTTCTAAGGAGACACTCCAACCTCGGTTTTATTTCTAAAA
1 ATCGGGGATACT-CCAACCCCGTTATTTCCAAGG-GACACTCCAACCTCGGTTTTATTTCTAAAA
177321 CATCAATTTTTC
64 CATCAATTTTTC
* * *
177333 ATCGGGGATACTCCAGCCCCGTTATTTCCGAGGGGACACTCCAACCTCGGTTTTATCTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCC-AAGGGACACTCCAACCTCGGTTTTATTTCTAAAAC
177398 ATCAATTTTTC
65 ATCAATTTTTC
* *
177409 ATCGGGGATACTCCAACCCCGTTATTTCCGAGTGGACACTCCAACCTCGG-TTTGTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAG-GGACACTCCAACCTCGGTTTTATTTCTAAAAC
177473 ATCAATTTTTC
65 ATCAATTTTTC
* *** * * * *
177484 ATTGGGGATACTCCAACCCCGTTATTT-TTGGGGATACTCCAACCCCGATTTTATTTCTAAAATA
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGACACTCCAACCTCGGTTTTATTTCTAAAACA
**
177548 TTGATTTTTC
66 TCAATTTTTC
* * * * * * * *
177558 ATAATTGAGGATACTCCAACCCCATTATTTTCAAAGGGATACTCCAATCC-CGATTTTATTTTTG
1 ---ATCGGGGATACTCCAACCCCGTTA-TTTCCAAGGGACACTCCAA-CCTCGGTTTTATTTCTA
*
177622 AAACATCTATTTT
61 AAACATCAATTTT
177635 CTATAATGGG
Statistics
Matches: 261, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
73 14 0.05
74 22 0.08
75 50 0.19
76 110 0.42
77 26 0.10
78 3 0.01
79 34 0.13
80 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (75 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGACACTCCAACCTCGGTTTTATTTCTAAAACA
TCAATTTTTC
Found at i:190161 original size:10 final size:10
Alignment explanation
Indices: 190146--190175 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
190136 ATTCTTTTAA
190146 AAAAAAAAAC
1 AAAAAAAAAC
190156 AAAAAAAAAC
1 AAAAAAAAAC
190166 AAAAAGAAAA
1 AAAAA-AAAA
190176 AAAGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:190185 original size:24 final size:23
Alignment explanation
Indices: 190144--190189 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
190134 ACATTCTTTT
190144 AAAAAAAAAAACAAAAAAAAACA
1 AAAAAAAAAAACAAAAAAAAACA
*
190167 AAAAGAAAAAAAGAGAAAAAAAA
1 AAAA-AAAAAAACA-AAAAAAAA
190190 AGAGAATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAACAAAAAAAAACA
Found at i:190186 original size:16 final size:15
Alignment explanation
Indices: 190144--190178 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
190134 ACATTCTTTT
190144 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
*
190159 AAAAAACAAAAAGAAA
1 AAAAAA-AAAAACAAA
190175 AAAA
1 AAAA
190179 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:190195 original size:12 final size:12
Alignment explanation
Indices: 190144--190192 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
190134 ACATTCTTTT
*
190144 AAAAAAAAAAAC
1 AAAAAAAAAAAG
190156 AAAAAAAAACAA-
1 AAAAAAAAA-AAG
*
190168 AAAGAAAAAAAG
1 AAAAAAAAAAAG
*
190180 AGAAAAAAAAAG
1 AAAAAAAAAAAG
190192 A
1 A
190193 GAATCTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:191454 original size:61 final size:58
Alignment explanation
Indices: 191286--191897 Score: 412
Period size: 61 Copynumber: 9.8 Consensus size: 58
191276 GAGCAGGACG
* * * *
191286 CCTTTCAAAGACCACACAATTTGGTGGCACCTTTCAGTCCTCAAAGAACAGGATG----
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCTTT
* * *
191341 CCTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG-CTT-T
**
191401 CCTTTTAAAGCCCACACAAGTTTATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATGCTTT
* *
191460 CTTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCT
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGATGCT-T-T
**
191523 CCTTTCGCCTATTTCTTTTAAAGCC-CACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAG
1 CCTTT----TA--------AAGCCCACAC--AAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAG
191587 GATGCTTT
51 GATGCTTT
* * * * *
191595 CTTTTTGCAAACCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACACTCTCTCC
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGG--A-----TGC
191660 TTT
56 TTT
* ** * * *
191663 CGCCTTTTTCTTTTAAAGCC-CACATAAGCTGGCGGCACCTTT-AGTCCTCAAAGAGCAGGACGC
1 --CC----T-TTTAAAGCCCACAC--AAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATG-
191726 CTTCT
55 CTT-T
191731 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATGCTTT
* * **
191790 CTTTTTGCAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGGGCAGGACACCTTT
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGA-TGCTTT
* *
191852 TCTTTTCAAAGCCCACACGAA-TTGGTGGCACTTTTTAGTCCTCAAA
1 CCTTTT-AAAGCCCACAC-AAGTTGGTGGCAC-TTTCAGTCCTCAAA
191898 AAGCGGGACA
Statistics
Matches: 449, Mismatches: 49, Indels: 112
0.74 0.08 0.18
Matches are distributed among these distances:
54 23 0.05
55 24 0.05
59 13 0.03
60 52 0.12
61 200 0.45
62 20 0.04
63 9 0.02
65 1 0.00
66 2 0.00
67 4 0.01
68 7 0.02
70 2 0.00
71 1 0.00
72 11 0.02
73 25 0.06
74 46 0.10
75 9 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (58 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCTTT
Found at i:191644 original size:135 final size:133
Alignment explanation
Indices: 191402--191897 Score: 596
Period size: 135 Copynumber: 3.8 Consensus size: 133
191392 ATGCCTTCTC
**
191402 CTTTTAAAGCCCACACAAGTTTATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTG
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTT-
191467 CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCC
65 CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCC
191532 TATTT
130 T-TTT
191537 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTG
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTT-
* * **
191602 CAAACCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACACTCTCTCCTTTCGCC
65 CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCC
191667 TTTTT
130 -TTTT
* * * * * *
191672 CTTTTAAAGCCCACATAAGCTGGCGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTT-TCTTTT
*
191736 T-AAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAGGATGCT-T-T-C-TT--
64 TCAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCG
*
191793 --TTTG
128 CCTTTT
* **
191797 C----AAAGCCCACACAAGTTGGTGGCA-TCTTTCAGTCCTCAAAGGGCAGGACACCTTT-TCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGA-TGCTTTCT-TT
**
191856 TTCAAAGCCCACACGAA-TTGGTGGCACTTTTTAGTCCTCAAA
63 TTCAAAGCCCACAC-AAGTTGGTGGCACTTCCTAGTCCTCAAA
191898 AAGCGGGACA
Statistics
Matches: 324, Mismatches: 26, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
121 28 0.09
122 53 0.16
123 4 0.01
125 4 0.01
130 2 0.01
131 1 0.00
132 1 0.00
133 2 0.01
134 63 0.19
135 159 0.49
136 7 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (133 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTC
AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCT
TTT
Found at i:192676 original size:21 final size:22
Alignment explanation
Indices: 192644--192686 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
192634 AAATCACATT
192644 TTTGTCCAAATGTATCGATACA
1 TTTGTCCAAATGTATCGATACA
192666 TTTGT-CAAATGTATCGATACA
1 TTTGTCCAAATGTATCGATACA
192687 AGGTCCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TTTGTCCAAATGTATCGATACA
Found at i:192767 original size:19 final size:21
Alignment explanation
Indices: 192724--192775 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
192714 TTCAATAATT
192724 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
192745 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
192764 TGTATCGATACA
1 TGTATCGATACA
192776 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:192846 original size:13 final size:13
Alignment explanation
Indices: 192828--192853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192818 ATTTGTAGAA
192828 TGTATCGATACAT
1 TGTATCGATACAT
192841 TGTATCGATACAT
1 TGTATCGATACAT
192854 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:195332 original size:50 final size:51
Alignment explanation
Indices: 195216--195383 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 51
195206 ATTTTTCATC
* * * *
195216 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTCTCATAA
** *
195267 TCGGGGATACTCCAACTCCGATTTTATTTTTAAAACACCCATTTC-CATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCATAA
* * * * *
195317 TTGGGGATACTCCAACTCCGATTTTATTTCCAGAACATCGACTTT-TCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CCAATTTCTCATAA
*
195368 TCGAGGATACTCCAAC
1 TCGGGGATACTCCAAC
195384 CTCGTTATTT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 37 0.38
51 59 0.61
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCATAA
Found at i:195482 original size:76 final size:76
Alignment explanation
Indices: 195319--195746 Score: 459
Period size: 76 Copynumber: 5.6 Consensus size: 76
195309 TTCCATAATT
* * * * * * *
195319 GGGGATACTCCAACTCCGATTTTATTTCCAGAACATCGACTTTTCA-CAATCGAGGATACTCCAA
1 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATC-A--G-GGATACTCCAA
*
195383 CCTCGTTATTTCTGA
62 CCCCGTTATTTCTGA
* *
195398 GGGAACACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAACCCC
1 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAACCCC
195463 GTTATTTCTGA
66 GTTATTTCTGA
* * * *
195474 GGAGACACTCCAACTCCGGTTTTATCTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAACCCC
195539 GTTATTT-TCGA
66 GTTATTTCT-GA
* *
195550 GGGGACACTCCAACCCCGGTTTTGTTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAACCCC
*
195615 GTTATTTTTG-
66 GTTATTTCTGA
* * * ** *
195625 GGGGATACTCTAACCCCGGTTTTATTTCTAAAATATTGATTTTTCATAATTAGGGATACTCCAAC
1 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC---ATCAGGGATACTCCAAC
* *
195690 CCCATTATTT-TCA
63 CCCGTTATTTCTGA
* * * * * * *
195703 CAGGGATACTCCAATCCCGATTTTATTTTTGAAACATCCATTTT
1 -GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTT
195747 CTATAATGGG
Statistics
Matches: 302, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
75 40 0.13
76 162 0.54
77 3 0.01
78 24 0.08
79 72 0.24
80 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (76 bp):
GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAACCCC
GTTATTTCTGA
Found at i:199810 original size:13 final size:13
Alignment explanation
Indices: 199771--199810 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
199761 AACTCACTCA
*
199771 GTATCGATATAGT
1 GTATCGATATATT
* *
199784 GTATCTATACATT
1 GTATCGATATATT
199797 GTATCGATATATT
1 GTATCGATATATT
199810 G
1 G
199811 AGCTCAATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (13 bp):
GTATCGATATATT
Found at i:200177 original size:16 final size:18
Alignment explanation
Indices: 200156--200191 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
200146 ACTTAGAGGC
200156 ATTTC-TTGT-TTGTAAA
1 ATTTCTTTGTGTTGTAAA
200172 ATTTCTTTGTGTTGTAAA
1 ATTTCTTTGTGTTGTAAA
200190 AT
1 AT
200192 GTTGCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTTCTTTGTGTTGTAAA
Found at i:200961 original size:12 final size:11
Alignment explanation
Indices: 200944--200983 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
200934 TTTATATCAT
200944 ATTATATTTTAA
1 ATTATATTTT-A
200956 ATTATATTTTA
1 ATTATATTTTA
200967 ATTAT-TTTT-
1 ATTATATTTTA
200976 -TTATATTT
1 ATTATATTT
200984 AATATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 3 0.11
10 4 0.15
11 6 0.22
12 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATATTTTA
Found at i:201251 original size:30 final size:30
Alignment explanation
Indices: 201211--201269 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
201201 TTCATAATAT
*
201211 ATTTTAAAATAATATTACTTTAA-TAATTA
1 ATTTTAAAATAATATTAATTTAATTAATTA
201240 ATTTATAAAATAATATTAATTTAATTAATT
1 ATTT-TAAAATAATATTAATTTAATTAATT
201270 TTTTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 18 0.67
31 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTTAAAATAATATTAATTTAATTAATTA
Found at i:203774 original size:8 final size:8
Alignment explanation
Indices: 203753--203795 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
203743 TTCATTTCAG
*
203753 TATATATA
1 TATATGTA
203761 TATATGTA
1 TATATGTA
*
203769 TGTATGTA
1 TATATGTA
203777 TATATGTA
1 TATATGTA
*
203785 TAGATGTA
1 TATATGTA
203793 TAT
1 TAT
203796 GTATTATTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (8 bp):
TATATGTA
Found at i:204610 original size:16 final size:16
Alignment explanation
Indices: 204589--204620 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
204579 TAATGTTTCA
*
204589 TATATTAATTTTATTT
1 TATATTAATTATATTT
204605 TATATTAATTATATTT
1 TATATTAATTATATTT
204621 AATTGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTAATTATATTT
Found at i:204885 original size:16 final size:16
Alignment explanation
Indices: 204838--204962 Score: 110
Period size: 16 Copynumber: 7.8 Consensus size: 16
204828 CTACATTTGG
* *
204838 ATTTCAATTATTTTAC
1 ATTTAAATTATTTTAA
*
204854 ATTTAAGTTAATTTTAA
1 ATTTAAATT-ATTTTAA
204871 ATTTAAATTATTTT-A
1 ATTTAAATTATTTTAA
* *
204886 ATTTAAATATTTTTTTA
1 ATTTAAAT-TATTTTAA
* *
204903 ATTTAAATAATTTAAA
1 ATTTAAATTATTTTAA
*
204919 ATTT-AATTTTTTTAA
1 ATTTAAATTATTTTAA
* *
204934 ATTTAAATAATTTCAA
1 ATTTAAATTATTTTAA
* *
204950 ATTCAAGTTATTT
1 ATTTAAATTATTT
204963 AAGATACTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
15 21 0.24
16 43 0.49
17 23 0.26
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:204922 original size:48 final size:50
Alignment explanation
Indices: 204848--204942 Score: 133
Period size: 48 Copynumber: 1.9 Consensus size: 50
204838 ATTTCAATTA
* *
204848 TTTTACATTTAAGTTAATTTTAAATTTAAATTATTTT-AATTTAAATATTT
1 TTTTACATTTAAGATAATTTAAAATTT-AATTATTTTAAATTTAAATATTT
*
204898 TTTTA-ATTTAA-ATAATTTAAAATTTAATTTTTTTAAATTTAAATA
1 TTTTACATTTAAGATAATTTAAAATTTAATTATTTTAAATTTAAATA
204943 ATTTCAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 8 0.20
48 22 0.54
49 6 0.15
50 5 0.12
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (50 bp):
TTTTACATTTAAGATAATTTAAAATTTAATTATTTTAAATTTAAATATTT
Found at i:204930 original size:31 final size:32
Alignment explanation
Indices: 204865--204952 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 32
204855 TTTAAGTTAA
* *
204865 TTTTAAATTTAAATTATTTTAATTTAAATATT
1 TTTTAAATTTAAATAATTTAAATTTAAATATT
*
204897 TTTTTAATTTAAATAATTTAAAATTT-AAT-TT
1 TTTTAAATTTAAATAATTT-AAATTTAAATATT
204928 TTTTAAATTTAAATAATTTCAAATT
1 TTTTAAATTTAAATAATTT-AAATT
204953 CAAGTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 25 0.50
32 20 0.40
33 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTTAAATTTAAATAATTTAAATTTAAATATT
Found at i:206954 original size:25 final size:25
Alignment explanation
Indices: 206926--206974 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
206916 TATTAATTCT
*
206926 AATTTTAATTTTCTTTTAATTTTAG
1 AATTTTAATTTTATTTTAATTTTAG
* *
206951 AATTTTATTTTTATTTTATTTTTA
1 AATTTTAATTTTATTTTAATTTTA
206975 ACTAGTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
AATTTTAATTTTATTTTAATTTTAG
Found at i:206956 original size:19 final size:19
Alignment explanation
Indices: 206932--206968 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
206922 TTCTAATTTT
*
206932 AATTTTCTTTTAATTTTAG
1 AATTTTATTTTAATTTTAG
*
206951 AATTTTATTTTTATTTTA
1 AATTTTATTTTAATTTTA
206969 TTTTTAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTTATTTTAATTTTAG
Found at i:214289 original size:13 final size:13
Alignment explanation
Indices: 214249--214301 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
214239 CCTTTACAAG
214249 CAATGTATCGATA
1 CAATGTATCGATA
214262 CAA--T-TC-AT-
1 CAATGTATCGATA
214270 C-ATGTATCGATA
1 CAATGTATCGATA
214282 CAATGTATCGATA
1 CAATGTATCGATA
*
214295 CATTGTA
1 CAATGTA
214302 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:214289 original size:33 final size:33
Alignment explanation
Indices: 214249--214317 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
214239 CCTTTACAAG
*
214249 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
214282 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
214315 CAA
1 CAA
214318 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:214391 original size:19 final size:19
Alignment explanation
Indices: 214347--214419 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
214337 CTGCCAATCT
* **
214347 CATGTATCTATACAATTGTC
1 CATGTATCGATACAA-TGAA
214367 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
214386 CATGTATCGATACAAAGCAT
1 CATGTATCGATACAATG-AA
*
214406 GATGTATCGATACA
1 CATGTATCGATACA
214420 TCTGGGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:223114 original size:33 final size:33
Alignment explanation
Indices: 223072--223140 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
223062 CCGTTACAAG
*
223072 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
* *
223105 CAATTTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
223138 CAA
1 CAA
223141 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:224625 original size:28 final size:28
Alignment explanation
Indices: 224577--225011 Score: 509
Period size: 28 Copynumber: 15.4 Consensus size: 28
224567 AATACGACCT
* * *
224577 CTTTTCAAAACCCCCAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
224605 CTTCTCAAAGCCCACATGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224633 ATTTTCAAAGCCCACAAGTGAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
*
224662 C-TTTCAAAGCCCACAAGTGAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
224690 C-TTTCAAAGCCCATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
224717 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224745 CTTTTCAAAGCCCACATGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
224773 CATTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
224801 CTTTTCAAAACCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
224830 C-TTTCACAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224857 CTTTTCAAAGCCCATAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
224885 CTTCTCAAAGCTCACATGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224913 CATTTCAAAGTCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224941 CTTTTCAAA-CCCACAAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
224968 CTTTTCAAAGCCCACACAAGTTAGTGGCAA
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCAC
224998 CTTTCTCTAAAGCC
1 CTTT-TC-AAAGCC
225012 TACATAAATT
Statistics
Matches: 348, Mismatches: 50, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
27 26 0.07
28 293 0.84
29 4 0.01
30 17 0.05
31 4 0.01
32 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:226168 original size:20 final size:20
Alignment explanation
Indices: 226140--226190 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
226130 ATCGATACAT
* *
226140 TATCGATACATGTATGAATG
1 TATCAATACATGTATCAATG
* *
226160 TATCAATACATTTTTCAATG
1 TATCAATACATGTATCAATG
226180 TATCAATACAT
1 TATCAATACAT
226191 TCTGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (20 bp):
TATCAATACATGTATCAATG
Found at i:226212 original size:51 final size:51
Alignment explanation
Indices: 226076--226241 Score: 133
Period size: 51 Copynumber: 3.3 Consensus size: 51
226066 TGAATAGTAC
* * * * *
226076 ATGTATCGATACATTCT-TTTTTTTGCCCAGATGTATCTATACATTTTTCT
1 ATGTATCAATACATTCTGTTTTTTTACCTAGATGTATCAATACATTTTTCA
* * *** *
226126 ATGTATCGATACATTATCGATACATGTA--T-GAATGTATCAATACATTTTTCA
1 ATGTATCAATACATTCT-G-TTTTTTTACCTAG-ATGTATCAATACATTTTTCA
* ****
226177 ATGTATCAATACATTCTGTTTTTTTACCTAGATGTATCGATACATTGAAAA
1 ATGTATCAATACATTCTGTTTTTTTACCTAGATGTATCAATACATTTTTCA
226228 ATGTATCAATACAT
1 ATGTATCAATACAT
226242 ATAGTTTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
49 4 0.04
50 18 0.20
51 63 0.71
52 1 0.01
53 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (51 bp):
ATGTATCAATACATTCTGTTTTTTTACCTAGATGTATCAATACATTTTTCA
Found at i:229824 original size:60 final size:60
Alignment explanation
Indices: 229754--230100 Score: 388
Period size: 60 Copynumber: 5.8 Consensus size: 60
229744 GAACAAGACG
*
229754 CCTTTCAAAGCCTACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * ** * *
229814 CCTTTCAAAGCCCACACCAGTTGGTGGCATTTTCCAGTCTTCAAAGAAC-GAGATG------
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAG-GATGCCTTTT
*
229869 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATACCTTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
229929 CCTTTCAAAGCCCATACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * **
229989 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAAGACACCTTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
* *
230051 TC-TTCTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCA
1 CCTTTC-AAAGCCCACACAAGCTGGTGGCACCTT--CAGTCCTCAAAGAGCA
230101 AGACGCTCTC
Statistics
Matches: 243, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
54 16 0.07
55 30 0.12
60 114 0.47
61 36 0.15
62 47 0.19
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (60 bp):
CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:229885 original size:55 final size:55
Alignment explanation
Indices: 229682--230033 Score: 261
Period size: 60 Copynumber: 6.1 Consensus size: 55
229672 CACCCTTTAA
* * * **
229682 TCCTCAAAGAA-GAGGACGCTTTTC-AAGCCCACACCAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAACGAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-CAG
* *
229736 TCCTCAAAGAAC-AAGACGCCTTTCAAAGCCTACACAAGCTGGTGGCACCTTCAG
1 TCCTCAAAGAACGAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
* * * * **
229790 TCCTCAAAGAGC-AGGATGCCTTTTCCTTTCAAAGCCCACACCAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAACGAGGA---C---GCCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-CAG
* *
229851 TCTTCAAAGAACGA-GATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
1 TCCTCAAAGAACGAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
* * *
229905 TCCTCAAAGAGC-AGGATACCTTTTCCTTTCAAAGCCCATACAAGCTGGTGGCACCTTCAG
1 TCCTCAAAGAACGAGG--A-C---GCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
* *
229965 TCCTCAAAG-A-GTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAACG-AGGACGCC-TTT-C----AAAGCCCACACAAGCTGGTGGCAC-CTTC-AG
230027 TCCTCAA
1 TCCTCAA
230034 GGAGCAAGAC
Statistics
Matches: 238, Mismatches: 33, Indels: 46
0.75 0.10 0.15
Matches are distributed among these distances:
53 1 0.00
54 54 0.23
55 53 0.22
56 2 0.01
57 2 0.01
58 1 0.00
60 97 0.41
61 18 0.08
62 10 0.04
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (55 bp):
TCCTCAAAGAACGAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
Found at i:229908 original size:115 final size:115
Alignment explanation
Indices: 229702--230097 Score: 483
Period size: 115 Copynumber: 3.4 Consensus size: 115
229692 AGAGGACGCT
* * * *
229702 TTTC-AAGCCCACACCAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAAGACGCCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAACGAGATGCCTTTCAAAGCC
* *
229766 TACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCC
66 CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATACCTTTTCC
* * *
229816 TTTCAAAGCCCACACCAGTTGGTGGCATTTTCCAGTCTTCAAAGAACGAGATGCCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAACGAGATGCCTTTCAAAGCC
229881 CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATACCTTTTCC
66 CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATACCTTTTCC
* * * * * * *
229931 TTTCAAAGCCCATACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGA--ACGA-G---ATGCCTTTC
* * * * * *
229995 AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAAGACACCTTTTTC
60 AAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATACCTTTTCC
*
230053 -TTCTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
1 TTTC-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGA
230098 GCAAGACGCT
Statistics
Matches: 246, Mismatches: 25, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
114 16 0.07
115 131 0.53
116 3 0.01
117 1 0.00
120 29 0.12
121 6 0.02
122 47 0.19
123 13 0.05
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (115 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAACGAGATGCCTTTCAAAGCC
CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATACCTTTTCC
Found at i:229970 original size:175 final size:179
Alignment explanation
Indices: 229754--230100 Score: 488
Period size: 175 Copynumber: 1.9 Consensus size: 179
229744 GAACAAGACG
* *
229754 CCTTTCAAAGCCTACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
* * * **
229819 CAAAGCCCACACCAGTTGGTGGCA-TTTTCCAGTCTTCAAAGAACGAGATGCC-T-TTC-AAAGC
66 CAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAACAAGACACCTTCTTCTAAAGC
229880 CCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATACCTTTT
131 CCACACAAGCTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGATACCTTTT
* *
229929 CCTTTCAAAGCCCATACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
* * * *
229994 TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAAGACACCTTTTTCTTCTAA
66 CAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAACAAGACACC---TTCTTCTAA
*
230059 AGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCA
128 AGCCCACACAAGCTGGTGGCACTT-CCAGTCCTCAAAGAGCA
230101 AGACGCTCTC
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
175 83 0.56
176 21 0.14
180 1 0.01
181 6 0.04
182 22 0.15
183 16 0.11
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (179 bp):
CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAACAAGACACCTTCTTCTAAAGC
CCACACAAGCTGGTGGCACTTCCAGTCCTCAAAGAGCAGGATACCTTTT
Found at i:230197 original size:100 final size:100
Alignment explanation
Indices: 230024--230206 Score: 242
Period size: 100 Copynumber: 1.8 Consensus size: 100
230014 GGCACTTTTC
** * **
230024 TAGTCCTCAAGGAGCAAGACACCTTTTTCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 TAGTCCTCAAAAAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGTCAGTGGCACTTCCCAGT
230089 CCTCAAAGAGCAAGACGCTCTCTCTTTTCACCCTT
66 CCTCAAAGAGCAAGACGCTCTCTCTTTTCACCCTT
* * * * * *
230124 TAGTCCTCAAAAAGCAGGATACCTTTTCCTT-TTAAGCTCACACAAGTCAGTGGCACTCTTCTAG
1 TAGTCCTCAAAAAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGTCAGTGGCACT-TCCCAG
*
230188 TCCTCAAAGAGCAGGACGC
65 TCCTCAAAGAGCAAGACGC
230207 CTTTTCCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
99 22 0.31
100 48 0.69
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (100 bp):
TAGTCCTCAAAAAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGTCAGTGGCACTTCCCAGT
CCTCAAAGAGCAAGACGCTCTCTCTTTTCACCCTT
Found at i:230229 original size:161 final size:161
Alignment explanation
Indices: 229958--230267 Score: 435
Period size: 161 Copynumber: 1.9 Consensus size: 161
229948 GCTGGTGGCA
* * * ** *
229958 CCTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
1 CCTTCAGTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTCAGTGGCACTCTT
* * *
230023 CTAGTCCTCAAGGAGCAAGACACCTTTTTCTTCTAAAGCCCACACAAGTTGGTGGCA-CTTCCCA
66 CTAGTCCTCAAAGAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGCTGGTGGCACCTT--CA
230087 GTCCTCAAAGAGCAAGACGCTCTCTCTTTTCAC
129 GTCCTCAAAGAGCAAGACGCTCTCTCTTTTCAC
* * *
230120 CCTTTAGTCCTCAAAAAGCAGGATACCTTTTCCTTTT-AAGCTCACACAAGTCAGTGGCACTCTT
1 CCTTCAGTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTCAGTGGCACTCTT
* * *
230184 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
66 CTAGTCCTCAAAGAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
* *
230249 CCTCAAAGAGTAGGACGCT
131 CCTCAAAGAGCAAGACGCT
230268 TTTTTCCTTT
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
160 21 0.16
161 74 0.57
162 35 0.27
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (161 bp):
CCTTCAGTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTCAGTGGCACTCTT
CTAGTCCTCAAAGAGCAAGACACCTTTTCCTTCTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
CCTCAAAGAGCAAGACGCTCTCTCTTTTCAC
Found at i:230264 original size:60 final size:60
Alignment explanation
Indices: 230120--230579 Score: 521
Period size: 60 Copynumber: 7.5 Consensus size: 60
230110 CTCTTTTCAC
* * * * **
230120 CCTTTAGTCCTCAAAAAGCAGGATACCTTTTCCTTTT-AAGCTCACACAAGTCAGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
230179 CTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 C-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
230241 CCTTCAGTCCTCAAAGAGTAGGACGCTTTTTTCCTTTT-AAGCGCACACAAGTCGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
230301 CTCTTCTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** **
230363 CCTTCAGTCCTCAGGGAGCAGGATGCCTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * * *
230423 CCTTTCTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCGAAGCCCAAACGAGTTGGTGGCA
1 CC-TTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
230486 CCTTTTAGTCCTCAAAGAGCAGGATGCC-CTTACTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
230547 CATTTAGTCTTCAAAGAGCAGGATGCCTTTTCC
1 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCC
230580 GTCTCTCCTT
Statistics
Matches: 345, Mismatches: 45, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.00
60 119 0.34
61 97 0.28
62 102 0.30
63 26 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (60 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:230364 original size:122 final size:119
Alignment explanation
Indices: 230120--230579 Score: 535
Period size: 122 Copynumber: 3.8 Consensus size: 119
230110 CTCTTTTCAC
* * * * *
230120 CCTTTAGTCCTCAAAAAGCAGGATACCTTTTCCTTTTAAGCTCACACAAGTCAGTGGCACTCTTC
1 CCTTCAGTCCTCAAAGAGCAGGAT-GCTTTTCCTTTTAAGCCCACACAAGTCGGTGGCAC-CTTC
*
230185 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
64 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
230241 CCTTCAGTCCTCAAAGAGTAGGACGCTTTTTTCCTTTTAAGCGCACACAAGTCGGTGGCACTCTT
1 CCTTCAGTCCTCAAAGAGCAGGATGC--TTTTCCTTTTAAGCCCACACAAGTCGGTGGCAC-CTT
* *
230306 CTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
63 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
230363 CCTTCAGTCCTCAGGGAGCAGGATGCCTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGATG-CTTTTCCTTT-TAAGCCCACACAAGTCGGTGGCACC-TT
* * * * * *
230428 CTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCGAAGCCCAAACGAGTTGGTGGCA
63 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* ** * * * *
230486 CCTTTTAGTCCTCAAAGAGCAGGATGCCCTTACTTTTCAAAGCCCACACGAGTTGGTGGCACATT
1 CC-TTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTT--AAGCCCACACAAGTCGGTGGCACCTT
* *
230551 -TAGTCTTCAAAGAGCAGGATGCCTTTTCC
63 CTAGTCCTCAAAGAGCAGGACGCCTTTTCC
230580 GTCTCTCCTT
Statistics
Matches: 291, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
120 1 0.00
121 30 0.10
122 186 0.64
123 32 0.11
124 42 0.14
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (119 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAGCCCACACAAGTCGGTGGCACCTTCTA
GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:230530 original size:184 final size:181
Alignment explanation
Indices: 230117--230579 Score: 599
Period size: 184 Copynumber: 2.5 Consensus size: 181
230107 TCTCTCTTTT
* * * * **
230117 CACCCTTTAGTCCTCAAAAAGCAGGATACCTTTTCCTTTT-AAGCTCACACAAGTCAGTGGCACT
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-
* *
230181 CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTC
65 CTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTC
* * * *
230246 AGTCCTCAAAGAGTAGGACGCTTTTTTCCTTTTAAGCGCACACAAGTCGGTGG
129 AGTCCTCAAAGAGTAGGACACCTTTTTCCTTTTAAGCCCAAACAAGTCGGTGG
* *
230299 CACTCTTCTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CAC-CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
** * *
230364 CTTCAGTCCTCAGGGAGCAGGATGCCTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCACCTTTC
65 CTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACC-TTC
* *
230429 TAGTCCTCAAAGAGTAGGACACCTTTTT-CTTTTCGAAGCCCAAACGAGTTGGTGG
129 -AGTCCTCAAAGAGTAGGACACCTTTTTCCTTTT--AAGCCCAAACAAGTCGGTGG
* * *
230484 CACCTTTTAGTCCTCAAAGAGCAGGATGCC-CTTACTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* * *
230548 ATTTAGTCTTCAAAGAGCAGGATGCCTTTTCC
65 CTTCAGTCCTCAAAGAGCAGGATGCCTTTTCC
230580 GTCTCTCCTT
Statistics
Matches: 244, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
182 54 0.22
183 51 0.21
184 120 0.49
185 19 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (181 bp):
CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAG
TCCTCAAAGAGTAGGACACCTTTTTCCTTTTAAGCCCAAACAAGTCGGTGG
Found at i:230691 original size:41 final size:43
Alignment explanation
Indices: 230585--230905 Score: 157
Period size: 41 Copynumber: 7.5 Consensus size: 43
230575 TTTCCGTCTC
* * * * * *
230585 TCCTTTGTTCTCAAAGAGTAGGGCACATTTCATTTCCTTCTTTT
1 TCCTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTT-TTTT
* * * * *
230629 CCCTTTTGTCCTCAAAGAGCAGGATGC-CTT-TTTTTCTTTTTT
1 TCC-TTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTT
*
230671 TCCTTTATCCTTAAAGAGCAGGACGCACTTCATTTCCTTTTTT
1 TCCTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTT
** * *
230714 TCCCTTCTAGTTTTCAAAGAGCAGGACACACTTTATTCTCC--TTTT
1 T-CCTT-TA-TCCTCAAAGAGCAGGACGCACTTCATT-TCCTTTTTT
* * * * *
230759 TCCTTTGTCCTTGAAA-AGCAGGACACATTTAATTTCC--TTTT
1 TCCTTTATCC-TCAAAGAGCAGGACGCACTTCATTTCCTTTTTT
* * * * *
230800 TCCTTTGTCTTCAAA-AGGCAGGATGCATTTTATTTCC-TTTTT
1 TCCTTTATCCTCAAAGA-GCAGGACGCACTTCATTTCCTTTTTT
* * * *
230842 TCC-TTAGTTCC-CAAGGAGTAGGACCCATTTCATTCTCC---TTT
1 TCCTTTA--TCCTCAAAGAGCAGGACGCACTTCATT-TCCTTTTTT
* *
230883 TCCTTAATCCTCGAAGAGCAGGA
1 TCCTTTATCCTCAAAGAGCAGGA
230906 TGCCCTCTTC
Statistics
Matches: 219, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
40 8 0.04
41 70 0.32
42 51 0.23
43 28 0.13
44 12 0.05
45 25 0.11
46 22 0.10
47 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (43 bp):
TCCTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTT
Found at i:230713 original size:42 final size:43
Alignment explanation
Indices: 230585--230846 Score: 208
Period size: 41 Copynumber: 6.1 Consensus size: 43
230575 TTTCCGTCTC
* *
230585 TCCTTTGTTC-TCAAAGAGTAGG--GCACATTTCATTTCCTTCTTT
1 TCCTTTGTCCTTCAAAGAGCAGGACGCAC-TTT-ATTTCCTT-TTT
* * *
230628 TCCCTTTTGTCC-TCAAAGAGCAGGATGC-CTTTTTTTCTTTTTT
1 T-CC-TTTGTCCTTCAAAGAGCAGGACGCACTTTATTTCCTTTTT
* *
230671 TCCTTTATCCTT-AAAGAGCAGGACGCACTTCATTTCCTTTTTT
1 TCCTTTGTCCTTCAAAGAGCAGGACGCACTTTATTTCC-TTTTT
* *
230714 TCCCTTCTAGT-TTTCAAAGAGCAGGACACACTTTATTCTCC-TTTT
1 T-CCTT-T-GTCCTTCAAAGAGCAGGACGCACTTTATT-TCCTTTTT
* *
230759 TCCTTTGTCCTTGAAA-AGCAGGACACA-TTTAATTTCC-TTTT
1 TCCTTTGTCCTTCAAAGAGCAGGACGCACTTT-ATTTCCTTTTT
* *
230800 TCCTTTGT-CTTCAAA-AGGCAGGATGCATTTTATTTCCTTTTT
1 TCCTTTGTCCTTCAAAGA-GCAGGACGCACTTTATTTCCTTTTT
230842 TCCTT
1 TCCTT
230847 AGTTCCCAAG
Statistics
Matches: 184, Mismatches: 18, Indels: 35
0.78 0.08 0.15
Matches are distributed among these distances:
40 7 0.04
41 51 0.28
42 38 0.21
43 17 0.09
44 16 0.09
45 28 0.15
46 22 0.12
47 5 0.03
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (43 bp):
TCCTTTGTCCTTCAAAGAGCAGGACGCACTTTATTTCCTTTTT
Found at i:230779 original size:88 final size:86
Alignment explanation
Indices: 230597--230800 Score: 223
Period size: 88 Copynumber: 2.3 Consensus size: 86
230587 CTTTGTTCTC
* * * * * **
230597 AAAGAGTAGGGCACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCCTTTTT
1 AAAGAGCAGGACACACTTCATTTCCTTTTTTTCCCTTTAGTCCTCAAAGAGCAGGACACCTTTTT
* *
230662 TTCTTTTTTTCCTTTATCCTT
66 CTCTCTTTTTCCTTTATCCTT
* **
230683 AAAGAGCAGGACGCACTTCATTTCCTTTTTTTCCCTTCTAGTTTTCAAAGAGCAGGACACACTTT
1 AAAGAGCAGGACACACTTCATTTCCTTTTTTTCCCTT-TAGTCCTCAAAGAGCAGGACAC-CTTT
*
230748 ATTCTC-CTTTTTCCTTTGTCCTT
64 -TTCTCTCTTTTTCCTTTATCCTT
* *
230771 GAAA-AGCAGGACACATTTAATTTCCTTTTT
1 -AAAGAGCAGGACACACTTCATTTCCTTTTT
230801 CCTTTGTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
86 32 0.33
87 17 0.17
88 42 0.43
89 7 0.07
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (86 bp):
AAAGAGCAGGACACACTTCATTTCCTTTTTTTCCCTTTAGTCCTCAAAGAGCAGGACACCTTTTT
CTCTCTTTTTCCTTTATCCTT
Found at i:232076 original size:23 final size:23
Alignment explanation
Indices: 232050--232106 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
232040 AAAAACACTT
* * *
232050 AAAAACACTATTCCATTAGTTTC
1 AAAAACACCATTCCAGTAGCTTC
* *
232073 AAAAACCCCATTCCCGTAGCTTC
1 AAAAACACCATTCCAGTAGCTTC
232096 AAAAACCACCA
1 AAAAA-CACCA
232107 CCAAAGAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.40, C:0.32, G:0.05, T:0.23
Consensus pattern (23 bp):
AAAAACACCATTCCAGTAGCTTC
Found at i:233971 original size:51 final size:51
Alignment explanation
Indices: 233911--234030 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
233901 TTATTTCTGA
* *
233911 GGGGATACTCTAACTCC-GGTTTTATTTCTAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAAC-CCTGGTTTTATTTCTAAAACACCAATTTTCCATAATC
* * *
233962 GGGGATACTCCAACCCTGGTTTTATTTCTAAAGCATCGATTTTCCATAATC
1 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTCCATAATC
234013 GGGGATACTCCAACCCTG
1 GGGGATACTCCAACCCTG
234031 TTATTTTCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 2 0.03
51 61 0.97
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTCCATAATC
Found at i:234004 original size:130 final size:129
Alignment explanation
Indices: 233832--234108 Score: 310
Period size: 130 Copynumber: 2.1 Consensus size: 129
233822 TTTTCATCTT
* * ** * * *
233832 GGGGATACGCCAGCCCCAGTTTTATTTCCAAAACATTAATTTTTCATAATCAGGGATTCTCCAA-
1 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACTCCAAC
* * * *
233896 TCTCGTTA-TTTCTGAGGGGATACTCTAACTCC-GGTTTTATTTCTAAAACACCAATTTT-TCAT
66 CCT-GTTATTTTC-GAAGGGATACTCCAAC-CCTGATTTTATTT-TAAAACACCAATTTTCT-AT
233958 AATC
126 AATC
* * * *
233962 GGGGATACTCCAACCCTGGTTTTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACTCCAAC
* *
234027 CCTGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTAAAGCACCGATTTTCTATAATC
66 CCTGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTAAAACACCAATTTTCTATAATC
**
234091 AAGGATACTCCAACCCTG
1 GGGGATACTCCAACCCTG
234109 TTATTTCCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
129 37 0.30
130 81 0.65
131 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (129 bp):
GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACTCCAAC
CCTGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTAAAACACCAATTTTCTATAATC
Found at i:234046 original size:79 final size:79
Alignment explanation
Indices: 233963--234176 Score: 315
Period size: 78 Copynumber: 2.7 Consensus size: 79
233953 TTCATAATCG
* *
233963 GGGATACTCCAACCCTGGTTTTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCTGATTTTATTTCTAAAGCATCGATTTTCCATAATCGAGGATACTCCAACC
*
234028 CTGTTATTTTCGAA
66 CTGTTATTTCCGAA
* * *
234042 GGGATACTCCAACCCTGATTTTATTT-TAAAGCACCGATTTTCTATAATCAAGGATACTCCAACC
1 GGGATACTCCAACCCTGATTTTATTTCTAAAGCATCGATTTTCCATAATCGAGGATACTCCAACC
*
234106 CTGTTATTTCCGAT
66 CTGTTATTTCCGAA
* * *
234120 GGGATACTCCAACCCCGATTTTATTTCCTAAA-CATCAATTTTTCATAATCGAGGATA
1 GGGATACTCCAACCCTGATTTTATTT-CTAAAGCATCGATTTTCCATAATCGAGGATA
234177 ATCTAGCCCC
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 71 0.59
79 45 0.38
80 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCTGATTTTATTTCTAAAGCATCGATTTTCCATAATCGAGGATACTCCAACC
CTGTTATTTCCGAA
Found at i:236875 original size:13 final size:13
Alignment explanation
Indices: 236857--236882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
236847 CAATTTTTTG
236857 TGTATCGATACAT
1 TGTATCGATACAT
236870 TGTATCGATACAT
1 TGTATCGATACAT
236883 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:236968 original size:20 final size:20
Alignment explanation
Indices: 236943--237015 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
236933 ATCTTTTTTT
236943 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
236963 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
236984 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
237004 ATGTATCGATAC
1 ATGTATCGATAC
237016 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:236994 original size:41 final size:42
Alignment explanation
Indices: 236921--237015 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
236911 CTGCCAAGAA
*
236921 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
236963 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
237004 ATGTATCGATAC
1 ATGTATCGATAC
237016 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:239488 original size:13 final size:13
Alignment explanation
Indices: 239470--239534 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
239460 ATAATCACCC
*
239470 TGTATCGATACAG
1 TGTATCGATACAA
239483 TGTATCGATACAA
1 TGTATCGATACAA
*
239496 TGTATCGATACAG
1 TGTATCGATACAA
239509 TGTATCGATACAA
1 TGTATCGATACAA
239522 TGTATCGATACAA
1 TGTATCGATACAA
239535 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:239499 original size:26 final size:26
Alignment explanation
Indices: 239470--239533 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
239460 ATAATCACCC
239470 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
239496 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
239522 TGTATCGATACA
1 TGTATCGATACA
239534 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:239545 original size:20 final size:20
Alignment explanation
Indices: 239520--239598 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
239510 GTATCGATAC
239520 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
239540 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
239565 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
239585 CATGTATCGATACA
1 AATGTATCGATACA
239599 TTTTGAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:241633 original size:15 final size:15
Alignment explanation
Indices: 241613--241643 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
241603 ATTTCGTTTG
*
241613 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
241628 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
241643 G
1 G
241644 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:245712 original size:13 final size:13
Alignment explanation
Indices: 245694--245719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
245684 CAATTTTTTG
245694 TGTATCGATACAT
1 TGTATCGATACAT
245707 TGTATCGATACAT
1 TGTATCGATACAT
245720 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:245805 original size:20 final size:20
Alignment explanation
Indices: 245780--245852 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
245770 ATCTTTTTTT
245780 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
245800 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
245821 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
245841 ATGTATCGATAC
1 ATGTATCGATAC
245853 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:245831 original size:41 final size:42
Alignment explanation
Indices: 245758--245852 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
245748 CTGCCAAGAA
*
245758 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
245800 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
245841 ATGTATCGATAC
1 ATGTATCGATAC
245853 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:248595 original size:19 final size:20
Alignment explanation
Indices: 248571--248614 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
248561 CATTTCATGG
248571 TGTATCGATACAAAG-AACA
1 TGTATCGATACAAAGCAACA
* *
248590 TGTATCGATACTAAGCAATA
1 TGTATCGATACAAAGCAACA
248610 TGTAT
1 TGTAT
248615 TGGTACATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:248745 original size:22 final size:22
Alignment explanation
Indices: 248716--248763 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
248706 CGATACTTTA
248716 ATTTATTT-TTACTTGAAAAAC
1 ATTTATTTATTACTTGAAAAAC
* *
248737 ATTTGATTTATTGCTTGAAAAAT
1 ATTT-ATTTATTACTTGAAAAAC
248760 ATTT
1 ATTT
248764 TAACTTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 15 0.65
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (22 bp):
ATTTATTTATTACTTGAAAAAC
Found at i:248771 original size:24 final size:23
Alignment explanation
Indices: 248727--248771 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
248717 TTTATTTTTA
* *
248727 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
*
248750 CTTGAAAAATATTTTAACTTAT
1 CTTGAAAAACA-TTTAACTTAT
248772 CTCTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:252501 original size:18 final size:18
Alignment explanation
Indices: 252478--252514 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
252468 CATTAACATA
252478 AACTTGTACTACTAGAAT
1 AACTTGTACTACTAGAAT
252496 AACTTGTACTACTAGAAT
1 AACTTGTACTACTAGAAT
252514 A
1 A
252515 TCTTTACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (18 bp):
AACTTGTACTACTAGAAT
Found at i:255209 original size:13 final size:13
Alignment explanation
Indices: 255191--255216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
255181 TACAGCAAGT
255191 ATGTATCGATACA
1 ATGTATCGATACA
255204 ATGTATCGATACA
1 ATGTATCGATACA
255217 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:257465 original size:21 final size:21
Alignment explanation
Indices: 257432--257476 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
257422 TTGCAAGTTG
*
257432 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
257454 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
257474 AAA
1 AAA
257477 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:259298 original size:15 final size:15
Alignment explanation
Indices: 259278--259308 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
259268 TAAAAATGTC
*
259278 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
259293 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
259308 C
1 C
259309 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:261399 original size:13 final size:13
Alignment explanation
Indices: 261381--261406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
261371 GATACATTTC
261381 TTGTATCGATACA
1 TTGTATCGATACA
261394 TTGTATCGATACA
1 TTGTATCGATACA
261407 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:263969 original size:13 final size:13
Alignment explanation
Indices: 263951--263976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263941 TACAACAAGT
263951 ATGTATCGATACA
1 ATGTATCGATACA
263964 ATGTATCGATACA
1 ATGTATCGATACA
263977 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:266692 original size:35 final size:34
Alignment explanation
Indices: 266641--266706 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
266631 CTTACACTAT
*
266641 TATCTTTTTAAAGGCTAAGATAGAACCTCTTCTC
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCTC
266675 TATCTTTTGCAAAGGCTAAGATAGAACCTCTT
1 TATCTTTT-CAAAGGCTAAGATAGAACCTCTT
266707 AATCACTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (34 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTTCTC
Found at i:267151 original size:20 final size:20
Alignment explanation
Indices: 267126--267163 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
267116 CCGTTGGGCT
**
267126 TAATGTATTGATACAATTCA
1 TAATGTATCAATACAATTCA
267146 TAATGTATCAATACAATT
1 TAATGTATCAATACAATT
267164 ATAGCCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
TAATGTATCAATACAATTCA
Found at i:267476 original size:24 final size:23
Alignment explanation
Indices: 267432--267476 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
267422 ATTATTTTTA
* *
267432 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
267455 CTTGAAAAACATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
267477 CTCTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:273554 original size:79 final size:80
Alignment explanation
Indices: 273432--273636 Score: 258
Period size: 79 Copynumber: 2.6 Consensus size: 80
273422 CATTCCCCGA
* * * *
273432 TGAAAAATTTAATATTTTGGAGATAAA-AAAGGGAGTT-GAAGTATCCCCTCAAAAATAACAGGG
1 TGAAAAA-TTAATGTTTTAGAAATAAAGACA-GGAGTTAG-AGTATCCCCTCAAAAATAACAGGG
273495 TTAGAGTATCCCCTATTG
63 TTAGAGTATCCCCTATTG
* *
273513 TGAAAAATTAATGTTTT-GAAAATAAA-ACTGGAGTTAGAGTATCCTCTCAAAAATAACAGGGTT
1 TGAAAAATTAATGTTTTAG-AAATAAAGACAGGAGTTAGAGTATCCCCTCAAAAATAACAGGGTT
*
273576 GGAGTATCCCCTATTG
65 AGAGTATCCCCTATTG
* *
273592 TGAAAAATTGATGTTTTAGAAATAAAGCCAGG-GTTAGAGTATCCC
1 TGAAAAATTAATGTTTTAGAAATAAAGACAGGAGTTAGAGTATCCC
273637 TGATTGTGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
79 82 0.75
80 21 0.19
81 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (80 bp):
TGAAAAATTAATGTTTTAGAAATAAAGACAGGAGTTAGAGTATCCCCTCAAAAATAACAGGGTTA
GAGTATCCCCTATTG
Found at i:273636 original size:51 final size:51
Alignment explanation
Indices: 273569--273668 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
273559 TCAAAAATAA
* *
273569 CAGGGTTGGAGTATCCCCT-ATTGTGAAAAAT-TGATGTTTTAGAAATAAAGC
1 CAGGGTTAGAGTAT-CCCTGATTGTGAAAAATCAG-TGTTTTAGAAATAAAGC
273620 CAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAA
1 CAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAA
273669 AATCGAGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 4 0.09
51 40 0.89
52 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
CAGGGTTAGAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAGC
Found at i:273707 original size:28 final size:28
Alignment explanation
Indices: 273675--273743 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
273665 TAAAAATCGA
* *
273675 GGTTGGAGTATCCCCTCAAA-TATAATGG
1 GGTTGGAGTATCCCCT-AAACAATAACGG
*
273703 GGTTGGAGTATCCTCTAAACAATAACGG
1 GGTTGGAGTATCCCCTAAACAATAACGG
273731 GGTTGGA-TATCCC
1 GGTTGGAGTATCCC
273744 TGATTATGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTAAACAATAACGG
Found at i:273784 original size:158 final size:158
Alignment explanation
Indices: 273549--273872 Score: 390
Period size: 158 Copynumber: 2.1 Consensus size: 158
273539 ACTGGAGTTA
* *
273549 GAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCTATTGTGAAAAATTGATGTTTTAGAAA
1 GAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCTATTATGAAAAATCGATGTTTTAGAAA
* * * * *
273614 TAAAGCCAGGGTTAGAGTATCCCT-GATTGTGAAAAATC-AGTGTTTTAGAAATAAAAATCGAGG
66 TAAAACCAGGGTTAGAGTAT-CCTAGATTATGAAAAATCGA-TGTTATAGAAAT-AAAACCAAGG
*
273677 TTGGAGTATCCCCTCA-AATATAATGGGGTTG
128 TTGGAGTATCCCCTCAGAA-ATAACGGGGTTG
* * * *
273708 GAGTATCCTCT-AAACAATAACGGGGTTGGA-TAT-CCCTGATTATGGAAAATCGGTGTTTTGGA
1 GAGTATCCTCTCAAA-AATAACAGGGTTGGAGTATCCCCT-ATTATGAAAAATCGATGTTTTAGA
** * *
273770 AATAAAACTGGGGTTGGAGTATCCTAGATTATGGAAAATCGATGTTATAGAAATAAAACCAAGGT
64 AATAAAACCAGGGTTAGAGTATCCTAGATTATGAAAAATCGATGTTATAGAAATAAAACCAAGGT
*
273835 TGGAGTGTCCCCTCAGAAATAACGGGGTTG
129 TGGAGTATCCCCTCAGAAATAACGGGGTTG
*
273865 GGGTATCC
1 GAGTATCC
273873 CCAATTATTA
Statistics
Matches: 142, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
157 48 0.34
158 68 0.48
159 26 0.18
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (158 bp):
GAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCTATTATGAAAAATCGATGTTTTAGAAA
TAAAACCAGGGTTAGAGTATCCTAGATTATGAAAAATCGATGTTATAGAAATAAAACCAAGGTTG
GAGTATCCCCTCAGAAATAACGGGGTTG
Found at i:273787 original size:50 final size:51
Alignment explanation
Indices: 273729--273828 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
273719 AAACAATAAC
* * *
273729 GGGGTTGGA-TATCCCT-GATTATGGAAAATCGGTGTTTTGGAAATAAAACT
1 GGGGTTGGAGTAT-CCTAGATTATGGAAAATCGATGTTATAGAAATAAAACT
273779 GGGGTTGGAGTATCCTAGATTATGGAAAATCGATGTTATAGAAATAAAAC
1 GGGGTTGGAGTATCCTAGATTATGGAAAATCGATGTTATAGAAATAAAAC
273829 CAAGGTTGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 12 0.27
51 33 0.73
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCTAGATTATGGAAAATCGATGTTATAGAAATAAAACT
Found at i:273836 original size:51 final size:51
Alignment explanation
Indices: 273731--273845 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
273721 ACAATAACGG
* * * ***
273731 GGTTGGA-TATCCCTGATTATGGAAAATCGGTGTTTTGGAAATAAAACTGG
1 GGTTGGAGTATCCCTGATTATGGAAAATCGATGTTATAGAAATAAAACCAA
273781 GGTTGGAGTAT-CCTAGATTATGGAAAATCGATGTTATAGAAATAAAACCAA
1 GGTTGGAGTATCCCT-GATTATGGAAAATCGATGTTATAGAAATAAAACCAA
*
273832 GGTTGGAGTGTCCC
1 GGTTGGAGTATCCC
273846 CTCAGAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 10 0.18
51 43 0.78
52 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCTGATTATGGAAAATCGATGTTATAGAAATAAAACCAA
Found at i:276140 original size:50 final size:50
Alignment explanation
Indices: 276057--276189 Score: 178
Period size: 50 Copynumber: 2.7 Consensus size: 50
276047 CAAAATGCCT
* * * *
276057 AAATATATCGATAC-ATTAAGAAATGTATTGATACATTTGGGTAAAACCCA
1 AAATGTATCGATACAATGAAG-AATGTATCGATACATCTGGGTAAAACCCA
* *
276107 GAATGTATCGATACAATGAAGAATGTATCGATACATCTGGTTAAAACCCA
1 AAATGTATCGATACAATGAAGAATGTATCGATACATCTGGGTAAAACCCA
* *
276157 AAATGTATCGATACAATGAAGGATTTATCGATA
1 AAATGTATCGATACAATGAAGAATGTATCGATA
276190 AAAATTATGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 68 0.93
51 5 0.07
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (50 bp):
AAATGTATCGATACAATGAAGAATGTATCGATACATCTGGGTAAAACCCA
Found at i:279056 original size:81 final size:80
Alignment explanation
Indices: 278900--279226 Score: 321
Period size: 77 Copynumber: 4.1 Consensus size: 80
278890 TGAAAATCAA
* * * * * *
278900 GGTTGAAGTATCCCTTGAGATGAAAATTTTGATGTTTTGAAAAATAAAAATAGGGTTAGAGTATC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTTT-AGAAATAAAAACAGGGTTGGAGTATC
* *
278965 CCTTCAGAAATTATGG
65 CCTTCGGAAATGATGG
* * * * *
278981 GGCTAGAGTATCCCTAGAGATGAAGAAATTTAATGTTTTAGAAGTAAAAACAGGGTTGGAGTTTC
1 GGTTGGAGTATCCCTAGAGATGAA-AAATTTGATGTTTTAGAAATAAAAACAGGGTTGGAGTAT-
279046 CCCTT-GGAAATGATGG
64 CCCTTCGGAAATGATGG
* * ** * *
279062 GGTTGGAGTAT-CCTCGAGATG-AAAATTTGGTGTTTGGGAAATAAAAACATGGTTGTAGTAT-C
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTTTAGAAATAAAAACAGGGTTGGAGTATCC
*
279124 CTTCGGTAATGATGG
66 CTTCGGAAATGATGG
* ** * *
279139 GGTTGGAGTATCCCCA-AGATGAAAAATTTGATGTTTGGGAAAT-AAGACGGGGTTGGAGTATTC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTTTAGAAATAAAAACAGGGTTGGAGTA-TC
279202 CC--C-GACAATGATGG
65 CCTTCGGA-AATGATGG
279216 GGTTGGAGTAT
1 GGTTGGAGTAT
279227 TCCCGCGACA
Statistics
Matches: 205, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
76 5 0.02
77 59 0.29
78 54 0.26
79 3 0.01
80 9 0.04
81 58 0.28
82 17 0.08
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (80 bp):
GGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTTTAGAAATAAAAACAGGGTTGGAGTATCC
CTTCGGAAATGATGG
Found at i:279225 original size:27 final size:28
Alignment explanation
Indices: 279187--279254 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
279177 GAAATAAGAC
*
279187 GGGGTTGGAGTATTCCC-CGACAATGAT
1 GGGGTTGGAGTATTCCCGCGACAATAAT
279214 GGGGTTGGAGTATTCCCGCGACAATAAT
1 GGGGTTGGAGTATTCCCGCGACAATAAT
*
279242 GGGGTTAGAGTAT
1 GGGGTTGGAGTAT
279255 CCTCAAGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAGTATTCCCGCGACAATAAT
Found at i:279245 original size:105 final size:104
Alignment explanation
Indices: 279135--279332 Score: 308
Period size: 105 Copynumber: 1.9 Consensus size: 104
279125 TTCGGTAATG
* *
279135 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTGATGTTTGGGAAATAAGACGGGGTTGGAGTAT
1 ATGGGGTTAGAGTATCCCCAAGATGAAAAATTTGATGTTTGGAAAATAAGACGGGGTTGGAGTA-
*
279200 TCCCC-GACAATGATGGGGTTGGAGTATTCCCGCGACAATA
65 TCCCCTGA-AATGATGGGATTGGAGTATTCCCGCGACAATA
* *
279240 ATGGGGTTAGAGTATCCTCAAGATGAAAAATTTGGTGTTTGGAAAATAAGACGGGGTTGGAGTAT
1 ATGGGGTTAGAGTATCCCCAAGATGAAAAATTTGATGTTTGGAAAATAAGACGGGGTTGGAGTAT
279305 CCCCTTAGAAATGATGGGATTGGAGTAT
66 CCCC-T-GAAATGATGGGATTGGAGTAT
279333 CCTCGAGATG
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
104 5 0.06
105 60 0.71
106 18 0.21
107 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (104 bp):
ATGGGGTTAGAGTATCCCCAAGATGAAAAATTTGATGTTTGGAAAATAAGACGGGGTTGGAGTAT
CCCCTGAAATGATGGGATTGGAGTATTCCCGCGACAATA
Found at i:279303 original size:50 final size:50
Alignment explanation
Indices: 279137--279308 Score: 143
Period size: 50 Copynumber: 3.3 Consensus size: 50
279127 CGGTAATGAT
* *
279137 GGGGTTGGAGTATCCCCAAGATGAAAAATTTGATGTTTGGGAAATAAGAC
1 GGGGTTGGAGTATCCCCAAGATGAAAAATTTGGTGTTTGGAAAATAAGAC
***** * * *
279187 GGGGTTGGAGTATTCCCCGACA-ATGATGGGGTTGGAGTATTCCCGCGACAAT-A-AT
1 GGGGTTGGAGTA-TCCCC-A-AGATGAAAAATTTGGTGT-TT---G-GAAAATAAGAC
* *
279242 GGGGTTAGAGTATCCTCAAGATGAAAAATTTGGTGTTTGGAAAATAAGAC
1 GGGGTTGGAGTATCCCCAAGATGAAAAATTTGGTGTTTGGAAAATAAGAC
279292 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
279309 TTAGAAATGA
Statistics
Matches: 89, Mismatches: 22, Indels: 22
0.67 0.17 0.17
Matches are distributed among these distances:
48 5 0.06
49 2 0.02
50 28 0.31
51 5 0.06
52 13 0.15
53 14 0.16
54 4 0.04
55 12 0.13
56 2 0.02
57 4 0.04
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.26
Consensus pattern (50 bp):
GGGGTTGGAGTATCCCCAAGATGAAAAATTTGGTGTTTGGAAAATAAGAC
Found at i:279343 original size:78 final size:78
Alignment explanation
Indices: 279214--279357 Score: 209
Period size: 78 Copynumber: 1.8 Consensus size: 78
279204 CGACAATGAT
* * *
279214 GGGGTTGGAGTATTCCCGCGACAATAATGGGGTTAGAGTATCCTCAAGATGAAAAATTTGGTGTT
1 GGGGTTGGAGTATCCCCGAGACAATAATGGGATTAGAGTATCCTCAAGATGAAAAATTTGGTGTT
279279 TGGAAAATAAGAC
66 TGGAAAATAAGAC
* * * *
279292 GGGGTTGGAGTATCCCCTTAGA-AATGATGGGATTGGAGTATCCTCGAGATGAAAAATTTGGTGT
1 GGGGTTGGAGTATCCCC-GAGACAATAATGGGATTAGAGTATCCTCAAGATGAAAAATTTGGTGT
279356 TT
65 TT
279358 TAGAAGTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 56 0.97
79 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGAGACAATAATGGGATTAGAGTATCCTCAAGATGAAAAATTTGGTGTT
TGGAAAATAAGAC
Found at i:281036 original size:20 final size:20
Alignment explanation
Indices: 281011--281087 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
281001 TTTTACACAG
281011 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
281031 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
281051 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
281071 ATGTATCGATATATTTT
1 ATGTATCGATACATTTT
281088 GTTTTTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:296402 original size:30 final size:28
Alignment explanation
Indices: 296326--296859 Score: 566
Period size: 28 Copynumber: 18.3 Consensus size: 28
296316 CACACAAATT
*
296326 AGTGGCACCCCTTCCAAAGCCCACAAGTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* **
296355 AGTGGCACCCGTTCAAAGCTTACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
296383 AGTGGCAATCTCTTTCAAAGCCCACAAGTC
1 AGTGGC-A-CCCTTTCAAAGCCCACAAGTC
*
296413 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
296441 AGTGGCATACCCTTTCAAAGCCCACACAAATC
1 AGTGGC--ACCCTTTCAAAG-CC-CACAAGTC
*
296473 AGTGGCACCCCTTCTAAAGCCCACAAGTC
1 AGTGGCACCCTTTC-AAAGCCCACAAGTC
296502 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * * *
296530 AATGGTATCTCTTTAAAAGACCACAAGTT
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
*
296559 AGTGGCACCCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
296587 AATGGCATACCCTTTCAAAGCCCACACAAATC
1 AGTGGC--ACCCTTTCAAAG-CC-CACAAGTC
* *
296619 AGTGGCACCCTTCCAAAGCCCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
296647 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
296675 AATGGCACCCTTTTAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
296703 AGTGGTACCCCTTCAAAACCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
296731 -GATGGCATCCTTTCAAAGCCCACAATTC
1 AG-TGGCACCCTTTCAAAGCCCACAAGTC
* *
296759 AGTGGCATACCCTTTCAAAGCCTACAAGTT
1 AGTGGC--ACCCTTTCAAAGCCCACAAGTC
* *
296789 GGTGGCACCCTTTTAAAGCCCACACAAGTC
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
* * *
296819 GGTGGCAACTCTTTTCAAAGCCCACACAAGTT
1 AGTGGC-AC-CCTTTCAAAG-CC-CACAAGTC
296851 AGTGGCACC
1 AGTGGCACC
296860 TTTTTTTAAA
Statistics
Matches: 428, Mismatches: 57, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.00
28 209 0.49
29 56 0.13
30 102 0.24
31 12 0.03
32 48 0.11
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:296404 original size:58 final size:56
Alignment explanation
Indices: 296326--296859 Score: 566
Period size: 58 Copynumber: 9.2 Consensus size: 56
296316 CACACAAATT
* * **
296326 AGTGGCACCCCTTCCAAAGCCCACAAGTCAGTGGCACCCGTTCAAAGCTTACAAGTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* *
296383 AGTGGCAATCTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGC-A-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* *
296441 AGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGCACCCCTTCTAAAGCCCACAAGTC
1 AGTGGC--ACCCTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTC
* * * * * *
296502 AGTGGCACCCTTTCAAAGCCCACAAGTCAATGGTATCTCTTTAAAAGACCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * *
296559 AGTGGCACCCTTTCAAAGCCCACAAGTTAATGGCATACCCTTTCAAAGCCCACACAAATC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAAG-CC-CACAAGTC
* *
296619 AGTGGCACCCTTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * *
296675 AATGGCACCCTTTTAAAGCCCACAAGTCAGTGGTACCCCTTCAAAACCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
296731 -GATGGCATCCTTTCAAAGCCCACAATTCAGTGGCATACCCTTTCAAAGCCTACAAGTT
1 AG-TGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACAAGTC
* * * * *
296789 GGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTT
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTC
296851 AGTGGCACC
1 AGTGGCACC
296860 TTTTTTTAAA
Statistics
Matches: 404, Mismatches: 54, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
56 84 0.21
57 64 0.16
58 119 0.29
59 22 0.05
60 78 0.19
61 22 0.05
62 15 0.04
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (56 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:297798 original size:20 final size:20
Alignment explanation
Indices: 297773--297869 Score: 135
Period size: 20 Copynumber: 4.8 Consensus size: 20
297763 TTTTACCTAG
297773 ATGTATCGATACACTT-TTCA
1 ATGTATCGATACA-TTCTTCA
* * *
297793 ATGTATTGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
297813 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
297833 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
297853 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
297870 GTCTTTTTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.03
20 67 0.97
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:298634 original size:17 final size:17
Alignment explanation
Indices: 298612--298651 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
298602 TCACTTGCTG
298612 ATTTTAATATTCTCATC
1 ATTTTAATATTCTCATC
*
298629 ATTTTATTATTCTCATC
1 ATTTTAATATTCTCATC
298646 ATTTTA
1 ATTTTA
298652 GTGAGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTAATATTCTCATC
Found at i:301645 original size:62 final size:62
Alignment explanation
Indices: 301544--301740 Score: 200
Period size: 62 Copynumber: 3.1 Consensus size: 62
301534 TTAGATCCTA
* * * *
301544 GTCATCTTTGTTTGATTGTATCAGTTTTACCTTGGTCAACCCTCTAGACCTAGGTTGCAT-TGTG
1 GTCATCCTTGTTTG-CTGTATCAG-TTTACCCTAGTCAACCCTCTAGACCTAGGTTGCATCT-TG
* *
301608 GTCATCCTTGTTT-CTGTATCAGTTTCACCCTAGTCAACTCTTTAGACCTAGGATTGCATCTTG
1 GTCATCCTTGTTTGCTGTATCAGTTT-ACCCTAGTCAACCCTCTAGACCTAGG-TTGCATCTTG
* * * * ** *
301671 GTTATCTTTGTTTGGTTGTATCGGTTTTGCCTAAGTCAACCCTCTAGACCTAGGTTACATCTTG
1 GTCATCCTTGTTT-GCTGTATCAGTTTACCCT-AGTCAACCCTCTAGACCTAGGTTGCATCTTG
301735 GTCATC
1 GTCATC
301741 TTTGCTTGAC
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
61 3 0.03
62 30 0.27
63 19 0.17
64 30 0.27
65 29 0.26
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (62 bp):
GTCATCCTTGTTTGCTGTATCAGTTTACCCTAGTCAACCCTCTAGACCTAGGTTGCATCTTG
Found at i:302576 original size:64 final size:64
Alignment explanation
Indices: 301531--302577 Score: 513
Period size: 64 Copynumber: 16.4 Consensus size: 64
301521 TCTCTAACTA
* * * * * * *
301531 AGGTTAGATCCTAGTCATCTTTGTTTGATTGTATCAGTTTTACCTTGGTCAACCCTCTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* ** * * * ** * *
301595 AGGTTGCATTGTGGTCATCCTTG-TT-TCTGTATCAGTTTCACCCTAGTCAACTCTTTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * *** * * *
301657 AGGATTGCATCTTGGTTATCTTTGTTTGGTTGTATCGGTTTTG-CCTAAGTCAACCCTCTAGACC
1 AGG-TTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCT-GGTCAACCCTTTAGACC
301721 T
64 T
* * * * ** * * *
301722 AGGTTACATCTTGGTCATCTTTGCTTGACTATATTGGTTTTGCCCTGGTTAACACTTTAGTCCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * ** * ** * *
301786 AGGTTACATCCTATTCATCATTGTTTAACTGTATC-GATTTCACCCGGGTTTACCCTTCAAACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAG-TTTTGCCCTGGTCAACCCTTTAGACC-
301850 T
64 T
*** * * * ** * * *
301851 ATACTACATCCTAGTCATCCTTGTTTGACCATATCAGTTTTGTCTTGGTCAACCCTCTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * * *
301915 AAGTTACAT-CTTGTCCATCTTTGCTTAACTATATCGGTTCTACCCTAGTCAACCTTTTA-AGCC
1 AGGTTACATCCTAGT-CATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGA-CC
301978 T
64 T
* * ** * ** * * * * **
301979 AGGTTATATCCTAGTCAACTTCACTTGACTACATC-G--AT-CCTTGATCAACCTTTTAGATTT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
** * * * * * * * *
302039 AGGTTACATTTTGGCCATCTTTGC-TAGACTATA-CCGATTTTGTCCTAGTCAAGCCTCTAGACC
1 AGGTTACATCCTAGTCATCTTTGCTTA-ACTGTATCAG-TTTTGCCCTGGTCAACCCTTTAGACC
302102 T
64 T
* * * * * * * * * * * *
302103 AGATTACATCATTGCCATCCTTGTTTGACTTTATCAATTTTGCCTTGGTCAATCTTTTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * * * *** *
302167 AAGTTACATCTTAGTCGT-TTTGGTTAACTATATCAATTCTGCCCTTGTCAATGTTTTAGACTT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * * * ** *
302230 AGGTTATATCTTGGTCATCCTTGCTTGACTGTATCAATTCTGCCTTAATCAACCCCTTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * *
302294 AGGTTACACCCTAATCATCTTTGCTTAACTGTATTAGTTTTGCCTTGGTCAACCCTCTAGACAT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * * * * *
302358 AGGTTATACCCTAGTCATCCTTGTTTGACTCTATCGGTTTTGCTCTGTTGAACCCTTTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * *
302422 AGATTACATCCTGGTTATCTTTGCTTAACTGTGTC-GATTTGGTCCTAGTCAACCCTTTAGACCT
1 AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAG-TTTTGCCCTGGTCAACCCTTTAGACCT
* * * * * * *
302486 AGGTTATAT-TTCGATCATCTTCGCTTAACTGTATTAGTTTTACCCTGGTCAACCCTTTAGACTT
1 AGGTTACATCCTAG-TCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
302550 AGGTTACATCCTAGTCATCTTTGCTTAA
1 AGGTTACATCCTAGTCATCTTTGCTTAA
302578 TTATATTGCT
Statistics
Matches: 729, Mismatches: 229, Indels: 50
0.72 0.23 0.05
Matches are distributed among these distances:
59 2 0.00
60 37 0.05
61 2 0.00
62 33 0.05
63 79 0.11
64 490 0.67
65 85 0.12
66 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (64 bp):
AGGTTACATCCTAGTCATCTTTGCTTAACTGTATCAGTTTTGCCCTGGTCAACCCTTTAGACCT
Found at i:303401 original size:23 final size:22
Alignment explanation
Indices: 303354--303404 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
303344 TAGTTAAATT
* *
303354 TATTTTAGATTTTAAAATTTCA
1 TATTTTACATTTTAAAATTTAA
303376 TATTTTACATTTTTAATAA-TTAA
1 TATTTTACA-TTTTAA-AATTTAA
303399 TATTTT
1 TATTTT
303405 GAGTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 15 0.60
24 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTACATTTTAAAATTTAA
Found at i:304769 original size:21 final size:20
Alignment explanation
Indices: 304745--304783 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
304735 TAATTTGTAT
304745 TGATATAATAAGTGAATGTGC
1 TGATA-AATAAGTGAATGTGC
*
304766 TGATACATAAGTGAATGT
1 TGATAAATAAGTGAATGT
304784 ATCGATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (20 bp):
TGATAAATAAGTGAATGTGC
Found at i:306907 original size:13 final size:13
Alignment explanation
Indices: 306889--306914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306879 TACAGCAAGT
306889 ATGTATCGATACA
1 ATGTATCGATACA
306902 ATGTATCGATACA
1 ATGTATCGATACA
306915 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:308626 original size:82 final size:80
Alignment explanation
Indices: 308490--308962 Score: 259
Period size: 80 Copynumber: 6.0 Consensus size: 80
308480 TTTAACCCCG
* * * **
308490 TTTTTACTTCTAAAATGTC-AATTTTTTTTATCTTTTAACCATACTCCAACCCCACTATCTCTGA
1 TTTTTACTTCTAAAATGTCTAA-ATTTTTCATC-TTTGAGGATACTCCAACCCCACTATCTCTGA
*
308554 GAGGATACTCCAAGCCCT
64 GAGGATACTCCAA-CCCA
* *
308572 TTTTTACTTCTAAAAT-TCTAAATTTTTTTTATCTTTGGGGATACTCCAA-CCC-C-A---C-GA
1 TTTTTACTTCTAAAATGTCTAAA--TTTTTCATCTTTGAGGATACTCCAACCCCACTATCTCTGA
*
308629 GAGGATACTTCAACCCTA
64 GAGGATACTCCAACCC-A
* * * * *
308647 ATTTTACTTC-AAAGTGT-TGAATTTTTCATCTTTGGGGATACTCCATCCCCACTATCT-TCGAG
1 TTTTTACTTCTAAAATGTCTAAATTTTTCATCTTTGAGGATACTCCAACCCCACTATCTCT-GAG
308709 -GGAATACTCCAACCTCA
65 AGG-ATACTCCAACC-CA
* ** * * ** * * *
308726 TTTTTACTTCCAAAA-CACCAAATATTTCATCTCCGAGGATACTCCAACCCTACCATTTCTGAGA
1 TTTTTACTTCTAAAATGTCTAAATTTTTCATCTTTGAGGATACTCCAACCCCACTATCTCTGAGA
308790 GGATACTCCAACCCCA
66 GGATACTCCAA-CCCA
* * * * ** *
308806 TTTTTACTTTCGAAACA--TC-GAATTTTTCATCTCT-AGGGATAC-CTTAACATCATTATCTCT
1 TTTTTAC-TTCTAAA-ATGTCTAAATTTTTCATCTTTGA-GGATACTC-CAACCCCACTATCTCT
* *
308866 GAAAGGATACTCCAACCACG
62 GAGAGGATACTCCAACC-CA
* * ** * * * * * *
308886 TTTTTACTTCCAGAA-CACCAAATTTTACATCTCT-AGTGATACTCCAATCCCACCATCTCTGAA
1 TTTTTACTTCTAAAATGTCTAAATTTTTCATCTTTGAG-GATACTCCAACCCCACTATCTCTGAG
*
308949 AGGATACTACAACC
65 AGGATACTCCAACC
308963 TCGGTTTTCA
Statistics
Matches: 309, Mismatches: 53, Indels: 60
0.73 0.13 0.14
Matches are distributed among these distances:
72 23 0.07
73 3 0.01
74 11 0.04
75 25 0.08
76 1 0.00
78 3 0.01
79 35 0.11
80 150 0.49
81 18 0.06
82 31 0.10
83 9 0.03
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (80 bp):
TTTTTACTTCTAAAATGTCTAAATTTTTCATCTTTGAGGATACTCCAACCCCACTATCTCTGAGA
GGATACTCCAACCCA
Found at i:308637 original size:75 final size:72
Alignment explanation
Indices: 308552--308698 Score: 181
Period size: 72 Copynumber: 2.0 Consensus size: 72
308542 CACTATCTCT
* *
308552 GAGAGGATACTCCAAGCCCT-TTTTTACTTCTAAAAT-TCTAAATTTTTTTTATCTTTGGGGATA
1 GAGAGGATACTCCAA-CCCTAATTTTACTTC-AAAATGT-TAAA--TTTTTCATCTTTGGGGATA
308615 CTCCAACCCCAC
61 CTCCAACCCCAC
* * *
308627 GAGAGGATACTTCAACCCTAATTTTACTTCAAAGTGTTGAATTTTTCATCTTTGGGGATACTCCA
1 GAGAGGATACTCCAACCCTAATTTTACTTCAAAATGTTAAATTTTTCATCTTTGGGGATACTCCA
*
308692 TCCCCAC
66 ACCCCAC
308699 TATCTTCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
72 29 0.45
74 11 0.17
75 24 0.38
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (72 bp):
GAGAGGATACTCCAACCCTAATTTTACTTCAAAATGTTAAATTTTTCATCTTTGGGGATACTCCA
ACCCCAC
Found at i:308796 original size:80 final size:78
Alignment explanation
Indices: 308712--308964 Score: 260
Period size: 80 Copynumber: 3.2 Consensus size: 78
308702 CTTCGAGGGA
*
308712 ATACTCCAACCTCATTTTTACTTCCAAAACACCAAATATTTCATCTCCGAGGATACTCCAACCCT
1 ATACTCCAACCTCATTTTTACTTCCAAAACACCAAAT-TTTCATCT-CTAGGATACTCCAACCCT
* *
308777 ACCATTTCTGAGAGG
64 ACCATCTCTGAAAGG
* * * * * * *
308792 ATACTCCAACCCCATTTTTACTTTCGAAACATCGAATTTTTCATCTCTAGGGATAC-CTTAA-CA
1 ATACTCCAACCTCATTTTTACTTCCAAAACA-CCAAATTTTCATCTCTA-GGATACTC-CAACCC
**
308855 TCATTATCTCTGAAAGG
63 T-ACCATCTCTGAAAGG
* * *
308872 ATACTCCAACCACGTTTTTACTTCCAGAACACCAAATTTTACATCTCTAGTGATACTCCAATCCC
1 ATACTCCAACCTCATTTTTACTTCCAAAACACCAAATTTT-CATCTCTAG-GATACTCCAA-CCC
308937 -ACCATCTCTGAAAGG
63 TACCATCTCTGAAAGG
*
308952 ATACTACAACCTC
1 ATACTCCAACCTC
308965 GGTTTTCACC
Statistics
Matches: 139, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
79 13 0.09
80 120 0.86
81 5 0.04
82 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (78 bp):
ATACTCCAACCTCATTTTTACTTCCAAAACACCAAATTTTCATCTCTAGGATACTCCAACCCTAC
CATCTCTGAAAGG
Found at i:311304 original size:20 final size:20
Alignment explanation
Indices: 311279--311316 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
311269 TTTATTAATA
*
311279 TTTTTTAATAAAATTAAAAT
1 TTTTTTAAAAAAATTAAAAT
311299 TTTTTTAAAAAAATTAAA
1 TTTTTTAAAAAAATTAAA
311317 GCAATATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTTTAAAAAAATTAAAAT
Found at i:317664 original size:20 final size:19
Alignment explanation
Indices: 317635--317672 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
317625 TTAATTACAA
317635 AATTTATATTTTATAATAT
1 AATTTATATTTTATAATAT
317654 AATTATATATTTTATAATA
1 AATT-TATATTTTATAATA
317673 CTAGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTATATTTTATAATAT
Found at i:319015 original size:97 final size:96
Alignment explanation
Indices: 318791--319015 Score: 249
Period size: 97 Copynumber: 2.3 Consensus size: 96
318781 TCGGAAGATA
* * *
318791 GGGGTCGGAGTATCCTCGATAATGATAATTTAGACAAAAATAACATTTAAATCGTGACAAGTTTA
1 GGGGTTGGAGTATCCTCGATAAT-AAAATTTAAACAAAAATAACATTTAAATCGTGACAAGTTTA
* *
318856 AAAATAGGATTGAAGTATCCCCTTCAAAAAAT
65 AAAACAAGATTGAAGTATCCCCTTCAAAAAAT
* * * * * * * *
318888 AGGATTAGAGTATCCCCAATGATAGCAATTTAAACAAAAATAAGATTTAAATC-TCGACAAGTTT
1 GGGGTTGGAGTATCCTCGATAATA-AAATTTAAACAAAAATAACATTTAAATCGT-GACAAGTTT
*
318952 AAAAACAATATT-AGAGTATCCCC-TCAAAAGAAT
64 AAAAACAAGATTGA-AGTATCCCCTTCAAAA-AAT
318985 GGGGTTGGAGTATCCTCGATAAATAAAATTT
1 GGGGTTGGAGTATCCTCGAT-AATAAAATTT
319016 TAATATTTTT
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
96 9 0.09
97 91 0.88
98 3 0.03
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (96 bp):
GGGGTTGGAGTATCCTCGATAATAAAATTTAAACAAAAATAACATTTAAATCGTGACAAGTTTAA
AAACAAGATTGAAGTATCCCCTTCAAAAAAT
Found at i:321381 original size:20 final size:20
Alignment explanation
Indices: 321356--321410 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
321346 ATATTTTAGA
*
321356 TATGTATTTATACATTCACT
1 TATGTATTAATACATTCACT
* *
321376 TATGTATCAATACATTCAGT
1 TATGTATTAATACATTCACT
*
321396 TATTGTATTGATACA
1 TA-TGTATTAATACA
321411 AATTATAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (20 bp):
TATGTATTAATACATTCACT
Found at i:322014 original size:21 final size:21
Alignment explanation
Indices: 321990--322041 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
321980 TTAACTCACC
321990 AAATGTTTTCTAGATAAGTAT
1 AAATGTTTTCTAGATAAGTAT
322011 AAATGTTTTCTAGATAAGTAT
1 AAATGTTTTCTAGATAAGTAT
322032 AAATGTTTTC
1 AAATGTTTTC
322042 AAGACTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTTTTCTAGATAAGTAT
Found at i:322212 original size:13 final size:13
Alignment explanation
Indices: 322194--322218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
322184 AGATTTCACA
322194 GTATCGATACATT
1 GTATCGATACATT
322207 GTATCGATACAT
1 GTATCGATACAT
322219 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:322231 original size:20 final size:21
Alignment explanation
Indices: 322206--322258 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
322196 ATCGATACAT
*
322206 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
322226 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
322247 TGTATCGATACA
1 TGTATCGATACA
322259 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:322337 original size:13 final size:13
Alignment explanation
Indices: 322319--322344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
322309 ACACACAAGA
322319 TGTATCGATACAT
1 TGTATCGATACAT
322332 TGTATCGATACAT
1 TGTATCGATACAT
322345 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:322340 original size:32 final size:33
Alignment explanation
Indices: 322299--322366 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
322289 CCTTGACTGT
*
322299 TTGTATCGATACA-CACAAGATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
* *
322331 TTGTATCGATACATCCCAAAATGTATCTATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
322364 TTG
1 TTG
322367 GCTTGTAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:328211 original size:13 final size:13
Alignment explanation
Indices: 328193--328218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328183 CTATTTATGA
328193 TGTATCGATACAC
1 TGTATCGATACAC
328206 TGTATCGATACAC
1 TGTATCGATACAC
328219 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Done.