Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1479039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1792 original size:18 final size:21
Alignment explanation
Indices: 1770--1808 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1760 GATTTCCTTG
1770 TTTT-TCTTTTT-TTCTTCAC
1 TTTTGTCTTTTTATTCTTCAC
1789 TTTTGTCTTTTTATTCTTCA
1 TTTTGTCTTTTTATTCTTCA
1809 TCTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTGTCTTTTTATTCTTCAC
Found at i:7679 original size:20 final size:20
Alignment explanation
Indices: 7640--7676 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7630 ATAGCGCTTT
7640 ACCGGTTTTGTCATATTTAA
1 ACCGGTTTTGTCATATTTAA
7660 ACCGGTTTT-TCATATTT
1 ACCGGTTTTGTCATATTT
7677 TAACTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (20 bp):
ACCGGTTTTGTCATATTTAA
Found at i:9168 original size:2 final size:2
Alignment explanation
Indices: 9157--9230 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
9147 ATTAATCAAT
9157 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9231 CTTAATGATA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 68 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11874 original size:12 final size:13
Alignment explanation
Indices: 11848--11876 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11838 TTAAAAGAGA
11848 AAAAAATTAATTT
1 AAAAAATTAATTT
11861 AAAAAATTAA-TT
1 AAAAAATTAATTT
11873 AAAA
1 AAAA
11877 TAAAGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATTAATTT
Found at i:35584 original size:15 final size:15
Alignment explanation
Indices: 35561--35595 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35551 TTCTCTTCAT
*
35561 TTCTTTCTCATTTTC
1 TTCTCTCTCATTTTC
35576 TTCTCTCTCATTTTC
1 TTCTCTCTCATTTTC
*
35591 CTCTC
1 TTCTC
35596 AAAGTGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTCTCTCATTTTC
Found at i:38027 original size:19 final size:21
Alignment explanation
Indices: 38000--38042 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
37990 CACTCATCGT
*
38000 TGTATTACTTGCATCGA-TTA
1 TGTATTACTTGCATAGATTTA
38020 TGTA-TACTTGCATAGATTTA
1 TGTATTACTTGCATAGATTTA
38040 TGT
1 TGT
38043 GTCACGCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTATTACTTGCATAGATTTA
Found at i:43861 original size:8 final size:8
Alignment explanation
Indices: 43848--43897 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
43838 CAAAAATATT
43848 TTATTATA
1 TTATTATA
43856 TTATTA-A
1 TTATTATA
43863 TTAATTA-A
1 TT-ATTATA
*
43871 TTAATATTA
1 TTATTA-TA
43880 TTATTATA
1 TTATTATA
43888 TTATT-TA
1 TTATTATA
43895 TTA
1 TTA
43898 ATTTTTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
7 11 0.30
8 20 0.54
9 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:43897 original size:24 final size:24
Alignment explanation
Indices: 43854--43899 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
43844 TATTTTATTA
43854 TATTATTAATTAATTAATTAATAT
1 TATTATTAATTAATTAATTAATAT
*
43878 TATTATTATATT-ATTTATTAAT
1 TATTATTA-ATTAATTAATTAAT
43900 TTTTTTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATTAATTAATTAATTAATAT
Found at i:62440 original size:85 final size:85
Alignment explanation
Indices: 62331--62720 Score: 471
Period size: 85 Copynumber: 4.6 Consensus size: 85
62321 TGAGAACCAA
* * *
62331 AAACGCCGCAAAAAATCTATATCTATAGCGGCGTTTTTGGA-ACAAACGCGACAAAAGGTCGAGA
1 AAACGCCACAAAAAGTC-ATATCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTC-AGA
* *
62395 TCTATAGCGACGTTTTTGGAAC
64 TCTATAGCGGCATTTTTGGAAC
* * * * *
62417 AAACACCACAAAAAATCATATCTATAGCGGTGTTTTTGGA-ACAAACGCCGCGAAAGGTCGAGAT
1 AAACGCCACAAAAAGTCATATCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTC-AGAT
*
62481 CTATAGCGGCATTTTTGGAAT
65 CTATAGCGGCATTTTTGGAAC
* * * * *
62502 AAACGCCGCAAAAGGTCATATCTATAGCGGTGTTTTTTTGATACAAACGCCACAAAAGGTCATAT
1 AAACGCCACAAAAAGTCATATCTATAGCGGCG-TTTTTGGATACAAACGCCACAAAAGGTCAGAT
* *
62567 ATATAGCGCCATTTTTGGAAC
65 CTATAGCGGCATTTTTGGAAC
* * * * *
62588 AAACGCCGC-AAAGGTCGAGATCTATAGCGGCGTTTTTGGATACAAGCGCCACAAAAGGTCATAT
1 AAACGCCACAAAAAGTC-ATATCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAGAT
*
62652 CTATAGCGGCGTTTTTGGAAC
65 CTATAGCGGCATTTTTGGAAC
* * *
62673 AAACGCCACAAAATGTCAAATCTATAGCGGCGTTTTTTGATACAAACG
1 AAACGCCACAAAAAGTCATATCTATAGCGGCGTTTTTGGATACAAACG
62721 TCGTTAATTA
Statistics
Matches: 268, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
85 180 0.67
86 71 0.26
87 17 0.06
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (85 bp):
AAACGCCACAAAAAGTCATATCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAGATC
TATAGCGGCATTTTTGGAAC
Found at i:62453 original size:42 final size:42
Alignment explanation
Indices: 62331--62720 Score: 458
Period size: 43 Copynumber: 9.1 Consensus size: 42
62321 TGAGAACCAA
* **
62331 AAACGCCGCAAAAAATCTATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCACAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
* * *
62374 AAACGCGACAAAAGGTCGAGATCTATAGCGACGTTTTTGGAAC
1 AAACGCCACAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
* ** *
62417 AAACACCACAAAAAATCATATCTATAGCGGTGTTTTTGGAAC
1 AAACGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGAAC
* * * * *
62459 AAACGCCGCGAAAGGTCGAGATCTATAGCGGCATTTTTGGAAT
1 AAACGCCACAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
* * *
62502 AAACGCCGCAAAAGGTCATATCTATAGCGGTGTTTTTTTGATAC
1 AAACGCCACAAAAGGTCATATCTATAGCGGCG-TTTTTGGA-AC
* * *
62546 AAACGCCACAAAAGGTCATATATATAGCGCCATTTTTGGAAC
1 AAACGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGAAC
* *
62588 AAACGCCGC-AAAGGTCGAGATCTATAGCGGCGTTTTTGGATAC
1 AAACGCCACAAAAGGTC-ATATCTATAGCGGCGTTTTTGGA-AC
*
62631 AAGCGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGAAC
* * *
62673 AAACGCCACAAAATGTCAAATCTATAGCGGCGTTTTTTGATAC
1 AAACGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGA-AC
62716 AAACG
1 AAACG
62721 TCGTTAATTA
Statistics
Matches: 293, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
41 7 0.02
42 113 0.39
43 138 0.47
44 35 0.12
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
AAACGCCACAAAAGGTCATATCTATAGCGGCGTTTTTGGAAC
Found at i:67380 original size:82 final size:81
Alignment explanation
Indices: 67235--67467 Score: 236
Period size: 82 Copynumber: 2.9 Consensus size: 81
67225 TGTAAAAATG
* * * *
67235 TCACTATAGGTGAACCCTATTGTGGTGTTTTTATAAAATACTGCTAAAGTTAAAAC-CTGTTGTG
1 TCACTATAGATGAA-CCTATTGCGGTGTTTTTATAAAATACTGCTAAAG-TAATACTCTATTGTG
*
67299 GTGTTTGTCGAAAAAACA
64 GTATTTGTCGAAAAAACA
* * *
67317 TCACTATAGATGGACCTATTGCGGTGTTTTTATAAAAATACTGCTAAAGTATTACTCTTTTGTGG
1 TCACTATAGATGAACCTATTGCGGTGTTTTTAT-AAAATACTGCTAAAGTAATACTCTATTGTGG
* * *
67382 CATTTTTCGAAAAAACG
65 TATTTGTCGAAAAAACA
* * * ** * * * *
67399 CCACTACATAT-ATACCTATTGCGACGTTTATATAAAACACCGCTAAAGTACTACTCTATTGTGG
1 TCACTATAGATGA-ACCTATTGCGGTGTTTTTATAAAATACTGCTAAAGTAATACTCTATTGTGG
67463 TATTT
65 TATTT
67468 TTTTAAGAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
81 53 0.42
82 73 0.58
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (81 bp):
TCACTATAGATGAACCTATTGCGGTGTTTTTATAAAATACTGCTAAAGTAATACTCTATTGTGGT
ATTTGTCGAAAAAACA
Found at i:70283 original size:21 final size:21
Alignment explanation
Indices: 70259--70334 Score: 118
Period size: 21 Copynumber: 3.6 Consensus size: 21
70249 ATCGAATAAG
70259 TCAACCACTAT-GACTAAGAAA
1 TCAACCACT-TCGACTAAGAAA
70280 TCAACCACTTCGACTAAGAAA
1 TCAACCACTTCGACTAAGAAA
*
70301 TCAACCACTTCGACTAAGAAG
1 TCAACCACTTCGACTAAGAAA
*
70322 TCAACCACATCGA
1 TCAACCACTTCGA
70335 AGAAAGCATC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 51 0.98
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (21 bp):
TCAACCACTTCGACTAAGAAA
Found at i:70610 original size:24 final size:24
Alignment explanation
Indices: 70583--70660 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
70573 TCTAAGATTA
70583 TGGAAATGGTCTTGTCTGGAATTG
1 TGGAAATGGTCTTGTCTGGAATTG
* *
70607 TGGAAATTAG-CTTG-CTGAAATCTG
1 TGGAAA-TGGTCTTGTCTGGAAT-TG
* *
70631 T-GAACA-GATCTTGTATGGAATTG
1 TGGAA-ATGGTCTTGTCTGGAATTG
70654 TGGAAAT
1 TGGAAAT
70661 TAGCTTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
23 17 0.41
24 22 0.54
25 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (24 bp):
TGGAAATGGTCTTGTCTGGAATTG
Found at i:85746 original size:37 final size:38
Alignment explanation
Indices: 85695--85902 Score: 144
Period size: 37 Copynumber: 5.6 Consensus size: 38
85685 TGAGAATATT
85695 TTTTTGAAAACATATAATATATAGTTTTTAAAAAAC-G
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAAACGG
* *
85732 TTTTTGAAAGCATATAATATATAGTTTTTAAAAATCGG
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAAACGG
* **
85770 TTTTT-AAAA-ATAT-ATATAATATGATTTTAAAAATA-TT
1 TTTTTGAAAACATATAATAT-ATA-GTTTTTAAAAA-ACGG
* * * * * * * *
85807 TTTTTCAAAAAACATATTATATAGTTATGAAAATAC-A
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAAACGG
* * * * *
85844 TTTTTGAAAACGTATGATATACATA-ATTTT-AAAAATGA
1 TTTTTGAAAACATAT-A-ATATATAGTTTTTAAAAAACGG
*
85882 TTTTTGAAAACGTATAATATA
1 TTTTTGAAAACATATAATATA
85903 ATTTTTGAAA
Statistics
Matches: 134, Mismatches: 26, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
35 4 0.03
36 11 0.08
37 69 0.51
38 36 0.27
39 11 0.08
40 3 0.02
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (38 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAAACGG
Found at i:85886 original size:112 final size:112
Alignment explanation
Indices: 85689--85891 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 112
85679 AGTTTTTGAG
* * * * * * * *
85689 AATATTTTTTTGAAAACATATAATATATAGTTTTTAAAAAACGTTTTTGAAAGCATATAATATAT
1 AATATTTTTTTCAAAAAACATAATATATAGTTATGAAAAAACATTTTTGAAAACATATAATACAT
* *
85754 AGTTTTTAAAAATCGGTTTTTAAAAATATATATAATATGATTTTAAA
66 AGATTTTAAAAATCGATTTTTAAAAATATATATAATATGATTTTAAA
* * *
85801 AATATTTTTTTCAAAAAACATATTATATAGTTATGAAAATACATTTTTGAAAACGTATGATATAC
1 AATATTTTTTTCAAAAAACATAATATATAGTTATGAAAAAACATTTTTGAAAACATAT-A-ATAC
*
85866 ATA-ATTTTAAAAAT-GATTTTTGAAAA
64 ATAGATTTTAAAAATCGATTTTTAAAAA
85892 CGTATAATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
112 58 0.77
113 11 0.15
114 6 0.08
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (112 bp):
AATATTTTTTTCAAAAAACATAATATATAGTTATGAAAAAACATTTTTGAAAACATATAATACAT
AGATTTTAAAAATCGATTTTTAAAAATATATATAATATGATTTTAAA
Found at i:85952 original size:14 final size:13
Alignment explanation
Indices: 85933--85976 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
85923 AAAGATATAG
85933 TATTATATAGTTTT
1 TATTATATA-TTTT
*
85947 TATTAT-TATATT
1 TATTATATATTTT
85959 TATTATATATTATT
1 TATTATATATT-TT
85973 TATT
1 TATT
85977 TATTTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 5 0.19
14 12 0.46
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TATTATATATTTT
Found at i:90596 original size:13 final size:13
Alignment explanation
Indices: 90580--90610 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
90570 CTTGGAATAG
90580 AATTGATAAGTAA
1 AATTGATAAGTAA
*
90593 AATTGATAAGTAG
1 AATTGATAAGTAA
90606 AATTG
1 AATTG
90611 GAAGCCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (13 bp):
AATTGATAAGTAA
Found at i:96139 original size:23 final size:20
Alignment explanation
Indices: 96098--96175 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 20
96088 TGCAGCCTTC
96098 GTGCATGGATGCAC-AGCAG
1 GTGCATGGATGCACTAGCAG
96117 GTGCATGGATGCACTAGTGGCAG
1 GTGCATGGATGCACTA---GCAG
96140 GTGCATGGATGCACT-GCAGG
1 GTGCATGGATGCACTAGCA-G
*
96160 AGTGCATGAATGCACT
1 -GTGCATGGATGCACT
96176 TTGACACCCT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
19 17 0.33
20 2 0.04
21 14 0.27
23 19 0.37
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (20 bp):
GTGCATGGATGCACTAGCAG
Found at i:96447 original size:19 final size:19
Alignment explanation
Indices: 96399--96457 Score: 100
Period size: 19 Copynumber: 3.0 Consensus size: 19
96389 ATGTTTAATG
96399 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
96418 ACAAAAGGATATCAATTGTTA
1 A-AAAA-GATATCAATTGTTA
96439 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
96458 CCAATTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.39
20 8 0.21
21 15 0.39
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.31
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:96519 original size:18 final size:18
Alignment explanation
Indices: 96496--96532 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
96486 TAAGCTTCTC
96496 ATTTTTCATTAAGAAATT
1 ATTTTTCATTAAGAAATT
96514 ATTTTTCATTAAGAAATT
1 ATTTTTCATTAAGAAATT
96532 A
1 A
96533 AAATTTTCAA
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:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTTCATTAAGAAATT
Found at i:100452 original size:23 final size:22
Alignment explanation
Indices: 100404--100452 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
100394 ACAGAATGTC
100404 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
100425 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
100448 AAGGA
1 AAGGA
100453 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:100881 original size:2 final size:2
Alignment explanation
Indices: 100874--100902 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100864 AAGATCTTTG
100874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100903 ATGAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102138 original size:103 final size:103
Alignment explanation
Indices: 101913--102130 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
101903 GTCGAGGGTC
101913 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
101978 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
102016 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
102081 TTTATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
102119 TATGTGGTCCTT
1 TATGTGGTCCTT
102131 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
Found at i:102203 original size:23 final size:23
Alignment explanation
Indices: 102147--102216 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
102137 ATTATTATAT
* *
102147 GGCACTACGGTGCAATTCTACGA
1 GGCACTACGGTGCAATTTTATGA
*
102170 GGCACTACGGTGCAATTTTATGT
1 GGCACTACGGTGCAATTTTATGA
* *
102193 GGTACTTCGGTGC-ATTTATATGA
1 GGCACTACGGTGCAATTT-TATGA
102216 G
1 G
102217 CTGTGGTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.10
23 36 0.90
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTACGGTGCAATTTTATGA
Found at i:105523 original size:23 final size:22
Alignment explanation
Indices: 105475--105523 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
105465 ACAGAATGTC
105475 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
105496 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
105519 AAGGA
1 AAGGA
105524 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:107192 original size:103 final size:103
Alignment explanation
Indices: 106967--107184 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
106957 GTCGAGGGTC
106967 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
107032 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
107070 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
107135 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
107173 TATGTGGTCCTT
1 TATGTGGTCCTT
107185 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:107250 original size:23 final size:23
Alignment explanation
Indices: 107195--107268 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
107185 ATGGACATTA
* *
107195 TTATATGGCACTACGATGCAATT
1 TTATGTGGCACTACGGTGCAATT
* * *
107218 CTACGAGGCACTACGGTGCAATT
1 TTATGTGGCACTACGGTGCAATT
*
107241 TTATGTGGCACTTCGGTGC-ATT
1 TTATGTGGCACTACGGTGCAATT
107263 TATATG
1 T-TATG
107269 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 4 0.10
23 37 0.90
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (23 bp):
TTATGTGGCACTACGGTGCAATT
Found at i:108030 original size:21 final size:21
Alignment explanation
Indices: 108001--108079 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
107991 ACTAGTGGCA
*
108001 GGTGCATGGATGGACTGCAGG
1 GGTGCATGGATGCACTGCAGG
*
108022 GGTGAATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
108043 GGTGCATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
108064 GGTGCATGGATGCACT
1 GGTGCATGGATGCACT
108080 TTGACACCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (21 bp):
GGTGCATGGATGCACTGCAGG
Found at i:110634 original size:38 final size:37
Alignment explanation
Indices: 110592--110842 Score: 164
Period size: 39 Copynumber: 6.8 Consensus size: 37
110582 TTGAAAATAG
110592 TTTTTGAAAACATATAATATATAGTTTTCAGAAAACAT
1 TTTTTGAAAACATATAATATATAGTTTT-AGAAAACAT
* **
110630 TTTTT-AAAAGCATATAATATATAGTTTTTAAAAAATCGG
1 TTTTTGAAAA-CATATAATATATAG-TTTTAGAAAA-CAT
* * * *
110669 TTTTGGAAAATATAT-A-ATATGGTTTT-GAAAATAT
1 TTTTTGAAAACATATAATATATAGTTTTAGAAAACAT
** * *
110703 TTTTAAAAAAACATATATATTATATAGTTCT-GAAAATAT
1 TTTT-TGAAAACATATA-A-TATATAGTTTTAGAAAACAT
* *
110742 ATTTTTTAAAACATATAATATACGTAATTTTA-AAAACGA-
1 -TTTTTGAAAACATATAATATA--TAGTTTTAGAAAAC-AT
* *
110781 TTTTTGAAAACGTATAATATA-A-TTTTTGAAAACAT
1 TTTTTGAAAACATATAATATATAGTTTTAGAAAACAT
* *
110816 ATTTTTG--AATATATAGTATATAGTTTT
1 -TTTTTGAAAACATATAATATATAGTTTT
110843 TATTATTATA
Statistics
Matches: 168, Mismatches: 26, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
34 19 0.11
35 19 0.11
36 14 0.08
37 14 0.08
38 45 0.27
39 48 0.29
40 9 0.05
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (37 bp):
TTTTTGAAAACATATAATATATAGTTTTAGAAAACAT
Found at i:110858 original size:28 final size:28
Alignment explanation
Indices: 110841--110901 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
110831 GTATATAGTT
110841 TTTATTATTATATTTATAATATATTATTA
1 TTTA-TATTATATTTATAATATATTATTA
*
110870 TTTATATTATA-TTATATTAT-TTATTTA
1 TTTATATTATATTTATAATATATTA-TTA
110897 TTTAT
1 TTTAT
110902 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
27 16 0.53
28 7 0.23
29 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTATATTATATTTATAATATATTATTA
Found at i:110867 original size:22 final size:21
Alignment explanation
Indices: 110842--110901 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 21
110832 TATATAGTTT
110842 TTATTATTATATTTATAATATA
1 TTATTATT-TATTTATAATATA
*
110864 TTATTATTTATATTATATTATA
1 TTATTATTTAT-TTATAATATA
110886 TTATTTATTTATTTAT
1 TTA-TTATTTATTTAT
110902 TTCATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 3 0.09
22 24 0.69
23 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTATTTATTTATAATATA
Found at i:110894 original size:17 final size:17
Alignment explanation
Indices: 110845--110902 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 17
110835 ATAGTTTTTA
*
110845 TTATTATATTTATAATAT
1 TTATTATA-TTATATTAT
110863 ATTATTAT-TTATATTA-
1 -TTATTATATTATATTAT
110879 -TATTATATTAT-TTAT
1 TTATTATATTATATTAT
110894 TTATT-TATT
1 TTATTATATT
110903 TCATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 9 0.26
15 8 0.23
16 4 0.11
17 7 0.20
19 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATATTATATTAT
Found at i:110908 original size:5 final size:4
Alignment explanation
Indices: 110841--110916 Score: 57
Period size: 4 Copynumber: 17.8 Consensus size: 4
110831 GTATATAGTT
*
110841 TTTA -TTA TTATA TTTA TAATA TATTA -TTA TTTA TATTA TATTA TATTA
1 TTTA TTTA TT-TA TTTA T-TTA T-TTA TTTA TTTA T-TTA T-TTA T-TTA
*
110889 TTTA TTTA TTTA TTTCA TTTT TTTA TTT
1 TTTA TTTA TTTA TTT-A TTTA TTTA TTT
110917 CATGTCCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
3 6 0.10
4 28 0.45
5 28 0.45
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:110908 original size:17 final size:17
Alignment explanation
Indices: 110843--110914 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
110833 ATATAGTTTT
*
110843 TATTATTATATTTATAATA
1 TATTATT-TATTTAT-TTA
110862 TATTA-TTATTTATATTA
1 TATTATTTATTTAT-TTA
110879 TATTATATTATTTATTTA
1 TATTAT-TTATTTATTTA
*
110897 T-TTATTTCATTTTTTTA
1 TATTATTT-ATTTATTTA
110914 T
1 T
110915 TTCATGTCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.04
17 28 0.58
18 5 0.10
19 13 0.27
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATTTATTTATTTA
Found at i:110913 original size:13 final size:13
Alignment explanation
Indices: 110867--110919 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
110857 TAATATATTA
110867 TTATTTATATT-AT
1 TTATTTAT-TTCAT
110880 ATTATATTATTT-AT
1 -TTAT-TTATTTCAT
110894 TTATTTATTTCAT
1 TTATTTATTTCAT
*
110907 TTTTTTATTTCAT
1 TTATTTATTTCAT
110920 GTCCAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 6 0.17
13 18 0.50
14 8 0.22
15 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTATTTCAT
Found at i:112085 original size:24 final size:24
Alignment explanation
Indices: 112058--112117 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
112048 ATTAATTTTT
112058 TATAATTATTTGTCTATAAAGTAA
1 TATAATTATTTGTCTATAAAGTAA
*
112082 TATAATTATTTGTTTATAAAGTAA
1 TATAATTATTTGTCTATAAAGTAA
112106 TATAATTATTTG
1 TATAATTATTTG
112118 GAAGTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (24 bp):
TATAATTATTTGTCTATAAAGTAA
Found at i:112248 original size:2 final size:2
Alignment explanation
Indices: 112241--112277 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
112231 CCAAACATTA
112241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112278 ATTTGGACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112362 original size:2 final size:2
Alignment explanation
Indices: 112355--112382 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112345 ACTTACTACC
112355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112383 GAATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113733 original size:2 final size:2
Alignment explanation
Indices: 113726--113763 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
113716 ATTGCTAATG
113726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113764 TGGATATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120256 original size:17 final size:17
Alignment explanation
Indices: 120175--120257 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 17
120165 GCATTTAAAT
*
120175 CATCTAGTTCATTTAGG
1 CATCTAGTTCATTTATG
* **
120192 GAAGTAGTTCATTTATG
1 CATCTAGTTCATTTATG
*
120209 CATTTAGATT-ATTTA-G
1 CATCTAG-TTCATTTATG
* * * *
120225 TAAGCTACTTAATTTATG
1 -CATCTAGTTCATTTATG
120243 CATCTAGTTCATTTA
1 CATCTAGTTCATTTA
120258 ATAAGGTTAG
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
16 3 0.06
17 41 0.87
18 3 0.06
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (17 bp):
CATCTAGTTCATTTATG
Found at i:120289 original size:17 final size:17
Alignment explanation
Indices: 120269--120317 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
120259 TAAGGTTAGC
*
120269 TCATTAATTAAACTATT
1 TCATTAATTAAACTAGT
* *
120286 TCATTCATCAAACTAGT
1 TCATTAATTAAACTAGT
*
120303 TCATTTATTAAACTA
1 TCATTAATTAAACTA
120318 ACTTTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (17 bp):
TCATTAATTAAACTAGT
Found at i:120809 original size:35 final size:35
Alignment explanation
Indices: 120761--120838 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
120751 TATCATTCTT
120761 TGAAGGCTATTCACGTGCTACCAAGGAACAAGCAA
1 TGAAGGCTATTCACGTGCTACCAAGGAACAAGCAA
* *
120796 TGAAGGTTGTTCACGTGCTACCAAGGAACAAGCAA
1 TGAAGGCTATTCACGTGCTACCAAGGAACAAGCAA
120831 TGAAGGCT
1 TGAAGGCT
120839 GATTTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (35 bp):
TGAAGGCTATTCACGTGCTACCAAGGAACAAGCAA
Found at i:122000 original size:18 final size:18
Alignment explanation
Indices: 121977--122012 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
121967 TTACGATTTC
* *
121977 ATTACCTATTCTCATCTT
1 ATTACCGATTATCATCTT
121995 ATTACCGATTATCATCTT
1 ATTACCGATTATCATCTT
122013 CATTCTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTACCGATTATCATCTT
Found at i:124336 original size:17 final size:17
Alignment explanation
Indices: 124258--124337 Score: 56
Period size: 17 Copynumber: 4.7 Consensus size: 17
124248 GTATTTAAAT
*
124258 CATCTAGTTCATTTAGG
1 CATCTAGTTCATTTATG
* **
124275 GAAGTAGTTCATTTATG
1 CATCTAGTTCATTTATG
*
124292 CATTTAGATT-ATTTA-G
1 CATCTAG-TTCATTTATG
* * *
124308 TAAGCTACTTCATTTATG
1 -CATCTAGTTCATTTATG
124326 CATCTAGTTCAT
1 CATCTAGTTCAT
124338 CTAATAAAGT
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
16 3 0.07
17 39 0.87
18 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (17 bp):
CATCTAGTTCATTTATG
Found at i:124398 original size:17 final size:17
Alignment explanation
Indices: 124329--124398 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 17
124319 ATTTATGCAT
* *
124329 CTAGTTCATCTAATAAA
1 CTAGTTCATTTATTAAA
* * *
124346 GTTAGCTCATTAATTAAA
1 -CTAGTTCATTTATTAAA
* * *
124364 ATAGTTCATTCATCAAA
1 CTAGTTCATTTATTAAA
124381 CTAGTTCATTTATTAAA
1 CTAGTTCATTTATTAAA
124398 C
1 C
124399 AATTCTTAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (17 bp):
CTAGTTCATTTATTAAA
Found at i:130012 original size:20 final size:21
Alignment explanation
Indices: 129989--130027 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
129979 TTTTTTTAGG
*
129989 TAAATTATTTA-TTTAGTACT
1 TAAATTATTAATTTTAGTACT
130009 TAAATTATTAATTTTAGTA
1 TAAATTATTAATTTTAGTA
130028 TGTTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
TAAATTATTAATTTTAGTACT
Found at i:130547 original size:2 final size:2
Alignment explanation
Indices: 130540--130638 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
130530 TTTCTCAATG
130540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130624 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
130639 CTTATTACAG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:135640 original size:3 final size:3
Alignment explanation
Indices: 135634--135671 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
135624 ATATATGTTT
*
135634 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
135672 TAAATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:137171 original size:3 final size:3
Alignment explanation
Indices: 137165--137244 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
137155 ATTTATTATT
*
137165 TAA TAA TAA TAA TAA TAA T-A TTA TAA TAA TAA T-A TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
137210 TTA TAA -AA AAA TAA TTA TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
137245 ATATAAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 8 0.13
3 55 0.87
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:137192 original size:14 final size:14
Alignment explanation
Indices: 137165--137244 Score: 77
Period size: 14 Copynumber: 6.2 Consensus size: 14
137155 ATTTATTATT
137165 TAATAATA--ATAA
1 TAATAATATTATAA
137177 TAATAATATTATAA
1 TAATAATATTATAA
*
137191 TAATAATATAATAA
1 TAATAATATTATAA
137205 -AAT-A-ATTATAA
1 TAATAATATTATAA
*
137216 -AAAAATAATTATAA
1 TAATAAT-ATTATAA
137230 TAAT-AT-TTATAA
1 TAATAATATTATAA
137242 TAA
1 TAA
137245 ATATAAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
11 8 0.14
12 19 0.33
13 3 0.05
14 26 0.45
15 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATATTATAA
Found at i:137744 original size:123 final size:124
Alignment explanation
Indices: 137610--137950 Score: 519
Period size: 123 Copynumber: 2.8 Consensus size: 124
137600 GAATTAAGGC
137610 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* **
137674 TGAACTTTCTTTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGCGTCGAGCAA
66 TGAACTTTCTTTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAGAATCGAGCAA
*
137733 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * *
137797 TTAAC--ACTTCTGGAAATGTTGGTGTTGATTTATCTCCTTCTGGGATAGAATCGAGCAA
66 TGAACTTTCTT-TGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAGAATCGAGCAA
* *
137855 AAGGTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* **
137920 TGAACTTTCTCTGGAAAAATTGATGCTGATC
66 TGAACTTTCTTTGGAAATGTTGATGCTGATC
137951 CATCGAGTGA
Statistics
Matches: 193, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
121 3 0.02
122 81 0.42
123 92 0.48
124 15 0.08
125 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (124 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTTTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAGAATCGAGCAA
Found at i:138575 original size:24 final size:20
Alignment explanation
Indices: 138530--138567 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
138520 ATTGGTCCAT
138530 CACCATAATTACTGGTTCAA
1 CACCATAATTACTGGTTCAA
138550 CACCATAATTACTGGTTC
1 CACCATAATTACTGGTTC
138568 GTAAAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
CACCATAATTACTGGTTCAA
Found at i:138844 original size:18 final size:18
Alignment explanation
Indices: 138823--138860 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
138813 TATATGAAAG
138823 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
*
138841 AATAAATTGAATTTTAAA
1 AATAAATTGAATTTCAAA
138859 AA
1 AA
138861 GATAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:139254 original size:12 final size:11
Alignment explanation
Indices: 139217--139245 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
139207 TTTTCTATAT
139217 TTTTTTTTTCA
1 TTTTTTTTTCA
139228 TTTTTTTTTCA
1 TTTTTTTTTCA
139239 TTTTTTT
1 TTTTTTT
139246 CATCATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:149931 original size:28 final size:28
Alignment explanation
Indices: 149897--149957 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
149887 ATAAAATAAA
149897 ATAAATA-TATTAATAAACAATAA-TATAT
1 ATAAATATTA-TAA-AAACAATAATTATAT
* *
149925 ATAAATATTATGAAAATAATAATTATAT
1 ATAAATATTATAAAAACAATAATTATAT
149953 ATAAA
1 ATAAA
149958 AAAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 19 0.66
29 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAATATTATAAAAACAATAATTATAT
Found at i:150805 original size:3 final size:3
Alignment explanation
Indices: 150797--150846 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
150787 ATATATGTTT
150797 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
150845 AT
1 AT
150847 TAAATATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:150973 original size:29 final size:30
Alignment explanation
Indices: 150899--150976 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
150889 AACAGTGACT
*
150899 AAAATAAAT-AAAATTAAAACTATATATTTA
1 AAAATAAATGAAAA-TAAAACTATATAATTA
* * *
150929 AAATATAAAAG-CAATAAAACT-TGTAATTA
1 AAA-ATAAATGAAAATAAAACTATATAATTA
150958 AAAATAAATGAAAATAAAA
1 AAAATAAATGAAAATAAAA
150977 TTAGTGACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 6 0.15
29 16 0.41
30 10 0.26
31 7 0.18
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (30 bp):
AAAATAAATGAAAATAAAACTATATAATTA
Found at i:152326 original size:3 final size:3
Alignment explanation
Indices: 152320--152369 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
152310 ATTTATTATT
*
152320 TAA TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA TAA -AA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
152365 TAA TA
1 TAA TA
152370 TTTAGAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:152338 original size:11 final size:11
Alignment explanation
Indices: 152322--152366 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
152312 TTATTATTTA
152322 ATAATAATAAT
1 ATAATAATAAT
152333 ATAATAATAAT
1 ATAATAATAAT
*
152344 A-ATATAATAAA
1 ATA-ATAATAAT
*
152355 ATAATTATAAT
1 ATAATAATAAT
152366 A
1 A
152367 ATATTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 1 0.03
11 27 0.93
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:152339 original size:14 final size:14
Alignment explanation
Indices: 152320--152369 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
152310 ATTTATTATT
152320 TAATAATAATAATA
1 TAATAATAATAATA
152334 TAATAATAATAATA
1 TAATAATAATAATA
152348 TAATAA-AATAATTA
1 TAATAATAATAA-TA
152362 TAATAATA
1 TAATAATA
152370 TTTAGAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.15
14 28 0.82
15 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:152353 original size:22 final size:22
Alignment explanation
Indices: 152320--152370 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
152310 ATTTATTATT
*
152320 TAATAATAATAATATAATAATAA
1 TAAT-ATAATAAAATAATAATAA
*
152343 TAATATAATAAAATAATTATAA
1 TAATATAATAAAATAATAATAA
152365 TAATAT
1 TAATAT
152371 TTAGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATATAATAAAATAATAATAA
Found at i:156999 original size:2 final size:2
Alignment explanation
Indices: 156992--157021 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
156982 TTCCAGAATC
156992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
157022 CAAAATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157606 original size:81 final size:81
Alignment explanation
Indices: 157468--157704 Score: 330
Period size: 89 Copynumber: 2.8 Consensus size: 81
157458 CTAGAACTGC
* * *
157468 GTCCGTAGGGCTTACCCTCAGCACACAGCAAAAAGGGATCCAACCTAAGGATATGCCTTGGGGCC
1 GTCCGTAGGG-TTACCCTAAGCACACA--ACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCC
157533 TACCCAAGGGTATCCTTAG
63 TACCCAAGGGTATCCTTAG
157552 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGACCTAT
1 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTT--G------
157617 GGGCCTACCCAAGGGTATCCTTAG
58 GGGCCTACCCAAGGGTATCCTTAG
* *
157641 ATCCGTAGGGTTACCCTAAGCACATAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
157705 TGGCCTACCT
Statistics
Matches: 140, Mismatches: 5, Indels: 19
0.85 0.03 0.12
Matches are distributed among these distances:
81 35 0.25
83 16 0.11
84 10 0.07
87 1 0.01
89 78 0.56
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (81 bp):
GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAC
CCAAGGGTATCCTTAG
Found at i:157631 original size:89 final size:89
Alignment explanation
Indices: 157528--157735 Score: 373
Period size: 89 Copynumber: 2.3 Consensus size: 89
157518 ATATGCCTTG
157528 GGGCCTACCCAAGGGTATCCTTAGGTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAAC
1 GGGCCTACCCAAGGGTATCCTTAGGTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAAC
157593 CTAAGGATATGCCTTGGGACCTAT
66 CTAAGGATATGCCTTGGGACCTAT
* *
157617 GGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCCTAAGCACATAACAAAGGGAACCAAC
1 GGGCCTACCCAAGGGTATCCTTAGGTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAAC
*
157682 CTAAGGATATGCCTTGGGGCCTAT
66 CTAAGGATATGCCTTGGGACCTAT
*
157706 -GGCCTACCTAAGGGTATCCTTAGGTCCGTA
1 GGGCCTACCCAAGGGTATCCTTAGGTCCGTA
157736 TGGTCTTACT
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 28 0.25
89 86 0.75
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (89 bp):
GGGCCTACCCAAGGGTATCCTTAGGTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAAC
CTAAGGATATGCCTTGGGACCTAT
Found at i:157738 original size:31 final size:31
Alignment explanation
Indices: 157680--157738 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
157670 AAGGGAACCA
*
157680 ACCTAAGGATATGCCTTGGGGCCTATGGCCT
1 ACCTAAGGATATGCCTTAGGGCCTATGGCCT
* *
157711 ACCTAAGGGTAT-CCTTAGGTCCGTATGG
1 ACCTAAGGATATGCCTTAGGGCC-TATGG
157739 TCTTACTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (31 bp):
ACCTAAGGATATGCCTTAGGGCCTATGGCCT
Found at i:160864 original size:31 final size:29
Alignment explanation
Indices: 160829--160911 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 29
160819 GAGTACCTTG
160829 GGGCCTGCGAGCCTACCCAAGAAAATTCTCA
1 GGGCC-GCGAGCCTACCCAAGAAAA-TCTCA
* *
160860 GGGCCACGAAGGCCTATCCAAGAAAATCTCA
1 GGGCCGCG-A-GCCTACCCAAGAAAATCTCA
*
160891 AGGCCGCAGAGCCTACCCAAG
1 GGGCCGC-GAGCCTACCCAAG
160912 GGTTGCCTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 12 0.27
31 17 0.39
32 15 0.34
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (29 bp):
GGGCCGCGAGCCTACCCAAGAAAATCTCA
Found at i:160875 original size:32 final size:30
Alignment explanation
Indices: 160837--160911 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
160827 TGGGGCCTGC
*
160837 GAGCCTACCCAAGAAAATTCTCAGGGCCACGAA
1 GAGCCTACCCAAGAAAA-TCTCAAGG-C-CGAA
* *
160870 G-GCCTATCCAAGAAAATCTCAAGGCCGCA
1 GAGCCTACCCAAGAAAATCTCAAGGCCGAA
160899 GAGCCTACCCAAG
1 GAGCCTACCCAAG
160912 GGTTGCCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 11 0.30
31 7 0.19
32 14 0.38
33 1 0.03
ACGTcount: A:0.35, C:0.32, G:0.21, T:0.12
Consensus pattern (30 bp):
GAGCCTACCCAAGAAAATCTCAAGGCCGAA
Found at i:161125 original size:31 final size:31
Alignment explanation
Indices: 161051--161126 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
161041 GTAAACAAAA
* *
161051 ATCAGAAATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCATAAATCAGAACAGAATCCAG
* ** * * *
161082 ATCATATGTCATATATCAGAATAGAATCCGG
1 ATCAGAAATCATAAATCAGAACAGAATCCAG
161113 ATCAGAAATCATAA
1 ATCAGAAATCATAA
161127 CAAAAATCAG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (31 bp):
ATCAGAAATCATAAATCAGAACAGAATCCAG
Found at i:163108 original size:9 final size:8
Alignment explanation
Indices: 163073--163110 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
163063 AATATTATTT
163073 TATTTAAA
1 TATTTAAA
163081 -ATATTAAA
1 TAT-TTAAA
163089 TATTTAAA
1 TATTTAAA
163097 TATTTAAAA
1 TATTT-AAA
163106 TATTT
1 TATTT
163111 TTAATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.07
8 15 0.56
9 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATTTAAA
Found at i:163121 original size:12 final size:12
Alignment explanation
Indices: 163099--163132 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
163089 TATTTAAATA
163099 TTTAA-AATATT
1 TTTAATAATATT
163110 TTTAATAATATT
1 TTTAATAATATT
163122 TTTAATAATAT
1 TTTAATAATAT
163133 AATATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAATAATATT
Found at i:163143 original size:22 final size:22
Alignment explanation
Indices: 163112--163163 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
163102 AAAATATTTT
163112 TAATAATATTTTTAATAATATAA
1 TAAT-ATATTTTTAATAATATAA
* *
163135 TATTATATTTTTAATATTATAA
1 TAATATATTTTTAATAATATAA
163157 TAATATA
1 TAATATA
163164 CTCAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATTTTTAATAATATAA
Found at i:163329 original size:51 final size:50
Alignment explanation
Indices: 163241--163339 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 50
163231 TATATCATTT
163241 ATGTATTTAGAATGAATTATTAATAAATATCATTTATTTATAATATTAAA
1 ATGTATTTAGAATGAATTATTAATAAATATCATTTATTTATAATATTAAA
* *
163291 ATGTATTTATAATGTATTATATAATAAATATTCA-TTATTTATAATATTA
1 ATGTATTTAGAATGAATTAT-TAATAAATA-TCATTTATTTATAATATTA
163340 GATGTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 18 0.40
51 24 0.53
52 3 0.07
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (50 bp):
ATGTATTTAGAATGAATTATTAATAAATATCATTTATTTATAATATTAAA
Found at i:166377 original size:22 final size:22
Alignment explanation
Indices: 166352--166394 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
166342 ACGTCGTACA
166352 CTTAATTTTTGGAGGTAAATCT
1 CTTAATTTTTGGAGGTAAATCT
*
166374 CTTAATTTTTGTAGGTAAATC
1 CTTAATTTTTGGAGGTAAATC
166395 CCCTAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (22 bp):
CTTAATTTTTGGAGGTAAATCT
Found at i:166401 original size:22 final size:22
Alignment explanation
Indices: 166354--166401 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
166344 GTCGTACACT
* *
166354 TAATTTTTGGAGGTAAATCTCT
1 TAATTTTTGGAGGTAAATCCCC
*
166376 TAATTTTTGTAGGTAAATCCCC
1 TAATTTTTGGAGGTAAATCCCC
166398 TAAT
1 TAAT
166402 AGAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (22 bp):
TAATTTTTGGAGGTAAATCCCC
Found at i:167496 original size:28 final size:28
Alignment explanation
Indices: 167456--167549 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 28
167446 AAATAATTTA
*
167456 TTTATT-ATTAAAATATTATTTTATAAT
1 TTTATTAATAAAAATATTATTTTATAAT
*
167483 TTTATTAATAAAAATATTAATATTAGTACAT
1 TTTATTAATAAAAATATT-ATTTTA-TA-AT
*
167514 TTTATTGAAATAAAAA-A-TATTGTA-AAT
1 TTTATT--AATAAAAATATTATTTTATAAT
167541 TTTATTAAT
1 TTTATTAAT
167550 TATTTATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 3 0.05
27 14 0.25
28 11 0.19
29 5 0.09
30 6 0.11
31 9 0.16
32 1 0.02
33 8 0.14
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (28 bp):
TTTATTAATAAAAATATTATTTTATAAT
Found at i:168354 original size:81 final size:81
Alignment explanation
Indices: 168219--168381 Score: 238
Period size: 81 Copynumber: 2.0 Consensus size: 81
168209 TGACAAATAT
* * * * *
168219 ATATATATAATACGAGTAATCTAGCATGGAGTTAGAATCAAATTTTAGAATGGACGAAGATCTAT
1 ATATATATAATACGAGTAATCTAGAATGGAGTTAAAATCAAATATTAGAATGGACAAAGACCTAT
168284 ATTAATCCAAGTAATC
66 ATTAATCCAAGTAATC
* *
168300 ATATATATAATATGAGTAATCTAGAATAGG-GTTAAAATCAAATATTAGAATGGACAAATACCTA
1 ATATATATAATACGAGTAATCTAGAAT-GGAGTTAAAATCAAATATTAGAATGGACAAAGACCTA
*
168364 TATTAATTCAAGTAATC
65 TATTAATCCAAGTAATC
168381 A
1 A
168382 CGATAAGGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 71 0.97
82 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (81 bp):
ATATATATAATACGAGTAATCTAGAATGGAGTTAAAATCAAATATTAGAATGGACAAAGACCTAT
ATTAATCCAAGTAATC
Found at i:171668 original size:47 final size:47
Alignment explanation
Indices: 171577--171668 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
171567 GAATAAATGT
* * *
171577 ATGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCTCGAACAAGC
1 ATGCGAACTAGATATCATGCGGTTAGGTTTATATGTCTCAAACAAGC
*
171624 ATGCGAATTAGATATCATGCGGTTAGGGTTT-TAATGT-TCAAACAA
1 ATGCGAACTAGATATCATGCGGTTA-GGTTTAT-ATGTCTCAAACAA
171669 AGCACGGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 32 0.82
48 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (47 bp):
ATGCGAACTAGATATCATGCGGTTAGGTTTATATGTCTCAAACAAGC
Found at i:174086 original size:7 final size:6
Alignment explanation
Indices: 174065--174113 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
174055 AATGACACCT
* * *
174065 TTTGTA TTTGCA TTTAGCA TTTTCA TTTTCA TTTGCA TTTGCA -TTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA
174113 T
1 T
174114 GTATTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
6 27 0.71
7 6 0.16
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.55
Consensus pattern (6 bp):
TTTGCA
Found at i:174123 original size:25 final size:25
Alignment explanation
Indices: 174069--174123 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
174059 ACACCTTTTG
*
174069 TATTTGCATTTAGCATTTTCATTTT
1 TATTTGCATTTAGCATTTGCATTTT
*
174094 CATTTGCATTT-GCA-TTGCATGTATT
1 TATTTGCATTTAGCATTTGCAT-T-TT
174119 TATTT
1 TATTT
174124 AAGTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 16 0.64
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (25 bp):
TATTTGCATTTAGCATTTGCATTTT
Found at i:178618 original size:42 final size:42
Alignment explanation
Indices: 178558--178650 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
178548 TCTCACTTAG
* * *
178558 TAAGTCATTCGGGCCATCAATAAATCTTTCGAGCATGATGCT
1 TAAGTCCTTCAGGCCATCAATAAATCTTTCGAGCATGATGAT
* * *
178600 TAAGTCCTTCAGGTCATCAGTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCAGGCCATCAATAAATCTTTCGAGCATGATGAT
*
178642 TAAATCCTT
1 TAAGTCCTT
178651 AGGGTAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (42 bp):
TAAGTCCTTCAGGCCATCAATAAATCTTTCGAGCATGATGAT
Found at i:178665 original size:42 final size:42
Alignment explanation
Indices: 178573--178785 Score: 119
Period size: 42 Copynumber: 4.9 Consensus size: 42
178563 CATTCGGGCC
* * * * *
178573 ATCAATAAATCTTTCGAGCATGATGCTTAAGTCCTTCAGGTC
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTA
178615 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT-AGGGTA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA-GGTA
** * * * * * *
178657 ATTTGTAAGCCTTCACGAAAG-A-GTAGTGAAGTAAACCCATCAGTAAGTGCC
1 ATCAGTAAGTCTT-TCG--AGCATG-A-TG-ATTAAATCCTTCAG---GT--A
* * **
178708 ATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC-GTGCC
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAG-GTA
*
178750 ATCAGTAAGTCTTTCGAGGATGATGATTAAATCCTT
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
178786 TGGGAAATTT
Statistics
Matches: 129, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
41 1 0.01
42 79 0.61
43 3 0.02
44 3 0.02
45 4 0.03
46 10 0.08
47 8 0.06
48 4 0.03
49 4 0.03
50 3 0.02
51 10 0.08
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTA
Found at i:178711 original size:13 final size:13
Alignment explanation
Indices: 178693--178717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178683 TGAAGTAAAC
178693 CCATCAGTAAGTG
1 CCATCAGTAAGTG
178706 CCATCAGTAAGT
1 CCATCAGTAAGT
178718 CTTTCGAGCA
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:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:178765 original size:20 final size:20
Alignment explanation
Indices: 178703--178765 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
178693 CCATCAGTAA
178703 GTGCCATCAGTAAGTCTTTC
1 GTGCCATCAGTAAGTCTTTC
* * *
178723 GAG-CATGATGATGAAGTCCTTC
1 GTGCCATCA-G-T-AAGTCTTTC
178745 GTGCCATCAGTAAGTCTTTC
1 GTGCCATCAGTAAGTCTTTC
178765 G
1 G
178766 AGGATGATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
21 2 0.06
22 11 0.33
23 4 0.12
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (20 bp):
GTGCCATCAGTAAGTCTTTC
Found at i:178814 original size:135 final size:135
Alignment explanation
Indices: 178570--178959 Score: 486
Period size: 135 Copynumber: 3.0 Consensus size: 135
178560 AGTCATTCGG
* * *
178570 GCCATCAATAAATCTTTCGAGCATGATGCTTAAGTCCTTCAGGTCATCAGTAAGTCTTTCGAGCA
1 GCCATCAATAAATCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
* *
178635 TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACGAAAGAGTAGTGAAGTAAACCCATCAG
66 TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGAAAGAGTAGTGAAGCAAACCCATCAG
178700 TAAGT
131 TAAGT
* * *
178705 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC-GTGCCATCAGTAAGTCTTTCGAGG
1 GCCATCAATAAATCTTTCGAGCATGATGATGAAGTCCTTCAG-GCCATCAGTAAGTCTTTCGAGC
* * *
178769 ATGATGATTAAATCCTTTGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCTATCA
65 ATGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGAAAGAGTAGTGAAGCAAACCCATCA
178834 GTAA--
130 GTAAGT
* * *
178838 G-------T---T-TTTAGAGCATGATGTTGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAATAAATCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
* * * * *
178892 TGGTGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCG-AAGAGTAGTGAAGTAAATCCATCA
66 TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCA-CGAAAGAGTAGTGAAGCAAACCCATCA
178956 GTAA
130 GTAA
178960 ATCTTTCGAG
Statistics
Matches: 232, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
122 105 0.45
123 4 0.02
126 1 0.00
133 1 0.00
134 1 0.00
135 120 0.52
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (135 bp):
GCCATCAATAAATCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGAAAGAGTAGTGAAGCAAACCCATCAG
TAAGT
Found at i:178877 original size:42 final size:42
Alignment explanation
Indices: 178830--178911 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
178820 AAGCAAACCT
* *
178830 ATCAGTAAGTTTTTAGAGCATGATG-TTGAAGTCCTTCGGGCC
1 ATCAGTAAGTCTTTAGAGCATGATGATT-AAATCCTTCGGGCC
* *
178872 ATCAGTAAGTCTTTCGAGCATGGTGATTAAATCCTTCGGG
1 ATCAGTAAGTCTTTAGAGCATGATGATTAAATCCTTCGGG
178912 TAATTTGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
ATCAGTAAGTCTTTAGAGCATGATGATTAAATCCTTCGGGCC
Found at i:178925 original size:122 final size:122
Alignment explanation
Indices: 178706--179057 Score: 476
Period size: 122 Copynumber: 2.9 Consensus size: 122
178696 TCAGTAAGTG
* *
178706 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGTGCCATCAGTAAGTCTTTCGAGGAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
*
178771 GATGATTAAATCCTTTGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAA-
66 GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
* * *
178827 CCTATCAGTAAGTTTTTAGAGCATGATGTTGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 CC-ATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * *
178892 TGGTGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGTAAAT
65 TGATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
* * * * ** *
178950 CCATCAGTAAATCTTTCGAGCATGATGATGAAATCCTTTGGGTCATTTGTAAGTCTTTCGAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * ** *
179015 GATGA-TAAGTCATTCGGGCCATTT-TAAGCCTTCTCGGAAGAGT
66 GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGT
179058 GTTAGAGCAA
Statistics
Matches: 202, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
120 17 0.08
121 17 0.08
122 166 0.82
123 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (122 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
Found at i:179498 original size:53 final size:53
Alignment explanation
Indices: 179418--179665 Score: 311
Period size: 53 Copynumber: 4.7 Consensus size: 53
179408 ATCACACCAT
*
179418 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
* **
179471 AAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
* *
179524 AAGATTGTTCGAGTTCTACTCCTTGAAACAAGAGGGAGCGAACCCGTA-AGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA-CAG
* * * * * ****
179577 AAGATTATTCGAGTTCTACTACCTGAAGCAATAGGGAGTGAACCCATTTTTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
*
179630 AAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGG
1 AAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGG
179666 AAGCAGACCC
Statistics
Matches: 168, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
53 152 0.90
54 7 0.04
55 9 0.05
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
Found at i:181233 original size:26 final size:26
Alignment explanation
Indices: 181181--181244 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
181171 AGGCTGTTTT
* * *
181181 TATACGTGAATTAGTATATATATATA
1 TATATGTGCATTAGTATATATACATA
181207 TATATGTGCATTAGTATAT-TAGCATA
1 TATATGTGCATTAGTATATATA-CATA
*
181233 TATCTTGTGCAT
1 TAT-ATGTGCAT
181245 AATTTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 2 0.06
26 23 0.72
27 7 0.22
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (26 bp):
TATATGTGCATTAGTATATATACATA
Found at i:184460 original size:3 final size:3
Alignment explanation
Indices: 184452--184477 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
184442 TCGTCCTGTT
184452 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
184478 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:185687 original size:106 final size:109
Alignment explanation
Indices: 185488--185689 Score: 234
Period size: 106 Copynumber: 1.9 Consensus size: 109
185478 TAGGGACAAT
* ** *
185488 TTTTGTAATTTACCCATTTATGTTTATGCTTTATAATTTTTTGGTTTAATTTCTATTTAGTCCCC
1 TTTTGTAATTTACCCATTTATATGCATGC-TTATAATTTTTTGGTTTAATTTCCATTTAGTCCCC
* ** *
185553 CTAGTTTAGTCGTGTTTTTGCATGTTAGTCACCTGTAGGGATTGC
65 CTAGTTTAGTAGTACTTTTACATGTTAGTCACCTGTAGGGATTGC
* ***
185598 TTTTGTGATTTACCCATTTATATGCATG-TTAT-A-TTTTTGGTTTAATTTCCATTTAGTCCTTG
1 TTTTGTAATTTACCCATTTATATGCATGCTTATAATTTTTTGGTTTAATTTCCATTTAGTCCCCC
185660 TATGTTTAG-AGTACTTTTACAAT-TTAGTCA
66 TA-GTTTAGTAGTACTTTTAC-ATGTTAGTCA
185690 TGTTAGTCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
106 41 0.53
107 9 0.12
108 4 0.05
110 24 0.31
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.51
Consensus pattern (109 bp):
TTTTGTAATTTACCCATTTATATGCATGCTTATAATTTTTTGGTTTAATTTCCATTTAGTCCCCC
TAGTTTAGTAGTACTTTTACATGTTAGTCACCTGTAGGGATTGC
Found at i:186690 original size:131 final size:132
Alignment explanation
Indices: 186470--186811 Score: 413
Period size: 131 Copynumber: 2.6 Consensus size: 132
186460 CATTTCAGTC
* *
186470 GGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTAATTTATTCTCGATTGGAAATAATTTGATA
1 GGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
* * ** * * * **
186535 TT-GCTGTTTTCTCTCGAATTAATATCAATTTTTAAGATGGAATAACGATATCT-CTTCATTTTG
66 TTATC-GTTTTCACTCGAACCAATATCAAATTTTAAGATGAAATAACAATATCTCCTT-ATTTCA
186598 ATT-
129 ATTA
* * * *
186601 GGAGCAATAAATGAATGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTAGAAATTATTAGATA
1 GGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
* * * **
186666 TTATCATTTTCACTTGAACCAATATTAAATTTTAAGATGAAATAGTAATATCTCCTTATTTCAAT
66 TTATCGTTTTCACTCGAACCAATATCAAATTTTAAGATGAAATAACAATATCTCCTTATTTCAAT
186731 TA
131 TA
* * * * *
186733 GG-GTAATAAATGATTGTTTTAATGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATA
1 GGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
186797 TTATCGTTTTCACTC
66 TTATCGTTTTCACTC
186812 TTATAATTAT
Statistics
Matches: 177, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
131 171 0.97
132 6 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (132 bp):
GGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATA
TTATCGTTTTCACTCGAACCAATATCAAATTTTAAGATGAAATAACAATATCTCCTTATTTCAAT
TA
Found at i:194887 original size:231 final size:230
Alignment explanation
Indices: 194381--195467 Score: 944
Period size: 231 Copynumber: 4.8 Consensus size: 230
194371 TTTAAGTTAC
* * * *
194381 AAAAATGAG-AAGAGTTTATCATTCAAATCT-AAATATGGAAATTGTTGAAAAGCAAGAAAAGTT
1 AAAAATGAGAAAGA-TTTATCATTCAAATATGAAAT-T-GAAATTTTTGAAAAGTAAGGAAAGTT
* * *
194444 TCTTACCTAGTAAATTATTTCCAAAGTTGGTAAGTCTTCTGGGCCATCAGTAAATCTTTCGAGCA
63 TCTTACCTAGTAAACTATTTCCAAAGTTGGTAAGTCTTC-GGGCCATCAGTAAGTCTTTCAAGCA
*
194509 TGATGCTTAAATCCTTTGGGTCATCTGTAAGTCTTTC-AAGCAAGATGATAAGTCATTTGGTCCA
127 TGATGCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAA-CAAGATGATAAGTCATTTGG-CCA
* * *
194573 TCTATAATACCTTCGGGCAAGATGTTTTCACTTGTCTCTTG
190 TCTATAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCG
* * ** *
194614 -AAAATGAGAAAGATTTCTCATTTAAATATGAAAATT-AAATTTTTTTAAAGTAAGGAAAGTTTT
1 AAAAATGAGAAAGATTTATCATTCAAATATG-AAATTGAAATTTTTGAAAAGTAAGGAAAGTTTC
* * * * *
194677 TTACCTAGTAAACGATTTCCAAAGTTGGTAAGTCATTCGGACCATCAGTAAGCCTTTCAAGAATA
65 TTACCTAGTAAACTATTTCCAAAGTTGGTAAGTC-TTCGGGCCATCAGTAAGTCTTTCAAGCATG
* *
194742 ATGCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAACAAGATGATAAGTCTTTATGGCCATCC
129 ATGCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAACAAGATGATAAGTCATT-TGGCCATCT
* **
194807 ATAAGACCTTCGGGCAAGATGTTTTCAGACATCTCTCG
193 ATAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCG
* * *
194845 AAAAATGAGAAAGGTTTCTCATTCAAATCTG-AATTGAAA-TTTTGAAAAGTAAGGAAAGTTT-T
1 AAAAATGAGAAAGATTTATCATTCAAATATGAAATTGAAATTTTTGAAAAGTAAGGAAAGTTTCT
* * * * *
194907 TGACCTAGTAAACTATTTCCAAAATTTGGTAAGTTCTTTGGGCTATTAGTAAGTCTTTCAAGCAC
66 T-ACCTAGTAAACTATTTCC-AAAGTTGGTAAG-TCTTCGGGCCATCAGTAAGTCTTTCAAGCAT
* * ** ** * * * *
194972 GATACTTAAATTCTTCAGGTCATCTAAAAATATTTT-GAGCAAGATGATAAGTCCTTCGGGCCAT
128 GATGCTTAAATCCTTTGGGTCATCTGTAAGT-TTTTCGAACAAGATGATAAGTCATT-TGGCCAT
* * *
195036 CTATAAGACATTAGGGCATGATGTTTTCACATGTCTCTCG
191 CTATAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCG
* * * *
195076 AAAAATGAGAAATATTTATCATTTAAATATGAAAATTAAAATTTTTTAAAAGTAAGGAAAGTTTC
1 AAAAATGAGAAAGATTTATCATTCAAATATG-AAATTGAAATTTTTGAAAAGTAAGGAAAGTTTC
* *
195141 TTACC------A--A-GT--AAA--T--T-A-T-TT----CCATCAGTAAGTCTTTCGAGCATGA
65 TTACCTAGTAAACTATTTCCAAAGTTGGTAAGTCTTCGGGCCATCAGTAAGTCTTTCAAGCATGA
* * * ** * * * * *
195184 TGCTTAAATCATTCGGGTCATCTATAAGCCTCTCGAGCAAGATGATAAGTCCTTCGAGCCATCCA
130 TGCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAACAAGATGATAAGTCATTTG-GCCATCTA
* * * **
195249 TAAGACCTTCGGGCATGATGTTTTTACATGT-TTTTA
194 TAAGACCTTCGGGCAAGATGTTTTCACATGTCTCTCG
* * * * ** * *
195285 AAAAATGTGAAACATTTATCATTTAAATCTGAAAATTGATTTTTTTTTAAAAGTAAGAAAAGTTT
1 AAAAATGAGAAAGATTTATCATTCAAATATG-AAATTGA-AATTTTTGAAAAGTAAGGAAAGTTT
* * * * * *
195350 ATTACCTAGTAAACTA-TTCTCAAATTTGGTAAGTCCTTCAGACAATCAGTAAGTCTTTCGAGCA
64 CTTACCTAGTAAACTATTTC-CAAAGTTGGTAAGT-CTTCGGGCCATCAGTAAGTCTTTCAAGCA
* * * ** ** * *
195414 TGATGTTTAAATTCTTCGGGTCATCTACAAGCCTCTCGAGCAAGATGATAAGTC
127 TGATGCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAACAAGATGATAAGTC
195468 TTTCAGACCG
Statistics
Matches: 710, Mismatches: 102, Indels: 84
0.79 0.11 0.09
Matches are distributed among these distances:
209 40 0.06
210 125 0.18
214 2 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 3 0.00
220 1 0.00
221 3 0.00
222 3 0.00
223 1 0.00
225 2 0.00
226 2 0.00
227 1 0.00
228 1 0.00
229 4 0.01
230 41 0.06
231 303 0.43
232 62 0.09
233 83 0.12
234 28 0.04
235 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (230 bp):
AAAAATGAGAAAGATTTATCATTCAAATATGAAATTGAAATTTTTGAAAAGTAAGGAAAGTTTCT
TACCTAGTAAACTATTTCCAAAGTTGGTAAGTCTTCGGGCCATCAGTAAGTCTTTCAAGCATGAT
GCTTAAATCCTTTGGGTCATCTGTAAGTTTTTCGAACAAGATGATAAGTCATTTGGCCATCTATA
AGACCTTCGGGCAAGATGTTTTCACATGTCTCTCG
Found at i:195333 original size:210 final size:210
Alignment explanation
Indices: 194954--195367 Score: 544
Period size: 210 Copynumber: 2.0 Consensus size: 210
194944 TTGGGCTATT
* * *
194954 AGTAAGTCTTTCAAGCACGATACTTAAATTCTTCAGGTCATCTAAAAATATTTTGAGCAAGATGA
1 AGTAAGTCTTTCAAGCACGATACTTAAATTCTTCAGGTCATCTAAAAACATCTCGAGCAAGATGA
* * *
195019 TAAGTCCTTCGGGCCATCTATAAGACATTAGGGCATGATGTTTTCACATGTCTCTCGAAAAATGA
66 TAAGTCCTTCGAGCCATCCATAAGACATTAGGGCATGATGTTTTCACATGTCTCTCAAAAAATGA
* * *
195084 GAAATATTTATCATTTAAATATGAAAATTAAAATTTTTTAAAAGTAAGGAAAGTTTCTTACCAAG
131 GAAACATTTATCATTTAAATATGAAAATTAAAATTTTTTAAAAGTAAGAAAAGTTTATTACCAAG
*
195149 TAAATTATTTCCATC
196 TAAACTATTTCCATC
* * * * * * *
195164 AGTAAGTCTTTCGAGCATGATGCTTAAA-TCATTCGGGTCATCTATAAGCCTCTCGAGCAAGATG
1 AGTAAGTCTTTCAAGCACGATACTTAAATTC-TTCAGGTCATCTAAAAACATCTCGAGCAAGATG
* * * * *
195228 ATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGCATGATGTTTTTACATGT-TTTTAAAAAATG
65 ATAAGTCCTTCGAGCCATCCATAAGACATTAGGGCATGATGTTTTCACATGTCTCTCAAAAAATG
* * *** *
195292 TGAAACATTTATCATTTAAATCTGAAAATTGATTTTTTTTTAAAAGTAAGAAAAGTTTATTACCT
130 AGAAACATTTATCATTTAAATATGAAAATT-AAAATTTTTTAAAAGTAAGAAAAGTTTATTACCA
195357 AGTAAACTATT
194 AGTAAACTATT
195368 CTCAAATTTG
Statistics
Matches: 174, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
209 38 0.22
210 136 0.78
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (210 bp):
AGTAAGTCTTTCAAGCACGATACTTAAATTCTTCAGGTCATCTAAAAACATCTCGAGCAAGATGA
TAAGTCCTTCGAGCCATCCATAAGACATTAGGGCATGATGTTTTCACATGTCTCTCAAAAAATGA
GAAACATTTATCATTTAAATATGAAAATTAAAATTTTTTAAAAGTAAGAAAAGTTTATTACCAAG
TAAACTATTTCCATC
Found at i:195985 original size:133 final size:134
Alignment explanation
Indices: 195824--196240 Score: 529
Period size: 133 Copynumber: 3.1 Consensus size: 134
195814 AATCAAACAT
* * * * * **
195824 GATTCAATCTTCCTTGAAG-AACAGTGGAATGAATCAAC-ACCCCAGATCTAATTTTCTATCAAG
1 GATTCAATCTTCCCT-AAGTGATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTCAAG
* * *
195887 AAGAAGCGAAACAAATCCCTCTCGTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCT
65 AAAAAGCGAAACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCT
195952 ACCTC
130 ACCTC
*
195957 GATTCAATCTTCCCTAAGTGATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCT-AAAA
1 GATTCAATCTTCCCTAAGTGATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTCAAGA
* * * *
196021 AAAAGC-ATAATAAATCCTTCTTTTTCAAGATTTGATATTCCTTAAGTAACAGTGGAACAAGTCT
66 AAAAGCGA-AACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCT
*
196085 GCCTC
130 ACCTC
* * *
196090 GATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACGTCCCCAAATATGATTTTCCCTCAAGA
1 GATTCAATCTTCCCTAAGTGATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTCAAGA
* * * * * *
196155 ATAAGCGGAACATATCCATCTCTTTTAATATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
66 AAAAGCGAAACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCTA
*
196220 CCTT
131 CCTC
*
196224 GA-TCTAATCTACCCTAA
1 GATTC-AATCTTCCCTAA
196241 AGAAACAATG
Statistics
Matches: 245, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
132 4 0.02
133 153 0.62
134 88 0.36
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (134 bp):
GATTCAATCTTCCCTAAGTGATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTCAAGA
AAAAGCGAAACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTCTA
CCTC
Found at i:197589 original size:108 final size:106
Alignment explanation
Indices: 197410--197607 Score: 253
Period size: 108 Copynumber: 1.8 Consensus size: 106
197400 CCCATTTATG
*
197410 TTTATGCTTTATAATTTTTTTGTTTAATTTCTATTTAGTCCCATCATTTTAGCCATGTTTTTTCA
1 TTTATGCTTTATAATTTTTTTGTTTAATTTCTATTTAGTCCCATCATTTTAGCCATGTTTTTACA
197475 TGTTAGTCATATGTAG-GGATTGTTTTTGTGATTTACCCACT
66 TGTTAGTCATATGTAGTGG-TTGTTTTTGTGATTTACCCACT
* *
197516 TTTATGCATGTTAT-ATTTTTTTGGTTTAATTTCTATTTAGTCCTTAT-ATGTTTAG-CGTGTTT
1 TTTATGC-T-TTATAATTTTTTT-GTTTAATTTCTATTTAGTCC-CATCAT-TTTAGCCATGTTT
* *
197578 TTAGA-GTTTAGTCATGTGTAGTGGTTGTTT
61 TTACATG-TTAGTCATATGTAGTGGTTGTTT
197608 AATTTTTAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
106 7 0.09
107 10 0.12
108 54 0.68
109 9 0.11
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (106 bp):
TTTATGCTTTATAATTTTTTTGTTTAATTTCTATTTAGTCCCATCATTTTAGCCATGTTTTTACA
TGTTAGTCATATGTAGTGGTTGTTTTTGTGATTTACCCACT
Found at i:198574 original size:131 final size:131
Alignment explanation
Indices: 198414--198783 Score: 391
Period size: 131 Copynumber: 2.8 Consensus size: 131
198404 CGATATTAAG
* * *
198414 AATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGATTACTTTAAGGCATGAGATATCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGATTACTTTAAGGCATGAGATGTCATT
* * * * * *
198479 TATTATCGATTGGAAATAA-TATGCTATTGTCGTTTTCTCTCGAATTAATATCGATTTTTAAGAT
66 TATTATCGATTGGAAATAATTA-GATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGAA
198543 GA
130 GA
* * * * ** **
198545 AATAGTAATATCTCTTCATTTCGACTGGAGCAATAAATGAATGCTTTAAGATATGAGGGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGATTACTTTAAGGCATGAGATGTCATT
* * * * * * *
198610 TATTATTGATTTGAAATCATTAGATATTATTGTTTTCACTTGAATCGATATTGAATTTTAAGAAG
66 TATTATCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGAAG
198675 A
131 A
* * * * * * * * *
198676 AATAATAATATCTCTTTATTTCAATTGGGGGTAATAAATGGTTATTTTAATGCACGAAAATGTCA
1 AATAGTAATATCTCTTCATTTCGATT-GGAGTAATAAATGATTACTTTAAGGCATG-AGATGTCA
* *
198741 TTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTC
64 TTTATTATCGATTGGAAATAATTAGATATTATCGTTTTCACTC
198784 TTAAAATTAT
Statistics
Matches: 188, Mismatches: 48, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
131 126 0.67
132 21 0.11
133 41 0.22
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (131 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGATTACTTTAAGGCATGAGATGTCATT
TATTATCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGAAG
A
Found at i:200050 original size:83 final size:83
Alignment explanation
Indices: 199951--200297 Score: 317
Period size: 83 Copynumber: 4.2 Consensus size: 83
199941 TACTTTAGCT
* * * * * *
199951 GCATTTTTTAAATAAACGTCGCAATAGAGTAGTACGTTAGCGGCGTTTTGATACAAATGCCGCAA
1 GCATTTTTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCACAA
*
200016 TAGAGTT-AGTTTATAGTG
66 TAGAGTTCA-TCTATAGTG
* * * * * * * *
200034 GCATTTTTTCAATAAACGCCGCGATAGAGTAATACTTTAGCTGC-TTTTTTTATAAATGTCATAA
1 GCATTTTTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCACAA
* **
200098 TAGGGTTTGTTCT-TAGTG
66 TAGAG-TTCATCTATAGTG
* *** * * * *
200116 GCATTTTTCCAACAAACATTGCGATAAAG-AGTACTTTAGCGGCGTTTTTATATAAATGCTACAA
1 GCATTTTTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCACAA
* *
200180 CAGAGTTCATCTATAGTT
66 TAGAGTTCATCTATAGTG
* * * * **
200198 GCGTTTTTTCAACAAACGCCGAAATAGAGTAGTACTTTAGCGGCATTTTTATACAAATGTCGTAA
1 GCATTTTTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCACAA
200263 TATG-GTTCATCTATAGTG
66 TA-GAGTTCATCTATAGTG
*
200281 GCATTTTTTCAAAAAAC
1 GCATTTTTTCAACAAAC
200298 AATGCCGCAA
Statistics
Matches: 208, Mismatches: 50, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
81 17 0.08
82 90 0.43
83 100 0.48
84 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (83 bp):
GCATTTTTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCACAA
TAGAGTTCATCTATAGTG
Found at i:206068 original size:22 final size:22
Alignment explanation
Indices: 206043--206084 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
206033 GATATATATA
*
206043 TTACTAGTATTGTTGTTTGTAT
1 TTACTAATATTGTTGTTTGTAT
206065 TTACTAATATTGTTGTTTGT
1 TTACTAATATTGTTGTTTGT
206085 TTATTGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.60
Consensus pattern (22 bp):
TTACTAATATTGTTGTTTGTAT
Found at i:209258 original size:47 final size:47
Alignment explanation
Indices: 209202--209299 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
209192 ATATGCATGA
*
209202 GATCCTATGAATACTTGAGGATATATTTTAATTTTCTGCTGCATATC
1 GATCATATGAATACTTGAGGATATATTTTAATTTTCTGCTGCATATC
209249 GATCATATGAATACTTGAGGATATATTTTAATTTTCTGCTGCATATC
1 GATCATATGAATACTTGAGGATATATTTTAATTTTCTGCTGCATATC
209296 GATC
1 GATC
209300 CTATTATGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (47 bp):
GATCATATGAATACTTGAGGATATATTTTAATTTTCTGCTGCATATC
Found at i:219078 original size:23 final size:23
Alignment explanation
Indices: 219052--219097 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
219042 AAAAGGATAA
*
219052 TTTAAATACTTTAATAAAAATAT
1 TTTAAATACTTAAATAAAAATAT
219075 TTTAAATACTTAAATAAAAATAT
1 TTTAAATACTTAAATAAAAATAT
219098 AATATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAATACTTAAATAAAAATAT
Found at i:219458 original size:28 final size:28
Alignment explanation
Indices: 219407--219460 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
219397 CGTGACAGGT
* * **
219407 GGGTTAAATTGATTTTTTTCAAGTTCGA
1 GGGTCAAATTAATTTTTTAAAAGTTCGA
219435 GGGTCAAATTAATTTTTTAAAAGTTC
1 GGGTCAAATTAATTTTTTAAAAGTTC
219461 AAAGGCTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (28 bp):
GGGTCAAATTAATTTTTTAAAAGTTCGA
Found at i:220236 original size:17 final size:15
Alignment explanation
Indices: 220161--220236 Score: 50
Period size: 17 Copynumber: 4.9 Consensus size: 15
220151 GTAATAATAT
220161 ATATTTTAATTTTTTGA
1 ATATTTTAA-TTTTT-A
*
220178 ATAATTTAATTTTTA
1 ATATTTTAATTTTTA
* *
220193 AT-TTTGTTATTATT-
1 ATATTT-TAATTTTTA
220207 ATA-TTTAAGTTTTTGA
1 ATATTTTAA-TTTTT-A
220223 ATATTTTATATTTT
1 ATATTTTA-ATTTT
220237 AAATTTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
13 2 0.04
14 10 0.22
15 9 0.20
16 8 0.17
17 16 0.35
18 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
ATATTTTAATTTTTA
Found at i:221511 original size:102 final size:103
Alignment explanation
Indices: 221330--221534 Score: 340
Period size: 102 Copynumber: 2.0 Consensus size: 103
221320 TAGTTTTATT
* * * * *
221330 CAATAATAATAGGGATATAATTGAAAAAAATAATATATAGAAGGATATTATTGTAATTATTCTTA
1 CAATAAAAATAGAGATATAATTGAAAAAAATAATATAAAGAAGGATATTATTGCAACTATTCTTA
221395 AATATAAGGCATAACTATATTAT-TTTTGAGTCGGGTA
66 AATATAAGGCATAACTATATTATATTTTGAGTCGGGTA
221432 CAATAAAAATAGAGATATAATTGAAAAAAATAATATAAAGAAGGATATTATTGCAACTATTCTTA
1 CAATAAAAATAGAGATATAATTGAAAAAAATAATATAAAGAAGGATATTATTGCAACTATTCTTA
* *
221497 AATATAAGGTATAACTATATTATATTTTGGGTCGGGTA
66 AATATAAGGCATAACTATATTATATTTTGAGTCGGGTA
221535 TTATTTACCT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 82 0.86
103 13 0.14
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (103 bp):
CAATAAAAATAGAGATATAATTGAAAAAAATAATATAAAGAAGGATATTATTGCAACTATTCTTA
AATATAAGGCATAACTATATTATATTTTGAGTCGGGTA
Found at i:222218 original size:21 final size:21
Alignment explanation
Indices: 222176--222222 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
222166 TTAGGTCTTA
* * **
222176 TTTTTTAAAATTGTTTTTATG
1 TTTTTTAAAATGGGTTAAATG
222197 TTTTTTAAAATGGGTTAAATG
1 TTTTTTAAAATGGGTTAAATG
222218 TTTTT
1 TTTTT
222223 ATTTGTCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (21 bp):
TTTTTTAAAATGGGTTAAATG
Found at i:223208 original size:23 final size:23
Alignment explanation
Indices: 223182--223256 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
223172 TGCACCGTTA
223182 TTCATGTTCATTTATGGCATCCT
1 TTCATGTTCATTTATGGCATCCT
* *
223205 TTCATG-CCGA-TAAT-GCA-CCGT
1 TTCATGTTC-ATTTATGGCATCC-T
*
223226 TATGCATTTTCATTTATGGCATCCT
1 T-T-CATGTTCATTTATGGCATCCT
223251 TTCATG
1 TTCATG
223257 CCGATAATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 2 0.05
21 5 0.13
22 5 0.13
23 14 0.37
24 5 0.13
25 5 0.13
26 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (23 bp):
TTCATGTTCATTTATGGCATCCT
Found at i:223231 original size:56 final size:46
Alignment explanation
Indices: 223131--223426 Score: 457
Period size: 46 Copynumber: 6.4 Consensus size: 46
223121 GTTAATACAT
* * ** * * *
223131 CGTTATGTATTTTCATTTGTGGCATTATTCCATGCCAATTATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* *
223177 CGTTATTCATGTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
223223 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
*
223269 CGTTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* *
223315 CGTTATGCATTTTCATTTATGGCATCCTTTCATACCGGTAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* * *
223361 TGTTATGCATTTTCATTTATGACATCCTTTCATGTCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
223407 CGTTATGCATTTTCATTTAT
1 CGTTATGCATTTTCATTTAT
223427 TCATTCATTT
Statistics
Matches: 229, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 229 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
Found at i:225240 original size:231 final size:231
Alignment explanation
Indices: 224837--225301 Score: 930
Period size: 231 Copynumber: 2.0 Consensus size: 231
224827 CAACACTTCA
224837 ACTAGAGTAATCGTTTTGTTACGTGGTTTCTTGATTTCTCGAGTCCAGATCCGTATTGGTTCTTT
1 ACTAGAGTAATCGTTTTGTTACGTGGTTTCTTGATTTCTCGAGTCCAGATCCGTATTGGTTCTTT
224902 TTCATAATTCAAATCTGATCGAATCTCTATTTTTCCCAATGTAAGAACATGTGATGGATCTGATC
66 TTCATAATTCAAATCTGATCGAATCTCTATTTTTCCCAATGTAAGAACATGTGATGGATCTGATC
224967 GGTAATTAATAAACAACAACACATGAAAAACATTATAGGTCTTGTCCATTTCGGGAGACAAAGCT
131 GGTAATTAATAAACAACAACACATGAAAAACATTATAGGTCTTGTCCATTTCGGGAGACAAAGCT
225032 AACTGATAAAATCTCATAAGGTTCAATAATTCTCGG
196 AACTGATAAAATCTCATAAGGTTCAATAATTCTCGG
225068 ACTAGAGTAATCGTTTTGTTACGTGGTTTCTTGATTTCTCGAGTCCAGATCCGTATTGGTTCTTT
1 ACTAGAGTAATCGTTTTGTTACGTGGTTTCTTGATTTCTCGAGTCCAGATCCGTATTGGTTCTTT
225133 TTCATAATTCAAATCTGATCGAATCTCTATTTTTCCCAATGTAAGAACATGTGATGGATCTGATC
66 TTCATAATTCAAATCTGATCGAATCTCTATTTTTCCCAATGTAAGAACATGTGATGGATCTGATC
225198 GGTAATTAATAAACAACAACACATGAAAAACATTATAGGTCTTGTCCATTTCGGGAGACAAAGCT
131 GGTAATTAATAAACAACAACACATGAAAAACATTATAGGTCTTGTCCATTTCGGGAGACAAAGCT
225263 AACTGATAAAATCTCATAAGGTTCAATAATTCTCGG
196 AACTGATAAAATCTCATAAGGTTCAATAATTCTCGG
225299 ACT
1 ACT
225302 CAGTCCAAAC
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 234 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (231 bp):
ACTAGAGTAATCGTTTTGTTACGTGGTTTCTTGATTTCTCGAGTCCAGATCCGTATTGGTTCTTT
TTCATAATTCAAATCTGATCGAATCTCTATTTTTCCCAATGTAAGAACATGTGATGGATCTGATC
GGTAATTAATAAACAACAACACATGAAAAACATTATAGGTCTTGTCCATTTCGGGAGACAAAGCT
AACTGATAAAATCTCATAAGGTTCAATAATTCTCGG
Found at i:229262 original size:46 final size:45
Alignment explanation
Indices: 229184--229378 Score: 164
Period size: 46 Copynumber: 4.2 Consensus size: 45
229174 GTTAATACAT
* *
229184 CGTTATGT-ATTTTCATTTGTGGCATCCTTTCATGCAAATTATGCAC
1 CGTTAT-TCATTTTCATTTATGTCATCCTTTCATGCAAA-TATGCAC
* * * *
229230 CATTATTCATCTTCATTTATGACATCCTTTCATGCCGAAA-ATACAC
1 CGTTATTCATTTTCATTTATGTCATCCTTTCATG-C-AAATATGCAC
* * * **
229276 CGTTATGCATTTTCATTTATGTCATCATTTTATGCCGATAATGCAC
1 CGTTATTCATTTTCATTTATGTCATCCTTTCATGCAAAT-ATGCAC
* *
229322 CGTTATGT-ATTTTCATTTATGTCATACTTTCATGTC-GATAATGCAC
1 CGTTAT-TCATTTTCATTTATGTCATCCTTTCATG-CAAAT-ATGCAC
*
229368 CGTTATGCATT
1 CGTTATTCATT
229379 GTAATGCCCC
Statistics
Matches: 122, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 114 0.93
47 2 0.02
48 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
CGTTATTCATTTTCATTTATGTCATCCTTTCATGCAAATATGCAC
Found at i:229337 original size:92 final size:92
Alignment explanation
Indices: 229177--229378 Score: 244
Period size: 92 Copynumber: 2.2 Consensus size: 92
229167 ATATATCGTT
* * * * *
229177 AATACATCGTTATGTATTTTCATTTGTGGCATCCTTTCATGCAAATTATGCACCATTATTCATCT
1 AATACACCGTTATGCATTTTCATTTATGGCATCATTTCATGCAAATAATGCACCATTATTCATCT
*
229242 TCATTTATGACATCCTTTCATGCCGAA
66 TCATTTATGACATACTTTCATGCCGAA
* * ** * *
229269 AATACACCGTTATGCATTTTCATTTATGTCATCATTTTATGCCGATAATGCACCGTTATGT-ATT
1 AATACACCGTTATGCATTTTCATTTATGGCATCATTTCATGCAAATAATGCACCATTAT-TCATC
* * *
229333 TTCATTTATGTCATACTTTCATGTCGAT
65 TTCATTTATGACATACTTTCATGCCGAA
*
229361 AATGCACCGTTATGCATT
1 AATACACCGTTATGCATT
229379 GTAATGCCCC
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 92 0.99
93 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (92 bp):
AATACACCGTTATGCATTTTCATTTATGGCATCATTTCATGCAAATAATGCACCATTATTCATCT
TCATTTATGACATACTTTCATGCCGAA
Found at i:230316 original size:22 final size:19
Alignment explanation
Indices: 230264--230318 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
230254 ATGCAAAAAT
230264 GGTATTGATACCATAATAG
1 GGTATTGATACCATAATAG
* * *
230283 GGTATCGGTACCATAGTATG
1 GGTATTGATACCATAATA-G
230303 GTAGTATTGATACCAT
1 G--GTATTGATACCAT
230319 TGTAGGGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.54
20 2 0.07
22 11 0.39
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (19 bp):
GGTATTGATACCATAATAG
Found at i:230741 original size:55 final size:55
Alignment explanation
Indices: 230679--230826 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 55
230669 TGCAATAAGT
230679 TAAGAAATTCATACTAAGTGTATGAATTTAT-ATATGGACACATTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTT-TCATATGGACACATTGTGTGCAAAAC
* * *
230734 TAAGAAATTCATACAAAGTGTATGAATTTTCGTATGGACACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTTCATATGGACACATTGTGTGCAAAAC
* * *
230789 TAAGAAATCCATACTAAGTGTATGAATTTCCGTATGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCATATGGA
230827 AAATATATGT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
54 1 0.01
55 85 0.99
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTTCATATGGACACATTGTGTGCAAAAC
Found at i:231120 original size:68 final size:68
Alignment explanation
Indices: 231039--231291 Score: 283
Period size: 68 Copynumber: 3.7 Consensus size: 68
231029 AATATTAATA
* * * * * *
231039 GCCTAATTATGCATTTGACAGAAATGTGACAATTATGACAGTTAGATGAAAGGCTAAATGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
231104 GAG
66 GAG
* * * * * ** *
231107 ACCTAACTGTGCATTTGATAGAAAGGTGTCGATTAT-CCAATTAGATAAAAGATTAAGTACCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
231171 GTG
66 GAG
* *
231174 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
231239 GAG
66 GAG
** * * * * *
231242 GCCTAGTTGTTCATTTGGCAAAAATGTGTCAATTATGCAAGTTAGATGAA
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
231292 CGATTAAATA
Statistics
Matches: 151, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
67 56 0.37
68 95 0.63
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:231380 original size:81 final size:81
Alignment explanation
Indices: 231241--232684 Score: 1005
Period size: 81 Copynumber: 18.0 Consensus size: 81
231231 GTGTCTTTGA
* * * ***
231241 GGCCTAGTTGTTCATTTGGCAAAAATGTGTCAATTATGCAAGTTAGATGAACGATTAAATAATGT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
231306 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * *
231322 GGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
*
231387 TGCGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * *
231403 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTATATGAACGGTTAAATACCAT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
231468 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * * *
231484 GGCCTAGCTGTGCATTTGGCAGAAATATGTCAACTATGCCACTTAGATGAACGATTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
231549 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * *
231565 GGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCACTTAGGTGAACGATTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
231630 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * *
231646 GGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCAT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
231711 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * * ** * * *
231727 GGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
* *
231792 TGAG-----GGCTAGTT
66 TGAGTAAAAGACTA-AT
* *** * * * * * * * * *
231804 GTG-C-ATTTG-GCAGAAAGG-TGTCAATTATGCCAGTTAGATGAACGGTT-GAAT-ACCG-TTG
1 G-GCCTAGTTGTGCA-TTTGGCAG--AAATGTGTCAATT--ATG-CCAGTTAG-ATGAACGATTA
* ** * ** * *
231862 AGTA--AAAGACTAATGGCCTAGCT
58 AATACCATTGAGTAAAAGACTA-AT
* * * * * * * * * *
231885 GTG-C-ATTTG-GCAGAAATGTGTC--AATTATGCCAGTTAGATG-AATGGTTAAAT-ATC-ATT
1 G-GCCTAGTTGTGC----ATTTGGCAGAAATGTGTCAATT--ATGCCA--GTTAGATGAACGATT
*** ** * * * *
231942 GCGTA--AAAGACTAAAGGCCTAGCT
57 AAATACCATTGAGTAAAAGACTA-AT
* * * * * * * * * *
231966 GTG-C-A-TTTTGCAAAAATGTGTC--AATTATGCCAGTTA-G--A--T-GA--AAGGTTAA-AT
1 G-GCCTAGTTGTGC----ATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAAT
*
232017 ACCGTTGAGTAAAAGACTAAT
61 ACCATTGAGTAAAAGACTAAT
* * * * * *
232038 GGCCCAGCTGTGTATTTGGCATAAATGTGTCAATTATGCCACTTCGATGAACGATTAAATACCAT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
232103 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * * * *
232119 GGTCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCACTTATG-TGAATGATTAAATATCG
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTA-GATGAACGATTAAATACCA
232183 TTGAGTAAAAGACTAAT
65 TTGAGTAAAAGACTAAT
* * * * * *
232200 GGCATAGCTT-TGTATTTGGCAAAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCA
1 GGCCTAG-TTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCA
*
232264 TTGAGTAAAAGATTAAT
65 TTGAGTAAAAGACTAAT
* * * * * *
232281 AGCCTAGCTGTGTATTTGGCATAAATGTGTTAATTATGCTAGTTAGATGAAC-AGTTAAATACCA
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGA-TTAAATACCA
232345 TTGAGTAAAAGACTAAT
65 TTGAGTAAAAGACTAAT
* * * * * * *
232362 GGCCTAGCTGTGCATCTAGCAGAAAGGTGTCAATTACGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
232427 TGAGTAAAAGACTAAT
66 TGAGTAAAAGACTAAT
* * * * *
232443 GGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATGAACGGTTAAATA-TAG
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCA-
232507 TTGAGTAAAAGACTAAT
65 TTGAGTAAAAGACTAAT
* * * * * ***
232524 GGCCTAGCTGTGCATTTGGTAGAAATATGTCAATTATGCCAGTTAGATGAATGGTTAAATATTGT
1 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
* *
232589 TGAGTAAAATATTAAT
66 TGAGTAAAAGACTAAT
* * * ** *
232605 GGCCTAGTTGTGCATTTGGCAGGAAA-GTTTTC-ATTATGCAAGTTAGATGAAAGGCTAAATTCC
1 GGCCTAGTTGTGCATTTGGCA-GAAATG-TGTCAATTATGCCAGTTAGATGAACGATTAAATACC
* *
232668 TTTGGGTAAAAGACTAA
64 ATTGAGTAAAAGACTAA
232685 AGGAATTATC
Statistics
Matches: 1133, Mismatches: 179, Indels: 102
0.80 0.13 0.07
Matches are distributed among these distances:
70 5 0.00
71 4 0.00
72 15 0.01
73 13 0.01
74 3 0.00
75 5 0.00
76 11 0.01
77 13 0.01
78 8 0.01
79 7 0.01
80 16 0.01
81 1021 0.90
82 10 0.01
84 1 0.00
85 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (81 bp):
GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCAT
TGAGTAAAAGACTAAT
Found at i:231524 original size:162 final size:162
Alignment explanation
Indices: 231241--232684 Score: 1860
Period size: 162 Copynumber: 9.0 Consensus size: 162
231231 GTGTCTTTGA
* * * * * ***
231241 GGCCTAGTTGTTCATTTGGCAAAAATGTGTCAATTATGCAAGTTAGATGAACGATTAAATAATGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
** * *
231306 TGAGTAAAAGACTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
*
231371 AACGGTTAAATACCATTGCGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* * *
231403 GGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTATATGAACGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * *
231468 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATATGTCAACTATGCCACTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* *
231533 AACGATTAAATACCGTTGAGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * * *
231565 GGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCACTTAGGTGAACGATTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
*
231630 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
*
231695 AATGGTTAAATACCATTGAGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * * *
231727 GGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCC-T
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * *
231791 T---T----G----A-GGGCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* *
231844 AACGGTTGAATACCGTTGAGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* *
231876 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATATCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * * *
231941 TGCGTAAAAGACTAAAGGCCTAGCTGTGCATTTTGCAAAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* *
232006 AAAGGTTAAATACCGTTGAGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * * *
232038 GGCCCAGCTGTGTATTTGGCATAAATGTGTCAATTATGCCACTTCGATGAACGATTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* *
232103 TGAGTAAAAGACTAATGGTCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCACTTATG-T
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTA-GAT
* * * *
232167 GAATGATTAAATATCGTTGAGTAAAAGACTAAT
130 GAACGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * * *
232200 GGCATAGCTTTGTATTTGGCAAAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * * * * *
232265 TGAGTAAAAGATTAATAGCCTAGCTGTGTATTTGGCATAAATGTGTTAATTATGCTAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
*
232330 AACAGTTAAATACCATTGAGTAAAAGACTAAT
131 AACGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * *
232362 GGCCTAGCTGTGCATCTAGCAGAAAGGTGTCAATTACGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* *
232427 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
*
232492 AACGGTTAAATA-TAGTTGAGTAAAAGACTAAT
131 AACGGTTAAATACCA-TTGAGTAAAAGACTAAT
* * * ***
232524 GGCCTAGCTGTGCATTTGGTAGAAATATGTCAATTATGCCAGTTAGATGAATGGTTAAATATTGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
* * * * *
232589 TGAGTAAAATATTAATGGCCTAGTTGTGCATTTGGCAGGAAA-GTTTTC-ATTATGCAAGTTAGA
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCA-GAAATG-TGTCAATTATGCCAGTTAGA
* * * * *
232652 TGAAAGGCTAAATTCCTTTGGGTAAAAGACTAA
129 TGAACGGTTAAATACCATTGAGTAAAAGACTAA
232685 AGGAATTATC
Statistics
Matches: 1121, Mismatches: 142, Indels: 38
0.86 0.11 0.03
Matches are distributed among these distances:
149 130 0.12
150 3 0.00
153 1 0.00
154 1 0.00
157 1 0.00
158 1 0.00
161 5 0.00
162 971 0.87
163 8 0.01
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (162 bp):
GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
AACGGTTAAATACCATTGAGTAAAAGACTAAT
Found at i:231674 original size:243 final size:243
Alignment explanation
Indices: 231241--232684 Score: 1882
Period size: 243 Copynumber: 6.0 Consensus size: 243
231231 GTGTCTTTGA
* * * * **
231241 GGCCTAGTTGTTCATTTGGCAAAAATGTGTCAATTATGCAAGTTAGATGAACGATTAAATAATGT
1 GGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
** * *
231306 TGAGTAAAAGACTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* * *
231371 AACGGTTAAATACCATTGCGTAAAAGACTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAA
131 AACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAA
* * *
231436 TTATGTCAGTTATATGAACGGTTAAATACCATTGAGTAAAAGACTAAT
196 TTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * *
231484 GGCCTAGCTGTGCATTTGGCAGAAATATGTCAACTATGCCACTTAGATGAACGATTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* * * *
231549 TGAGTAAAAGACTAATGGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCACTTAGGTG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* *
231614 AACGATTAAATACCGTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCAA
131 AACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAA
231679 TTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
196 TTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * *
231727 GGCCTAGCTGTGCATTTGGCAGAAAA-GTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCC-
1 GGCCTAGCTGTGCATTTGGCA-AAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
* * *
231790 TT---T----G----A-GGGCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
65 TTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGAT
* * *
231843 GAACGGTTGAATACCGTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA
130 GAACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA
* * *
231908 ATTATGCCAGTTAGATGAATGGTTAAATATCATTGCGTAAAAGACTAAA
195 ATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
* *
231957 GGCCTAGCTGTGCATTTTGCAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* * * * *
232022 TGAGTAAAAGACTAATGGCCCAGCTGTGTATTTGGCATAAATGTGTCAATTATGCCACTTCGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
*
232087 AACGATTAAATACCATTGAGTAAAAGACTAATGGTCTAGCTGTGCATTTGGCAGAAATGTGTCAA
131 AACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAA
* * * *
232152 TTATGCCACTTATG-TGAATGATTAAATATCGTTGAGTAAAAGACTAAT
196 TTATGCCAGTTA-GATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
* * * * * *
232200 GGCATAGCTTTGTATTTGGCAAAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* * * * * *
232265 TGAGTAAAAGATTAATAGCCTAGCTGTGTATTTGGCATAAATGTGTTAATTATGCTAGTTAGATG
66 TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* * *
232330 AAC-AGTTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATCTAGCAGAAAGGTGTCA
131 AACGA-TTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA
* * *
232394 ATTACGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGACTAAT
195 ATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
* **
232443 GGCCTAGCTGTGCATTTGG-AAGAAATGTGTCAATTATGCTAGTTAGATGAACGGTTAAATATAG
1 GGCCTAGCTGTGCATTTGGCAA-AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
* *
232507 TTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGTAGAAATATGTCAATTATGCCAGTTAGAT
65 TTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGAT
* * *** * * * *
232572 GAATGGTTAAATATTGTTGAGTAAAATATTAATGGCCTAGTTGTGCATTTGGCAGGAAA-GTTTT
130 GAACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCA-GAAATG-TGT
* * * * * *
232636 C-ATTATGCAAGTTAGATGAAAGGCTAAATTCCTTTGGGTAAAAGACTAA
193 CAATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAA
232685 AGGAATTATC
Statistics
Matches: 1057, Mismatches: 122, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
229 4 0.00
230 205 0.19
231 3 0.00
234 1 0.00
235 1 0.00
238 1 0.00
239 1 0.00
242 7 0.01
243 823 0.78
244 11 0.01
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (243 bp):
GGCCTAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
AACGATTAAATACCATTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAA
TTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGACTAAT
Found at i:231863 original size:68 final size:68
Alignment explanation
Indices: 231730--231863 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
231720 GACTAATGGC
* *
231730 CTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTACCGTTGA
231795 GGG
66 GGG
* * * * *
231798 CTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTGAA-TACCGTTG
1 CTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCT-AAGTACCGTTG
231862 AG
65 AG
231864 TAAAAGACTA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 56 0.97
69 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (68 bp):
CTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTACCGTTGA
GGG
Found at i:232797 original size:45 final size:45
Alignment explanation
Indices: 232727--232912 Score: 266
Period size: 45 Copynumber: 4.2 Consensus size: 45
232717 CATACGTGGT
* *
232727 ATGAAAGGACGCCAT-AATGAAATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTATATAAAAGGC
** **
232771 ATGAAAATATATCATAAATGAAATGTATAATAGTATATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTATATAAAAGGC
* *
232816 ATGAAAGGGTGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTATATAAAAGGC
* **
232861 ATGAAAGGATGCCATAAATAAAATGTATAATAACATATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTATATAAAAGGC
232906 ATGAAAG
1 ATGAAAG
232913 AATGTTGTAA
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 10 0.08
45 114 0.92
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.24
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGTATAATAGTATATAAAAGGC
Found at i:236426 original size:20 final size:21
Alignment explanation
Indices: 236381--236433 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
236371 TGATTCAATC
*
236381 AGTATCGATACCGAAAGGGGG
1 AGTATCGATACCGAAAGGGAG
236402 AGTATCGATACCG-AAGGGA-
1 AGTATCGATACCGAAAGGGAG
236421 AGGTATCGATACC
1 A-GTATCGATACC
236434 ATTCAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (21 bp):
AGTATCGATACCGAAAGGGAG
Found at i:236481 original size:19 final size:19
Alignment explanation
Indices: 236468--236509 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
236458 GTATCGATAT
236468 CATAATAGGGTATCAGTAC
1 CATAATAGGGTATCAGTAC
236487 CATAATAGGGTATCAGTAC
1 CATAATAGGGTATCAGTAC
236506 CATA
1 CATA
236510 GTATAGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (19 bp):
CATAATAGGGTATCAGTAC
Found at i:236940 original size:55 final size:55
Alignment explanation
Indices: 236871--237129 Score: 374
Period size: 55 Copynumber: 4.7 Consensus size: 55
236861 TGCAAAAAGT
*
236871 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
236926 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGAGCACTTTGTGTGAAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
*
236981 TAAGAAATTCATACTAAGTGTATGAATTTGCGTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* ** * *
237036 TAAGAAATTCATACTAAGTGTATAAATTTTTGTATAGACACTTTGTGTGCAAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGC-AAAAC
* * ** *
237092 TACGAAATCCATACTAAGTGTAAAAATTTCTGTATGGG
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
237130 AAATATATGT
Statistics
Matches: 185, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
55 148 0.80
56 37 0.20
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
Done.